Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 9 of 13
Found at i:1562482 original size:13 final size:13
Alignment explanation
Indices: 1562464--1562490 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1562454 TACAATGAAC
1562464 ATGTATCGATACA
1 ATGTATCGATACA
1562477 ATGTATCGATACA
1 ATGTATCGATACA
1562490 A
1 A
1562491 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1567035 original size:15 final size:15
Alignment explanation
Indices: 1567017--1567057 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
1567007 TTTTGGAGCT
*
1567017 TTTTCATTTTGAACA
1 TTTTCATCTTGAACA
1567032 TTTTCATCTTGAACA
1 TTTTCATCTTGAACA
1567047 TTTTCATCTTG
1 TTTTCATCTTG
1567058 CTCCTTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (15 bp):
TTTTCATCTTGAACA
Found at i:1571750 original size:20 final size:20
Alignment explanation
Indices: 1571725--1571791 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
1571715 TTTTTACCCA
*
1571725 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
1571745 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
*
1571765 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
1571785 AATGTAT
1 AATGTAT
1571792 ATATATTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:1571856 original size:24 final size:20
Alignment explanation
Indices: 1571725--1571851 Score: 85
Period size: 20 Copynumber: 5.9 Consensus size: 20
1571715 TTTTTACCCA
* *
1571725 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTCTTC
* *
1571745 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
1571765 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
** **
1571785 AATGTATATATATTTTGTCTTTTTACC
1 AATGTATCGATA-CAT-TC---TT--C
1571812 TAGATGTATCGATACATTCTTC
1 -A-ATGTATCGATACATTCTTC
1571834 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
1571852 GTCTTTTTAC
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
19 1 0.01
20 58 0.70
21 3 0.04
22 3 0.04
24 2 0.02
25 2 0.02
27 3 0.04
28 2 0.02
29 9 0.11
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:1571876 original size:51 final size:51
Alignment explanation
Indices: 1571766--1571899 Score: 209
Period size: 51 Copynumber: 2.7 Consensus size: 51
1571756 ACATGTATGA
* *
1571766 ATGTATCGATACATTCTTCAATGTAT--ATATATTTTGTCTTTTTACCTAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCTAG
1571815 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCTAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCTAG
* * *
1571866 ATGTGTCGATACATTATTCAATGTACCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
1571900 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 26 0.33
51 52 0.67
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCTAG
Found at i:1575511 original size:24 final size:20
Alignment explanation
Indices: 1575468--1575505 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1575458 ATTTTTACCC
1575468 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTT
1575488 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
1575506 GTCTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTT
Found at i:1578885 original size:22 final size:23
Alignment explanation
Indices: 1578837--1578890 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1578827 TATTTTCACT
* *
1578837 TAAAAACATTTGATTTTAAGCTT
1 TAAAAACATTTGATTATAAGCTC
1578860 TAAAAACATTTG-TTCATAA-CTC
1 TAAAAACATTTGATT-ATAAGCTC
1578882 T-AAAACATT
1 TAAAAACATT
1578891 CATTGATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.29
22 5 0.18
23 15 0.54
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.39
Consensus pattern (23 bp):
TAAAAACATTTGATTATAAGCTC
Found at i:1579912 original size:17 final size:17
Alignment explanation
Indices: 1579890--1579933 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1579880 AATTTTTTGT
1579890 TATTTATTTAGGGCAAA
1 TATTTATTTAGGGCAAA
* *
1579907 TATTTAATTT-TGGTAAA
1 TATTT-ATTTAGGGCAAA
1579924 TATTTATTTA
1 TATTTATTTA
1579934 AAACAAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (17 bp):
TATTTATTTAGGGCAAA
Found at i:1586415 original size:20 final size:20
Alignment explanation
Indices: 1586382--1586456 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1586372 AAGTACCCAG
1586382 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
1586402 ATGCATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1586422 ATGTATGGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1586442 ATGTATCGATACATT
1 ATGTATCGATACATT
1586457 CTGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1599082 original size:49 final size:49
Alignment explanation
Indices: 1598998--1599387 Score: 409
Period size: 49 Copynumber: 8.0 Consensus size: 49
1598988 AAGAGTGATA
* * *
1598998 AAGGTGCCAATATGCTGATTC-AGGACAAGTGATATTGGGCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATG
* * * *
1599047 AAGATGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
1599096 AAGGTGCTAATGTACTGATTCAAGGCCAGCAACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
** *
1599145 ACAAAGGTGCCAATATATTGATTCAAGGCTAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* ** *
1599197 AAGGTACCAATGCGCTGATTCAAGG-CAGCGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
1599245 ACAAAGGTGCCAATATGCTGATTCAAGGCTACCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
1599297 AAGGTGCCAATGTGCTAATTTAAGGCCAGCAACATTGGACTT--A-A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1599341 AA-GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAGAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
1599388 AGATGCCACC
Statistics
Matches: 285, Mismatches: 44, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
43 33 0.12
44 2 0.01
46 2 0.01
47 2 0.01
48 21 0.07
49 137 0.48
50 3 0.01
51 22 0.08
52 63 0.22
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1599273 original size:100 final size:100
Alignment explanation
Indices: 1598998--1599387 Score: 453
Period size: 100 Copynumber: 4.0 Consensus size: 100
1598988 AAGAGTGATA
* * ** * * * *
1598998 AAGGTGCCAATATGCTGATTC-AGGACAAGTGATATTGGGCTTAAAGATG--AAGATGCCAATGT
1 AAGGTGCCAATGTGCTGATTCAAGG-CCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATAT
* *
1599060 GCTGATTCAAGGCCAGCAATATTGGACTTAAAGATA
65 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
1599096 AAGGTGCTAATGTACTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGA-AAAGGTGCCAATAT
** *
1599161 ATTGATTCAAGGCTAGCGATATTGGACTTAAAGATG
65 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
1599197 AAGGTACCAATGCGCTGATTCAAGG-CAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGA-AAAGGTGCCAATAT
* *
1599261 GCTGATTCAAGGCTACCGATATTGGACTTAAAGATG
65 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
1599297 AAGGTGCCAATGTGCTAATTTAAGGCCAGCAACATTGGAC-T-----T-AAAA-GTGCCAATATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATG
*
1599354 CTGATTCAAGGCCAGTGATATTGGACTTAGAAGA
66 CTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
1599388 AGATGCCACC
Statistics
Matches: 255, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
92 37 0.15
93 7 0.03
94 1 0.00
95 1 0.00
98 37 0.15
99 3 0.01
100 93 0.36
101 76 0.30
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (100 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1599555 original size:29 final size:29
Alignment explanation
Indices: 1599404--1599902 Score: 326
Period size: 29 Copynumber: 17.5 Consensus size: 29
1599394 CACCAACTTG
*
1599404 TGTGGGCTTTTGAAAGGGTTG-CACTGAA-T
1 TGTGGGCTTTTGAAAAGG-TGCCACT-AACT
* *
1599433 TGTGCGCTTTT--AAAGGTTGCCACTACCT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
* *
1599461 TAT-GGCCTTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
* *
1599488 TGTGGAC-TTTG--AAGGCTGCCACTGACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
* *
1599515 TGTGGAC-TTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACT
*
1599543 TGTAGGCTTTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
* * *
1599571 TGTGGGC-TTTAAAAAGGTGCCATTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACT
* ** *
1599599 TGTGAGCTTTTGAAAAGACGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACT
1599628 TGTGGGC-TTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAA-GGTGCCACTAACT
* * ** *
1599657 TGTGGGC-TTTGAAGAGGGGTACCACCGATT
1 TGTGGGCTTTTGAA-A-AGGTGCCACTAACT
* * *
1599687 TGTGGGCTTCTG--AAGGTTTCCACTGACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
* *
1599715 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACT
** *
1599744 TGTGGGCTTTTGAAAAGACGCTACTGAA-T
1 TGTGGGCTTTTGAAAAGGTGCCACT-AACT
* *
1599773 TATAGGC-TTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAA-GGTGCCACTAACT
** ** *
1599802 TGTGGGC-TTTGAAGGGGGTGCCACCGATT
1 TGTGGGCTTTTGAA-AAGGTGCCACTAACT
* *
1599831 TGTGGGCTTCTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACT
*
1599859 TGTGGGCTTTTGAAAAGATGCCAC-AGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTA-ACT
*
1599888 TGTGGGCTTTGGAAA
1 TGTGGGCTTTTGAAA
1599903 GTGAGGAATG
Statistics
Matches: 377, Mismatches: 66, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
27 70 0.19
28 112 0.30
29 165 0.44
30 27 0.07
31 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGGTGCCACTAACT
Found at i:1599692 original size:30 final size:30
Alignment explanation
Indices: 1599625--1599701 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
1599615 GACGCCACTG
* *
1599625 ACTTGTGGGCTTTGAA-AAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAGAAGGGTACCACCA
* *
1599654 ACTTGTGGGCTTTGAAGAGGGGTACCACCG
1 ACTTGTGGGCTTTGAAGAAGGGTACCACCA
*
1599684 ATTTGTGGGCTTCTGAAG
1 ACTTGTGGGCTT-TGAAG
1599702 GTTTCCACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 16 0.39
30 20 0.49
31 5 0.12
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (30 bp):
ACTTGTGGGCTTTGAAGAAGGGTACCACCA
Found at i:1599716 original size:144 final size:145
Alignment explanation
Indices: 1599478--1599902 Score: 583
Period size: 144 Copynumber: 3.0 Consensus size: 145
1599468 TTTGAAGGTT
* * * * * * **
1599478 GCCACTAACTTGTGGACTTTG--AAGGCTGCCACTGACTTGTGGACTTTGAA-A-AGGTGCCATT
1 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGAGGGGTGCCACC
* * * * * * * *
1599539 AACTTGTAGGCTTTTGAAGGTTGCCACTAACTTGTGGGC-TTTAAAAAGGTGCCATTGACTTGTG
66 GATTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTG
*
1599603 AGCTTTTGAAAAGAC
131 GGCTTTTGAAAAGAC
*
1599618 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGAGGGGTACCACC
1 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGAGGGGTGCCACC
*
1599683 GATTTGTGGGCTTCTGAAGGTTTCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTG
66 GATTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTG
1599748 GGCTTTTGAAAAGAC
131 GGCTTTTGAAAAGAC
* * * *
1599763 GCTACTGAATTATAGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAG-GGGGTGCCACC
1 GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGAGGGGTGCCACC
*
1599827 GATTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACAGACTTGTG
66 GATTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTG
*
1599892 GGCTTTGGAAA
131 GGCTTTTGAAA
1599903 GTGAGGAATG
Statistics
Matches: 253, Mismatches: 27, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
140 19 0.08
142 26 0.10
143 1 0.00
144 122 0.48
145 85 0.34
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (145 bp):
GCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAGAGGGGTGCCACC
GATTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTG
GGCTTTTGAAAAGAC
Found at i:1601358 original size:17 final size:16
Alignment explanation
Indices: 1601336--1601372 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 16
1601326 ATCTGGACCC
1601336 TTTTTGTTGTTTGTTTT
1 TTTTTGTT-TTTGTTTT
1601353 TTTTTGTTTTTGTTTT
1 TTTTTGTTTTTGTTTT
1601369 TTTT
1 TTTT
1601373 ACGGAGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (16 bp):
TTTTTGTTTTTGTTTT
Found at i:1615083 original size:21 final size:22
Alignment explanation
Indices: 1615043--1615085 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1615033 TATGATTTTG
* *
1615043 ATGAAAAATGAAGTATTTTGAA
1 ATGAAAAATGAAGAAATTTGAA
1615065 ATGAAAAAT-AAGAAATTTGAA
1 ATGAAAAATGAAGAAATTTGAA
1615086 GAAGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (22 bp):
ATGAAAAATGAAGAAATTTGAA
Found at i:1620109 original size:79 final size:79
Alignment explanation
Indices: 1619952--1620138 Score: 216
Period size: 79 Copynumber: 2.4 Consensus size: 79
1619942 GGTGTTCTAG
* * ** *
1619952 AAATAAAAATCAAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCTGATTATAGA
1 AAAT-AAAATCAGGGTTGGAGTATCCCCACGAAAATAATAGGGTTGGAGTATCCCCAATTAGAGA
1620017 AAATCAATATTTTGA
65 AAATCAATATTTTGA
* *
1620032 AAATAAAATCGGGGTTGGAGTATCCCCACGAAAATAAT-GAGGTTGGAGTATCCCCAATT-GCGA
1 AAATAAAATCAGGGTTGGAGTATCCCCACGAAAATAATAG-GGTTGGAGTATCCCCAATTAGAGA
*** * *
1620095 GAAATTGGTGTTTTGG
65 -AAATCAATATTTTGA
*
1620111 AAATAAAATCAGAGTTGGAGTATCCCCA
1 AAATAAAATCAGGGTTGGAGTATCCCCA
1620139 ATTGTGGAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
78 3 0.03
79 84 0.92
80 4 0.04
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (79 bp):
AAATAAAATCAGGGTTGGAGTATCCCCACGAAAATAATAGGGTTGGAGTATCCCCAATTAGAGAA
AATCAATATTTTGA
Found at i:1620136 original size:51 final size:51
Alignment explanation
Indices: 1620073--1620188 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
1620063 AAATAATGAG
* *
1620073 GTTGGAGTATCCCCAATTGCGAGAAA-TTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCAATTGCG-GAAATTTGGTATTTTAGAAATAAAATCAGA
* * *
1620124 GTTGGAGTATCCCCAATTGTGGAAATTTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCAATTGCGGAAATTTGGTATTTTAGAAATAAAATCAGA
1620175 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1620189 TCAGAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 4 0.07
51 55 0.93
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGCGGAAATTTGGTATTTTAGAAATAAAATCAGA
Found at i:1620202 original size:28 final size:28
Alignment explanation
Indices: 1620171--1620244 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
1620161 GAAATAAAAT
1620171 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
* *
1620199 CGGGATTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
1620227 AGGGGTTGGAGTA-CCCCC
1 CGGGGTTGGAGTATCCCCC
1620245 GATTATGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:1620455 original size:51 final size:51
Alignment explanation
Indices: 1620312--1620480 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
1620302 AAATAACAGG
* * * *
1620312 GTTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
** * * *
1620363 GTTGGAGTATCCCCGATTGTGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
** * ** *
1620414 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
1620464 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
1620481 GGTAAAAAAT
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
50 1 0.01
51 96 0.99
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:1622810 original size:13 final size:13
Alignment explanation
Indices: 1622794--1622818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1622784 ACTTCCTAGA
1622794 TGTATCGATACAG
1 TGTATCGATACAG
1622807 TGTATCGATACA
1 TGTATCGATACA
1622819 TTGAATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1623570 original size:40 final size:42
Alignment explanation
Indices: 1623526--1623625 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
1623516 GTCCCACTTT
* *
1623526 TTGAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* * *
1623566 TTGAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
1623608 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
1623626 AGAGTACGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.34
41 4 0.08
42 25 0.50
43 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:1623725 original size:42 final size:42
Alignment explanation
Indices: 1623648--1623739 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1623638 GTTTTTTGAA
* * * *
1623648 GACAAAAGAAAAAGGGAAACGAAATACGTCCTGCTCTCTGAG
1 GACAAAAGAAAAAGGAAAACAAAATACATCATGCTCTCTGAG
* *
1623690 GACAAAAGAAAAAGGAAAACAAAATGCATCATGCTCTTTGAG
1 GACAAAAGAAAAAGGAAAACAAAATACATCATGCTCTCTGAG
1623732 GACAAAAG
1 GACAAAAG
1623740 GGAAAAGAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (42 bp):
GACAAAAGAAAAAGGAAAACAAAATACATCATGCTCTCTGAG
Found at i:1623894 original size:100 final size:100
Alignment explanation
Indices: 1623762--1623945 Score: 273
Period size: 100 Copynumber: 1.8 Consensus size: 100
1623752 AAAAAAGTAT
* *
1623762 GTCCTACTCTTTGAGGACTGAAAAGTGTCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCGTC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGGCATC
*
1623826 CAGCTCTTTGAGGACTAAAAGGTGAAAGTAGAGATC
65 CAGCTCTTTAAGGACTAAAAGGTGAAAGTAGAGATC
* * *
1623862 GTCCTACTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 GTCCTACTCTTTGAGGACTGA-AAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATC
*
1623926 CTGCTCTTTAAGGACTAAAA
65 CAGCTCTTTAAGGACTAAAA
1623946 AGTGGAAGGA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 5 0.07
100 70 0.93
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (100 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCC
AGCTCTTTAAGGACTAAAAGGTGAAAGTAGAGATC
Found at i:1624923 original size:15 final size:14
Alignment explanation
Indices: 1624905--1624966 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 14
1624895 TTTCTTTGTC
1624905 TTGTTTTTTTTCTTT
1 TTGTTTTTTTT-TTT
1624920 TTGTTTTTGTTTTTT
1 TTGTTTTT-TTTTTT
*
1624935 TTGTTTTGTTTTTT
1 TTGTTTTTTTTTTT
1624949 TTGTTTTTGGTTTTTT
1 TTGTTTTT--TTTTTT
1624965 TT
1 TT
1624967 TGTCCCCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 13 0.31
15 18 0.43
16 11 0.26
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (14 bp):
TTGTTTTTTTTTTT
Found at i:1624926 original size:14 final size:13
Alignment explanation
Indices: 1624909--1624956 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 13
1624899 TTTGTCTTGT
1624909 TTTTTTTCTTTTTG
1 TTTTTTT-TTTTTG
1624923 TTTTTGTTTTTTTTG
1 -TTTT-TTTTTTTTG
1624938 TTTTGTTTTTTTTG
1 TTTT-TTTTTTTTG
1624952 TTTTT
1 TTTTT
1624957 GGTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.03
14 18 0.56
15 10 0.31
16 3 0.09
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:1624941 original size:6 final size:6
Alignment explanation
Indices: 1624911--1624969 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
1624901 TGTCTTGTTT
*
1624911 TTTTTC TTTTTG TTTTTG TTTTT- TTTGTT- TTGTTT- TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTT-TTG TT-TTTG TTTTTG TTTTTG
*
1624958 GTTTT- TTTTTG T
1 TTTTTG TTTTTG T
1624970 CCCCACATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 10 0.22
6 35 0.76
7 1 0.02
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:1624945 original size:35 final size:35
Alignment explanation
Indices: 1624892--1624967 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
1624882 CTTTTCTCTC
1624892 TTTTTTCTTTGTCTTGTTTTTTTTCTTTTT-GTTT
1 TTTTTTCTTTGTCTTGTTTTTTTTCTTTTTGGTTT
* * *
1624926 TTGTTTTTTTTGTTTTGTTTTTTTTGTTTTTGGTTT
1 TT-TTTTCTTTGTCTTGTTTTTTTTCTTTTTGGTTT
1624962 TTTTTT
1 TTTTTT
1624968 GTCCCCACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.05
35 29 0.78
36 6 0.16
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (35 bp):
TTTTTTCTTTGTCTTGTTTTTTTTCTTTTTGGTTT
Found at i:1624962 original size:14 final size:14
Alignment explanation
Indices: 1624917--1624964 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1624907 GTTTTTTTTC
1624917 TTTTTGTTTTT-GT
1 TTTTTGTTTTTGGT
* *
1624930 TTTTTTTGTTTTGTTT
1 TTTTTGT-TTTTG-GT
1624946 TTTTTGTTTTTGGT
1 TTTTTGTTTTTGGT
1624960 TTTTT
1 TTTTT
1624965 TTTGTCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 6 0.21
14 10 0.36
15 5 0.18
16 7 0.25
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTGGT
Found at i:1626252 original size:13 final size:12
Alignment explanation
Indices: 1626233--1626291 Score: 63
Period size: 13 Copynumber: 5.1 Consensus size: 12
1626223 GAAGCAATGT
1626233 ATGTATCGATAC
1 ATGTATCGATAC
1626245 ATTGTATCGATAC
1 A-TGTATCGATAC
*
1626258 A-AT-TC-AT-C
1 ATGTATCGATAC
1626266 ATGTATCGATAC
1 ATGTATCGATAC
1626278 ATTGTATCGATAC
1 A-TGTATCGATAC
1626291 A
1 A
1626292 GTGTGCCATG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 2 0.05
9 3 0.08
10 4 0.10
11 3 0.08
12 3 0.08
13 24 0.62
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1626302 original size:33 final size:32
Alignment explanation
Indices: 1626233--1626309 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 32
1626223 GAAGCAATGT
1626233 ATGTATCGATACATTGTATCGATACAATTCATC
1 ATGTATCGATACATTGTATCGATACAATTCA-C
*
1626266 ATGTATCGATACATTGTATCGATACAGTGTGC-C
1 ATGTATCGATACATTGTATCGATACAAT-T-CAC
1626299 ATGTATCGATA
1 ATGTATCGATA
1626310 AAAACAGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 39 0.95
34 1 0.02
35 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACATTGTATCGATACAATTCAC
Found at i:1631033 original size:91 final size:91
Alignment explanation
Indices: 1630878--1631045 Score: 318
Period size: 91 Copynumber: 1.8 Consensus size: 91
1630868 TAAGCCATTA
*
1630878 TCTAATCTTGTCTTAAACATTTTAAGATTTAATTAATTGGATAATTTTAGCTTGGTGATAATTAG
1 TCTAATCTTGTCTTAAACATTTTAAGATTTAATTAATTGGACAATTTTAGCTTGGTGATAATTAG
1630943 GACTTTTTACTAGAGTAAAGTCTTTT
66 GACTTTTTACTAGAGTAAAGTCTTTT
1630969 TCTAATCTTGTCTTAAACATTTTAAGATTTAATTAATTGGACAATTTTAGCTTGGTGATAATTAG
1 TCTAATCTTGTCTTAAACATTTTAAGATTTAATTAATTGGACAATTTTAGCTTGGTGATAATTAG
*
1631034 GAGTTTTTACTA
66 GACTTTTTACTA
1631046 AAGTCTTATC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (91 bp):
TCTAATCTTGTCTTAAACATTTTAAGATTTAATTAATTGGACAATTTTAGCTTGGTGATAATTAG
GACTTTTTACTAGAGTAAAGTCTTTT
Found at i:1633784 original size:153 final size:151
Alignment explanation
Indices: 1633619--1634009 Score: 355
Period size: 153 Copynumber: 2.5 Consensus size: 151
1633609 CATACGAAGT
* * *
1633619 TTATAATGTTTAAAATTCCTTAAATATTATTGTTTGACTCATACTAAATTAGTTTTGAAGAATTC
1 TTATAATCTTTAAAATTCCTTAAATATTATTGTTTAATTCATA-TAAATTA-TTTTGAAGAATTC
* * *
1633684 AATTTATTTTATGAGTTTTAAAATTTTTTCTGTTACCAAAATATAAAGTTTTTTACTCCATAAAT
64 AATTTATTTTATGAGTTTTAAAATTTTTTCTATT-CCAAAATACAAAGTTTCTTACTCCATAAAT
1633749 TTCTTTAG-T-GGATTTTTTTAAGC
128 TT-TTTAGATGGGATTTTTTTAAGC
* * * * *
1633772 TTATAATTTTTAAAAATT--TTCAAATATTATTGTTTCATTTATAGTAAATCATTTTTAA-AAGT
1 TTATAATCTTT-AAAATTCCTT-AAATATTATTGTTTAATTCATA-TAAATTATTTTGAAGAA--
* * * * * * *
1633834 TTCAATTTGTTTGATGTGTTTTGAAATTTTTTCTATTTCAAAATACAGAGTTTCTTACTCTATAA
61 TTCAATTTATTTTATGAGTTTTAAAATTTTTTCTATTCCAAAATACAAAGTTTCTTACTCCATAA
* * *
1633899 ATTTTTTTGATGGGATTTTTTTGAGT
126 ATTTTTTAGATGGGATTTTTTTAAGC
* * * * * * *
1633925 TTTTGATCTTTAAAATTCAC-TAAATATTTTTCATTAAATTCATATTAATTCAATTTTTGGAG-A
1 TTATAATCTTTAAAATTC-CTTAAATATTATT-GTTTAATTCATATAAATT--A-TTTTGAAGAA
1633988 TTCAATTTATTTTATGAGTTTT
61 TTCAATTTATTTTATGAGTTTT
1634010 GCATTTTTCT
Statistics
Matches: 189, Mismatches: 35, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
151 6 0.03
152 42 0.22
153 100 0.53
154 34 0.18
155 1 0.01
156 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.51
Consensus pattern (151 bp):
TTATAATCTTTAAAATTCCTTAAATATTATTGTTTAATTCATATAAATTATTTTGAAGAATTCAA
TTTATTTTATGAGTTTTAAAATTTTTTCTATTCCAAAATACAAAGTTTCTTACTCCATAAATTTT
TTAGATGGGATTTTTTTAAGC
Found at i:1640647 original size:37 final size:40
Alignment explanation
Indices: 1640597--1640673 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 40
1640587 TTTGTTTATC
*
1640597 TTATATATTTCTAAACAATATTTATT-TT-TTATT-ATATT
1 TTATATATTTCTAAAAAATATTT-TTATTATTATTAATATT
1640635 TTATAT-TTTCTAAAAAATATTTTTATTATTATTAATATT
1 TTATATATTTCTAAAAAATATTTTTATTATTATTAATATT
1640674 AAAAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 2 0.06
37 17 0.49
38 11 0.31
39 5 0.14
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (40 bp):
TTATATATTTCTAAAAAATATTTTTATTATTATTAATATT
Found at i:1641720 original size:20 final size:20
Alignment explanation
Indices: 1641697--1641745 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1641687 TTTATGGTGC
1641697 ATCGATACAAAGCAATTTGT
1 ATCGATACAAAGCAATTTGT
**
1641717 ATCGATACTTAGCAATTTGT
1 ATCGATACAAAGCAATTTGT
*
1641737 ATCAATACA
1 ATCGATACA
1641746 TCTGGGTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCGATACAAAGCAATTTGT
Found at i:1641878 original size:22 final size:22
Alignment explanation
Indices: 1641844--1641886 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1641834 TACATTAAGT
1641844 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
1641866 ATTTATTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
1641887 TAAACTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:1644346 original size:27 final size:29
Alignment explanation
Indices: 1644304--1644359 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
1644294 TACAATTTCT
*
1644304 TTGTATCAATAGA-TTTGG-AAAATCTAG
1 TTGTATCAATACATTTTGGAAAAATCTAG
1644331 TTGTATCAATACATTTTGGAAAAATCTAG
1 TTGTATCAATACATTTTGGAAAAATCTAG
1644360 AAGTATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 12 0.46
28 5 0.19
29 9 0.35
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (29 bp):
TTGTATCAATACATTTTGGAAAAATCTAG
Found at i:1644365 original size:29 final size:27
Alignment explanation
Indices: 1644306--1644366 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
1644296 CAATTTCTTT
* **
1644306 GTATCAATAGATTTGGAAAATCTAGTT
1 GTATCAATACATTTGGAAAATCTAGAA
1644333 GTATCAATACATTTTGGAAAAATCTAGAA
1 GTATCAATACA-TTTGG-AAAATCTAGAA
1644362 GTATC
1 GTATC
1644367 TAAGTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
28 5 0.17
29 14 0.48
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (27 bp):
GTATCAATACATTTGGAAAATCTAGAA
Found at i:1646200 original size:166 final size:165
Alignment explanation
Indices: 1645956--1646446 Score: 537
Period size: 165 Copynumber: 3.0 Consensus size: 165
1645946 AAATAATGGG
* ** * *
1645956 GTTTTCTTCTCTGTAATT-TTTTTCGGGAGGATTTTTCTTAATTTT-AAATTTTAAAATTCATCA
1 GTTTTCTACTCTGTAATTATTTTT-AAGAGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCA
* ** *
1646019 AATATTATTATTTATTTCATGTTAAATT-AGTTTTCAAAAATTAATTCATTTTCATGACATTTTG
65 AATATTATTATTTATTTCATGTT-AATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTA
* *
1646083 ATTTTTTCCTTGAAATTTTCCTTTTTCCAAAATATAGT
129 ATTTTTTCCTTGAAATTCT-CTTTTTCCAAAATACAGT
* * * *
1646121 GTTTTCTACTCTATAATTATTTTTAAGAGGATTTATCTTTGTTTTCAATTTTTAAAATTCATAAA
1 GTTTTCTACTCTGTAATTATTTTTAAGAGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAA
* * * *
1646186 ATATTATCATTTATTTTATAG-TAATTCAGTTTTCAAAAACTCATTTATTTTCATGAGTTTTTTA
66 ATATTATTATTTATTTCAT-GTTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAG-TTTTTA
* * *
1646250 TTTTTTTCCTTTAAATTCTCTTTTTCCAAAATACGGT
129 ATTTTTTCCTTGAAATTCTCTTTTTCCAAAATACAGT
* * * *
1646287 GTTTTTTACT-TCGTAA-TATTTTTTAGGGGATTTTTC-GAGGTTTTCAATTTTTAAAATTCATC
1 GTTTTCTACTCT-GTAATTATTTTTAAGAGGATTTTTCTTA-GTTTTCAATTTTTAAAATTCATC
* * * * * *
1646349 AAACATCATTAATTATTTCATATTAATTCATTTTTCAAAAATTCATTCATCTTCATGAGTTTTTA
64 AAATATTATTATTTATTTCATGTTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTT-
* * *
1646414 AATTTTTTCTTTGAAATTCCCATTTTCCCAAAA
128 AATTTTTTCCTTGAAATTCTC-TTTTTCCAAAA
1646447 AACTAAGTCT
Statistics
Matches: 271, Mismatches: 45, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
164 5 0.02
165 141 0.52
166 104 0.38
167 21 0.08
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (165 bp):
GTTTTCTACTCTGTAATTATTTTTAAGAGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAA
ATATTATTATTTATTTCATGTTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTAAT
TTTTTCCTTGAAATTCTCTTTTTCCAAAATACAGT
Found at i:1647023 original size:12 final size:11
Alignment explanation
Indices: 1646998--1647047 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1646988 GGTTCAGCTG
*
1646998 AAAAACAAAGA
1 AAAAAAAAAGA
* *
1647009 AAAAAAAGACA
1 AAAAAAAAAGA
1647020 AAAAAAAAGAGA
1 AAAAAAAA-AGA
*
1647032 AAAAAGAAAGA
1 AAAAAAAAAGA
1647043 AAAAA
1 AAAAA
1647048 GGAGAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1647024 original size:13 final size:12
Alignment explanation
Indices: 1646998--1647047 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
1646988 GGTTCAGCTG
*
1646998 AAAAACAAAGAAA
1 AAAAAGAAA-AAA
*
1647011 AAAAAGACAAAA
1 AAAAAGAAAAAA
1647023 AAAAAGAGAAAAA
1 AAAAAGA-AAAAA
*
1647036 AGAAAGAAAAAA
1 AAAAAGAAAAAA
1647048 GGAGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 15 0.47
13 17 0.53
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:1647052 original size:21 final size:21
Alignment explanation
Indices: 1646998--1647055 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1646988 GGTTCAGCTG
* *
1646998 AAAAACAAAGAAAAAAAAGAC
1 AAAAAAAAAGAGAAAAAAGAC
1647019 AAAAAAAAAGAGAAAAAAGA-
1 AAAAAAAAAGAGAAAAAAGAC
*
1647039 AAGAAAAAAGGAGAAAA
1 AA-AAAAAAAGAGAAAA
1647056 TAGAGTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAGAGAAAAAAGAC
Found at i:1647831 original size:26 final size:27
Alignment explanation
Indices: 1647783--1647846 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
1647773 TTTGCAAAAC
*
1647783 ATAGTGAAATTGTGAAGATTAGGACAAA
1 ATAGT-AAATTGTGAAAATTAGGACAAA
1647811 ATAGTAAATTG-GAAAATTAGGACAAA
1 ATAGTAAATTGTGAAAATTAGGACAAA
1647837 ATAGTAAATT
1 ATAGTAAATT
1647847 CTAGTTTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 24 0.69
27 6 0.17
28 5 0.14
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.27
Consensus pattern (27 bp):
ATAGTAAATTGTGAAAATTAGGACAAA
Found at i:1648439 original size:157 final size:157
Alignment explanation
Indices: 1648078--1649072 Score: 791
Period size: 157 Copynumber: 6.4 Consensus size: 157
1648068 ATGTCTATAG
* * * *
1648078 TCCTTTTTAAGTCCTTTAGGGTTACCGGAATACTTTCACGTCGAAAGTATACCCCTATAGGCATT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTA-ACCCCTAAAGGCATT
* * * * **
1648143 TTCGT--TTCTTTTCAAAACTAAGTCCTAAGTCATCGTCGGGTCCGCTTTTATGCCGAAGGTAGG
65 TTCATAATT-TTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAGG
1648206 CATTTAGGATAGGCTTCATCCCTTTTAAAA
129 CATTTAGGATAGG-TTCATCCCTTTTAAAA
* ** ** *
1648236 CCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTCACGTTAAAGGTAACCCCTAAAGGTATTT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAACCCCTAAAGGCATTT
* * ** *
1648301 TCATAATTTTTTTAAAACCAAGTCCTAGGTCATCGCTGGGTTTGCTTTTATGCTGAAGGTAGGCA
66 TCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAGGCA
* *
1648366 TTTAGGATAGGTTCAACCGTTTTAAAA
131 TTTAGGATAGGTTCATCCCTTTTAAAA
* * *
1648393 TCCTTTTTAAGTCCTTTAGGGGTACTGGGATACTTT----T---ACGT-----C-AAAGGTATTT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAACCCCTAAAGGCATTT
* * ** *
1648445 TCATAA-TTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCCATTTTTATGCTGAAGGTAGGCA
66 TCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAGGCA
* * *
1648509 TTTAGGATAGGTTCTTCTCTGTTAAAA
131 TTTAGGATAGGTTCATCCCTTTTAAAA
* * * * * **
1648536 CCCTTTTTAAGTCTTTTAGAGGTACGGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGCA-TT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAACCCCTAAAGGCATTT
* * * ** * * * *
1648600 TCGTAATTTTTTCTAGAACCAACTCCTAGGTCATCACTAGGTCTGCTTTTGTGCCGAAGGTGGGT
66 TCATAATTTTTT-TAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAGGC
* * **
1648665 ATTTAGGATAGTTTCATCCCATTT-CTA
130 ATTTAGGATAGGTTCATCCCTTTTAAAA
* ** * * * *
1648692 GCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTCACGTTGAAGGTATCCCCTAAGGGTATTT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAACCCCTAAAGGCATTT
* * * **
1648757 TGATAATTTTTCCTAAAACCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGT-GAG
66 TCATAATTTTT-TTAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAG-G
* * * ** *
1648821 AATTTAGGATAGGTTCATCGCATTTCTAG
129 CATTTAGGATAGGTTCATCCCTTTTAAAA
* ** * ** *
1648850 T-CTTTTTAAGTCCTTTAGGGTTGTC-GGATTACTTTTACGTCGAAGGTATACCTATAAGGGCAT
1 TCCTTTTTAAGTCCTTTAGGGGTACCGGGA-TACTTTCACGTCGAAGGTA-ACCCCTAAAGGCAT
* * ** * * * * * *
1648913 TTTCGT-ACTTTCATAAAATCGAGTCCTAGG-CTATCACCGGGTCCACTTTTATGCTGAAAGTGG
64 TTTCATAATTTTTTTAAAACCAAGTCCTAGGTC-ATCACCGGGTCCGCTTTTATGCCGAAGGTAG
** * ** *
1648976 GCATTTAGGATAGGTTCATTGCATTTCTAG
128 GCATTTAGGATAGGTTCATCCCTTTTAAAA
* * * * * *
1649006 T-CTTTTTAAGTCTTTTATGGTTGCCAGGG-TACTTTTACGTCGAAGGTATACCCAT-AAGGTCA
1 TCCTTTTTAAGTCCTTTAGGGGTACC-GGGATACTTTCACGTCGAAGGTA-ACCCCTAAAGG-CA
1649068 TTTTC
63 TTTTC
1649073 TTACTTTCTT
Statistics
Matches: 687, Mismatches: 122, Indels: 58
0.79 0.14 0.07
Matches are distributed among these distances:
143 104 0.15
144 16 0.02
145 1 0.00
147 1 0.00
150 6 0.01
153 1 0.00
155 11 0.02
156 189 0.28
157 239 0.35
158 117 0.17
159 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (157 bp):
TCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAACCCCTAAAGGCATTT
TCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAGGTAGGCA
TTTAGGATAGGTTCATCCCTTTTAAAA
Found at i:1648493 original size:143 final size:144
Alignment explanation
Indices: 1648291--1648585 Score: 414
Period size: 143 Copynumber: 2.1 Consensus size: 144
1648281 GGTAACCCCT
* * ***
1648291 AAAGGTATTTTCATAATTTTTTTAAAACCAAGTCCTAGGTCATCGCTGGGTTTGCTTTTATGCTG
1 AAAGGTATTTTCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCACTTTTATGCTG
* * * *
1648356 AAGGTAGGCATTTAGGATAGGTTCAAC-CGTTTTAAAATCCTTTTTAAGTCCTTTAGGGGTACTG
66 AAGGTAGGCATTTAGGATAGGTTCAACTC-TGTTAAAACCCTTTTTAAGTCCTTTAGAGGTACGG
*
1648420 GGATACTTTTACGTC
130 GGATACTTTCACGTC
* * *
1648435 AAAGGTATTTTCATAA-TTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCCATTTTTATGCTG
1 AAAGGTATTTTCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCACTTTTATGCTG
** *
1648499 AAGGTAGGCATTTAGGATAGGTTCTTCTCTGTTAAAACCCTTTTTAAGTCTTTTAGAGGTACGGG
66 AAGGTAGGCATTTAGGATAGGTTCAACTCTGTTAAAACCCTTTTTAAGTCCTTTAGAGGTACGGG
1648564 GATACTTTCACGTC
131 GATACTTTCACGTC
*
1648578 GAAGGTAT
1 AAAGGTAT
1648586 CCCCTAGGGG
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
143 116 0.87
144 17 0.13
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (144 bp):
AAAGGTATTTTCATAATTTTTTTAAAACCAAGTCCTAGGTCATCACCGGGTCCACTTTTATGCTG
AAGGTAGGCATTTAGGATAGGTTCAACTCTGTTAAAACCCTTTTTAAGTCCTTTAGAGGTACGGG
GATACTTTCACGTC
Found at i:1649071 original size:156 final size:155
Alignment explanation
Indices: 1648462--1649103 Score: 552
Period size: 156 Copynumber: 4.1 Consensus size: 155
1648452 TTTTTAGAAC
* * * * *
1648462 CGAGTCCTAGG-TCATCACCGGGTCCATTTTTATGCTGAAGGTAGGCATTTAGGATAGGTTCTTC
1 CGAGTCCTAGGCT-ATCACCGGGTCCACTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATC
* ** ** * * ** *
1648526 TC-TGTTAAAACCCTTTTTAAGTCTTTTAGAGG-TACGGGGATACTTTCACGTCGAAGGTAT-CC
65 GCAT-TT-CTAGTCTTTTTAAGTCCTTTAG-GGTTGCCAGGATACTTTTACGTCGAAGGTATACC
* * * * *
1648588 CCTAGGGGCA-TTTCGTAATTTTTTC-TAGAAC
127 CATAAGGTCATTTTCGT-A--CTTTCATA-AAA
* * ** ** * * *
1648619 CAACTCCTAGG-TCATCACTAGGTCTGCTTTTGTGCCGAAGGTGGGTATTTAGGATAGTTTCATC
1 CGAGTCCTAGGCT-ATCACCGGGTCCACTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATC
* * * * * * * *
1648683 CCATTTCTAGCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTCACGTTGAAGGTAT-CCCCT
65 GCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAGGTATACCCAT
* *
1648747 AAGGGT-ATTTT-GATAATTTTTCCTAAAA
130 AA-GGTCATTTTCG-T-A-CTTTCATAAAA
* * * *
1648775 CCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGAGAATTTAGGATAGGTTCATC
1 -CGAGTCCTAGGCTATCACCGGGTCCACTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATC
* *
1648840 GCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTC-GGATTACTTTTACGTCGAAGGTATACCTA
65 GCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGA-TACTTTTACGTCGAAGGTATACCCA
*
1648904 TAAGGGCATTTTCGTACTTTCATAAAA
129 TAAGGTCATTTTCGTACTTTCATAAAA
* * * *
1648931 TCGAGTCCTAGGCTATCACCGGGTCCACTTTTATGCTGAAAGTGGGCATTTAGGATAGGTTCATT
1 -CGAGTCCTAGGCTATCACCGGGTCCACTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATC
* * *
1648996 GCATTTCTAGTCTTTTTAAGTCTTTTATGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCAT
65 GCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAGGTATACCCAT
* *
1649061 AAGGTCATTTTCTTACTTTCTTAAAA
130 AAGGTCATTTTCGTACTTTCATAAAA
1649087 CTGAGTCCTA-GCTATCA
1 C-GAGTCCTAGGCTATCA
1649104 TCAGGTTTGC
Statistics
Matches: 406, Mismatches: 65, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
155 10 0.02
156 213 0.52
157 169 0.42
158 13 0.03
159 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (155 bp):
CGAGTCCTAGGCTATCACCGGGTCCACTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATCG
CATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAGGTATACCCATA
AGGTCATTTTCGTACTTTCATAAAA
Found at i:1654560 original size:48 final size:48
Alignment explanation
Indices: 1654486--1654590 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
1654476 TTAAAACCTG
* * *
1654486 GTCAAACTCTTTTCATCTCTCATTTGATTGCATTGGTATTAGGGCCTA
1 GTCAAACTCTTTTCATCCCTCATTTGACTGCATTAGTATTAGGGCCTA
** * * *
1654534 GTCAAACTCTTTTCATCCCTTGTTTGACTGTATTAGTGTTAGGGCCTG
1 GTCAAACTCTTTTCATCCCTCATTTGACTGCATTAGTATTAGGGCCTA
*
1654582 GCCAAACTC
1 GTCAAACTC
1654591 GTCTCTCTCC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (48 bp):
GTCAAACTCTTTTCATCCCTCATTTGACTGCATTAGTATTAGGGCCTA
Found at i:1654655 original size:44 final size:44
Alignment explanation
Indices: 1654605--1654719 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
1654595 CTCTCCTGTC
* * **
1654605 TGACATATGGTTACCACCCTGGTCAGATTTTTCTTATT-TCGATT
1 TGACATATGGTTACCACCCTGGTCAAATCTGCCTTATTCTCG-TT
* * *
1654649 TGACATATGGGTACCACCCTTGTCAAATCTGCCTTATTCTTGTT
1 TGACATATGGTTACCACCCTGGTCAAATCTGCCTTATTCTCGTT
*
1654693 TGACATATGGTTACCACCATGGTCAAA
1 TGACATATGGTTACCACCCTGGTCAAA
1654720 CGATTCGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (44 bp):
TGACATATGGTTACCACCCTGGTCAAATCTGCCTTATTCTCGTT
Found at i:1654731 original size:44 final size:42
Alignment explanation
Indices: 1654605--1654735 Score: 120
Period size: 44 Copynumber: 3.0 Consensus size: 42
1654595 CTCTCCTGTC
** *
1654605 TGACATATGGTTACCACCCTGGTCAGATTTTTCTTATT-TCGATT
1 TGACATATGGTTACCACCCTGGTCA-A-ACTTCTTATTCTTG-TT
* * *
1654649 TGACATATGGGTACCACCCTTGTCAAATCTGCCTTATTCTTGTT
1 TGACATATGGTTACCACCCTGGTCAAA-CT-TCTTATTCTTGTT
* *
1654693 TGACATATGGTTACCACCATGGTCAAACGATTCGTATTCTTGT
1 TGACATATGGTTACCACCCTGGTCAAAC--TTCTTATTCTTGT
1654736 CCAATATAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
43 3 0.04
44 65 0.92
45 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (42 bp):
TGACATATGGTTACCACCCTGGTCAAACTTCTTATTCTTGTT
Found at i:1654875 original size:43 final size:42
Alignment explanation
Indices: 1654826--1654918 Score: 98
Period size: 43 Copynumber: 2.2 Consensus size: 42
1654816 TTTGACTTTG
* * *
1654826 GAGACTTATTCATC-CTTGAGTCTACCTGTTGGCTTTGACCCT
1 GAGACTTACTCA-CACTTAAGTCTACCTGTCGGCTTTGACCCT
* * *
1654868 AGAGACTTCCTCACACTTAAGTCTGCTTGTCGGCTTTGACCCT
1 -GAGACTTACTCACACTTAAGTCTACCTGTCGGCTTTGACCCT
1654911 GAAGACTT
1 G-AGACTT
1654919 CTTCGCCCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (42 bp):
GAGACTTACTCACACTTAAGTCTACCTGTCGGCTTTGACCCT
Found at i:1654919 original size:43 final size:43
Alignment explanation
Indices: 1654856--1654984 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
1654846 TCTACCTGTT
* * *
1654856 GGCTTTGACCCT-AGAGACTTCCTCACACTTAAGTCTGCTTGTC
1 GGCTTTGACCCTGA-AGACTTCCTCACACTAAAGTCTGCCTATC
* * * *
1654899 GGCTTTGACCCTGAAGACTTCTTCGCCCTAAAGTTTGCCTATC
1 GGCTTTGACCCTGAAGACTTCCTCACACTAAAGTCTGCCTATC
* * * *
1654942 AGCTTTGACCCTGGAGACTTCTTC-CTC-ATAAGTCTGCCTATC
1 GGCTTTGACCCTGAAGACTTCCTCACACTA-AAGTCTGCCTATC
1654984 G
1 G
1654985 CTTAGACACC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 14 0.19
43 56 0.78
44 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (43 bp):
GGCTTTGACCCTGAAGACTTCCTCACACTAAAGTCTGCCTATC
Found at i:1655058 original size:42 final size:42
Alignment explanation
Indices: 1654948--1655349 Score: 224
Period size: 42 Copynumber: 9.5 Consensus size: 42
1654938 TATCAGCTTT
* * * ** * *
1654948 GACCCTGGAGACTTCTTCCTCATAAGTCTGCCTATC-GCTTA
1 GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
*** *
1654989 GACACC-GGAGACTTTTTCATCCA-TCGTCTGCCCATTAACTTA
1 GAC-CCGGGAGACTTTTTCAT-CATTCGTCTGCCCATCGGCTCA
* * * *
1655031 GACCCGGGAGACTTTTTCAACATTCGTCTGGCTATCGACTCA
1 GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
* * * * *
1655073 AACTCAGGAGACTTTTTCATCATTCGTCTACCCGTCGGCTCA
1 GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
* * * *
1655115 GACCTGAGAGACTTCTTTCATCATTTGTCTGCCTATCGGCTCA
1 GACCCGGGAGACTT-TTTCATCATTCGTCTGCCCATCGGCTCA
* * * * * * *
1655158 AACTCGGAAGACTTCTTCATTAATT-GTCTGCCCATTGGCTTA
1 GACCCGGGAGACTTTTTCA-TCATTCGTCTGCCCATCGGCTCA
* ** * * *
1655200 GACCCGGGAGACTTCTTCATCATTCGTCTATCCGTCGACTTA
1 GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
* * * * *
1655242 GACCC-GAAAACTTCTTCATCAATCGTCTACCCATCGGCT-A
1 GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
* * * * * * *
1655282 GACTCAGAAAACTTTCTTTATCAATT-GTCTGCCCGTCGGCTTA
1 GACCCGGGAGACTTT-TTCATC-ATTCGTCTGCCCATCGGCTCA
* *
1655325 GACCTGAGAGACTTTTGTCAATCAT
1 GACCCGGGAGACTTTT-TC-ATCAT
1655350 CTGCCCAAGA
Statistics
Matches: 278, Mismatches: 69, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
40 5 0.02
41 68 0.24
42 150 0.54
43 52 0.19
44 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (42 bp):
GACCCGGGAGACTTTTTCATCATTCGTCTGCCCATCGGCTCA
Found at i:1655177 original size:85 final size:84
Alignment explanation
Indices: 1655029--1655284 Score: 245
Period size: 85 Copynumber: 3.1 Consensus size: 84
1655019 CCCATTAACT
* * * * *
1655029 TAGACCCGGGAGACTT-TTTCAACATTCGTCTGGCTATCGACTCAAACTCAGG-AGACTTTTTCA
1 TAGACCTGAGAGACTTCTTTCATCATTCGTCTGCCTATCGACTCAAACTC-GGAAGACTTCTTCA
*
1655092 TCATTCGTCTACCCGTCGGC
65 TCATTCGTCTACCCATCGGC
* *
1655112 TCAGACCTGAGAGACTTCTTTCATCATTTGTCTGCCTATCGGCTCAAACTCGGAAGACTTCTTCA
1 T-AGACCTGAGAGACTTCTTTCATCATTCGTCTGCCTATCGACTCAAACTCGGAAGACTTCTTCA
* * *
1655177 TTAATT-GTCTGCCCATTGGC
65 -TCATTCGTCTACCCATCGGC
* * * * * * * *
1655197 TTAGACCCGGGAGACTTC-TTCATCATTCGTCTATCC-GTCGACTTAGAC-CCGAAAACTTCTTC
1 -TAGACCTGAGAGACTTCTTTCATCATTCGTCT-GCCTATCGACTCAAACTCGGAAGACTTCTTC
*
1655259 ATCAATCGTCTACCCATCGGC
64 ATCATTCGTCTACCCATCGGC
1655280 TAGAC
1 TAGAC
1655285 TCAGAAAACT
Statistics
Matches: 141, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
82 8 0.06
83 26 0.18
84 36 0.26
85 66 0.47
86 5 0.04
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (84 bp):
TAGACCTGAGAGACTTCTTTCATCATTCGTCTGCCTATCGACTCAAACTCGGAAGACTTCTTCAT
CATTCGTCTACCCATCGGC
Found at i:1655299 original size:83 final size:83
Alignment explanation
Indices: 1655083--1655328 Score: 183
Period size: 83 Copynumber: 2.9 Consensus size: 83
1655073 AACTCAGGAG
* * * * * * * *
1655083 ACTTTTTCATCATTCGTCTACCCGTCGGCTCAGA-CCTGAGAGACTTCTTTCATCATTTGTCTGC
1 ACTTCTTCATCAATCGTCTACCCATCGGCTTAGACCCAGA-AAACTTC-TTCATCAATTGTCTAC
** * * * * *
1655147 CTATCGGCTCAAACTCGGAAG
64 CCGTCGACTTAGAC-CCGAAA
* * * * * * * *
1655168 ACTTCTTCATTAATTGTCTGCCCATTGGCTTAGACCCGGGAGACTTCTTCATC-ATTCGTCTATC
1 ACTTCTTCATCAATCGTCTACCCATCGGCTTAGACCCAGAAAACTTCTTCATCAATT-GTCTACC
1655232 CGTCGACTTAGACCCGAAA
65 CGTCGACTTAGACCCGAAA
* * *
1655251 ACTTCTTCATCAATCGTCTACCCATCGGC-TAGACTCAGAAAACTTTCTTTATCAATTGTCTGCC
1 ACTTCTTCATCAATCGTCTACCCATCGGCTTAGACCCAGAAAAC-TTCTTCATCAATTGTCTACC
*
1655315 CGTCGGCTTAGACC
65 CGTCGACTTAGACC
1655329 TGAGAGACTT
Statistics
Matches: 125, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
82 10 0.08
83 57 0.46
84 22 0.18
85 33 0.26
86 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (83 bp):
ACTTCTTCATCAATCGTCTACCCATCGGCTTAGACCCAGAAAACTTCTTCATCAATTGTCTACCC
GTCGACTTAGACCCGAAA
Found at i:1655323 original size:125 final size:127
Alignment explanation
Indices: 1655079--1655338 Score: 319
Period size: 125 Copynumber: 2.1 Consensus size: 127
1655069 CTCAAACTCA
* * * * * *
1655079 GGAGACTTTTTCATCATTCGTCTACCCGTCGGCTCAGACCTGAGAGACTTCTTTCATCATTTGTC
1 GGAGACTTCTTCATCATTCGTCTACCCGTCGACTCAGACCCGAGAAACTTCTTTCATCAATCGTC
* * * * * *
1655144 TGCCTATCGGCTCAAACTCGGAAGACTTCTTCATTAATTGTCTGCCCATTGGCTTAGACCCG
66 TACCCATCGGCTCAAACTCAGAAAACTTCTTCATCAATTGTCTGCCCATCGGCTTAGACCCG
* *
1655206 GGAGACTTCTTCATCATTCGTCTATCCGTCGACTTAGACCCGA-AAACTTC-TTCATCAATCGTC
1 GGAGACTTCTTCATCATTCGTCTACCCGTCGACTCAGACCCGAGAAACTTCTTTCATCAATCGTC
* * * *
1655269 TACCCATCGGCT-AGACTCAGAAAACTTTCTTTATCAATTGTCTGCCCGTCGGCTTAGACCTG
66 TACCCATCGGCTCAAACTCAGAAAAC-TTCTTCATCAATTGTCTGCCCATCGGCTTAGACCCG
*
1655331 AGAGACTT
1 GGAGACTT
1655339 TTGTCAATCA
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
124 10 0.09
125 59 0.52
126 6 0.05
127 38 0.34
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (127 bp):
GGAGACTTCTTCATCATTCGTCTACCCGTCGACTCAGACCCGAGAAACTTCTTTCATCAATCGTC
TACCCATCGGCTCAAACTCAGAAAACTTCTTCATCAATTGTCTGCCCATCGGCTTAGACCCG
Found at i:1655439 original size:42 final size:42
Alignment explanation
Indices: 1655390--1656509 Score: 557
Period size: 42 Copynumber: 26.4 Consensus size: 42
1655380 TACTCGTCAA
*
1655390 CTTAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * *
1655432 CTCAGA-CCTAGGAGACTTTTCCATCAATTGTTTGCCCGTCGG
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * *
1655474 CTCAGACCCGAGAGAC-TTTCCATCAATCATCTGCCCGTCGA
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* *
1655515 CATAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGA
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * * *
1655557 CTTAAACTCGGGAGACTTTTTCGTCAATCGTCTACCCGTCGG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* *
1655599 CTTAGA-CCGAAAAGAC--TTCCATTGTCAATCGTCTGCCCATCGG
1 CTTAGACCCG-AGAGACTTTTCCA---TCAATCGTCTGCCCGTCGG
* * * ** * * *
1655642 CTTAGACCTGGGAGACTTCCTT-TATCAATCACCTTCCCATCGA
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* * * ** * * *
1655685 CTTAAACTCGAAAGACTTCCTT-TGTTAATCGTCTACCCATCGG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* * * * * ** *
1655728 CTTAGACCTGGGAGACTTTTTCATCACTTGTCTGCCTATCTG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * *
1655770 CTCAGACCCAAGAGACTTCCTT-TATCAATCGTCTGCCCGTCGA
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* * *
1655813 CTTAGA-CCTAGGAGACTTTTCCATCAATCATCTGCCCGTCGA
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * *
1655855 CTTAGACAC-AGGAGACTTTTCTATCAATTGTCTGCCCATTGG
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * ** * * **
1655897 CTCAGACTCAAGAGACTTCCTT-TGTCAATCTTCTACCTATCGG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* * * *** * *
1655940 CCTAGACTCGGGAGACTTTCTTTGTCAATCGTATGCCCGTCAG
1 CTTAGACCCGAGAGACTTT-TCCATCAATCGTCTGCCCGTCGG
** * * * * *
1655983 CTTAGACTTGAGAGATTTTTTCATCAATCATTTGCCCGTCGA
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * * * * **
1656025 CTTAAACCTGGGAGACTTTTCAATCAATCATCTACCTGTTAG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * * * *
1656067 TTTAGACTCTAGAGACTTTTCCATCAATCGTCTACTCATTGG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * ** * *
1656109 CTTAGACTCGGGAGACTTCCTT-TGTCAATCGTCTGCCTGTCAG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* *** * * *
1656152 CTTAGACCCAAGAGACTTCTTTTGTCAATTGTCTGCCCATTGG
1 CTTAGACCCGAGAGACTT-TTCCATCAATCGTCTGCCCGTCGG
* * * *
1656195 CTTAGA-CCTAGGAGACTTTTTCATCAATCGTCTACCTGTCGG
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * * *
1656237 CTCAGACCTGGGAGACTTCCTT-TATCAATCGTCTGCCCATTGG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* * * *
1656280 CTTAGACCC-AGGAGACTTTTTCATCAATGGTCTACCTGTCGG
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* * * * *
1656322 CTCAGACCTGGGAGACTTCCTT-TATCAATCGTCTGCCCCTCGG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
** * **
1656365 CTTAGACTTGGGAGACTTTTCCATCAATCGTCTGCCTATCGG
1 CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
* *** * **
1656407 TTTAGA-ATTAGGAGACTTTTCCATCAATCATCTGCTTGTCGG
1 CTTAGACCCGA-GAGACTTTTCCATCAATCGTCTGCCCGTCGG
* ** * *
1656449 CTTAGACCCAAGAGACTTCCTT-TGTCAATCGTTTGCCCGTCAG
1 CTTAGACCCGAGAGACTT--TTCCATCAATCGTCTGCCCGTCGG
* *
1656492 CTTAGACTCGGGAGACTT
1 CTTAGACCCGAGAGACTT
1656510 CCTTGTCGCA
Statistics
Matches: 824, Mismatches: 214, Indels: 79
0.74 0.19 0.07
Matches are distributed among these distances:
40 3 0.00
41 50 0.06
42 427 0.52
43 327 0.40
44 14 0.02
46 1 0.00
47 2 0.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (42 bp):
CTTAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGG
Found at i:1655489 original size:153 final size:153
Alignment explanation
Indices: 1655232--1655509 Score: 366
Period size: 153 Copynumber: 1.8 Consensus size: 153
1655222 TTCGTCTATC
* *
1655232 CGTCGACTTAGACCCGAAAACTTCTTCATCAATCGTCTACCCATCGGCTAGACTCAGAAAACTTT
1 CGTCAACTTAGACCCGAAAACTTCTTCATCAATCATCTACCCATCGGCTAGACTCAGAAAACTTT
** * * **
1655297 CTTTATCAATTGTCTGCCCGTCGGCTTAGACCTGAGAGACTTT-TGTCAATCATCTGCCCAAGAG
66 CTCCATCAATTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCCATCAATCATCTGCCCAAGAG
1655361 ACATTCTTTGTCAATTATCTACT
131 ACATTCTTTGTCAATTATCTACT
* * * * *
1655384 CGTCAACTTAGACCCGAGAGACTT-TTCCATCAATCATCTGCCCGTCGGCTCAGAC-CTAGGAGA
1 CGTCAACTTAGACCCGA-AAACTTCTT-CATCAATCATCTACCCATCGGCT-AGACTC-AGAAAA
*
1655447 CTTT-TCCATCAATTGTTTGCCCGTCGGCTCAGACCCGAGAGACTTTCCATCAATCATCTGCCC
62 CTTTCTCCATCAATTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCCATCAATCATCTGCCC
1655510 GTCGACATAG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
152 18 0.17
153 63 0.59
154 26 0.24
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (153 bp):
CGTCAACTTAGACCCGAAAACTTCTTCATCAATCATCTACCCATCGGCTAGACTCAGAAAACTTT
CTCCATCAATTGTCTGCCCGTCGGCTCAGACCCGAGAGACTTTCCATCAATCATCTGCCCAAGAG
ACATTCTTTGTCAATTATCTACT
Found at i:1655511 original size:83 final size:83
Alignment explanation
Indices: 1655384--1656466 Score: 344
Period size: 85 Copynumber: 12.8 Consensus size: 83
1655374 ATTATCTACT
* *
1655384 CGTCAACTTAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGCTCAGACCTAG-GAGAC
1 CGTCGACTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGCT-AGACC-AGAGAGAC
* *
1655448 TTTTCCATCAATTGTTTGCC
64 TTTTCCATCAATCGTCTGCC
* * *
1655468 CGTCGGCTCAGACCCGAGAGAC-TTTCCATCAATCATCTGCCCGTCGACATAGACCCGAGAGACT
1 CGTCGACTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGACCAGAGAGACT
1655532 TTTCCATCAATCGTCTGCC
65 TTTCCATCAATCGTCTGCC
* * * * * * * * *
1655551 CGTCGACTTAAACTCGGGAGACTTTTTCGTCAATCGTCTACCCGTCGGCTTAGACC-GAAAAGAC
1 CGTCGACTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGACCAG-AGAGAC
1655615 --TTCCATTGTCAATCGTCTGCC
64 TTTTCCA---TCAATCGTCTGCC
* * * * * * * * * * * *
1655636 CATCGGCTTAGACCTGGGAGACTTCCTT-TATCAATCACCTTCCCATCGACTTAAACTC-GAAAG
1 CGTCGACTCAGACCCGAGAGACTT--TTCCATCAATCATCTGCCCGTCGGC-TAGAC-CAGAGAG
** * *
1655699 ACTTCCTT-TGTTAATCGTCTACC
62 ACTT--TTCCATCAATCGTCTGCC
* * * * * * * ** ** *
1655722 CATCGGCTTAGACCTGGGAGACTTTTTCATCACTTGTCTGCCTATCTGCTCAGACCCA-AGAGAC
1 CGTCGACTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGCT-AGA-CCAGAGAGAC
*
1655786 TTCCTT-TATCAATCGTCTGCC
64 TT--TTCCATCAATCGTCTGCC
* * *
1655807 CGTCGACTTAGA-CCTAGGAGACTTTTCCATCAATCATCTGCCCGTCGACTTAGACACAG-GAGA
1 CGTCGACTCAGACCCGA-GAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGAC-CAGAGAGA
* *
1655870 CTTTTCTATCAATTGTCTGCC
63 CTTTTCCATCAATCGTCTGCC
* * * * * ** * * ** *
1655891 CATTGGCTCAGACTCAAGAGACTTCCTT-TGTCAATCTTCTACCTATCGGCCTAGACTC-GGGAG
1 CGTCGACTCAGACCCGAGAGACTT--TTCCATCAATCATCTGCCCGTCGG-CTAGAC-CAGAGAG
*** *
1655954 ACTTTCTTTGTCAATCGTATGCC
62 ACTTT-TCCATCAATCGTCTGCC
* ** * * * * * * *
1655977 CGTC-AGCTTAGACTTGAGAGATTTTTTCATCAATCATTTGCCCGTCGACTTAAACCTGGGAGAC
1 CGTCGA-CTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGACCAGAGAGAC
* * *
1656041 TTTTCAATCAATCATCTACC
64 TTTTCCATCAATCGTCTGCC
* * * * * * * * * * * *
1656061 TGT-TAGTTTAGACTCTAGAGACTTTTCCATCAATCGTCTACTCATTGGCTTAGACTC-GGGAGA
1 CGTCGA-CTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGAC-CAGAGAGA
**
1656124 CTTCCTT-TGTCAATCGTCTGCC
63 CTT--TTCCATCAATCGTCTGCC
* * * *** ** * *
1656146 TGTC-AGCTTAGACCCAAGAGACTTCTTTTGTCAATTGTCTGCCCATTGGCTTAGACCTAG-GAG
1 CGTCGA-CTCAGACCCGAGAGACTT-TTCCATCAATCATCTGCCCGTCGGC-TAGACC-AGAGAG
* *
1656209 ACTTTTTCATCAATCGTCTACC
62 ACTTTTCCATCAATCGTCTGCC
* * * * * * * *
1656231 TGTCGGCTCAGACCTGGGAGACTTCCTT-TATCAATCGTCTGCCCATTGGCTTAGACCCAG-GAG
1 CGTCGACTCAGACCCGAGAGACTT--TTCCATCAATCATCTGCCCGTCGGC-TAGA-CCAGAGAG
* * *
1656294 ACTTTTTCATCAATGGTCTACC
62 ACTTTTCCATCAATCGTCTGCC
* * * * * * * ** *
1656316 TGTCGGCTCAGACCTGGGAGACTTCCTT-TATCAATCGTCTGCCCCTCGGCTTAGACTTGGGAGA
1 CGTCGACTCAGACCCGAGAGACTT--TTCCATCAATCATCTGCCCGTCGGC-TAGACCAGAGAGA
1656380 CTTTTCCATCAATCGTCTGCC
63 CTTTTCCATCAATCGTCTGCC
** ** * *** **
1656401 TATCGGTTTAGA-ATTAGGAGACTTTTCCATCAATCATCTGCTTGTCGGCTTAGACCCA-AGAGA
1 CGTCGACTCAGACCCGA-GAGACTTTTCCATCAATCATCTGCCCGTCGGC-TAGA-CCAGAGAGA
1656464 CTT
63 CTT
1656467 CCTTTGTCAA
Statistics
Matches: 787, Mismatches: 163, Indels: 98
0.75 0.16 0.09
Matches are distributed among these distances:
82 6 0.01
83 75 0.10
84 185 0.24
85 380 0.48
86 134 0.17
87 5 0.01
90 2 0.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.31
Consensus pattern (83 bp):
CGTCGACTCAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGCTAGACCAGAGAGACTT
TTCCATCAATCGTCTGCC
Found at i:1655642 original size:43 final size:42
Alignment explanation
Indices: 1655579--1656371 Score: 218
Period size: 43 Copynumber: 18.6 Consensus size: 42
1655569 AGACTTTTTC
* *
1655579 GTCAATCGTCTACCCGTCGGCTTAGACCGAAAAGACTTCCATT
1 GTCAATCGTCTACCCATCGGCTTAGACCG-AAAGACTTCCTTT
* **
1655622 GTCAATCGTCTGCCCATCGGCTTAGACCTGGGAGACTTCCTTT
1 GTCAATCGTCTACCCATCGGCTTAGACC-GAAAGACTTCCTTT
* ** * * *
1655665 ATCAATCACCTTCCCATCGACTTAAACTCGAAAGACTTCCTTT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAAAGACTTCCTTT
* **
1655708 GTTAATCGTCTACCCATCGGCTTAGACCTGGGAGACTT--TTT
1 GTCAATCGTCTACCCATCGGCTTAGACC-GAAAGACTTCCTTT
* * * * * * * *
1655749 CATCACTTGTCTGCCTATCTGCTCAGACCCAAGAGACTTCCTTT
1 -GTCAATCGTCTACCCATCGGCTTAGACCGAA-AGACTTCCTTT
* * * * * * *
1655793 ATCAATCGTCTGCCCGTCGACTTAGACCTAGGAGACTT--TTCC
1 GTCAATCGTCTACCCATCGGCTTAGACCGA-AAGACTTCCTT-T
* * * * * *
1655835 ATCAATCATCTGCCCGTCGACTTAGACAC-AGGAGACTT--TTCT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGA-AAGACTTCCTT-T
* * * * *
1655877 ATCAATTGTCTGCCCATTGGCTCAGACTC-AAGAGACTTCCTTT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAA-AGACTTCCTTT
* * * ** *
1655920 GTCAATCTTCTACCTATCGGCCTAGACTCGGGAGACTTTCTTT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAAAGACTTCCTTT
* * * * * * *
1655963 GTCAATCGTATGCCCGTCAGCTTAGACTTGAGAGA-TT-TTTT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAAAGACTTCCTTT
* * * * * * * ** *
1656004 CATCAATCATTTGCCCGTCGACTTAAACCTGGGAGACTT--TTCA
1 -GTCAATCGTCTACCCATCGGCTTAGACC-GAAAGACTTCCTT-T
* * ** ** * * * *
1656047 ATCAATCATCTACCTGTTAGTTTAGACTCTAGAGACTT--TTCC
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAAAGACTTCCTT-T
* * * **
1656089 ATCAATCGTCTACTCATTGGCTTAGACTCGGGAGACTTCCTTT
1 GTCAATCGTCTACCCATCGGCTTAGAC-CGAAAGACTTCCTTT
* ** * * *
1656132 GTCAATCGTCTGCCTGTCAGCTTAGACCCAAGAGACTTCTTTT
1 GTCAATCGTCTACCCATCGGCTTAGACCGAA-AGACTTCCTTT
* * * * *
1656175 GTCAATTGTCTGCCCATTGGCTTAGACCTAGGAGACTT--TTT
1 GTCAATCGTCTACCCATCGGCTTAGACCGA-AAGACTTCCTTT
* ** * **
1656216 CATCAATCGTCTACCTGTCGGCTCAGACCTGGGAGACTTCCTTT
1 -GTCAATCGTCTACCCATCGGCTTAGACC-GAAAGACTTCCTTT
* * * * *
1656260 ATCAATCGTCTGCCCATTGGCTTAGACCCAGGAGACTT--TTT
1 GTCAATCGTCTACCCATCGGCTTAGACCGA-AAGACTTCCTTT
* * ** * **
1656301 CATCAATGGTCTACCTGTCGGCTCAGACCTGGGAGACTTCCTTT
1 -GTCAATCGTCTACCCATCGGCTTAGACC-GAAAGACTTCCTTT
* * *
1656345 ATCAATCGTCTGCCCCTCGGCTTAGAC
1 GTCAATCGTCTACCCATCGGCTTAGAC
1656372 TTGGGAGACT
Statistics
Matches: 568, Mismatches: 150, Indels: 64
0.73 0.19 0.08
Matches are distributed among these distances:
41 14 0.02
42 241 0.42
43 298 0.52
44 15 0.03
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (42 bp):
GTCAATCGTCTACCCATCGGCTTAGACCGAAAGACTTCCTTT
Found at i:1656212 original size:128 final size:124
Alignment explanation
Indices: 1655390--1656400 Score: 360
Period size: 128 Copynumber: 8.0 Consensus size: 124
1655380 TACTCGTCAA
* * ** * * *
1655390 CTTAGACCCGAGAGACTTTTCCATCAATCATCTGCCCGTCGGCTCAGACCTAGGAGACTTTTCCA
1 CTTAGACCCAAGAGACTTTTTCATCAATGGTCTACCCATCGGCTTAGACCTAGGAGACTTTT-CA
* * * * * * * * *
1655455 TCAATTGTTTGCCCGTCGGCTCAGACCCGAGAGACTTTCC---ATCAATCATCTGCCCGTC-G
65 TCAATCGTCT-ACC-TTGGCTTAGACTCGGGAGAC-TTCCTTTATCAATCGTCTGCCCATCAG
* * * * * * * * *
1655514 ACATAGACCCGAGAGACTTTTCCATCAATCGTCTGCCCGTCGACTTA-AACTCGGGAGACTTTTT
1 -CTTAGACCCAAGAGACTTTTTCATCAATGGTCTACCCATCGGCTTAGACCT-AGGAGAC-TTTT
* * ** * * *
1655578 CGTCAATCGTCTACCCGTCGGCTTAGAC-CGAAAAGACTTCCATTGTCAATCGTCTGCCCATCGG
63 CATCAATCGTCTA-CC-TTGGCTTAGACTCG-GGAGACTTCCTTTATCAATCGTCTGCCCATCAG
*** *** * * * * *
1655642 CTTAGACCTGGGAGACTTCCTTT-ATCAATCACCTTCCCATCGACTTA-AACTCGAAAGACTTCC
1 CTTAGACCCAAGAGACTT--TTTCATCAATGGTCTACCCATCGGCTTAGACCTAG-GAGACTT--
** * * * * *
1655705 TTTGTTAATCGTCTACCCATCGGCTTAGAC-CTGGGAGACTT--TTTCATCACTTGTCTGCCTAT
61 TTCATCAATCGTCTA-CC-TTGGCTTAGACTC-GGGAGACTTCCTTT-ATCAATCGTCTGCCCAT
*
1655767 CTG
122 CAG
* * * * *
1655770 CTCAGACCCAAGAGACTTCCTTT-ATCAATCGTCTGCCCGTCGACTTAGACCTAGGAGACTTTTC
1 CTTAGACCCAAGAGACTT--TTTCATCAATGGTCTACCCATCGGCTTAGACCTAGGAGACTTTT-
* * * * * * * **
1655834 CATCAATCATCTGCCCGTCGACTTAGACACAGGAGACTT--TTCTATCAATTGTCTGCCCATTGG
63 CATCAATCGTCT-ACC-TTGGCTTAGACTCGGGAGACTTCCTT-TATCAATCGTCTGCCCATCAG
* * * ** * * *
1655897 CTCAGACTCAAGAGACTTCCTTT-GTCAATCTTCTACCTATCGGCCTAGA-CTCGGGAGACTTTC
1 CTTAGACCCAAGAGACTT--TTTCATCAATGGTCTACCCATCGGCTTAGACCT-AGGAGAC-TT-
** * * ** * * * * * *
1655960 TTTGTCAATCGTATGCCCGTCAGCTTAGACTTGAGAGA-TT-TTTTCATCAATCATTTGCCCGTC
61 TTCATCAATCGTCT-ACC-TTGGCTTAGACTCGGGAGACTTCCTTT-ATCAATCGTCTGCCCATC
1656023 -G
123 AG
* *** ** ** ** *
1656024 ACTTAAACCTGGGAGAC-TTTTCAATCAATCATCTACCTGTTAGTTTAGACTCTA-GAGACTTTT
1 -CTTAGACCCAAGAGACTTTTTC-ATCAATGGTCTACCCATCGGCTTAGAC-CTAGGAGACTTTT
* **
1656087 CCATCAATCGTCTACTCATTGGCTTAGACTCGGGAGACTTCCTTTGTCAATCGTCTGCCTGTCAG
63 -CATCAATCGTCTAC-C-TTGGCTTAGACTCGGGAGACTTCCTTTATCAATCGTCTGCCCATCAG
** * * *
1656152 CTTAGACCCAAGAGACTTCTTTTGTCAATTGTCTGCCCATTGGCTTAGACCTAGGAGACTTTTTC
1 CTTAGACCCAAGAGACTT-TTTCATCAATGGTCTACCCATCGGCTTAGACCTAGGAGAC-TTTTC
* **
1656217 ATCAATCGTCTACCTGTCGGCTCAGAC-CTGGGAGACTTCCTTTATCAATCGTCTGCCCATTGG
64 ATCAATCGTCTACCT-T-GGCTTAGACTC-GGGAGACTTCCTTTATCAATCGTCTGCCCATCAG
* ** * * *
1656280 CTTAGACCCAGGAGACTTTTTCATCAATGGTCTACCTGTCGGCTCAGACCTGGGAGACTTCCTTT
1 CTTAGACCCAAGAGACTTTTTCATCAATGGTCTACCCATCGGCTTAGACCTAGGAGACTT--TTC
* * * *
1656345 ATCAATCGTCTGCCCCTCGGCTTAGACTTGGGAGACTT--TTCCATCAATCGTCTGCC
64 ATCAATCGTCT--ACCTTGGCTTAGACTCGGGAGACTTCCTT-TATCAATCGTCTGCC
1656401 TATCGGTTTA
Statistics
Matches: 692, Mismatches: 146, Indels: 94
0.74 0.16 0.10
Matches are distributed among these distances:
124 9 0.01
125 81 0.12
126 40 0.06
127 236 0.34
128 271 0.39
129 51 0.07
130 4 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (124 bp):
CTTAGACCCAAGAGACTTTTTCATCAATGGTCTACCCATCGGCTTAGACCTAGGAGACTTTTCAT
CAATCGTCTACCTTGGCTTAGACTCGGGAGACTTCCTTTATCAATCGTCTGCCCATCAG
Found at i:1656497 original size:212 final size:212
Alignment explanation
Indices: 1655412--1656509 Score: 854
Period size: 212 Copynumber: 5.2 Consensus size: 212
1655402 AGACTTTTCC
* * * * * * *
1655412 ATCAATCATCTGCCCGTCGGCTCAGACCTAGGAGACTTTTCCATCAATTGTTTGCCCGTCGGCTC
1 ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTTTTTCATCAATCGTCTACCCATCGGCTC
* * * * * * * *
1655477 AGACCCGAGAGACTTTCC---ATCAATCATCTGCCCGTCGACATAGACCCGAGAGACTTTTCCAT
66 AGACTCGAGAGAC-TTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTTTTCAT
* * * ** * *
1655539 CAATCGTCTGCCCGTCGACTTAAACTCGGGAGACTTTTTCGTCAATCGTCTACCCGTCGGCTTAG
130 CAATCGTCTGCCCATCGGCTTAGACTTAGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAG
* ** *
1655604 ACCGAAAAGACTTCCATT
195 ACCTAGGAGACTTCCTTT
* * * ** ** * *
1655622 GTCAATCGTCTGCCCATCGGCTTAGACCTGGGAGACTTCCTTT-ATCAATCACCTTCCCATCGAC
1 ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTT--TTTCATCAATCGTCTACCCATCGGC
* * * * * *
1655686 TTAAACTCGAAAGACTTCCTTTGTTAATCGTCTACCCATCGGCTTAGACCTGGGAGACTTTTTCA
64 TCAGACTCGAGAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTTTTCA
* * * * * ** * *
1655751 TCACTTGTCTGCCTATCTGCTCAGACCCAAGAGACTTCCTTT-ATCAATCGTCTGCCCGTCGACT
129 TCAATCGTCTGCCCATCGGCTTAGACTTAGGAGACTT--TTTCATCAATCGTCTGCCCGTCGGCT
*
1655815 TAGACCTAGGAGACTT--TTCC
192 TAGACCTAGGAGACTTCCTT-T
* * * * *
1655835 ATCAATCATCTGCCCGTCGACTTAGACACAGGAGAC-TTTTCTATCAATTGTCTGCCCATTGGCT
1 ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTTTTTC-ATCAATCGTCTACCCATCGGCT
* * * * * * **
1655899 CAGACTCAAGAGACTTCCTTTGTCAATCTTCTACCTATCGGCCTAGACTCGGGAGACTTTCTTTG
65 CAGACTCGAGAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTT-TTCA
* * * * * * *
1655964 TCAATCGTATGCCCGTCAGCTTAGACTT-GAGAGATTTTTTCATCAATCATTTGCCCGTCGACTT
129 TCAATCGTCTGCCCATCGGCTTAGACTTAG-GAGACTTTTTCATCAATCGTCTGCCCGTCGGCTT
* * *
1656028 AAACCTGGGAGACTT--TTCA
193 AGACCTAGGAGACTTCCTT-T
* * ** * * * * *
1656047 ATCAATCATCTACCTGTTAGTTTAGACTCTA-GAGACTTTTCCATCAATCGTCTACTCATTGGCT
1 ATCAATCATCTGCCCGTCGGCTTAGAC-CCAGGAGACTTTTTCATCAATCGTCTACCCATCGGCT
* * ** * ** **
1656111 TAGACTCGGGAGACTTCCTTTGTCAATCGTCTGCCTGTCAGCTTAGACCCAAGAGACTTCTTTTG
65 CAGACTCGAGAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTT-TTTCA
* * * * * *
1656176 TCAATTGTCTGCCCATTGGCTTAGACCTAGGAGACTTTTTCATCAATCGTCTACCTGTCGGCTCA
129 TCAATCGTCTGCCCATCGGCTTAGACTTAGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTA
*
1656241 GACCTGGGAGACTTCCTTT
194 GACCTAGGAGACTTCCTTT
* * * * **
1656260 ATCAATCGTCTGCCCATTGGCTTAGACCCAGGAGACTTTTTCATCAATGGTCTACCTGTCGGCTC
1 ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTTTTTCATCAATCGTCTACCCATCGGCTC
* * * ** *
1656325 AGAC-CTGGGAGACTTCCTTTATCAATCGTCTGCCCCTCGGCTTAGACTTGGGAGACTTTTCCAT
66 AGACTC-GAGAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTTTTCAT
* * * * * **
1656389 CAATCGTCTGCCTATCGGTTTAGAATTAGGAGACTTTTCCATCAATCATCTGCTTGTCGGCTTAG
130 CAATCGTCTGCCCATCGGCTTAGACTTAGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAG
* *
1656454 ACCCAAGAGACTTCCTTT
195 ACCTAGGAGACTTCCTTT
* * * * * *
1656472 GTCAATCGTTTGCCCGTCAGCTTAGACTCGGGAGACTT
1 ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTT
1656510 CCTTGTCGCA
Statistics
Matches: 696, Mismatches: 171, Indels: 40
0.77 0.19 0.04
Matches are distributed among these distances:
210 40 0.06
211 28 0.04
212 373 0.54
213 218 0.31
214 34 0.05
215 3 0.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (212 bp):
ATCAATCATCTGCCCGTCGGCTTAGACCCAGGAGACTTTTTCATCAATCGTCTACCCATCGGCTC
AGACTCGAGAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTTTTCATC
AATCGTCTGCCCATCGGCTTAGACTTAGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGA
CCTAGGAGACTTCCTTT
Found at i:1656507 original size:170 final size:169
Alignment explanation
Indices: 1655401--1656513 Score: 773
Period size: 170 Copynumber: 6.6 Consensus size: 169
1655391 TTAGACCCGA
* * * * ** * *
1655401 GAGACTTTTCCATCAATCATCTGCCCGTCGGCTCAGACCTAGGAGACTT--TTCCATCAATTGTT
1 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTT-TGTCAATCGTC
* * * * *
1655464 TGCCCGTCGGCTCAGACCCGAGAGACTTTCC---ATCAATCATCTGCCCGTCGACATAGACCCGA
65 TGCCCGTCAGCTTAGA-CCGGGAGAC-TTCCTTTATCAATCATCTGCCCGTCGACTTAGACCCGG
* * * * **
1655526 GAGACTTTTCCATCAATCGTCTGCCCGTCGACTTAAACTCGG
128 GAGACTTTTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
* * * * * ** *
1655568 GAGACTTTTTCGTCAATCGTCTACCCGTCGGCTTAGACCGAAAAGACTTCCATTGTCAATCGTCT
1 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGTCT
* * * * * * * **
1655633 GCCCATCGGCTTAGACCTGGGAGACTTCCTTTATCAATCACCTTCCCATCGACTTAAACTCGAAA
66 GCCCGTCAGCTTAGACC-GGGAGACTTCCTTTATCAATCATCTGCCCGTCGACTTAGACCCGGGA
** * * *
1655698 GACTTCCTT-TGTTAATCGTCTACCCATCGGCTTAGACCTGG
130 GACTT--TTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
* * * * * * * *
1655739 GAGACTTTTTCATCACTTGTCTGCCTATCTGCTCAGACCCAAGAGACTTCCTTTATCAATCGTCT
1 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGTCT
* * * *
1655804 GCCCGTC-GACTTAGACCTAGGAGACTT--TTCCATCAATCATCTGCCCGTCGACTTAGACACAG
66 GCCCGTCAG-CTTAGACC-GGGAGACTTCCTT-TATCAATCATCTGCCCGTCGACTTAGACCCGG
* * * * * * *
1655866 GAGACTTTTCTATCAATTGTCTGCCCATTGGCTCAGACTCAA
128 GAGACTTTTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
** * * * * * * *
1655908 GAGACTTCCTT-TGTCAATCTTCTACCTATCGGCCTAGACTCGGGAGACTTTCTTTGTCAATCGT
1 GAGACTT--TTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGT
* * * * * * *
1655972 ATGCCCGTCAGCTTAGACTTGAGAGA-TT-TTTTCATCAATCATTTGCCCGTCGACTTAAACCTG
64 CTGCCCGTCAGCTTAGAC-CGGGAGACTTCCTTT-ATCAATCATCTGCCCGTCGACTTAGACCCG
* * ** ** *
1656035 GGAGACTTTTCAATCAATCATCTACCTGTTAGTTTAGACTCTA-
127 GGAGACTTTTCCATCAATCGTCTACCCATCGGCTTAGACT-TAG
* * * * *
1656078 GAGACTTTTCCATCAATCGTCTACTCATTGGCTTAGACTCGGGAGACTTCCTTTGTCAATCGTCT
1 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGTCT
* ** * * ** * * * **
1656143 GCCTGTCAGCTTAGACCCAAGAGACTTCTTTTGTCAATTGTCTGCCCATTGGCTTAGACCTAGGA
66 GCCCGTCAGCTTAGA-CCGGGAGACTTCCTTTATCAATCATCTGCCCGTCGACTTAGACCCGGGA
* ** * * *
1656208 GACTTTTTCATCAATCGTCTACCTGTCGGCTCAGACCTGG
130 GACTTTTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
* * * *
1656248 GAGACTTCCTT-TATCAATCGTCTGCCCATTGGCTTAGACCCAGGAGACTT--TTTCATCAATGG
1 GAGACTT--TTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTT-GTCAATCG
* * * * * * * **
1656310 TCTACCTGTCGGCTCAGACCTGGGAGACTTCCTTTATCAATCGTCTGCCCCTCGGCTTAGACTTG
63 TCTGCCCGTCAGCTTAGACC-GGGAGACTTCCTTTATCAATCATCTGCCCGTCGACTTAGACCCG
* * * *
1656375 GGAGACTTTTCCATCAATCGTCTGCCTATCGGTTTAGAATTAG
127 GGAGACTTTTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
* *** * *
1656418 GAGACTTTTCCATCAATCATCTGCTTGTCGGCTTAGACCCAAGAGACTTCCTTTGTCAATCGTTT
1 GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGTCT
1656483 GCCCGTCAGCTTAGACTCGGGAGACTTCCTT
66 GCCCGTCAGCTTAGAC-CGGGAGACTTCCTT
1656514 GTCGCAACAT
Statistics
Matches: 745, Mismatches: 170, Indels: 59
0.76 0.17 0.06
Matches are distributed among these distances:
167 47 0.06
168 33 0.04
169 137 0.18
170 379 0.51
171 145 0.19
172 4 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (169 bp):
GAGACTTTTCCATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTTCCTTTGTCAATCGTCT
GCCCGTCAGCTTAGACCGGGAGACTTCCTTTATCAATCATCTGCCCGTCGACTTAGACCCGGGAG
ACTTTTCCATCAATCGTCTACCCATCGGCTTAGACTTAG
Found at i:1658230 original size:154 final size:153
Alignment explanation
Indices: 1657697--1658237 Score: 512
Period size: 154 Copynumber: 3.5 Consensus size: 153
1657687 GAAGTACTCA
* ** * * *
1657697 TACCCCTAAAGGACTTAAAAAGGATTCCAAATA-GGATGAACTTATCCTAAATACTCACATTCGG
1 TACCCCTAAAGGACTTAAAAA-GACTATAAA-AGGGATGAACCTATCCTAAATACCCACCTTCGG
* * ** * * * *
1657761 CATAAAAGTGGACCTGGTGACAACCTTA-GACTCAGTTTTGAAAAATTACCAAAATGCCCTTATG
64 CATAAAAGCGGACCCGGTGATGACC-TAGGAGTTAGTTCT-AAAAATTA-CAAAATACCC-TATG
*
1657825 GATATACTTTCGACGTGAAAGTATCCTGG
125 GGTATACTTTCGACGTGAAAGTATCCTGG
* * * *
1657854 TAACCCC-AAAGAACTTAGAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACCTTCAGC
1 T-ACCCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGC
* * * * * ****
1657918 ATAAAAACGGACCCGGTAATGACCTAGAAGTTGGTTCTAAAAATTACAAAATGTCCCTGCAAGTA
65 ATAAAAGCGGACCCGGTGATGACCTAGGAGTTAGTTCTAAAAATTACAAAAT-ACCCTATGGGTA
* * * * *
1657983 TACCTTCAACGTAAAAGTATCCCGA
129 TACTTTCGACGTGAAAGTATCCTGG
* * * * * *
1658008 CAACCCTAAAAGACTTAAAAAGACTCAAAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGAC
1 TACCCCTAAAGGACTTAAAAAGACT-ATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGC
* * * **
1658073 ATAAAAGCAGACCCGGTGATGACGTAGGAGTTAGTCCTAAAAATTATGAAATACCCTATGGGTAT
65 ATAAAAGCGGACCCGGTGATGACCTAGGAGTTAGTTCTAAAAATTACAAAATACCCTATGGGTAT
* *
1658138 ACTTTCGAGGTGAAAGTATCTTGG
130 ACTTTCGACGTGAAAGTATCCTGG
* * * * *
1658162 TACCCCTAAAGGATTTAAAAAGAACTATAACAGGAATGAACCTATCCTAAATACTCACTTTCGGC
1 TACCCCTAAAGGACTTAAAAAG-ACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGC
1658227 ATAAAAGCGGA
65 ATAAAAGCGGA
1658238 TCTGGTGGTT
Statistics
Matches: 302, Mismatches: 75, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
153 4 0.01
154 129 0.43
155 94 0.31
156 57 0.19
157 13 0.04
158 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (153 bp):
TACCCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCA
TAAAAGCGGACCCGGTGATGACCTAGGAGTTAGTTCTAAAAATTACAAAATACCCTATGGGTATA
CTTTCGACGTGAAAGTATCCTGG
Found at i:1659413 original size:13 final size:13
Alignment explanation
Indices: 1659395--1659424 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1659385 ACAATTCTTC
*
1659395 ATGTATTGATACA
1 ATGTATCGATACA
1659408 ATGTATCGATACA
1 ATGTATCGATACA
1659421 ATGT
1 ATGT
1659425 CCTATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1659420 original size:33 final size:33
Alignment explanation
Indices: 1659375--1659441 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1659365 GGCATAATGT
* *
1659375 ATGTATCAATACAAT-TCTTCATGTATTGATACA
1 ATGTATCAATACAATGTCCT-ATGTATCGATACA
*
1659408 ATGTATCGATACAATGTCCTATGTATCGATACA
1 ATGTATCAATACAATGTCCTATGTATCGATACA
1659441 A
1 A
1659442 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCAATACAATGTCCTATGTATCGATACA
Found at i:1666591 original size:20 final size:20
Alignment explanation
Indices: 1666566--1666618 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1666556 TCCCGTTACT
*
1666566 ATGTATTGATACAATTCATA
1 ATGTATCGATACAATTCATA
1666586 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1666606 ATGTATCGATACA
1 ATGTATCGATACA
1666619 TGCATTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1666704 original size:33 final size:33
Alignment explanation
Indices: 1666662--1666724 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1666652 GGCATAATGT
* *
1666662 ATCGATACAAT-TCTTAATGTATCGATACAATAG
1 ATCGATACAATGTCCT-ATGCATCGATACAATAG
1666695 ATCGATACAATGTCCTATGCATCGATACAA
1 ATCGATACAATGTCCTATGCATCGATACAA
1666725 ACAGTGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
ATCGATACAATGTCCTATGCATCGATACAATAG
Found at i:1666817 original size:20 final size:20
Alignment explanation
Indices: 1666794--1666845 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1666784 ACAAAGCATG
*
1666794 ATGTATCGATACATCTGGAA
1 ATGTGTCGATACATCTGGAA
*
1666814 ATGTGTCAATACATCTGGAA
1 ATGTGTCGATACATCTGGAA
1666834 ATGTGTCGATAC
1 ATGTGTCGATAC
1666846 TTTCAAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTGTCGATACATCTGGAA
Found at i:1667656 original size:163 final size:161
Alignment explanation
Indices: 1667364--1667823 Score: 661
Period size: 163 Copynumber: 2.8 Consensus size: 161
1667354 AAATTATTAA
* * *
1667364 TATTTATTTATTATTTGGAAAAAAATTATTTCGTACTTTAATGGATACCCGAAAAGATACGAAAA
1 TATTTATTTATT-TTT-GAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAA
* * *
1667429 GTTTTTTAAAATCTTTTATACCTTACGGATACCCATAGGAATATAAAA-AATTCAAAACGATTAA
64 G-TTTTTAAAATCTTTTATACC-TACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAA
*
1667493 TTTTTGATGTAATTAACGAGAAGTGAATTTAATAT
127 TATTTGATGTAATTAACGAGAAGTGAATTTAATAT
* * *
1667528 TATTTATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAACACATGAAAAG
1 TATTTATTTATTTTTG-AAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAG
* **
1667593 TTTTTGAAATCTTTTATATCCTACAAATACCCATAGGAATATAAAAGATTTAAAAATGATTAATA
65 TTTTTAAAATCTTTTATA-CCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATA
* * * *
1667658 TTTGTTGTAATTCATGAGGAGTGAATTTAATAT
129 TTTGATGTAATTAACGAGAAGTGAATTTAATAT
* *
1667691 TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATATTCAAAAAGATACGAAAAGT
1 TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGT
*
1667756 TTTTAAAATCTTTTATACCTCTACGGATACCTATAGGAATATAAAAGATTTAAAAATGATTAATA
66 TTTTAAAATCTTTTATA-C-CTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATA
1667821 TTT
129 TTT
1667824 AAAATATATA
Statistics
Matches: 265, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
162 102 0.38
163 151 0.57
164 12 0.05
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (161 bp):
TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACGAAAAGT
TTTTAAAATCTTTTATACCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATATT
TGATGTAATTAACGAGAAGTGAATTTAATAT
Found at i:1668645 original size:11 final size:11
Alignment explanation
Indices: 1668631--1668669 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1668621 TTTTCTCTAT
1668631 TTTTCTTTCTC
1 TTTTCTTTCTC
1668642 TTTTCTTTCTTC
1 TTTTCTTTC-TC
1668654 TTTT-TTCTCTC
1 TTTTCTT-TCTC
1668665 TTTTC
1 TTTTC
1668670 AGCTGAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:1669519 original size:165 final size:162
Alignment explanation
Indices: 1669304--1669786 Score: 558
Period size: 165 Copynumber: 2.9 Consensus size: 162
1669294 TTTTCAAGAA
*
1669304 AATAGGAA-TTTCAAAGAAAAAATTCAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGAAT
1 AATAGGAAGTTTC-AAGAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGAAT
** * * *
1669368 TAATATGAATCAAACGATGATGTTTGATAAATTCTGAAAATTGAGAATCGAGAAAAATCCTCTCG
65 TAATATGAAT-AAATAATGATGTTTGATGAATT-TGAAAATTGAAAATCAAGAAAAATCCTCTCG
* * *
1669433 AAAAAATTTGCAGAGTAGAAAACATCGTA-TTTAGG
128 AAAAAATTTACAGAGTAGAAAACACCATATTTTA-G
* *
1669468 AATAGGAAAGTTTCAAGAAAAAAATCAAAAACT-CATGAAAATGATTGAATTTTTGAAAACTGAA
1 AATAGG-AAGTTTCAAGAAAAAAATCAAAAA-TGAATGAAAATGAATGAATTTTTGAAAACTGAA
* * * *
1669532 TTAATATGAAAGAAATAATGATGTTTGATGAATTTAAAAAATTGAAAACCAAGAAAAATCCCCTC
64 TTAATATG-AATAAATAATGATGTTTGATGAATTT-GAAAATTGAAAATCAAGAAAAATCCTCTC
* ** *
1669597 AAAAAAATTTATGGAATAGAAAACACCATATTTTAG
127 GAAAAAATTTACAGAGTAGAAAACACCATATTTTAG
* * * *
1669633 AAAATGGGAAGTTTCAAGGACAAAAATAAAAAATGAATGAAAATGAATGAATTTTTAAAAACTGA
1 --AATAGGAAGTTTCAA-GAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGA
* * * * *
1669698 ATTAATATAAAATAAATAATGATATTTGATGAATTTTGAAAATTAAAAATTAAGAAAAATCCTCC
63 ATTAATAT-GAATAAATAATGATGTTTGATGAA-TTTGAAAATTGAAAATCAAGAAAAATCCTCT
* *
1669763 CGAAAAGATTCACAGAGTAGAAAA
126 CGAAAAAATTTACAGAGTAGAAAA
1669787 ATCCCGTAAT
Statistics
Matches: 267, Mismatches: 40, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
164 7 0.03
165 122 0.46
166 21 0.08
167 114 0.43
168 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (162 bp):
AATAGGAAGTTTCAAGAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGAATT
AATATGAATAAATAATGATGTTTGATGAATTTGAAAATTGAAAATCAAGAAAAATCCTCTCGAAA
AAATTTACAGAGTAGAAAACACCATATTTTAG
Found at i:1671163 original size:84 final size:84
Alignment explanation
Indices: 1671008--1672298 Score: 385
Period size: 84 Copynumber: 15.5 Consensus size: 84
1670998 CGATTTACTT
* * ** *
1671008 GAGACTAAGCCGACAAGTAAAC-AA-GAT-AAGAAAGTTGATC-AGGATCGAATTGGCAAGTCAA
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAG-AAGTTGATCGA-GATTGAACCGACAAGTCAA
* *
1671069 TAAAGGATAAAAGATTTATTC
64 TAAAAGATAAAAGATTTATCC
* * * *
1671090 GAGACTAAGTCGACAGGTAAACAAGGGATAAAGAAGTTGATCGAGATTGGACCAACAAGTCAATA
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAATA
* **
1671155 AAATATAAAAAGAAGTA-CC
66 AAAGAT-AAAAGATTTATCC
* * * * ** * * * *
1671174 TGGGACCAAGCTGACAGGTGAATGAAGGATAAA-AAGTTGACCGGGATTAAATCGACAAGTCAAT
1 -GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAAT
* ** * *
1671238 GAGGGATAAAGGATTTA-CTT
65 AAAAGATAAAAGATTTATC-C
* * ** * * * *
1671258 GGGACTGAGCCGGTAGGTAAACAAAGGATAAAGAAGTTGA-CTGAGATTGGACCGACAGGTTAAC
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATC-GAGATTGAACCGACAAGTCAAT
** *
1671322 AAAAGATAAAAGGAAGTA-CTT
65 AAAAGATAAAA-GATTTATC-C
* * ** * * * * **
1671343 GGGACCAAGCCGACAGGGGAATAAAGGATAAA-AAGTTGA-CTGAGATTAAACGGACAAGCCACC
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATC-GAGATTGAACCGACAAGTCAAT
* ** * *
1671406 GAGGGATAAAGGATTTACCC
65 AAAAGATAAAAGATTTATCC
* * * * * * * * * *
1671426 AAGACTAGGCTGGCGGGTAAACAAAGGATAAAAAAGTTGATTGAGATTGAATCGACAAGTTAACA
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAATA
1671491 AAAGATAAAAGATTTATCC
66 AAAGATAAAAGATTTATCC
* * * * *
1671510 GAAACTAAGTCGACAGGTAAAC-AAGGAATCAAGAAGTTGATCGAGATTGGACTGACAAGTCAAT
1 GAGACTAAGCCGACAGGTAAACAAAGG-ATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAAT
* *** *
1671574 AAAATATAAAAGGAAGCA-CT
65 AAAAGATAAAA-GATTTATCC
* * * ** * * * * * *
1671594 TAGGACCAAGCCGACAGGTGAATGAAGGATAAA-AAGTTTACCAAGATTAAACCGATAAGTCAAC
1 GA-GACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAAT
* ** *
1671658 GAGGGATAAAGGATTTA-CTC
65 AAAAGATAAAAGATTTATC-C
* ** * * * * *
1671678 GGGACTGGGCCAAC-GAGTAAATAAAAGATAAAGAAGTTGA-CAAGGATTGGACCGACAAGTCAA
1 GAGACTAAGCCGACAG-GTAAACAAAGGATAAAGAAGTTGATCGA-GATTGAACCGACAAGTCAA
* * *
1671741 CAAAAG---GAAG---T-GCC
64 TAAAAGATAAAAGATTTATCC
* * * * ** * * * * * * * **
1671755 TAGGACCAAGCCGATAGG-GAATGAA-GAAAAAAAAGTTGACCGGGATTAAACTGACAGGTCACC
1 GA-GACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAAT
* **
1671818 GAGGGATAAAAGATTTA-CC
65 AAAAGATAAAAGATTTATCC
* * * * * * * *
1671837 AAGGACTAGGCTGAC-GAGTAAACAAAGGATAAAAAAGTTGA-CTAAAATTGGATCGACAAGTCA
1 GA-GACTAAGCCGACAG-GTAAACAAAGGATAAAGAAGTTGATC-GAGATTGAACCGACAAGTCA
* *
1671900 ACAAAAGATAAAAGATTTATCT
63 ATAAAAGATAAAAGATTTATCC
* * * * * * * *
1671922 GAAACTAAGTCGACAGGTAAACAAGGGAT---GAAGTTGACCGAGATTGGATCGACTAGTAAATA
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAATA
* * *
1671984 AAATATAAAAGA--AAGCAC
66 AAAGATAAAAGATTTATC-C
* * * * ** * * * * *
1672002 TTGGGACCAAGCCGATAGGTGAATGAAGGATAAA-AAGTTGACCAAGATTAAACCGATAAGTTAA
1 --GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAA
** ** * *
1672066 CGAGGGATAAAAGATGTA-CTT
64 TAAAAGATAAAAGATTTATC-C
** * * * * * * *
1672087 GAGACTGGGCCGACGGGTAAACAAAGGACAAAAAAGTTGATTGGGATTGGACCGACAAGTCAACA
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAATA
**
1672152 AAAGATAAAAAGAAATA-CC
66 AAAGAT-AAAAGATTTATCC
* * ** * * * *
1672171 TGGGACCAAGCCGACAGGGGAATAAAGGATAAA-AAGTTGATCGGGATTAAACCAACAAGTCAAT
1 -GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAAT
* ** *
1672235 GAGGGAT-AAAGTATTTACCC
65 AAAAGATAAAAG-ATTTATCC
* * *** * *
1672255 GGGACTGAG-CGGTGGGTAAACAAATGATAAAAAAGTTGATCGAG
1 GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAG
1672299 TCAAGTTGCT
Statistics
Matches: 857, Mismatches: 299, Indels: 105
0.68 0.24 0.08
Matches are distributed among these distances:
76 29 0.03
77 7 0.01
78 10 0.01
79 6 0.01
81 39 0.05
82 75 0.09
83 140 0.16
84 420 0.49
85 126 0.15
86 5 0.01
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (84 bp):
GAGACTAAGCCGACAGGTAAACAAAGGATAAAGAAGTTGATCGAGATTGAACCGACAAGTCAATA
AAAGATAAAAGATTTATCC
Found at i:1671462 original size:252 final size:251
Alignment explanation
Indices: 1671198--1671675 Score: 593
Period size: 252 Copynumber: 1.9 Consensus size: 251
1671188 CAGGTGAATG
* ** ** * * **
1671198 AAGGATAAAAAGTTGACCGGGATTAAATCGACAAGTCAATGAGGGATAAAGGATTTA-CTTGGGA
1 AAGGATAAAAAGTTGACCGAGATTAAATCGACAAGTCAACAAAAGATAAAAGATTTATC-CGAAA
* ** * *
1671262 CTGAGCCGGTAGGTAAACAAAGG-ATAAAGAAGTTGA-CTGAGATTGGACCGACAGGTTAACAAA
65 CTAAGCCGACAGGTAAAC-AAGGAATAAAGAAGTTGATC-GAGATTGGACCGACAAGTCAACAAA
* * **
1671325 AGATAAAAGGAAGTACTTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACTGAGATT
128 AGATAAAAGGAAGCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATT
* *
1671390 AAACGGACAAGCCACCGAGGGATAAAGGATTTACCCAAGACTAGGCTGGCGGGTAAACA
193 AAACCGACAAGCCAACGAGGGATAAAGGATTTACCCAAGACTAGGCTGGCGGGTAAACA
** * *
1671449 AAGGATAAAAAAGTTGATTGAGATTGAATCGACAAGTTAACAAAAGATAAAAGATTTATCCGAAA
1 AAGGAT-AAAAAGTTGACCGAGATTAAATCGACAAGTCAACAAAAGATAAAAGATTTATCCGAAA
* * * * *
1671514 CTAAGTCGACAGGTAAACAAGGAATCAAGAAGTTGATCGAGATTGGACTGACAAGTCAATAAAAT
65 CTAAGCCGACAGGTAAACAAGGAATAAAGAAGTTGATCGAGATTGGACCGACAAGTCAACAAAAG
* * *
1671579 ATAAAAGGAAGCACTTAGGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTTACCAAGATTAA
130 ATAAAAGGAAGCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATTAA
* *
1671644 ACCGATAAGTCAACGAGGGATAAAGGATTTAC
195 ACCGACAAGCCAACGAGGGATAAAGGATTTAC
1671676 TCGGGACTGG
Statistics
Matches: 189, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
251 10 0.05
252 177 0.94
253 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (251 bp):
AAGGATAAAAAGTTGACCGAGATTAAATCGACAAGTCAACAAAAGATAAAAGATTTATCCGAAAC
TAAGCCGACAGGTAAACAAGGAATAAAGAAGTTGATCGAGATTGGACCGACAAGTCAACAAAAGA
TAAAAGGAAGCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATTAAA
CCGACAAGCCAACGAGGGATAAAGGATTTACCCAAGACTAGGCTGGCGGGTAAACA
Found at i:1671501 original size:168 final size:168
Alignment explanation
Indices: 1671103--1671501 Score: 514
Period size: 168 Copynumber: 2.4 Consensus size: 168
1671093 ACTAAGTCGA
* * * * * * *
1671103 CAGGTAAACAAGGGATAAAGAAGTTGATCGAGATTGGACCAACAAGTCAATAAAATATAAAAAGA
1 CAGGTAAACAAAGGATAAAGAAGTTGATTGAGATTGGACCGACAAGTTAACAAAAGATAAAAGGA
* * * *
1671168 AGTACCTGGGACCAAGCTGACAGGTGAATGAAGGATAAAAAGTTGACCGGGATTAAATCGACAAG
66 AGTACCTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCGAGATTAAATCGACAAG
* * ****
1671233 TCAATGAGGGATAAAGGATTTACTTGGGACTGAGCCGG
131 CCAACGAGGGATAAAGGATTTACCCAAGACTGAGCCGG
* * *
1671271 TAGGTAAACAAAGGATAAAGAAGTTGACTGAGATTGGACCGACAGGTTAACAAAAGATAAAAGGA
1 CAGGTAAACAAAGGATAAAGAAGTTGATTGAGATTGGACCGACAAGTTAACAAAAGATAAAAGGA
* *
1671336 AGTACTTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACTGAGATTAAA-CGGACAA
66 AGTACCTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCGAGATTAAATC-GACAA
* *
1671400 GCCACCGAGGGATAAAGGATTTACCCAAGACT-AGGCTGG
130 GCCAACGAGGGATAAAGGATTTACCCAAGACTGA-GCCGG
* * * *
1671439 CGGGTAAACAAAGGATAAAAAAGTTGATTGAGATTGAATCGACAAGTTAACAAAAGATAAAAG
1 CAGGTAAACAAAGGATAAAGAAGTTGATTGAGATTGGACCGACAAGTTAACAAAAGATAAAAG
1671502 ATTTATCCGA
Statistics
Matches: 198, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
167 2 0.01
168 196 0.99
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.18
Consensus pattern (168 bp):
CAGGTAAACAAAGGATAAAGAAGTTGATTGAGATTGGACCGACAAGTTAACAAAAGATAAAAGGA
AGTACCTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCGAGATTAAATCGACAAG
CCAACGAGGGATAAAGGATTTACCCAAGACTGAGCCGG
Found at i:1671736 original size:252 final size:252
Alignment explanation
Indices: 1671272--1671746 Score: 605
Period size: 252 Copynumber: 1.9 Consensus size: 252
1671262 CTGAGCCGGT
* *
1671272 AGGTAAACAAAGGATAAAGAAGTTGACTGAGATTGGACCGACAGGTTAACAAAAGATAAAAGGAA
1 AGGTAAACAAAGGATAAAGAAGTTGACTGAGATTGGACCGACAAGTCAACAAAAGATAAAAGGAA
* * ** *
1671337 GTACTTGGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACTGAGATTAAACGGACAAGC
66 GCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGC
* *** * * *
1671402 CACCGAGGGATAAAGGATTTACCCAAGACTAGGCTGGCGGGTAAACAAAGGATAAAAAAGTTGAT
131 CAACGAGGGATAAAGGATTTACCCAAGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTGAA
* * *
1671467 TGAGATTGAATCGACAAGTTAACAAAAGATAAAAGATTTATCCGAAACTAAGTCGAC
196 AGAGATTGAACCGACAAGTCAACAAAAGATAAAAGATTTATCCGAAACTAAGTCGAC
* * * *
1671524 AGGTAAAC-AAGGAATCAAGAAGTTGA-TCGAGATTGGACTGACAAGTCAATAAAATATAAAAGG
1 AGGTAAACAAAGG-ATAAAGAAGTTGACT-GAGATTGGACCGACAAGTCAACAAAAGATAAAAGG
* * * *
1671587 AAGCACTTAGGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTTACCAAGATTAAACCGATAA
64 AAGCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATTAAACCGACAA
* * ** * * *
1671652 GTCAACGAGGGATAAAGGATTTACTCGGGACTGGGCCAACGAGTAAATAAAAGATAAAGAAGTTG
129 GCCAACGAGGGATAAAGGATTTACCCAAGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTG
*
1671717 ACAAG-GATTGGACCGACAAGTCAACAAAAG
194 A-AAGAGATTGAACCGACAAGTCAACAAAAG
1671747 GAAGTGCCTA
Statistics
Matches: 187, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
251 5 0.03
252 181 0.97
253 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (252 bp):
AGGTAAACAAAGGATAAAGAAGTTGACTGAGATTGGACCGACAAGTCAACAAAAGATAAAAGGAA
GCACTTAGGACCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGC
CAACGAGGGATAAAGGATTTACCCAAGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTGAA
AGAGATTGAACCGACAAGTCAACAAAAGATAAAAGATTTATCCGAAACTAAGTCGAC
Found at i:1671823 original size:160 final size:161
Alignment explanation
Indices: 1671594--1671906 Score: 407
Period size: 160 Copynumber: 2.0 Consensus size: 161
1671584 AGGAAGCACT
* * * *
1671594 TAGGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTTACCAAGATTAAACCGATAAGTCAACG
1 TAGGACCAAGCCGACAGGTGAATGAAGAAAAAAAAGTTGACCAAGATTAAACCGACAAGTCAACG
* * * * *
1671659 AGGGATAAAGGATTTACTC-GGGACTGGGCCAACGAGTAAATAAAAGATAAAGAAGTTGAC-AAG
66 AGGGATAAAAGATTTAC-CAAGGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTGACTAA-
*
1671722 GATTGGACCGACAAGTCAACAAAAGGAAGTGCC
129 AATTGGACCGACAAGTCAACAAAAGGAAGTGCC
* ** * * *
1671755 TAGGACCAAGCCGATAGG-GAATGAAGAAAAAAAAGTTGACCGGGATTAAACTGACAGGTCACCG
1 TAGGACCAAGCCGACAGGTGAATGAAGAAAAAAAAGTTGACCAAGATTAAACCGACAAGTCAACG
** *
1671819 AGGGATAAAAGATTTACCAAGGACTAGGCTGACGAGTAAACAAAGGATAAAAAAGTTGACTAAAA
66 AGGGATAAAAGATTTACCAAGGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTGACTAAAA
*
1671884 TTGGATCGACAAGTCAACAAAAG
131 TTGGACCGACAAGTCAACAAAAG
1671907 ATAAAAGATT
Statistics
Matches: 130, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
159 1 0.01
160 110 0.85
161 19 0.15
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.16
Consensus pattern (161 bp):
TAGGACCAAGCCGACAGGTGAATGAAGAAAAAAAAGTTGACCAAGATTAAACCGACAAGTCAACG
AGGGATAAAAGATTTACCAAGGACTAGGCCAACGAGTAAACAAAAGATAAAAAAGTTGACTAAAA
TTGGACCGACAAGTCAACAAAAGGAAGTGCC
Found at i:1673842 original size:14 final size:14
Alignment explanation
Indices: 1673810--1673852 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
1673800 ATAATCACCC
*
1673810 TGTATCGATATACAA
1 TGTATCGATACA-AA
1673825 TGTATCGATACAAA
1 TGTATCGATACAAA
1673839 TGTATCGATACAAA
1 TGTATCGATACAAA
1673853 GAAAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (14 bp):
TGTATCGATACAAA
Found at i:1677791 original size:21 final size:21
Alignment explanation
Indices: 1677762--1677806 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1677752 AAGTTTTCAT
*
1677762 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1677782 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1677804 TTT
1 TTT
1677807 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1680931 original size:41 final size:42
Alignment explanation
Indices: 1680855--1681015 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 42
1680845 GCAGGCAAAA
* * * *
1680855 GATGAAAAAGTCTCCTAGGTCGAAGCCGACGGGCAAACGGTG
1 GATGAAGAAGTCTCCTAGGTCTAAGCTGACAGGCAAACGGTG
* *
1680897 GATGAAGAA-TCTCCTAGGTCTAAGCTGACAGGCAAATGGTT
1 GATGAAGAAGTCTCCTAGGTCTAAGCTGACAGGCAAACGGTG
* * * * * **
1680938 GATAAAGGAAATATCCCGAGAT-TAAG-TCGACAGGCAAACAATG
1 GATGAA-GAAGTCT-CCTAGGTCTAAGCT-GACAGGCAAACGGTG
*
1680981 GATGAAGAAGTCTCCT-GGATCTAAGCTGATAGGCA
1 GATGAAGAAGTCTCCTAGG-TCTAAGCTGACAGGCA
1681016 GACGATTGAT
Statistics
Matches: 92, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 35 0.38
42 28 0.30
43 23 0.25
44 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (42 bp):
GATGAAGAAGTCTCCTAGGTCTAAGCTGACAGGCAAACGGTG
Found at i:1681028 original size:85 final size:83
Alignment explanation
Indices: 1680881--1681772 Score: 486
Period size: 85 Copynumber: 10.5 Consensus size: 83
1680871 AGGTCGAAGC
** * *
1680881 CGACGGGCAAACGGTGGATGAAGAA-TCTCCTAGGTCTAAGCTGACAGGCAAATGGTTGATAAAG
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCT-GGTCTAAGCTGACAGGCAGATGATTGATAAA-
* *
1680945 GAAATATCCCGAGATTAAGT
64 GAAATCTCCCGAGACTAAGT
* * *
1680965 CGACAGGCAAACAATGGATGAAGAAGTCTCCTGGATCTAAGCTGATAGGCAGACGATTGATAAAG
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCTGG-TCTAAGCTGACAGGCAGATGATTGATAAAG
* *
1681030 AAAGTCTCTCGAGACTGAG-
65 AAA-TCTCCCGAGACTAAGT
** * * * * * * * *
1681049 CTGATAGGTAGACTATGGATTAAGAAGTTTCTCAGGTCTAAGCCGACAGGCAAATGATTGATAAA
1 C-GACGGGCAAACAATGGATGAAGAAGTCTC-CTGGTCTAAGCTGACAGGCAGATGATTGATAAA
* * * * *
1681114 GGTAGTCTCCCAAGACTGAGC
64 -GAAATCTCCCGAGACTAAGT
* * ** * * *
1681135 CAACGGGCAGATTATGGATGAAGAAGTCTCCCGAGTCTAAG-TCGACAAGCAGATGATAGATGAA
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCTG-GTCTAAGCT-GACAGGCAGATGATTGAT-AA
* ** * *
1681199 A-AAGTCTTTCGAGTCTAAAT
63 AGAAATCTCCCGAGACTAAGT
* * * * * * * *
1681219 CAACAGGTAAACGATTGATGAAGAA-TCTCCTGGGTCTAAGCCGACGGGCAGAT-AGTCGATAAA
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCT-GGTCTAAGCTGACAGGCAGATGA-TTGAT-AA
* * * *
1681282 AAAAATATCCCAAGACTGAGT
63 AGAAATCTCCCGAGACTAAGT
* * **
1681303 CGACGGGCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAG-TCGACAAGCAGACAATTGATAAA
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCT-GGTCTAAGCT-GACAGGCAGATGATTGATAAA
1681367 GAAAGTC-CCTCG-GAACTAAG-
64 GAAA-TCTCC-CGAG-ACTAAGT
* * * *
1681387 CTGATGGGCAAACTATGGATGAAGAAGTCTCCTAGGTCTCAATC-GACGGGCAGATGATTGATAA
1 C-GACGGGCAAACAATGGATGAAGAAGTCTCCT-GGTCT-AAGCTGACAGGCAGATGATTGATAA
** * *
1681451 AGGAAATCTCTTGGGACTGAGT
63 A-GAAATCTCCCGAGACTAAGT
* * * * **
1681473 TGACGGGCAGACAATGGATGAAGAAGTCT-TTGAGGTCTAAGCCGAC-GAATAGATGATTGATAA
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCT--GGTCTAAGCTGACAG-GCAGATGATTGAT-A
* * *
1681536 AAGAAGTCTCCC-AGGTCTGAA-C
62 AAGAAATCTCCCGA-GACT-AAGT
* * * * * * *
1681558 CGACAGGTAGATAATGGATGAAGAAGTCTCTTAGGTCTAAGCTAACAAGCAGATGATTGATAAAG
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCT-GGTCTAAGCTGACAGGCAGATGATTGATAAAG
* * *
1681623 AAATCTCTCGAGTCTAAGC
65 AAATCTCCCGAGACTAAGT
* * * * * * * *
1681642 CGATGGGCATACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCGA-TGAGTAGACGGTTGATAAA
1 CGACGGGCAAACAATGGATGAAGAAGTCTCCTG-GTCTAAGCTGACAG-GCAGATGATTGAT-AA
* * *
1681706 AGAAGTCTCTCGAGACTGAG-
63 AGAAATCTCCCGAGACTAAGT
* * * * *
1681726 CTAATGGGCAGACAATGGATGAAGAAGTATTCCAGGTCTAAGCTGAC
1 C-GACGGGCAAACAATGGATGAAGAAGT-CTCCTGGTCTAAGCTGAC
1681773 TGGGCAAACG
Statistics
Matches: 624, Mismatches: 141, Indels: 84
0.73 0.17 0.10
Matches are distributed among these distances:
82 1 0.00
83 31 0.05
84 169 0.27
85 395 0.63
86 28 0.04
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (83 bp):
CGACGGGCAAACAATGGATGAAGAAGTCTCCTGGTCTAAGCTGACAGGCAGATGATTGATAAAGA
AATCTCCCGAGACTAAGT
Found at i:1681241 original size:338 final size:337
Alignment explanation
Indices: 1680895--1681768 Score: 924
Period size: 338 Copynumber: 2.6 Consensus size: 337
1680885 GGGCAAACGG
*
1680895 TGGATGAAGAATCTCCTAGGTCTAAGCTGACAGGCAAATGGTTGATAAAGGAAATATCCCGAGAT
1 TGGATGAAGAATCTCCTAGGTCTAAGCTGACAGGCAGATGGTTGATAAA-GAAATATCCCGAGAT
*
1680960 TAAGTCGACAGGCAAACAATGGATGAAGAAGTCTCCTGGATCTAAGCTGATAGGCAGACGATTGA
65 TAAGTCGACGGGCAAACAATGGATGAAGAAGTCTCCTGGATCTAAGCTGATAGGCAGACGATTGA
* * *
1681025 TAAAGAAAGTCTCTCGAGACTGAGCTGATAGGTAGACTATGGATTAAGAAGTTTCTCAGGTCTAA
130 TAAAGAAAGTCTCTCGAGACTGAGCTGATGGGCAGACTATGGATGAAGAAGTTTC-CAGGTCTAA
* * **
1681090 GCCGACAGGCAAATGATTGATAAAGGTAGTCTCCCAAGACTGAGCCAACGGGCAGATTATGGATG
194 GCCGACAGGCAAATGATTGATAAAGGAAATCTCCCAAGACTGAGCCAACGGGCAGACAATGGATG
* * **
1681155 AAGAAGTCTCCCGA-GTCTAAGTCGAC-AAGCAGATGATAGATGAAA-AAGTCTTTC-GAGTCTA
259 AAGAAGTCT-CCGAGGTCTAAGCCGACGAA-CAGATGATAGATAAAAGAAGTCTCCCAG-GTCTA
* *
1681216 AATCAACAGGTAAACGA
321 AACCAACAGGTAAACAA
* * * * * * * * *
1681233 TTGATGAAGAATCTCCTGGGTCTAAGCCGACGGGCAGATAGTCGATAAAAAAAATATCCCAAGAC
1 TGGATGAAGAATCTCCTAGGTCTAAGCTGACAGGCAGATGGTTGAT-AAAGAAATATCCCGAGAT
* * * * * *
1681298 TGAGTCGACGGGCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAG-TCGACAAGCAGACAATTG
65 TAAGTCGACGGGCAAACAATGGATGAAGAAGTCTCCTGGATCTAAGCT-GATAGGCAGACGATTG
* * * *
1681362 ATAAAGAAAGTCCCTCG-GAACTAAGCTGATGGGCAAACTATGGATGAAGAAGTCTCCTAGGTCT
129 ATAAAGAAAGTCTCTCGAG-ACTGAGCTGATGGGCAGACTATGGATGAAGAAGTTTCC-AGGTCT
* * * **** ***
1681426 CAA-TCGACGGGCAGATGATTGATAAAGGAAATCTCTTGGGACTGAGTTGACGGGCAGACAATGG
192 -AAGCCGACAGGCAAATGATTGATAAAGGAAATCTCCCAAGACTGAGCCAACGGGCAGACAATGG
** * * *
1681490 ATGAAGAAGTCTTTGAGGTCTAAGCCGACGAATAGATGATTGATAAAAGAAGTCTCCCAGGTCTG
256 ATGAAGAAGTCTCCGAGGTCTAAGCCGACGAACAGATGATAGATAAAAGAAGTCTCCCAGGTCTA
* * *
1681555 AACCGACAGGTAGATAA
321 AACCAACAGGTAAACAA
* * * * * *
1681572 TGGATGAAGAAGTCTCTTAGGTCTAAGCTAACAAGCAGATGATTGATAAAGAAATCTCTCGAG-T
1 TGGATGAAGAA-TCTCCTAGGTCTAAGCTGACAGGCAGATGGTTGATAAAGAAATATCCCGAGAT
* * * * * * *
1681636 CTAAGCCGATGGGCATACAATGGATGAAGAAGTCTCC-CGAGTCTAAGCCGAT-GAGTAGACGGT
65 -TAAGTCGACGGGCAAACAATGGATGAAGAAGTCTCCTGGA-TCTAAGCTGATAG-GCAGACGAT
* *
1681699 TGATAAA-AGAAGTCTCTCGAGACTGAGCTAATGGGCAGACAATGGATGAAGAAGTATTCCAGGT
127 TGATAAAGA-AAGTCTCTCGAGACTGAGCTGATGGGCAGACTATGGATGAAGAAGT-TTCCAGGT
1681763 CTAAGC
190 CTAAGC
1681769 TGACTGGGCA
Statistics
Matches: 431, Mismatches: 87, Indels: 35
0.78 0.16 0.06
Matches are distributed among these distances:
337 5 0.01
338 246 0.57
339 149 0.35
340 31 0.07
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (337 bp):
TGGATGAAGAATCTCCTAGGTCTAAGCTGACAGGCAGATGGTTGATAAAGAAATATCCCGAGATT
AAGTCGACGGGCAAACAATGGATGAAGAAGTCTCCTGGATCTAAGCTGATAGGCAGACGATTGAT
AAAGAAAGTCTCTCGAGACTGAGCTGATGGGCAGACTATGGATGAAGAAGTTTCCAGGTCTAAGC
CGACAGGCAAATGATTGATAAAGGAAATCTCCCAAGACTGAGCCAACGGGCAGACAATGGATGAA
GAAGTCTCCGAGGTCTAAGCCGACGAACAGATGATAGATAAAAGAAGTCTCCCAGGTCTAAACCA
ACAGGTAAACAA
Found at i:1681791 original size:43 final size:43
Alignment explanation
Indices: 1681730--1681843 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
1681720 ACTGAGCTAA
* * *
1681730 TGGGCAGACAATGGATGAAGAAGTATTC-CAGGTCTAAGCTGAC
1 TGGGCAAACGATGGATGAAGAAGT-TTCTCAGGTCTAAGCCGAC
1681773 TGGGCAAACGATGGATGAAGAAGTTTCTCAGGTCTAAGCCGAC
1 TGGGCAAACGATGGATGAAGAAGTTTCTCAGGTCTAAGCCGAC
* * ** *
1681816 -CGGCAAATGAAAGATGAAGAAGTCTCTC
1 TGGGCAAACGATGGATGAAGAAGTTTCTC
1681844 GAGACTGAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (43 bp):
TGGGCAAACGATGGATGAAGAAGTTTCTCAGGTCTAAGCCGAC
Found at i:1681796 original size:254 final size:256
Alignment explanation
Indices: 1681315--1681842 Score: 579
Period size: 254 Copynumber: 2.1 Consensus size: 256
1681305 ACGGGCAAAC
* *
1681315 AATGGATGAAGAAGTCTCTTGGGTCTAAGTCGACAAGCAGACAATTGATAAAGAAAGTCCCTCGG
1 AATGGATGAAGAAGTCTCTTAGGTCTAAGTCAACAAGCAGACAATTGATAAAGAAAGTCCCTCGG
* * * * * *
1681380 AACTAAGCTGATGGGCAAACTATGGATGAAGAAGTCTCCTAGGTCTCAATCGACGGGCAGATGAT
66 AACTAAGCCGATGGGCAAACAATGGATGAAGAAGTCTCCGAGGTCTCAACCGACGAGCAGACGAT
* * * * * * **
1681445 TGATAAAGGAAATCTCTTGGGACTGAGTTGACGGGCAGACAATGGATGAAGAAGTCTTTGAGGTC
131 TGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGAAGTATTCCAGGTC
* * * * * *
1681510 TAAGCCGACGAATAGATGATTGATAAAAGAAGTCTCCCAGGTCTGAA-CCGACAGGTAGAT-
196 TAAGCCGACGAACAAACGATGGATAAAAGAAGTCTCCCAGGTCT-AAGCCGACAGGCAAATG
** *
1681570 AATGGATGAAGAAGTCTCTTAGGTCTAAG-CTAACAAGCAGATGATTGATAAAGAAA-TCTCTC-
1 AATGGATGAAGAAGTCTCTTAGGTCTAAGTC-AACAAGCAGACAATTGATAAAGAAAGTCCCTCG
* * * *
1681632 GAGTCTAAGCCGATGGGCATACAATGGATGAAGAAGTCTCCCGA-GTCT-AAGCCGATGAGTAGA
65 GA-ACTAAGCCGATGGGCAAACAATGGATGAAGAAGTCT-CCGAGGTCTCAA-CCGACGAGCAGA
* * *
1681695 CGGTTGATAAAAGAAGTCTCTCGAGACTGAGCTAATGGGCAGACAATGGATGAAGAAGTATTCCA
127 CGATTGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGAAGTATTCCA
* ** * * * *
1681760 GGTCTAAGCTGACTGGGCAAACGATGGAT-GAAGAAGTTTCTCAGGTCTAAGCCGACCGGCAAAT
192 GGTCTAAGCCGAC-GAACAAACGATGGATAAAAGAAGTCTCCCAGGTCTAAGCCGACAGGCAAAT
1681824 G
256 G
*
1681825 AA-AGATGAAGAAGTCTCT
1 AATGGATGAAGAAGTCTCT
1681843 CGAGACTGAG
Statistics
Matches: 226, Mismatches: 40, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
253 6 0.03
254 156 0.69
255 64 0.28
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (256 bp):
AATGGATGAAGAAGTCTCTTAGGTCTAAGTCAACAAGCAGACAATTGATAAAGAAAGTCCCTCGG
AACTAAGCCGATGGGCAAACAATGGATGAAGAAGTCTCCGAGGTCTCAACCGACGAGCAGACGAT
TGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGAAGTATTCCAGGTC
TAAGCCGACGAACAAACGATGGATAAAAGAAGTCTCCCAGGTCTAAGCCGACAGGCAAATG
Found at i:1681861 original size:254 final size:251
Alignment explanation
Indices: 1681303--1681894 Score: 557
Period size: 254 Copynumber: 2.3 Consensus size: 251
1681293 AAGACTGAGT
* * * * * *
1681303 CGACGGGCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGTCGACAAGCAGACAATTGATAAAG
1 CGACAGGCAAATAATAGATGAAGAAGTCTC-TGAGTCTAAGCCAACAAGCAGA-AATTGATAAAG
* * * * * *
1681368 AAAGTCCCTCGGAACTAAGCTGATGGGCAAACTATGGATGAAGAAGTCTCCTAGGTCTCAATCGA
64 AAA-TCTCTCGG-TCTAAGCCGATGGGCAAACAATGGATGAAGAAGTCTCCGAGGTCTCAACCGA
* * * * * * *
1681433 CGGGCAGATGATTGATAAAGGAAATCTCTTGGGACTGAGTTGACGGGCAGACAATGGATGAAGAA
127 CGAGCAGACGATTGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGAA
* ** * * * *
1681498 GTCTTTGAGGTCTAAGCCGACGAATAGATGATTGATAAAAGAAGTCTCCCAGGTCTGAAC
192 GTATTCCAGGTCTAAGCCGACGAACAAACGATGGATAAAAGAAGTCTCCCAGGTCTGAAC
* * * * * *
1681558 CGACAGGTAGATAATGGATGAAGAAGTCTCTTAGGTCTAAGCTAACAAGCAGATGATTGATAAAG
1 CGACAGGCAAATAATAGATGAAGAAGTCTCTGA-GTCTAAGCCAACAAGCAGA-AATTGATAAAG
*
1681623 AAATCTCTCGAGTCTAAGCCGATGGGCATACAATGGATGAAGAAGTCTCCCGA-GTCT-AAGCCG
64 AAATCTCTCG-GTCTAAGCCGATGGGCAAACAATGGATGAAGAAGTCT-CCGAGGTCTCAA-CCG
* * * * *
1681686 ATGAGTAGACGGTTGATAAAAGAAGTCTCTCGAGACTGAGCTAATGGGCAGACAATGGATGAAGA
126 ACGAGCAGACGATTGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGA
* ** * * *
1681751 AGTATTCCAGGTCTAAGCTGACTGGGCAAACGATGGAT-GAAGAAGTTTCTCAGGTCT-AAGC
191 AGTATTCCAGGTCTAAGCCGAC-GAACAAACGATGGATAAAAGAAGTCTCCCAGGTCTGAA-C
* * * * *
1681812 CGACCGGCAAATGAA-AGATGAAGAAGTCTCTCGAGACTGAGCCAACAAGCAGACATTGGATTAA
1 CGACAGGCAAAT-AATAGATGAAGAAGTCTCT-GAGTCTAAGCCAACAAGCAGAAATT-GATAAA
*
1681876 GAAGT-TCTCGGGTCTAAGC
63 GAAATCTCTC-GGTCTAAGC
1681895 TGACAGGCAG
Statistics
Matches: 273, Mismatches: 54, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
253 19 0.07
254 183 0.67
255 71 0.26
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (251 bp):
CGACAGGCAAATAATAGATGAAGAAGTCTCTGAGTCTAAGCCAACAAGCAGAAATTGATAAAGAA
ATCTCTCGGTCTAAGCCGATGGGCAAACAATGGATGAAGAAGTCTCCGAGGTCTCAACCGACGAG
CAGACGATTGATAAAAGAAATCTCTCGAGACTGAGCTAACGGGCAGACAATGGATGAAGAAGTAT
TCCAGGTCTAAGCCGACGAACAAACGATGGATAAAAGAAGTCTCCCAGGTCTGAAC
Found at i:1682137 original size:127 final size:126
Alignment explanation
Indices: 1681634--1682163 Score: 349
Period size: 127 Copynumber: 4.2 Consensus size: 126
1681624 AATCTCTCGA
* * * * * * * *
1681634 GTCTAAGCCGATGGGCATACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCGAT-GAGTAGACGG
1 GTCTAAGCTGACGGGCAAACGATGGATGAAGAAGTCTCCCAAGTCTAAGCCGATGGA-CAAACGA
* * * * * * * *
1681698 TTGATAAAAGAAGTCTCTCGAGACTGAGCTAATGGGCAGACAATGGATGAAGAAGTATTCCAG
65 TAGAT-AAAGAAGTCTCTCGAGACTGAGCCAATGAGCAAACAATGGATGAAAAAGTCTCCCGG
* * * * *
1681761 GTCTAAGCTGACTGGGCAAACGATGGATGAAGAAGTTTCTCAGGTCTAAGCCGACCGG-CAAATG
1 GTCTAAGCTGAC-GGGCAAACGATGGATGAAGAAGTCTCCCAAGTCTAAGCCGA-TGGACAAACG
* * ** * * * * *
1681825 AAAGATGAAGAAGTCTCTCGAGACTGAGCCAACAAGCAGACATTGGATTAAGAAGT-TCTCGG
64 ATAGATAAAGAAGTCTCTCGAGACTGAGCCAATGAGCAAACAATGGATGAAAAAGTCTCCCGG
* * * * * * ** *
1681887 GTCTAAGCTGACAGGCAGACGGTTGATAAAAAAAGTCTCCC-AGGATAGAGCCAATGGGAC-AAC
1 GTCTAAGCTGACGGGCAAACGATGGAT-GAAGAAGTCTCCCAAGTCTA-AGCCGAT-GGACAAAC
* * * * * * ** * *
1681950 -ACTAGATGAAGAAGTCT-TAC-AGGTCTAAACCGATGGGCAAATGATTGAT-AAAGAAATCTCC
63 GA-TAGATAAAGAAGTCTCT-CGA-GACTGAGCCAATGAGCAAACAATGGATGAAA-AAGTCTCC
1682011 CGG
124 CGG
* *
1682014 GTCTAAGCTGACGGGCAAACGATGGTTGAAGAAGTCTCCCAAGTCTAAGTCGATGGACAAACGAT
1 GTCTAAGCTGACGGGCAAACGATGGATGAAGAAGTCTCCCAAGTCTAAGCCGATGGACAAACGAT
* * * * *
1682079 TGATAAAAGAAGTCTCTTGAGACTGAGCCAATGAGCAAAAAATAGATGAAAAAGTCTCCTGG
66 AGAT-AAAGAAGTCTCTCGAGACTGAGCCAATGAGCAAACAATGGATGAAAAAGTCTCCCGG
* * * *
1682141 GGCTATGCCGACGGGCAGACGAT
1 GTCTAAGCTGACGGGCAAACGAT
1682164 TGATAAAGGA
Statistics
Matches: 301, Mismatches: 83, Indels: 38
0.71 0.20 0.09
Matches are distributed among these distances:
125 23 0.08
126 89 0.30
127 142 0.47
128 46 0.15
130 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (126 bp):
GTCTAAGCTGACGGGCAAACGATGGATGAAGAAGTCTCCCAAGTCTAAGCCGATGGACAAACGAT
AGATAAAGAAGTCTCTCGAGACTGAGCCAATGAGCAAACAATGGATGAAAAAGTCTCCCGG
Found at i:1682200 original size:43 final size:42
Alignment explanation
Indices: 1680648--1682327 Score: 327
Period size: 42 Copynumber: 39.7 Consensus size: 42
1680638 ACAGTGGATG
* * * **
1680648 AAGAAATCTCTCGGGTCTAAGCTGACGGGCAGACGAAAGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * **
1680690 AAAAAGTCTCTCGAGTCTAAGCCGACGAGTAGACGGCTGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * ** * * * *
1680732 AAGGAAGTCTTTCGAGACTAAGTCGATAGGTAGACGGTGGATG
1 AA-GAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* ** * * *
1680775 AAGAAGTCTCCCAAGTCTAAGCCGACGAGCAGAC-AGTGGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGA-TTGATA
* * * * * **
1680817 AAGAAGTCTC-CCGAATCTAAACCGACGGGCAGGCAAAAGATGA
1 AAGAAGTCTCTCGGGA-CTAAGCCGACGGGCAGACGATTGAT-A
* * * * * * *
1680860 AA-AAGTCTC-CTAGGTCGAAGCCGACGGGCAAACGGTGGATG
1 AAGAAGTCTCTC-GGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * *
1680901 AAGAA-TCTC-CTAGGTCTAAGCTGACAGGCAAATGGTTGATA
1 AAGAAGTCTCTC-GGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * * * * * *
1680942 AAGGAAATATCCCGAGATTAAGTCGACAGGCAAACAATGGATG
1 AA-GAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * **
1680985 AAGAAGTCTC-CTGGATCTAAGCTGATAGGCAGACGATTGATA
1 AAGAAGTCTCTCGGGA-CTAAGCCGACGGGCAGACGATTGATA
* * * ** * * * *
1681027 AAGAAAGTCTCTCGAGACTGAGCTGATAGGTAGACTATGGATT
1 AAG-AAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * *
1681070 AAGAAGTTTCTCAGGTCTAAGCCGACAGGCAAATGATTGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * ** * * ** * *
1681112 AAGGTAGTCTCCCAAGACTGAGCCAACGGGCAGATTATGGATG
1 AA-GAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * ** * *
1681155 AAGAAGTCTCCCGAGTCTAAGTCGACAAGCAGATGATAGATGA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* * * ** * * * * *
1681198 AA-AAGTCTTTCGAGTCTAAATCAACAGGTAAACGATTGATG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * *
1681239 AAGAA-TCTC-CTGGGTCTAAGCCGACGGGCAGA-TAGTCGATAA
1 AAGAAGTCTCTC-GGGACTAAGCCGACGGGCAGACGA-TTGAT-A
* * * * ** * * * * * *
1681281 AAAAAATATCCCAAGACTGAGTCGACGGGCAAACAATGGATG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * ** *
1681323 AAGAAGTCTCTTGGGTCTAAGTCGACAAGCAGACAATTGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * * *
1681365 AAGAAAGTCCCTCGGAACTAAGCTGATGGGCAAACTATGGATG
1 AAG-AAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * *
1681408 AAGAAGTCTC-CTAGGTCTCAA-TCGACGGGCAGATGATTGATA
1 AAGAAGTCTCTC-GGGACT-AAGCCGACGGGCAGACGATTGATA
* * * ** * * *
1681450 AAGGAAATCTCTTGGGACTGAGTTGACGGGCAGACAATGGATG
1 AA-GAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * *** *
1681493 AAGAAGTCT-TTGAGGTCTAAGCCGACGAATAGATGATTGATAA
1 AAGAAGTCTCTCG-GGACTAAGCCGACGGGCAGACGATTGAT-A
* * * * * ** * *
1681536 AAGAAGTCTCCCAGGTCTGAA-CCGACAGGTAGATAATGGATG
1 AAGAAGTCTCTCGGGACT-AAGCCGACGGGCAGACGATTGATA
** * ** ** *
1681578 AAGAAGTCTCTTAGGTCTAAGCTAACAAGCAGATGATTGATA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * * *
1681620 AAGAAATCTCTCGAGTCTAAGCCGATGGGCATACAATGGATG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * *
1681662 AAGAAGTCTCCCGAGTCTAAGCCGATGAGTAGACGGTTGATAA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* * ** * * * *
1681705 AAGAAGTCTCTCGAGACTGAGCTAATGGGCAGACAATGGATG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * *
1681747 AAGAAGTAT-TCCAGGTCTAAGCTGACTGGGCAAACGATGGATG
1 AAGAAGTCTCT-CGGGACTAAGCCGAC-GGGCAGACGATTGATA
* * * * * * ** *
1681790 AAGAAGTTTCTCAGGTCTAAGCCGACCGGCAAATGAAAGATG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* * * ** *
1681832 AAGAAGTCTCTCGAGACTGAGCCAACAAGCAGAC-ATTGGATT
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATT-GATA
* * * *
1681874 AAGAAGT-TCTCGGGTCTAAGCTGACAGGCAGACGGTTGATAA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* * * * * * *
1681916 AAAAAGTCTCCCAGGA-TAGAGCCAATGGGACA-AC-ACTAGATG
1 AAGAAGTCTCTCGGGACTA-AGCCGACGGG-CAGACGA-TTGATA
* * * * * *
1681958 AAGAAGTCT-TACAGGTCTAAACCGATGGGCAAATGATTGATA
1 AAGAAGTCTCT-CGGGACTAAGCCGACGGGCAGACGATTGATA
* * * * * * * *
1682000 AAGAAATCTCCCGGGTCTAAGCTGACGGGCAAACGATGGTTG
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
* ** * * * * *
1682042 AAGAAGTCTCCCAAGTCTAAGTCGATGGACAAACGATTGATAA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* * * * * * * ** *
1682085 AAGAAGTCTCTTGAGACTGAGCCAATGAGCAAAAAATAGATGA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* *
1682128 AA-AAGTCTC-CTGGGGCTATGCCGACGGGCAGACGATTGATA
1 AAGAAGTCTCTC-GGGACTAAGCCGACGGGCAGACGATTGATA
* * * *
1682169 AAGGAAGTGTCTCGGGACTAAGCCGATGGGCAGACTATGGATGA
1 AA-GAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* * * * *
1682213 AA-AAGTCTC-CTGAGTCTAAGCCGATGGGCAGAAGGTTGATA
1 AAGAAGTCTCTC-GGGACTAAGCCGACGGGCAGACGATTGATA
* * * * *
1682254 AAGAAAGTCTCTTGGGACTGAGTCGACGGGCAGACAATGGATGA
1 AAG-AAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGAT-A
* ** *
1682298 AA-AAGTCTCTCGAGTTTGAGCCGACGGGCA
1 AAGAAGTCTCTCGGGACTAAGCCGACGGGCA
1682328 AACAAAAGAT
Statistics
Matches: 1181, Mismatches: 397, Indels: 120
0.70 0.23 0.07
Matches are distributed among these distances:
40 2 0.00
41 101 0.09
42 649 0.55
43 411 0.35
44 18 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (42 bp):
AAGAAGTCTCTCGGGACTAAGCCGACGGGCAGACGATTGATA
Found at i:1682285 original size:85 final size:85
Alignment explanation
Indices: 1681972--1682391 Score: 321
Period size: 85 Copynumber: 5.0 Consensus size: 85
1681962 AGTCTTACAG
* * * * * *
1681972 GTCTAAACCGATGGGCAAATGATTGATAAAGAAA-TCTCCCGGGTCTAAGCTGACGGGCAAACGA
1 GTCTAAGCCGATGGGCAAACGATTGATAAAGAAAGTCTCTCGGGACTAAGCCGACGGGCAAACAA
* * **
1682036 TGGTTGAAGAAGTCTCCCAA
66 TGGATGAAAAAGTCTCCTGA
* * * * * * * * *
1682056 GTCTAAGTCGATGGACAAACGATTGATAAA-AGAAGTCTCTTGAGACTGAGCCAATGAGCAAAAA
1 GTCTAAGCCGATGGGCAAACGATTGATAAAGA-AAGTCTCTCGGGACTAAGCCGACGGGCAAACA
* *
1682120 ATAGATGAAAAAGTCTCCTGG
65 ATGGATGAAAAAGTCTCCTGA
* * * * * * * * *
1682141 GGCTATGCCGACGGGCAGACGATTGATAAAGGAAGTGTCTCGGGACTAAGCCGATGGGCAGACTA
1 GTCTAAGCCGATGGGCAAACGATTGATAAAGAAAGTCTCTCGGGACTAAGCCGACGGGCAAACAA
1682206 TGGATGAAAAAGTCTCCTGA
66 TGGATGAAAAAGTCTCCTGA
* * * * *
1682226 GTCTAAGCCGATGGGCAGAA-GGTTGATAAAGAAAGTCTCTTGGGACTGAGTCGACGGGCAGACA
1 GTCTAAGCCGATGGGCA-AACGATTGATAAAGAAAGTCTCTCGGGACTAAGCCGACGGGCAAACA
1682290 ATGGATGAAAAAGTCT-CTCGA
65 ATGGATGAAAAAGTCTCCT-GA
* * * * ** * * * * * **
1682311 GTTTGAGCCGACGGGCAAACAAAAGATGAAGAAA-TCTCCCGGG-TTAAAGTCGATGGGCAAATG
1 GTCTAAGCCGATGGGCAAACGATTGATAAAGAAAGTCTCTCGGGACT-AAGCCGACGGGCAAACA
*
1682374 ATGGATGAAGAAGTCTCC
65 ATGGATGAAAAAGTCTCC
1682392 CAGGTTTGAG
Statistics
Matches: 260, Mismatches: 68, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
83 2 0.01
84 66 0.25
85 191 0.73
86 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (85 bp):
GTCTAAGCCGATGGGCAAACGATTGATAAAGAAAGTCTCTCGGGACTAAGCCGACGGGCAAACAA
TGGATGAAAAAGTCTCCTGA
Found at i:1682327 original size:170 final size:169
Alignment explanation
Indices: 1681992--1682393 Score: 391
Period size: 170 Copynumber: 2.4 Consensus size: 169
1681982 ATGGGCAAAT
* * * *
1681992 GATTGATAAAGAAATCTCCCGGGTCTAAGCTGACGGGCAAACGATGGTTGAAGAAGTCTCCCAAG
1 GATTGATAAAGAAATCTCCCGGGACTAAGCCGACGGGCAAACGATGGATGAAAAAGTCTCCCAAG
* *
1682057 TCTAAGTCGATGGACAAACGATTGATAAAAGAAGTCTCTTGAGACTGAGCCAATGAGCAAAAAAT
66 TCTAAGCCGATGGACAAACGATTGATAAAAGAAGTCTCTTGAGACTGAGCCAACGAGCAAAAAAT
*
1682122 AGATGAAAAAGTCTCCTGGGGCTATGCCGACGGGCAGAC
131 AGATGAAAAAGTCTCCTGAGGCTATGCCGACGGGCAGAC
* * * * * * **
1682161 GATTGATAAAGGAAGTGTCTCGGGACTAAGCCGATGGGCAGACTATGGATGAAAAAGTCTCCTGA
1 GATTGATAAA-GAAATCTCCCGGGACTAAGCCGACGGGCAAACGATGGATGAAAAAGTCTCCCAA
* * * * * * * *
1682226 GTCTAAGCCGATGGGCAGAA-GGTTGAT-AAAGAAAGTCTCTTGGGACTGAGTCGACGGGCAGAC
65 GTCTAAGCCGATGGACA-AACGATTGATAAAAG-AAGTCTCTTGAGACTGAGCCAACGAGCAAAA
* ** *
1682289 AATGGATGAAAAAGTCT-CTCGAGTTTGA-GCCGACGGGCAAAC
128 AATAGATGAAAAAGTCTCCT-GAGGCT-ATGCCGACGGGCAGAC
* ** * * * * * *
1682331 AAAAGATGAAGAAATCTCCCGGG-TTAAAGTCGATGGGCAAATGATGGATGAAGAAGTCTCCCA
1 GATTGATAAAGAAATCTCCCGGGACT-AAGCCGACGGGCAAACGATGGATGAAAAAGTCTCCCA
1682394 GGTTTGAGCC
Statistics
Matches: 185, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
168 1 0.01
169 56 0.30
170 125 0.68
171 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (169 bp):
GATTGATAAAGAAATCTCCCGGGACTAAGCCGACGGGCAAACGATGGATGAAAAAGTCTCCCAAG
TCTAAGCCGATGGACAAACGATTGATAAAAGAAGTCTCTTGAGACTGAGCCAACGAGCAAAAAAT
AGATGAAAAAGTCTCCTGAGGCTATGCCGACGGGCAGAC
Found at i:1682501 original size:42 final size:41
Alignment explanation
Indices: 1682455--1682577 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 41
1682445 CGATGGGTTA
* *
1682455 ACAAATGGTAAAGAAGTCTTCTAGGTCAAAGTCAACGGGTAG
1 ACAAAGGGTAAAGAAGTCTTCTAAGTCAAAG-CAACGGGTAG
* * * *
1682497 ACAAAGGGCAAAAAAGCCTT-TCAAGTCAAAGCTTACGGGTAG
1 ACAAAGGGTAAAGAAGTCTTCT-AAGTCAAAGC-AACGGGTAG
* *
1682539 ACAAAGGGTAAAGAAATCTTCCAAGTCAAAGCCAACGGG
1 ACAAAGGGTAAAGAAGTCTTCTAAGTCAAAG-CAACGGG
1682578 CAAACGTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 62 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
ACAAAGGGTAAAGAAGTCTTCTAAGTCAAAGCAACGGGTAG
Found at i:1682828 original size:48 final size:47
Alignment explanation
Indices: 1682771--1682949 Score: 164
Period size: 48 Copynumber: 3.8 Consensus size: 47
1682761 GCCTTACTAC
* *
1682771 CAATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAGGCCCTAACA
1 CAATACAGTCAAACGAGGGATGAAAACAGTTTGACCAGGCCTTAACA
* ** ** * **
1682818 CTAATGCAGTCAATTGAGAAATGAAAACAGTTTGACTAGGTTTTAA-A
1 C-AATACAGTCAAACGAGGGATGAAAACAGTTTGACCAGGCCTTAACA
* * * * * *
1682865 GCAATACAATCAAAAG-GGGGTGGAAACAATTTGACCAGTCCTTAACA
1 -CAATACAGTCAAACGAGGGATGAAAACAGTTTGACCAGGCCTTAACA
*
1682912 CCAATACAGTCAAACGAGGGATGAAAAGAGTTTGACCA
1 -CAATACAGTCAAACGAGGGATGAAAACAGTTTGACCA
1682950 TATATAGTCA
Statistics
Matches: 98, Mismatches: 30, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
46 20 0.20
47 26 0.27
48 52 0.53
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (47 bp):
CAATACAGTCAAACGAGGGATGAAAACAGTTTGACCAGGCCTTAACA
Found at i:1683763 original size:44 final size:45
Alignment explanation
Indices: 1683667--1683782 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 45
1683657 TTAGTAAAAT
* * * *
1683667 GGCAAATGCATATGAGATGATGTAAATGCCAAACGTCATCTAAAG
1 GGCAAATGCATATGAAATAATGTAAATGCCAAACATCATATAAAG
* * *
1683712 TGCAAATGTATGTGAAATAATGTAAATG-CAAACATCA-ATAGAAG
1 GGCAAATGCATATGAAATAATGTAAATGCCAAACATCATATA-AAG
* *
1683756 GGCAAATGCATATGGAATAATGCAAAT
1 GGCAAATGCATATGAAATAATGTAAAT
1683783 ACTAATGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 2 0.03
44 33 0.57
45 23 0.40
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (45 bp):
GGCAAATGCATATGAAATAATGTAAATGCCAAACATCATATAAAG
Found at i:1684580 original size:9 final size:9
Alignment explanation
Indices: 1684568--1684600 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1684558 CCATTTCTCT
1684568 TTTTTCTTC
1 TTTTTCTTC
1684577 TTTTTCATT-
1 TTTTTC-TTC
1684586 TTTTTCTTC
1 TTTTTCTTC
1684595 TTTTTC
1 TTTTTC
1684601 ACAACCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:1684582 original size:18 final size:18
Alignment explanation
Indices: 1684567--1684601 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1684557 TCCATTTCTC
1684567 TTTTTTCTTCTTTTTCAT
1 TTTTTTCTTCTTTTTCAT
1684585 TTTTTTCTTCTTTTTCA
1 TTTTTTCTTCTTTTTCA
1684602 CAACCCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTCTTTTTCAT
Found at i:1688567 original size:156 final size:153
Alignment explanation
Indices: 1688385--1689051 Score: 631
Period size: 156 Copynumber: 4.3 Consensus size: 153
1688375 ATTCCAAATA
** * * * *
1688385 GGATGAACCTATCCTAAATATTCACCTTCGACATAAAAGTGGACCTGGTGACAACCTCA-TACTC
1 GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCT-AGGACTC
* * * * *
1688449 AGTATTGTAAAATTACCAAAATGCCCCTTTGTGTATACCTTTGACATGAAAGTATCTCAGTAACC
65 AGTATT-AAAAATTACGAAAATG-CCCTTTGGGTATACCTTCGACGTGAAAGTATC-CAGTAACC
* *
1688514 TTAAAGGATTTAAAAGGACTATAAAAG
127 CTAAAGGATTTAAAAAGACTATAAAAG
* * ** * *
1688541 GGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCAGTGATGACCTAGGAGTTA
1 GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCA
* *** * * *
1688606 GT-TCTAAAAATTATGAAAATGCCCTTACAAGTATACCTTCGACGTAAAAATATCCTAGCAACCC
66 GTAT-TAAAAATTACGAAAATGCCCTT-TGGGTATACCTTCGACGTGAAAGTATCC-AGTAACCC
* *
1688670 TAAAAGAATTAAAAAGACTCATAAAAG
128 TAAAGGATTTAAAAAGACT-ATAAAAG
* * * * * * * * * *
1688697 GGAAGAAACTATCCTAAATGCCCACTTTTGACATAAAAGCGGACCCGGTGACGACCTAAGAGTTA
1 GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCA
* * * *
1688762 GTCTTAAAAATTACGGAAATGCCCCTATGGGTATACCTTCGACGTGAAAGTATCCTGATAACCCT
66 GTATTAAAAATTACGAAAATG-CCCTTTGGGTATACCTTCGACGTGAAAGTATCCAG-TAACCCT
*
1688827 AAAGGACTTAAAAAGACTATAAAAG
129 AAAGGATTTAAAAAGACTATAAAAG
* * ** *
1688852 TGG-TGAACCTATCCTAAATACCCACATTCGGCACAAAAGCAAACCCGGTGACAACTTAGGACTC
1 -GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTC
* * * * * *
1688916 -GATTTTAAAAAATTATGAAAATGCCCTTAGGGGATACCTTCGACGTGAAAGTATCTCAATACCC
65 AG-TATT-AAAAATTACGAAAATGCCCTTTGGGTATACCTTCGACGTGAAAGTATC-CAGTAACC
* *
1688980 CTAAAGGATTTAAAAAGAACTATAACAT
127 CTAAAGGATTTAAAAAG-ACTATAAAAG
* * * *
1689008 GAATGAACCTATCCTAAATACCCACTTTTGGCATAAAAGTGGAC
1 GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGAC
1689052 TTGGTGGTTA
Statistics
Matches: 415, Mismatches: 82, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
154 7 0.02
155 165 0.40
156 238 0.57
157 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (153 bp):
GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCA
GTATTAAAAATTACGAAAATGCCCTTTGGGTATACCTTCGACGTGAAAGTATCCAGTAACCCTAA
AGGATTTAAAAAGACTATAAAAG
Found at i:1688957 original size:311 final size:311
Alignment explanation
Indices: 1688387--1689051 Score: 757
Period size: 311 Copynumber: 2.1 Consensus size: 311
1688377 TCCAAATAGG
* ** * * * * * * * * *
1688387 ATGAACCTATCCTAAATATTCACCTTCGACATAAAAGTGGACCTGGTGACAACCTCATACTCAGT
1 ATGAAACTATCCTAAATACCCACTTTTGACATAAAAGCGGACCCGGTGACGACCTAAGAGTTAGT
* * * * * *
1688452 ATTGTAAAATTACCAAAATGCCCCTTTGTGTATACCTTTGACATGAAAGTATCTCAGTAACCTTA
66 CTT-AAAAATTACCAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCTCAGTAACCCTA
* * * * *
1688517 AAGGATTTAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCG
130 AAGGACTTAAAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACATTCGGCACAAAAGCA
* ** * * *
1688582 GACCCAGTGATGACCTAGGAGTTAGTTCTAAAAATTATGAAAATGCCCTTACAAGTATACCTTCG
195 AACCCAGTGACAACCTAGGACTGAGTTCTAAAAATTATGAAAATGCCCTTACAAGGATACCTTCG
*
1688647 ACGTAAAAATATC-CTAGCAACCCTAAAAGAATTAAAAAG-ACTCATAAAAGGGA
260 ACGTAAAAATATCTC-AACAACCCTAAAAGAATTAAAAAGAACT-ATAAAA-GGA
*
1688700 A-GAAACTATCCTAAATGCCCACTTTTGACATAAAAGCGGACCCGGTGACGACCTAAGAGTTAGT
1 ATGAAACTATCCTAAATACCCACTTTTGACATAAAAGCGGACCCGGTGACGACCTAAGAGTTAGT
** * *
1688764 CTTAAAAATTACGGAAATGCCCCTATGGGTATACCTTCGACGTGAAAGTATC-CTGATAACCCTA
66 CTTAAAAATTACCAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCTCAG-TAACCCTA
*
1688828 AAGGACTTAAAAAGACTATAAAAGTGGTGAACCTATCCTAAATACCCACATTCGGCACAAAAGCA
130 AAGGACTTAAAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACATTCGGCACAAAAGCA
* * * **
1688893 AACCCGGTGACAACTTAGGACTCGA-TTTTAAAAAATTATGAAAATGCCCTTA-GGGGATACCTT
195 AACCCAGTGACAACCTAGGACT-GAGTTCT-AAAAATTATGAAAATGCCCTTACAAGGATACCTT
* * * * * * * *
1688956 CGACGTGAAAGTATCTCAATACCCCTAAAGGATTTAAAAAGAACTATAACATGA
258 CGACGTAAAAATATCTCAACAACCCTAAAAGAATTAAAAAGAACTATAAAAGGA
* * *
1689010 ATGAACCTATCCTAAATACCCACTTTTGGCATAAAAGTGGAC
1 ATGAAACTATCCTAAATACCCACTTTTGACATAAAAGCGGAC
1689052 TTGGTGGTTA
Statistics
Matches: 293, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
310 5 0.02
311 208 0.71
312 79 0.27
313 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (311 bp):
ATGAAACTATCCTAAATACCCACTTTTGACATAAAAGCGGACCCGGTGACGACCTAAGAGTTAGT
CTTAAAAATTACCAAAATGCCCCTATGGGTATACCTTCGACATGAAAGTATCTCAGTAACCCTAA
AGGACTTAAAAAGACTATAAAAGGGGTGAACCTATCCTAAATACCCACATTCGGCACAAAAGCAA
ACCCAGTGACAACCTAGGACTGAGTTCTAAAAATTATGAAAATGCCCTTACAAGGATACCTTCGA
CGTAAAAATATCTCAACAACCCTAAAAGAATTAAAAAGAACTATAAAAGGA
Found at i:1689806 original size:128 final size:127
Alignment explanation
Indices: 1689591--1689827 Score: 325
Period size: 128 Copynumber: 1.9 Consensus size: 127
1689581 CTCAAAAAGT
* * *** *
1689591 GTCATTTCATACCTTGATGGAAACCCGCCAAGATACGAAAAATTTGAAATCTTTTCATACCCTTA
1 GTCATTTCATACCTTAACGGAAACCCAAAAAGATACGAAAAATTTGAAATCTTTTCATACCCCTA
* *
1689656 CAGATACCCATAAGAATATAAAAGATTAAAAATAATTAATATTTATTTTTTTTGGAAAAAAA
66 CAGATACCCATAAGAATATAAAAAATTAAAAACAATTAATATTTATTTTTTTTGGAAAAAAA
*
1689718 GTCATTTCATACCTTAACGGATACCCAAAAAGATAC-AAAAAGTTTTTGAAATCTTTT-ATACCC
1 GTCATTTCATACCTTAACGGAAACCCAAAAAGATACGAAAAA---TTTGAAATCTTTTCATACCC
** *
1689781 CTACAGATACCCATTGGAATGTAAAAAATTAAAAACAATTAATATTT
63 CTACAGATACCCATAAGAATATAAAAAATTAAAAACAATTAATATTT
1689828 GTTGTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
126 5 0.05
127 30 0.32
128 47 0.49
129 13 0.14
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (127 bp):
GTCATTTCATACCTTAACGGAAACCCAAAAAGATACGAAAAATTTGAAATCTTTTCATACCCCTA
CAGATACCCATAAGAATATAAAAAATTAAAAACAATTAATATTTATTTTTTTTGGAAAAAAA
Found at i:1690355 original size:43 final size:43
Alignment explanation
Indices: 1690207--1690885 Score: 524
Period size: 43 Copynumber: 16.0 Consensus size: 43
1690197 CATTCTTTTA
* * ** *
1690207 TCAATCATCTGCCCGTCGGCTTAGACCCAAGAGACTT--TTTCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTT-G
* * * **
1690249 TCAATCATCTGCCCGTCGGCTTAGACCTGGGAGACTT--TTCCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTT-TG
* * *
1690291 TCAATCATCTGCCCGTTGGCTTAGACCCGGGAGACTTCCTTTG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
*
1690334 TCAATCGTCTGACCATCGGCTTAGACCCGGGAGACTTCCTTTG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* *
1690377 TCAATAGTCTGCCCATCGGCTTAGACCCGAGAGACTTCCTTTG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* * *
1690420 TCAATCATTTGCCCATCGGCTTAGACCCGGGAGACTTCTTTTG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* * * * ** *
1690463 TCAATCGTCTACCCGTCGACTTAGACTCAAGAGAC-T-CTTTCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTT-G
** **
1690505 TCAATCGTCTGCCCATCGGCTTAGACCTAGGAGACTT--TTCCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTT-TG
* * ** * * *
1690547 TCAATCATTTATCCGTCGGCTTAGACTCGGAAGACTT--TTTCG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTT-G
* * *
1690589 TCAATCGTCTGCCCGTCGGCTTAGTCCCGGGATACTTCCTTTG
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* *
1690632 TCAATCGTCTGCCCAAT-GGCTCAGACTCGGGAGACTTCCTTTG
1 TCAATCGTCTGCCC-ATCGGCTTAGACCCGGGAGACTTCCTTTG
* * * * ** *
1690675 TCAATCGTTTGCCCATCGGCTCAGTCTCGGGAGACTTGTTTTA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* * * * * *
1690718 TCAAAT-GTCTACTCGTTGGCTCAGACCCGAGAGACTTCCTTTG
1 TC-AATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
* * * * * * **
1690761 TTAATCGTCTGCCTATCGTCTCAAACCCGAGAGACTT-CTTCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
** * ** **
1690803 TCTTTCGTCTGCCCGTCGGCTTAGACTTGGGAGACTT--TTCCA
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTT-TG
* * *
1690845 TCATTCGTCTGCCCATCGGCTCAGACCCAGGAGACTTCCTT
1 TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTT
1690886 CTTCATCATT
Statistics
Matches: 517, Mismatches: 104, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
41 5 0.01
42 231 0.45
43 270 0.52
44 11 0.02
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.30
Consensus pattern (43 bp):
TCAATCGTCTGCCCATCGGCTTAGACCCGGGAGACTTCCTTTG
Found at i:1690746 original size:298 final size:297
Alignment explanation
Indices: 1690200--1690871 Score: 785
Period size: 298 Copynumber: 2.3 Consensus size: 297
1690190 GGTGTTACAT
* * * * * *
1690200 TCTTTTATCAATCATCTGCCCGTCGGCTTAGACCCAAGAGACTTTTTCATCAATCATCTGCCCGT
1 TCTTTCATCAATCGTCTGCCCGTCGGCTTAGACCTAGGAGACTTTTCCATCAATCATCTACCCGT
* *
1690265 CGGCTTAGACCTGGGAGACTTTTCCATCAATCATCTGCCCGTTGGCTTAGACCCGGGAGACTTCC
66 CGGCTTAGACCTGGAAGACTTTTCCATCAATCATCTGCCCGTCGGCTTAGACCCGGGAGACTTCC
*
1690330 TTTGTCAATCGTCTGACCATCGGCTTAGACCCGGGAGACTTCCTTTGTCAATAGTCTGCCCATCG
131 TTTGTCAATCGTCTGACCATCGGCTCAGACCCGGGAGACTTCCTTTGTCAATAGTCTGCCCATCG
* * * * * *
1690395 GCTTAGACCCGAGAGACTTCCTTTGTCAATCATTTGCCCATCGGCTTAGACCCGGGAGACTTCTT
196 GCTCAGACCCGAGAGACTTCCTTTATCAA-CATTTACCCATCGGCTCAGACCCGAGAGACTTCCT
* * * *
1690460 TTGTCAATCGTCTACCCGTCGACTTAGACTCAAGAGAC
260 TTGTCAATCGTCTACCCATCGACTCAAACCCAAGAGAC
* * *
1690498 TCTTTCATCAATCGTCTGCCCATCGGCTTAGACCTAGGAGACTTTTCCATCAATCATTTATCCGT
1 TCTTTCATCAATCGTCTGCCCGTCGGCTTAGACCTAGGAGACTTTTCCATCAATCATCTACCCGT
* * * * *
1690563 CGGCTTAGA-CTCGGAAGACTTTTTCGTCAATCGTCTGCCCGTCGGCTTAGTCCCGGGATACTTC
66 CGGCTTAGACCT-GGAAGACTTTTCCATCAATCATCTGCCCGTCGGCTTAGACCCGGGAGACTTC
* * * *
1690627 CTTTGTCAATCGTCTGCCCAAT-GGCTCAGACTCGGGAGACTTCCTTTGTCAATCGTTTGCCCAT
130 CTTTGTCAATCGTCTGACC-ATCGGCTCAGACCCGGGAGACTTCCTTTGTCAATAGTCTGCCCAT
* * * ** * * *
1690691 CGGCTCAGTCTCGGGAGACTTGTTTTATCAA-ATGTCTACTCGTTGGCTCAGACCCGAGAGACTT
194 CGGCTCAGACCCGAGAGACTTCCTTTATCAACAT-T-TACCCATCGGCTCAGACCCGAGAGACTT
* * * * *
1690755 CCTTTGTTAATCGTCTGCCTATCGTCTCAAACCCGAGAGAC
257 CCTTTGTCAATCGTCTACCCATCGACTCAAACCCAAGAGAC
** * * * * * *
1690796 T-TCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTTGGGAGACTTTTCCATCATTCGTCTGCCCA
1 TCT-TTCATCAATCGTCTGCCCGTCGGCTTAGACCTAGGAGACTTTTCCATCAATCATCTACCCG
*
1690860 TCGGCTCAGACC
65 TCGGCTTAGACC
1690872 CAGGAGACTT
Statistics
Matches: 312, Mismatches: 56, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
296 2 0.01
297 4 0.01
298 303 0.97
299 3 0.01
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.31
Consensus pattern (297 bp):
TCTTTCATCAATCGTCTGCCCGTCGGCTTAGACCTAGGAGACTTTTCCATCAATCATCTACCCGT
CGGCTTAGACCTGGAAGACTTTTCCATCAATCATCTGCCCGTCGGCTTAGACCCGGGAGACTTCC
TTTGTCAATCGTCTGACCATCGGCTCAGACCCGGGAGACTTCCTTTGTCAATAGTCTGCCCATCG
GCTCAGACCCGAGAGACTTCCTTTATCAACATTTACCCATCGGCTCAGACCCGAGAGACTTCCTT
TGTCAATCGTCTACCCATCGACTCAAACCCAAGAGAC
Found at i:1691485 original size:20 final size:19
Alignment explanation
Indices: 1691438--1691486 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1691428 TATGCTTTGC
* *
1691438 ATCGATACATGCTCATTAT
1 ATCGATACATACTAATTAT
* *
1691457 ATCGGTACATACTTAATTGT
1 ATCGATACATAC-TAATTAT
1691477 ATCGATACAT
1 ATCGATACAT
1691487 GAAACTGGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (19 bp):
ATCGATACATACTAATTAT
Found at i:1695385 original size:13 final size:13
Alignment explanation
Indices: 1695367--1695393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1695357 ACATTATCCT
1695367 TTGTATCGATACA
1 TTGTATCGATACA
1695380 TTGTATCGATACA
1 TTGTATCGATACA
1695393 T
1 T
1695394 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1695423 original size:20 final size:19
Alignment explanation
Indices: 1695377--1695433 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1695367 TTGTATCGAT
*
1695377 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
1695396 TCATTGTATCAATACATGC
1 ACATTGTATCGATACATGC
1695415 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1695434 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1695501 original size:13 final size:13
Alignment explanation
Indices: 1695483--1695507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1695473 CATGGCACAT
1695483 TGTATCGATACAA
1 TGTATCGATACAA
1695496 TGTATCGATACA
1 TGTATCGATACA
1695508 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1697119 original size:3 final size:3
Alignment explanation
Indices: 1697105--1697135 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1697095 CATCAAGGAC
*
1697105 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1697136 TTGACTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1703252 original size:33 final size:33
Alignment explanation
Indices: 1703186--1703261 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
1703176 CAAGAGTTGA
* * *
1703186 TCACTTCACTTTCGCAGCACATGAATGAGCACT
1 TCACTTCACTCTCACAGCACATGAATGAACACT
** *
1703219 TCACTTCACTCTCACAGTGCATGGATGAACACT
1 TCACTTCACTCTCACAGCACATGAATGAACACT
* *
1703252 TTAGTTCACT
1 TCACTTCACT
1703262 TAACCGACAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTCACAGCACATGAATGAACACT
Found at i:1704183 original size:13 final size:13
Alignment explanation
Indices: 1704165--1704189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1704155 ACATTATGCT
1704165 TTGTATCGATACA
1 TTGTATCGATACA
1704178 TTGTATCGATAC
1 TTGTATCGATAC
1704190 GTGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1704200 original size:19 final size:20
Alignment explanation
Indices: 1704176--1704231 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1704166 TGTATCGATA
* *
1704176 CATTGTATCGATACGTG-TT
1 CATTGTATCGATACATGCAT
1704195 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATGCAT
*
1704215 AATTGTATCGATACATG
1 CATTGTATCGATACATG
1704232 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:1709832 original size:13 final size:13
Alignment explanation
Indices: 1709814--1709840 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1709804 ACATTCTGCT
1709814 TTGTATTGATACA
1 TTGTATTGATACA
1709827 TTGTATTGATACA
1 TTGTATTGATACA
1709840 T
1 T
1709841 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:1709870 original size:20 final size:19
Alignment explanation
Indices: 1709825--1709872 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1709815 TGTATTGATA
* *
1709825 CATTGTATTGATACATGCT
1 CATTGTATCGATACATACT
1709844 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
1709863 CAATTGTATC
1 C-ATTGTATC
1709873 AATAGATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:1711907 original size:165 final size:165
Alignment explanation
Indices: 1711545--1712139 Score: 716
Period size: 166 Copynumber: 3.6 Consensus size: 165
1711535 CTTAATTCTT
* * * * * *
1711545 AATTTTTAAAATTTATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTA-ATT
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTATTTTTCAAAAA-TACATT
* *** *
1711609 CATTTTCATGAGTTTTTAA-TTTTTTCCTTGAAATTTTTCTTTTTTTGAAATACGGTATTTTCTA
65 CATTTTCATGAGTTTTTAATTTTTTTCCTTGAAATTCTT-TTTTTCCAAAATACGGTATTTTTTA
* ** *
1711673 CTCTATAATTCTTTTG-GGGGATTTTTCTTGGTTTTA
129 CTCTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
* * * * *
1711709 AATTTTTAAAATTCATTAAATATTATCATTTATTTCATAGTAATTTATTTTTCAAAAATACCTTC
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTATTTTTCAAAAATACATTC
* * *
1711774 A-TTTCACGAGTTTTTGAATTTTTTTCCTTGAAATTCTTTTTTTCCAAAATATGGTTTTTTTTAC
66 ATTTTCATGAGTTTTT-AATTTTTTTCCTTGAAATTCTTTTTTTCCAAAATACGGTATTTTTTAC
* *
1711838 TCTGTAATTTTTTTGAGGGGATTTTTAGAGGTTTTC
130 TCTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
* * *
1711874 AATTTTTAAAACTCATCAAACATAATTATTTATTTCATATTAATTTAGTTTTT-AAAAATTCATT
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTA-TTTTTCAAAAATACATT
* ** *
1711938 CATTTTCATGAGTTTTTGAATTTGTTTCCTTGAAATTCCCTTTTTCCAAAATACAGTATTTTTTA
65 CATTTTCATGAGTTTTT-AATTTTTTTCCTTGAAATTCTTTTTTTCCAAAATACGGTATTTTTTA
*
1712003 CTCTATAATTTTTTTCAAGGGGATTTTTCGAGGTTTTC
129 CTCTATAATTTTTTT-GAGGGGATTTTTCGAGGTTTTC
* ** * *
1712041 AATTTCTAAAATTTGTCAAACATCATTATTTATTTCATATTAATTT-TGTTTTCAAAAATTCATT
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAT-TTTTCAAAAATACATT
* * *
1712105 CATCTTCATGAGTTTTTAAATTTTTTCTTTGAAAT
65 CATTTTCATGAGTTTTTAATTTTTTTCCTTGAAAT
1712140 CTCCATTTTC
Statistics
Matches: 372, Mismatches: 50, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
163 15 0.04
164 89 0.24
165 87 0.23
166 93 0.25
167 88 0.24
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (165 bp):
AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTATTTTTCAAAAATACATTC
ATTTTCATGAGTTTTTAATTTTTTTCCTTGAAATTCTTTTTTTCCAAAATACGGTATTTTTTACT
CTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
Found at i:1712002 original size:166 final size:165
Alignment explanation
Indices: 1711545--1712155 Score: 751
Period size: 167 Copynumber: 3.7 Consensus size: 165
1711535 CTTAATTCTT
* * * * * *
1711545 AATTTTTAAAATTTATCAAATATTATTATTTATTTTATATTAAATCAGTTTTCAAAAATTAATTC
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
** *** *
1711610 ATTTTCATGAGTTTTT-AATTTTTTCCTTGAAATTTTTCTTTTTTTGAAATACGGTATTTTCTAC
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAA-TTCCCTTTTTCCAAAATACGGTATTTTTTAC
* ** *
1711674 TCTATAATTCTTTTG-GGGGATTTTTCTTGGTTTTA
130 TCTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
* * * * * * *
1711709 AATTTTTAAAATTCATTAAATATTATCATTTATTTCATAGTAATTTATTTTTCAAAAATACCTTC
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
* ** * *
1711774 A-TTTCACGAGTTTTTGAATTTTTTTCCTTGAAATTCTTTTTTTCCAAAATATGGTTTTTTTTAC
66 ATTTTCATGAGTTTTTGAA-TTTTTTCCTTGAAATTCCCTTTTTCCAAAATACGGTATTTTTTAC
* *
1711838 TCTGTAATTTTTTTGAGGGGATTTTTAGAGGTTTTC
130 TCTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
* * *
1711874 AATTTTTAAAACTCATCAAACATAATTATTTATTTCATATTAATTTAGTTTTTAAAAATTCATTC
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
*
1711939 ATTTTCATGAGTTTTTGAATTTGTTTCCTTGAAATTCCCTTTTTCCAAAATACAGTATTTTTTAC
66 ATTTTCATGAGTTTTTGAATTT-TTTCCTTGAAATTCCCTTTTTCCAAAATACGGTATTTTTTAC
*
1712004 TCTATAATTTTTTTCAAGGGGATTTTTCGAGGTTTTC
130 TCTATAATTTTTTT-GAGGGGATTTTTCGAGGTTTTC
* ** * *
1712041 AATTTCTAAAATTTGTCAAACATCATTATTTATTTCATATTAATTTTGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
* * * * *
1712106 ATCTTCATGAGTTTTTAAATTTTTTCTTTGAAATCTCCATTTTCCCAAAA
66 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAAT-TCCCTTTTTCCAAAA
1712156 AACTGAGTTT
Statistics
Matches: 383, Mismatches: 57, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
163 13 0.03
164 93 0.24
165 89 0.23
166 77 0.20
167 111 0.29
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (165 bp):
AATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCCTTTTTCCAAAATACGGTATTTTTTACT
CTATAATTTTTTTGAGGGGATTTTTCGAGGTTTTC
Found at i:1714207 original size:156 final size:156
Alignment explanation
Indices: 1713922--1714830 Score: 909
Period size: 157 Copynumber: 5.8 Consensus size: 156
1713912 CGTCTATAGT
* * * * *
1713922 CCTTTTTAAGTCCTTTAGGGTTACTAGAATACTTTCACGTTGAAGTTATACCCCTACGAGCATTT
1 CCTTTTTAAGTCCTTTAGGGGTACCAG-ATACTTTCACGTTGAAGGTAT-CCCCTAGGGGCATTT
* * ** ** * *
1713987 TCAT--TTCTTTTCAAAACCGAGTCCTAAGTCATCGCCGGGTCCACTTTTATGTCGAAGGTAGGC
64 TCATAATT-TTTTTAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGGC
1714050 ATTTAGGATAGGTTCATCCCTTTTAAAAC
128 ATTTAGGATAGGTTCATCCCTTTTAAAAC
* * *
1714079 CCTTTTTAAGTCTTTTAGGGGTACCGAGATACTTTCACGTTAAAGGTAT-CCTTAGGGGCATTTT
1 CCTTTTTAAGTCCTTTAGGGGTACC-AGATACTTTCACGTTGAAGGTATCCCCTAGGGGCATTTT
* * *
1714143 CATTATTTTTTTAGAACCGAGTCCTAAGTCATCATCGAGGT-TGCTTTTATGCCAAAGGTAGGCA
65 CATAATTTTTTTAGAACCGAGTCCTAAGTCATCATCG-GGTCTGCTTTTATGCCGAAGGTGGGCA
*
1714207 TTTAGGATAGGTTCATCCCTTTTAAAAT
129 TTTAGGATAGGTTCATCCCTTTTAAAAC
* * *
1714235 CCTTTTTAAGTCCTTTA-GGGTACCGAGATACTTTCACGTCGAAGGTATCCCATAGGGGTATTTT
1 CCTTTTTAAGTCCTTTAGGGGTACC-AGATACTTTCACGTTGAAGGTATCCCCTAGGGGCATTTT
* * * * * * ** **
1714299 TATAATTTTTTTTGGAACCAAGTCTTACGTCATCATCGGGGCTATTTTTATGTTGAAGGTGGGCA
65 CATAA-TTTTTTTAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGGCA
*
1714364 TTTAAGATAGGTTCATCCCTTTTAAAAC
129 TTTAGGATAGGTTCATCCCTTTTAAAAC
* * *
1714392 CCTTTTTAAGTCCTTTAGGGGTACCAGAATACTTTCATGTTGAAGGTATCCCCTAGGTGTATTTT
1 CCTTTTTAAGTCCTTTAGGGGTACCAG-ATACTTTCACGTTGAAGGTATCCCCTAGGGGCATTTT
* * * * * *
1714457 CATAATTTTTTCTAGAACCAACTCTTAGGTCATCACCGGGTCTGTTTTTATGCCGAAGGTGGGCA
65 CATAATTTTTT-TAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGGCA
* * * ** *
1714522 TTTAGAAGAGGTTCATCCCATTT-CTAG
129 TTTAGGATAGGTTCATCCCTTTTAAAAC
* * *
1714549 CCTTTTTAAGTCCTTTAGGGGTATCAGGATACTTTCACATCGAAGGTATCCCCTAGGGGCATTTT
1 CCTTTTTAAGTCCTTTAGGGGTACCA-GATACTTTCACGTTGAAGGTATCCCCTAGGGGCATTTT
* * ** ** *
1714614 CATAATTTTTCCTAGAACCGAGTCCTAGGTTGTCATCGAATCCGCTTTTATGCCGAAGGTGGGCA
65 CATAATTTTT-TTAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGGCA
* * *
1714679 TTTAGGATAGGTTCATCGCATTTT--TAG
129 TTTAGGATAGGTTCATC-CCTTTTAAAAC
* * * * * * * * * *
1714706 TCTTTTTAAGTCCTTTAAGGTTGCCAGGATACTTTTACATCGAAGGTATATCCATAGGGACATTT
1 CCTTTTTAAGTCCTTTAGGGGTACCA-GATACTTTCACGTTGAAGGTAT-CCCCTAGGGGCATTT
* * * * ** * *
1714771 TCAT-ACTTTTTTAGAACCGAGGCTTAGGTTGTCACCGGGTTTGCTTTTATGCCGAAGGTG
64 TCATAATTTTTTTAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTG
1714831 TTCATCGCAT
Statistics
Matches: 642, Mismatches: 96, Indels: 29
0.84 0.13 0.04
Matches are distributed among these distances:
155 44 0.07
156 148 0.23
157 319 0.50
158 131 0.20
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (156 bp):
CCTTTTTAAGTCCTTTAGGGGTACCAGATACTTTCACGTTGAAGGTATCCCCTAGGGGCATTTTC
ATAATTTTTTTAGAACCGAGTCCTAAGTCATCATCGGGTCTGCTTTTATGCCGAAGGTGGGCATT
TAGGATAGGTTCATCCCTTTTAAAAC
Found at i:1714943 original size:141 final size:141
Alignment explanation
Indices: 1714689--1714964 Score: 408
Period size: 141 Copynumber: 2.0 Consensus size: 141
1714679 TTTAGGATAG
*
1714689 GTTCATCGCATTTTTAGTCTTTTTAAGTCCTTTAAGGTTGCCAGGATACTTTTACATCGAAGGTA
1 GTTCATCGCATTTCTAGTCTTTTTAAGTCCTTTAAGGTTGCCAGGATACTTTTACATCGAAGGTA
* * * * * * * *
1714754 TATCCATAGGGACATTTTCATACTTTTTTAGAACCGAGGCTTAGGTTGTCACCGGGTTTGCTTTT
66 TACCCATAGAGACATTTTCATACTTTCTTAAAACCAAGGCCTAGGTTGTCACCAGGTTCGCTTTT
1714819 ATGCCGAAGGT
131 ATGCCGAAGGT
* ** *
1714830 GTTCATCGCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCTGGGGTACTTTTACATCGAAGGTA
1 GTTCATCGCATTTCTAGTCTTTTTAAGTCCTTTAAGGTTGCCAGGATACTTTTACATCGAAGGTA
* * *
1714895 TACCCATAGAGTCATTTTTATACTTTCTTAAAACCAAGTCCTAGGTTGTCACCAGGTTCGCTTTT
66 TACCCATAGAGACATTTTCATACTTTCTTAAAACCAAGGCCTAGGTTGTCACCAGGTTCGCTTTT
1714960 ATGCC
131 ATGCC
1714965 ATTGAGGGTA
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
141 119 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (141 bp):
GTTCATCGCATTTCTAGTCTTTTTAAGTCCTTTAAGGTTGCCAGGATACTTTTACATCGAAGGTA
TACCCATAGAGACATTTTCATACTTTCTTAAAACCAAGGCCTAGGTTGTCACCAGGTTCGCTTTT
ATGCCGAAGGT
Found at i:1721467 original size:12 final size:12
Alignment explanation
Indices: 1721450--1721480 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1721440 TCGAGTGACA
1721450 ATTAGTCATAGG
1 ATTAGTCATAGG
1721462 ATTAGTCATAGG
1 ATTAGTCATAGG
*
1721474 AGTAGTC
1 ATTAGTC
1721481 GTATGCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (12 bp):
ATTAGTCATAGG
Found at i:1727603 original size:13 final size:13
Alignment explanation
Indices: 1727585--1727622 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1727575 AATATTTTTA
1727585 GTATCGATACATT
1 GTATCGATACATT
*
1727598 GTATCGATACACT
1 GTATCGATACATT
1727611 GTATCGATACAT
1 GTATCGATACAT
1727623 GGGCACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1728816 original size:3 final size:3
Alignment explanation
Indices: 1728808--1728836 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1728798 AATTTCTTGC
1728808 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1728837 TTCCTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:1732454 original size:91 final size:91
Alignment explanation
Indices: 1732298--1732506 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
1732288 TTTTAACTAG
*** * * * *
1732298 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACATAATGTATAGATACAT
1 ATGTATCGATACATTAAAAAATGTATCCATACATCTGGGAAAAAAGACAGAATGTATAGACACAT
*
1732363 TGAAGTATATATCAATACATTCATAC
66 TGAAGAATATATCAATACATTCATAC
* * *
1732389 GTGTATCGATACATTAAAAAATGTATCCATACATCTGGGAAAAAAGATAGAATGTATCGACACAT
1 ATGTATCGATACATTAAAAAATGTATCCATACATCTGGGAAAAAAGACAGAATGTATAGACACAT
* *
1732454 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATATATCAATACATTCATAC
*
1732480 ATGTATCGATACATTGAAAAATGTATC
1 ATGTATCGATACATTAAAAAATGTATC
1732507 GATAAATTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 103 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (91 bp):
ATGTATCGATACATTAAAAAATGTATCCATACATCTGGGAAAAAAGACAGAATGTATAGACACAT
TGAAGAATATATCAATACATTCATAC
Found at i:1732462 original size:20 final size:20
Alignment explanation
Indices: 1732437--1732510 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
1732427 GAAAAAAGAT
*
1732437 AGAATGTATCGACACATTGA
1 AGAATGTATCGATACATTGA
*
1732457 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
1732477 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1732497 AAAATGTATCGATA
1 AGAATGTATCGATA
1732511 AATTTGGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1734440 original size:20 final size:20
Alignment explanation
Indices: 1734417--1734469 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1734407 TATTTTATGG
*
1734417 TGTATCGATAGAAAGCAATT
1 TGTATCGATACAAAGCAATT
* **
1734437 TGTATCGACACTTAGCAATT
1 TGTATCGATACAAAGCAATT
1734457 TGTATCGATACAA
1 TGTATCGATACAA
1734470 TGTATCGACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATT
Found at i:1734479 original size:33 final size:33
Alignment explanation
Indices: 1734437--1734501 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1734427 GAAAGCAATT
* *
1734437 TGTATCGACACTTAGCAATTTGTATCGATACAA
1 TGTATCGACACTAAGCAATTTGTATCAATACAA
1734470 TGTATCGACACTAAGCAATTTGTATCAATACA
1 TGTATCGACACTAAGCAATTTGTATCAATACA
1734502 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGACACTAAGCAATTTGTATCAATACAA
Found at i:1734495 original size:20 final size:20
Alignment explanation
Indices: 1734429--1734495 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
1734419 TATCGATAGA
1734429 AAGCAATTTGTATCGACACT
1 AAGCAATTTGTATCGACACT
*
1734449 TAGCAATTTGTATCG--A-T
1 AAGCAATTTGTATCGACACT
1734466 -A-CAA--TGTATCGACACT
1 AAGCAATTTGTATCGACACT
1734482 AAGCAATTTGTATC
1 AAGCAATTTGTATC
1734496 AATACATCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 7 0.18
15 4 0.10
16 2 0.05
17 2 0.05
18 4 0.10
20 20 0.51
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGCAATTTGTATCGACACT
Done.