Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 13 of 14
Found at i:1873824 original size:32 final size:33
Alignment explanation
Indices: 1873782--1873845 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1873772 ACAAAACTTA
*
1873782 TGTATTGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
1873814 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
1873846 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:1876127 original size:79 final size:79
Alignment explanation
Indices: 1875985--1876162 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 79
1875975 AGGTAACAAT
* * ** * * *
1875985 GGGGCTGGAGTATCCTCGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGGGATTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTTAAAAATAAAATCGGGATTGAAGTATC
1876050 CCCGC-GAAAATAAC
66 CCCGCAG-AAATAAC
* * *
1876064 GGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAAAAATAAAGTCGGGGTTGAAGTAT
1 GGGGTTGGAGTATCCCCGATTATAGA-AAATCAATATTTTAAAAATAAAATCGGGATTGAAGTAT
* *
1876128 CCCCTCAGAAATAAT
65 CCCCGCAGAAATAAC
*
1876143 GAGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
1876163 GAAATAACGG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.02
79 81 0.96
80 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTTAAAAATAAAATCGGGATTGAAGTATC
CCCGCAGAAATAAC
Found at i:1876166 original size:28 final size:28
Alignment explanation
Indices: 1876117--1876190 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
1876107 ATAAAGTCGG
* * *
1876117 GGTTGAAGTATCCCCTCA-GAAATAATGA
1 GGTTGGAGTATCCCC-GATGAAATAACGA
*
1876145 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTGGAGTATCCCCGATGAAATAACGA
* *
1876173 GGTTGGAATATCTCCGAT
1 GGTTGGAGTATCCCCGAT
1876191 TGTGAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACGA
Found at i:1876233 original size:107 final size:107
Alignment explanation
Indices: 1876040--1876238 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 107
1876030 AAAATCGGGA
* *
1876040 TTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAA
1 TTGGAGTATCCCCGCGAAAATAACGGGGTTGGAATATCCCCGATTGTGAAAAATCAATATTTTAA
* * *
1876105 AAATAAAGTCGGGGTTGAAGTATCCCCTCAGAAATAATGAGG
66 AAATAAAGTCAGAGTTAAAGTATCCCCTCAGAAATAATGAGG
* * ** * *
1876147 TTGGAGTATCCCCGATG-AAATAACGGGGTTGGAATATCTCCGATTGTGAAAAATTGATGTTTTG
1 TTGGAGTATCCCCG-CGAAAATAACGGGGTTGGAATATCCCCGATTGTGAAAAATCAATATTTTA
** *
1876211 GCAATAAGGTCAGAGTTAAAGTATCCCC
65 AAAATAAAGTCAGAGTTAAAGTATCCCC
1876239 GATTATGGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 76 0.99
108 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (107 bp):
TTGGAGTATCCCCGCGAAAATAACGGGGTTGGAATATCCCCGATTGTGAAAAATCAATATTTTAA
AAATAAAGTCAGAGTTAAAGTATCCCCTCAGAAATAATGAGG
Found at i:1876364 original size:51 final size:51
Alignment explanation
Indices: 1876300--1876419 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
1876290 TTGGAAATAA
** * *
1876300 CGGGGTTAAAGTATCCCCGA-TGATGGAAAATCGATGTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTG-TGAAAAATCGATGTTTTAGAAATAAAAC
*
1876351 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAC
* *
1876402 CAGGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1876420 TTGGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 59 0.97
52 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:1876381 original size:130 final size:130
Alignment explanation
Indices: 1876142--1876498 Score: 461
Period size: 130 Copynumber: 2.7 Consensus size: 130
1876132 TCAGAAATAA
* * *
1876142 TGAGGTTGGAGTATCCCCGAT-GAAATAACGGGGTTGGAA-TATCTCCGATTG-TGAAAAATTGA
1 TGAGGTTGGAGTATCCCC-TTGGAAATAACGGGGTT-GAAGTATCCCCGA-TGATGGAAAATTGA
* *** * * ** *
1876204 TGTTTTGGCAATAAGGTCAGAGTTAAAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAA
63 TGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
1876269 AAC
128 AAC
* *
1876272 TGAGGTTGGAGTATCCCCTTGGAAATAACGGGGTTAAAGTATCCCCGATGATGGAAAATCGATGT
1 TGAGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGAAGTATCCCCGATGATGGAAAATTGATGT
*
1876337 TTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAAC
66 TTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
1876402 -CAGGATTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTG
1 TGAGG-TTGGAGTATCCCCTTGGAAATAACGGGGTTGAAGTATCCCCGATGATGGAAAATTGATG
* *
1876466 TTTTGAAAATAAAACTGGGGTTGGAGTATCCCC
65 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1876499 TCAGAAATAA
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
129 8 0.04
130 192 0.96
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (130 bp):
TGAGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGAAGTATCCCCGATGATGGAAAATTGATGT
TTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:1876434 original size:79 final size:78
Alignment explanation
Indices: 1876351--1876558 Score: 290
Period size: 79 Copynumber: 2.6 Consensus size: 78
1876341 GAAATAAAAC
*
1876351 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCAGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAATAAAACCAGGATTGGAGTAT
**
1876416 CCCCTTGGAAATAA
65 CCCCTCAGAAATAA
* * ** *
1876430 CGGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG-AAATAAAACCAGGATTGGAGTAT
1876495 CCCCTCAGAAATAA
65 CCCCTCAGAAATAA
* * *
1876509 CGGGGCTGGAGTATCCCCGATTGTAAAAAATTGGTATTTTGGAAATAAAA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAATAAAA
1876559 ACATGAATGA
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 112 0.98
80 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCAGGATTGGAGTATC
CCCTCAGAAATAA
Found at i:1879007 original size:20 final size:20
Alignment explanation
Indices: 1878913--1879006 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
1878903 AAAATGCCTG
* * *
1878913 AATGTATTGATACATTGTAG
1 AATGTATCGATACATTGCAA
1878933 AATGTATCGATACATTGCAA
1 AATGTATCGATACATTGCAA
*
1878953 AATATATCGATACATTGCAA
1 AATGTATCGATACATTGCAA
*
1878973 AATGTATCGATACAATG-AA
1 AATGTATCGATACATTGCAA
1878992 CAATGTATCGATACA
1 -AATGTATCGATACA
1879007 AATTGTGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 2 0.03
20 65 0.97
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:1879513 original size:148 final size:148
Alignment explanation
Indices: 1879242--1879551 Score: 444
Period size: 148 Copynumber: 2.1 Consensus size: 148
1879232 AGGTGTCTAC
* * *
1879242 AAAAATGAATGAATTTTTTAAAACTGATTTAATATGAATCAAATGATAATATTTGATGAATTTAA
1 AAAAATGAATGAATTTTTTAAAACTAATTTAATATGAATCAAATGACAATATTTGATAAATTTAA
* *
1879307 AAAATTTTAAATTGATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTTCGTATTTCGAA
66 AAAATTTTAAATCGATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCCGTATTTCG-A
** *
1879372 AACATGAAGAATTCTAAGG
130 AACAAAAAGAAGTCTAAGG
* * *
1879391 AAAAATGATTGAA-TTTTTAAAACTAATTTAATGTGAATCAAATGACAGTATTTGATAAATTTTA
1 AAAAATGAATGAATTTTTTAAAACTAATTTAATATGAATCAAATGACAATATTTGATAAA-TTTA
* * *
1879455 AAAAA-TTTAAATCGATGAAAATCCTCCCGAAAAAATTTACGGAGAAGAAAACTCCGTATTTTGA
65 AAAAATTTTAAATCGATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCCGTATTTCGA
*
1879519 AACAAAAAGAAGTCTAGGG
130 AACAAAAAGAAGTCTAAGG
1879538 AAAATATGAATGAA
1 AAAA-ATGAATGAA
1879552 AATGAATGAA
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
147 20 0.14
148 102 0.71
149 21 0.15
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (148 bp):
AAAAATGAATGAATTTTTTAAAACTAATTTAATATGAATCAAATGACAATATTTGATAAATTTAA
AAAATTTTAAATCGATGAAAATCCTCCCAAAAAAATTTACAGAGAAGAAAACTCCGTATTTCGAA
ACAAAAAGAAGTCTAAGG
Found at i:1881123 original size:22 final size:22
Alignment explanation
Indices: 1881083--1881149 Score: 127
Period size: 22 Copynumber: 3.1 Consensus size: 22
1881073 TTTTATAAAA
1881083 TTAAAAAATTAAAAT-TAATTT
1 TTAAAAAATTAAAATATAATTT
1881104 TTAAAAAATTAAAATATAATTT
1 TTAAAAAATTAAAATATAATTT
1881126 TTAAAAAATTAAAATATAATTT
1 TTAAAAAATTAAAATATAATTT
1881148 TT
1 TT
1881150 TTTAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 15 0.33
22 30 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATTAAAATATAATTT
Found at i:1881129 original size:29 final size:30
Alignment explanation
Indices: 1881066--1881129 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
1881056 TTTTGTTTCC
*
1881066 TTTTT-ATTTTTATAAAATTAAAAAATTAA
1 TTTTTAATTTTTAAAAAATTAAAAAATTAA
** *
1881095 -AATTAATTTTTAAAAAATTAAAATA-TAA
1 TTTTTAATTTTTAAAAAATTAAAAAATTAA
1881123 TTTTTAA
1 TTTTTAA
1881130 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTTTAATTTTTAAAAAATTAAAAAATTAA
Found at i:1881189 original size:10 final size:10
Alignment explanation
Indices: 1881174--1881200 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1881164 ATCTAAAAAT
1881174 AATTTTATAA
1 AATTTTATAA
1881184 AATTTTATAA
1 AATTTTATAA
1881194 AATTTTA
1 AATTTTA
1881201 AAATTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTATAA
Found at i:1881239 original size:21 final size:22
Alignment explanation
Indices: 1881196--1881244 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
1881186 TTTTATAAAA
1881196 TTTTAAAATTATTTCTTTATTT
1 TTTTAAAATTATTTCTTTATTT
*
1881218 TTTTAAAATT-TTGT-TTTCTTT
1 TTTTAAAATTATT-TCTTTATTT
1881239 TTTTAA
1 TTTTAA
1881245 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTAAAATTATTTCTTTATTT
Found at i:1881330 original size:18 final size:19
Alignment explanation
Indices: 1881307--1881344 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1881297 TCTAAAATTC
* *
1881307 AAAATTCCA-ATTTTGTAA
1 AAAATTACATATTTTATAA
1881325 AAAATTACATATTTTATAA
1 AAAATTACATATTTTATAA
1881344 A
1 A
1881345 TTTATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATTACATATTTTATAA
Found at i:1885880 original size:48 final size:47
Alignment explanation
Indices: 1885763--1886551 Score: 645
Period size: 48 Copynumber: 17.0 Consensus size: 47
1885753 TAAGAATGTT
* ** * * *
1885763 AAAGATGCCAATACACTAATTCAAGGCCAACGAT-TTCGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAAG
* *
1885810 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1885859 ACAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTT----
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * * * *
1885903 --A--TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAGAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1885946 ACAAGGTGCCAATATGTTGATTCAAGACCAGCGATATTGGGCTT----
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1885990 ----GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* *
1886033 ACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGG
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AA-A--G
* * *
1886085 TAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAG
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* *
1886133 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1886182 ACAAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTT----
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * * *
1886226 --A--TGCCAATGTGCTGATTCAAGGCCAGCGATATTAGACTCAAGATGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA-A--G
* * * *
1886272 TAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATAATAGACTT----
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * * *
1886316 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTGAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1886363 ATAAACGTGCCAATATGTTGATTCAAGGCTAGCGATATTGGTCTTAAAG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* *
1886412 ACAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGTCTTAAAG
1 A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1886460 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATCGATCTT----
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
* * *
1886505 AAAGGAGCCAATATACTGATTCAAGGCCAGCGATATTGATCTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
1886552 GTGCCACGGA
Statistics
Matches: 598, Mismatches: 91, Indels: 106
0.75 0.11 0.13
Matches are distributed among these distances:
39 96 0.16
41 2 0.00
43 74 0.12
46 1 0.00
47 3 0.01
48 183 0.31
49 158 0.26
50 5 0.01
51 36 0.06
52 39 0.07
53 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (47 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
Found at i:1885937 original size:39 final size:39
Alignment explanation
Indices: 1885865--1885942 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
1885855 AAAGACAAGG
* * ** *
1885865 TGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTA
1 TGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTA
* *
1885904 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTA
1 TGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTA
1885943 GAGACAAGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
TGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTA
Found at i:1885967 original size:87 final size:87
Alignment explanation
Indices: 1885817--1886077 Score: 441
Period size: 87 Copynumber: 3.0 Consensus size: 87
1885807 AAGATGAAGG
1885817 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
1885882 AAGGCTAGTGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * * *
1885904 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* * *
1885969 AAGACCAGCGATATTGGGCTTG
66 AAGGCTAGCGATATTGGGCTTA
*
1885991 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1886056 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
1886078 AAGATGGTAA
Statistics
Matches: 158, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCTAGCGATATTGGGCTTA
Found at i:1886134 original size:323 final size:326
Alignment explanation
Indices: 1885745--1886492 Score: 1039
Period size: 323 Copynumber: 2.3 Consensus size: 326
1885735 GGCCAGCAAA
* *** *
1885745 ATTGGGCTT-AAGAATGTTAAAGATGCCAATACACTAATTCAAGGCCAACGAT-TTCGGACTTAA
1 ATTGGGCTTAAAG-ATG-TAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATT-GGACTTAA
1885808 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA
63 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA
* * ** *
1885873 TGCTGATTCAAGGCTAGTGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAGCAACATTGG
128 TGCTAATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAGCAACATTAG
* * * * * *
1885938 TCT-TAGA-G-ACAAGGTGCCAATATGTTGATTCAAGACCAGCGATATTGGGCTT-GTGCCAATG
193 ACTCAAGAGGTA-AAGGTGCCAATATGCTGATTCAAGACCAGCGATAATAGACTTAGTGCCAATG
** * * *
1885999 TGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCTA
257 TGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCTGATTCAAGGCTA
1886063 GCGAT
322 GCGAT
1886068 ATTGGGCTTAAAGATGGTAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAG
1 ATTGGGCTTAAAGAT-GTAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAG
1886133 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATG
65 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATG
* * *
1886198 CTAATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGATATTAGAC
130 CTAATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAGCAACATTAGAC
* *
1886263 TCAAGATGGTAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATAATAGACTTAAAGGTGCCAAT
195 TCAAGA-GGTAAAGGTGCCAATATGCTGATTCAAGACCAGCGATAATAGACTT--A-GTGCCAAT
*
1886328 GTGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGTTGATTCAAGGCT
256 GTGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCTGATTCAAGGCT
1886393 AGCGAT
321 AGCGAT
* * ** *
1886399 ATTGGTCTTAAAGA---CAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGTCTTAAAGA
1 ATTGGGCTTAAAGATGTAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGA
* *
1886461 TAAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
1886493 AATATCGATC
Statistics
Matches: 379, Mismatches: 34, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
323 173 0.46
324 9 0.02
326 37 0.10
327 75 0.20
330 41 0.11
331 44 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (326 bp):
ATTGGGCTTAAAGATGTAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGA
TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGC
TAATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAGCAACATTAGACT
CAAGAGGTAAAGGTGCCAATATGCTGATTCAAGACCAGCGATAATAGACTTAGTGCCAATGTGCT
GATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCTGATTCAAGGCTAGCGA
T
Found at i:1886159 original size:236 final size:229
Alignment explanation
Indices: 1885904--1886456 Score: 691
Period size: 230 Copynumber: 2.4 Consensus size: 229
1885894 ATTGGGCTTA
* * *
1885904 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
* * * * * *
1885969 AAGACCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAA-A-
66 AAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAGAG
*
1886032 G-ACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGA-TGGTAAAGGTGCC
131 GTA-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATA--------AAAGACT--TAAAGGTGCC
* * * * * *
1886095 AATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
185 AATATGCTGATTCAAGGCCAACAACATTGGACTGAAAGATAAACG
* *
1886140 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
* *
1886205 AAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGATATTAGACTCAAGAT
66 AAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAGA-
* * *
1886270 GGTAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATAATAGACTTAAAGGTGCCAATGTGCTGA
130 GGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAAAAGACTTAAAGGTGCCAATATGCTGA
* *
1886335 TTCAAGGCCAGCAACATTGGTCTGAAAGATAAACG
195 TTCAAGGCCAACAACATTGGACTGAAAGATAAACG
* * * *
1886370 TGCCAATATGTTGATTCAAGGCTAGCGATATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
* *
1886435 AAGGCCAGTGATATTGGTCTTA
66 AAGGCCAGCGATATTGGGCTTA
1886457 AAGATAAAGG
Statistics
Matches: 278, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
230 124 0.45
231 4 0.01
232 1 0.00
236 114 0.41
237 1 0.00
239 33 0.12
240 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (229 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
AAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAGAG
GTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAAAAGACTTAAAGGTGCCAATATGCTGAT
TCAAGGCCAACAACATTGGACTGAAAGATAAACG
Found at i:1886320 original size:43 final size:43
Alignment explanation
Indices: 1886272--1886557 Score: 198
Period size: 43 Copynumber: 6.3 Consensus size: 43
1886262 CTCAAGATGG
* *
1886272 TAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATAATAGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGACT
* * * * *
1886315 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGACT
* * * * *
1886358 GAAAGATAAACGTGCCAATATGTTGATTCAAGGCTAGCGATATTGGTCT
1 ------TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGACT
* * * *
1886407 TAAAGACAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGTCTT
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGAC-T
* *
1886456 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAAT-ATCGATCT
1 -----TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGA-CT
* * *
1886504 TAAAGGAGCCAATATACTGATTCAAGGCCAGCGAT-ATTGATCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGA-CT
1886547 TAAAGGTGCCA
1 TAAAGGTGCCA
1886558 CGGAGTTGTG
Statistics
Matches: 198, Mismatches: 27, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
43 86 0.43
47 1 0.01
48 40 0.20
49 69 0.35
50 1 0.01
54 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGACT
Found at i:1886452 original size:97 final size:97
Alignment explanation
Indices: 1886317--1886535 Score: 277
Period size: 97 Copynumber: 2.3 Consensus size: 97
1886307 AATAGACTTA
* *
1886317 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGTT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCT
* * * *
1886382 GATTCAAGGCTAGCGATATTGGTCTTAAAGAC
66 GATTCAAGGCCAGCAATATCGATCTTAAAGAC
* ** * * *
1886414 AAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGTCTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCT
1886479 GATTCAAGGCCAGCAATATCGATCTT----A-
66 GATTCAAGGCCAGCAATATCGATCTTAAAGAC
* *
1886506 AAGGAGCCAATATACTGATTCAAGGCCAGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGC
1886536 GATATTGATC
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 26 0.25
93 1 0.01
97 79 0.75
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (97 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACGTGCCAATATGCT
GATTCAAGGCCAGCAATATCGATCTTAAAGAC
Found at i:1886491 original size:49 final size:49
Alignment explanation
Indices: 1886227--1886551 Score: 316
Period size: 49 Copynumber: 6.9 Consensus size: 49
1886217 ATTGGGCTTA
* * * * *
1886227 TGCCAATGTGCTGATTCAAGGCCAGCGATATTAGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA-A-GATAAAGG
* * * *
1886278 TGCTAATATGCTGATTCAAGGCCAGCGATAATAGAC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
* * * * *
1886321 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTGAAAGATAAACG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
* * *
1886370 TGCCAATATGTTGATTCAAGGCTAGCGATATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
* *
1886418 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
* * *
1886467 TGCCAATATGCTGATTCAAGGCCAGCAATATCGATC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
* * *
1886510 AGCCAATATACTGATTCAAGGCCAGCGATATTGATCTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
1886552 GTGCCACGGA
Statistics
Matches: 229, Mismatches: 33, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
43 73 0.32
44 1 0.00
48 45 0.20
49 77 0.34
51 33 0.14
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAGG
Found at i:1886495 original size:22 final size:21
Alignment explanation
Indices: 1886470--1886544 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
1886460 ATAAAGGTGC
1886470 CAATATGCTGATTCAAGGCCAG
1 CAATAT-CTGATTCAAGGCCAG
*
1886492 CAATATC-GATCTTAAAGG--AG
1 CAATATCTGA--TTCAAGGCCAG
1886512 CCAATATACTGATTCAAGGCCAG
1 -CAATAT-CTGATTCAAGGCCAG
*
1886535 CGATAT-TGAT
1 CAATATCTGAT
1886545 CTTAAAGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
20 8 0.19
21 13 0.30
22 18 0.42
23 4 0.09
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (21 bp):
CAATATCTGATTCAAGGCCAG
Found at i:1886530 original size:21 final size:20
Alignment explanation
Indices: 1886463--1886530 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1886453 CTTAAAGATA
*
1886463 AAGGTGCCAATATGCTGATTC
1 AAGGAGCCAATAT-CTGATTC
*
1886484 AAGGCCAG-CAATATC-GATCTTA
1 AAGG--AGCCAATATCTGA--TTC
1886506 AAGGAGCCAATATACTGATTC
1 AAGGAGCCAATAT-CTGATTC
1886527 AAGG
1 AAGG
1886531 CCAGCGATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 4 0.11
21 17 0.46
22 13 0.35
23 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (20 bp):
AAGGAGCCAATATCTGATTC
Found at i:1886766 original size:33 final size:33
Alignment explanation
Indices: 1886548--1886780 Score: 183
Period size: 33 Copynumber: 6.9 Consensus size: 33
1886538 TATTGATCTT
* *
1886548 AAAGGTGCCACGGAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
* *
1886580 AAATGGATGCCACGGAGGTGTCGG-CTTAAAAGCGAA
1 AAA-GG-TGCCACGGAGTTAT-GGACTTAAAAG-GAA
*
1886616 AAGGGTGCCA-GGAAGGTCGGTA-GG-CTTAAAAGGGAA
1 AAAGGTGCCACGG-A-GT---TATGGACTTAAAA-GGAA
* * *
1886652 AAGGGTGCCACGGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
1886684 AAAGGTGCCACGGAG-TAGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTA-TGGACTTAAAAGGAA
* * ** *
1886717 CAAGGTGTCATAGAGTTATAGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
* *
1886750 AAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAGGTGCCACGGAGTTATGGACTTAAAAGG
1886781 GTGCCACGGA
Statistics
Matches: 162, Mismatches: 22, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
31 1 0.01
32 31 0.19
33 57 0.35
34 31 0.19
35 10 0.06
36 28 0.17
37 3 0.02
38 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
Found at i:1886894 original size:95 final size:94
Alignment explanation
Indices: 1886752--1888016 Score: 1266
Period size: 95 Copynumber: 13.4 Consensus size: 94
1886742 AAAAGGAAAA
* * * * *
1886752 AGATGCCACGGAGTTGTGGAC-TT-AA-AAG-GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTG--AAGAAAA
* *
1886813 AAATGCCACAGAGTCGTGGACTTTG-GGAAG
64 AGATGCCACAGAGTCGTGGACTTTGAAGAAG
* *
1886843 AGATGCCACTGAGTCGTGGACTTTG-AGAAGAGATTGCCACTGAGTCGTGGACTTTG--GGAAGA
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAA
1886905 GATGCCACTA-AGTCGTGGACTTTG-AGAAG
65 GATGCCAC-AGAGTCGTGGACTTTGAAGAAG
* * *
1886934 AGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATACCACTGAGTCGTGGACTTTG-GGAAAAG
1 AGA-TGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-
* *
1886998 AGATGCCACTA-ACTTGTGGACTTTGAAGAAG
64 AGATGCCAC-AGAGTCGTGGACTTTGAAGAAG
* *
1887029 AGATGCCACTGAGTCGTGGACTTTGGGAA-AAGAGATGCCACTGAGTTGTGGACTTTG-GGCAAA
1 AGATGCCACTGAGTCGTGGACTTT--GAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG-AAA
* * *
1887092 GAGATGCCACTA-ACTTGTGGACTTTGAAGAAG
63 AAGATGCCAC-AGAGTCGTGGACTTTGAAGAAG
* *
1887124 AGATGCCACTGAGTCGTGGACTTTGGGAA-AAGAGATGCCACTGAGTTGTGGACTTTGAAG-AAG
1 AGATGCCACTGAGTCGTGGACTTT--GAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
*
1887187 AGATTACCACTA-AGTCGTGGACTTTGGGAA-AAG
64 AGA-TGCCAC-AGAGTCGTGGACTTT--GAAGAAG
* * * *
1887220 ATATGCCACTGAGTTGTGGACTTTGAAGAAGAGATTGGCACTGAGTCGTGGACTTTG-GGAAAAA
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAG-AAAA
*
1887284 AGATGCCA-ATGAGTTGTGGACTTTGAAGAAG
64 AGATGCCACA-GAGTCGTGGACTTTGAAGAAG
* * *
1887315 AGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTG-GGAAAAG
1 AGA-TGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA-
* ** *
1887379 AGATGCCACTGAGTTATGGACTTTGAAAAAG
64 AGATGCCACAGAGTCGTGGACTTTGAAGAAG
* ** *
1887410 AGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAAAGTTGTGGACTTTGAAG-AAAA
1 AGA-TGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAA
*
1887474 GATTGCCACTGAGTCGTGGACTTTTGGAA-AAG
65 GA-TGCCACAGAGTCGTGGAC-TTT-GAAGAAG
* * * *
1887506 AGATGCCACTAAGTTGTAGACTTTGAAGAAGAGATTGCCACTGAGTCGTGGACTTTG-GGAAAAG
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAA-
* *
1887570 AGATGCCACTGAGTTGTGGAC--TGAAGAAG
64 AGATGCCACAGAGTCGTGGACTTTGAAGAAG
* *
1887599 AGATTGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAAG-AAAA
1 AGA-TGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAA
* *
1887663 GATGCCACTGAGTTGTGGACTTTAGGAA-AAG
65 GATGCCACAGAGTCGTGGACTTT--GAAGAAG
* * * *
1887694 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGATTGCCACAGAGTTGTGGTCTTTGAAG-AAGA
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAA
*
1887758 GATTGCCACTA-AGTCGTGGACTTTGAAGAAA
65 GA-TGCCAC-AGAGTCGTGGACTTTGAAGAAG
* ** * * * *
1887789 AGATTGCCACTGAGTCATGGACTTTGGCGAAAGAGATGCCACTGAGTTGTAGACTTTAAAG-AAG
1 AGA-TGCCACTGAGTCGTGGACTTTGAAG-AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
* *
1887853 AGATTGCCACTGAGTCATGGACTTTGGGAA-AAG
64 AGA-TGCCACAGAGTCGTGGACTTT--GAAGAAG
* * *
1887886 AGATGCCATTGAGTTGTGGACTTTGAAGAAGAGATTGCCACTGAGTCATGGACTTTGAAG-AAAA
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAA
* *
1887950 GATGCCACAGAGTCGTGGACTTTGAGAAAAT
65 GATGCCACAGAGTCGTGGACTTTGA-AGAAG
* ** *
1887981 AGATGCCATTGAGTTATGGACTTTGAGAAAAGAGAT
1 AGATGCCACTGAGTCGTGGACTTTGA-AGAAGAGAT
1888017 TTGAAGAATT
Statistics
Matches: 1024, Mismatches: 95, Indels: 106
0.84 0.08 0.09
Matches are distributed among these distances:
91 51 0.05
92 71 0.07
93 47 0.05
94 126 0.12
95 413 0.40
96 288 0.28
97 25 0.02
98 3 0.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (94 bp):
AGATGCCACTGAGTCGTGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAG
ATGCCACAGAGTCGTGGACTTTGAAGAAG
Found at i:1887017 original size:32 final size:30
Alignment explanation
Indices: 1886747--1888016 Score: 1274
Period size: 32 Copynumber: 40.3 Consensus size: 30
1886737 GACTTAAAAG
* *
1886747 GAAAA-AGATGCCACGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* * *
1886775 -AAAAG-GGTGCCACGGAGTTGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
1886803 GAAAAGAAAAAAATGCCACAGAGTCGTGGACTTT
1 GAAAAG----AGATGCCACTGAGTCGTGGACTTT
**
1886837 GGGAAGAGATGCCACTGAGTCGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
1886867 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGACTTT
** *
1886898 GGGAAGAGATGCCACTAAGTCGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
1886928 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1886959 GAAGAAAAGATACCACTGAGTCGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
* * *
1886990 GGGAAAAGAGATGCCACTAACTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887022 GAAGAAGAGATGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
*
1887053 GGGAAAAGAGATGCCACTGAGTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
* * * *
1887085 GGGCAAAGAGATGCCACTAACTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887117 GAAGAAGAGATGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
*
1887148 GGGAAAAGAGATGCCACTGAGTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
1887180 GAAGAAGAGATTACCACTAAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887212 GGGAAAAGATATGCCACTGAGTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
1887244 GAAGAAGAGATTGGCACTGAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* * *
1887276 GGGAAAAAAGATGCCAATGAGTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887308 GAAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887340 GAAGAAAAGATGCCACTGAGTCATGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
**
1887371 GGGAAAAGAGATGCCACTGAGTTATGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887403 GAAAAAGAGATTGCCACTGAGTCGTGGACTTT
1 G-AAAAGAGA-TGCCACTGAGTCGTGGACTTT
* ** *
1887435 GAAGAAAAGATGCCACAAAGTTGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
*
1887466 GAAGAAAAGATTGCCACTGAGTCGTGGACTTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGAC-TTT
* * *
1887499 GGAAAAGAGATGCCACTAAGTTGTAGACTTT
1 -GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887530 GAAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
*
1887562 GGGAAAAGAGATGCCACTGAGTTGTGGAC--T
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1887592 GAAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887624 GAAGAAAAAATGCCACTGAGTCGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
* *
1887655 GAAGAAAAGATGCCACTGAGTTGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
1887686 AGGAAAAGAGATGCCACTGAGTCGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
* * *
1887718 GAAGAAGAGATTGCCACAGAGTTGTGGTCTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
*
1887750 GAAGAAGAGATTGCCACTAAGTCGTGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887782 GAAGAAAAGATTGCCACTGAGTCATGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* * *
1887814 GGCGAAAGAGATGCCACTGAGTTGTAGACTTT
1 -G-AAAAGAGATGCCACTGAGTCGTGGACTTT
* *
1887846 AAAGAAGAGATTGCCACTGAGTCATGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887878 GGGAAAAGAGATGCCATTGAGTTGTGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
*
1887910 GAAGAAGAGATTGCCACTGAGTCATGGACTTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGACTTT
* *
1887942 GAAGAAAAGATGCCACAGAGTCGTGGACTTT
1 GAA-AAGAGATGCCACTGAGTCGTGGACTTT
* * **
1887973 GAGAAAATAGATGCCATTGAGTTATGGACTTT
1 --GAAAAGAGATGCCACTGAGTCGTGGACTTT
1888005 GAGAAAAGAGAT
1 --GAAAAGAGAT
1888017 TTGAAGAATT
Statistics
Matches: 1068, Mismatches: 115, Indels: 114
0.82 0.09 0.09
Matches are distributed among these distances:
27 23 0.02
28 5 0.00
29 11 0.01
30 101 0.09
31 289 0.27
32 547 0.51
33 54 0.05
34 38 0.04
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (30 bp):
GAAAAGAGATGCCACTGAGTCGTGGACTTT
Found at i:1889308 original size:14 final size:14
Alignment explanation
Indices: 1889281--1889323 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
1889271 CTTTGCACTC
1889281 TTTTTTTGTGTTTT
1 TTTTTTTGTGTTTT
1889295 TTTGTTTT-TGTTTT
1 TTT-TTTTGTGTTTT
*
1889309 TTTTTTTGTGCTTT
1 TTTTTTTGTGTTTT
1889323 T
1 T
1889324 ACTTTTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (14 bp):
TTTTTTTGTGTTTT
Found at i:1889313 original size:16 final size:16
Alignment explanation
Indices: 1889283--1889312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1889273 TTGCACTCTT
1889283 TTTTTGTGTTTTTTTG
1 TTTTTGTGTTTTTTTG
1889299 TTTTTGT-TTTTTTT
1 TTTTTGTGTTTTTTT
1889313 TTTGTGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTGTGTTTTTTTG
Found at i:1897022 original size:28 final size:28
Alignment explanation
Indices: 1896991--1897050 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
1896981 TAAAAATATT
1896991 AAATTATAAAATAAA-TTATATATTTTTA
1 AAATTATAAAATAAATTTATAT-TTTTTA
* *
1897019 AAATTATATAATTAATTTATATTTTTTA
1 AAATTATAAAATAAATTTATATTTTTTA
1897047 AAAT
1 AAAT
1897051 AATATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATTATAAAATAAATTTATATTTTTTA
Found at i:1898148 original size:2 final size:2
Alignment explanation
Indices: 1898141--1898167 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1898131 TGCAGAATGT
1898141 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1898168 TTGCTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1899045 original size:32 final size:31
Alignment explanation
Indices: 1898971--1899045 Score: 73
Period size: 32 Copynumber: 2.4 Consensus size: 31
1898961 AATTTATTGA
1898971 ACCGGGTTTGTTGGCTGGACAAATAACCTGG
1 ACCGGGTTTGTTGGCTGGACAAATAACCTGG
* * * *
1899002 ACTGGGCTTGTTGGGGTAGG-CAAATAGCCCT-G
1 ACCGGGTTTGTT-GGCT-GGACAAATA-ACCTGG
1899034 ACCGGGTTTGTT
1 ACCGGGTTTGTT
1899046 ACGTGGTACG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
31 10 0.29
32 20 0.57
33 5 0.14
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.28
Consensus pattern (31 bp):
ACCGGGTTTGTTGGCTGGACAAATAACCTGG
Found at i:1902041 original size:11 final size:11
Alignment explanation
Indices: 1902027--1902120 Score: 54
Period size: 10 Copynumber: 8.6 Consensus size: 11
1902017 AAATTAATTT
1902027 ATATAAATAAA
1 ATATAAATAAA
**
1902038 ATATAAATATT
1 ATATAAATAAA
* *
1902049 TTATATATTAAA
1 ATATA-AATAAA
1902061 ATAT-AATAAA
1 ATATAAATAAA
1902071 ATA-AAATAAA
1 ATATAAATAAA
*
1902081 GTA-AATATAAA
1 ATATAA-ATAAA
1902092 TTATATAAA-AAA
1 --ATATAAATAAA
* *
1902104 TTATAAA-AAT
1 ATATAAATAAA
1902114 ATATAAA
1 ATATAAA
1902121 ATTAAATTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
10 32 0.50
11 18 0.28
12 9 0.14
13 3 0.05
14 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (11 bp):
ATATAAATAAA
Found at i:1907251 original size:202 final size:201
Alignment explanation
Indices: 1906899--1907293 Score: 646
Period size: 202 Copynumber: 2.0 Consensus size: 201
1906889 ATTTGACTTG
* * *
1906899 AAAAACCATTTGATGACCGTTAGGACTTGGAAAAACCTACTTTAAACACTACAATAATGGCTAGT
1 AAAAACCATTTGATAACCGTTAGGACTTAGAAAAACCTACTGTAAACACTACAATAATGGCTAGT
* *
1906964 TTGCTTAGCTTGGCTTTGACTTCTATGTACCTTAATTAAAGTGAAACTTTTGATTCATTTGAATG
66 TTGCTTAGCTTGGCTTTGACTTCTATGTACCTCAATTAAAGTGAAACTCTTGATTCATTTGAATG
* *
1907029 GTATATGCACTATTGCAATATCATTGTAATAGTGCACCGTGTTACAAATCCTAAAGTGAAAAATA
131 GTATATGCACTATAGCAATATCATTGTAATAGTGCACCGTGTTACAAATCCCAAAGTGAAAAATA
1907094 AATAAA
196 AATAAA
* *
1907100 AAAACACCATTTGATAACCGTTGGGACTTAGAAAGACCTACTGTAAACACTACAATAATGGCTAG
1 AAAA-ACCATTTGATAACCGTTAGGACTTAGAAAAACCTACTGTAAACACTACAATAATGGCTAG
* * * *
1907165 TTTGCTTAGCTTGGCTTTGATTTTTATGTACCTCAATTAAAGTGGAACTCTTGATTCATTTGGAT
65 TTTGCTTAGCTTGGCTTTGACTTCTATGTACCTCAATTAAAGTGAAACTCTTGATTCATTTGAAT
* *
1907230 GGTATATGCACTATAGCAATATCATTGTAATAGTGCACTGTGTTACAAATCCCAAATTGAAAAA
130 GGTATATGCACTATAGCAATATCATTGTAATAGTGCACCGTGTTACAAATCCCAAAGTGAAAAA
1907294 GAAAAACGGA
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
201 4 0.02
202 174 0.98
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (201 bp):
AAAAACCATTTGATAACCGTTAGGACTTAGAAAAACCTACTGTAAACACTACAATAATGGCTAGT
TTGCTTAGCTTGGCTTTGACTTCTATGTACCTCAATTAAAGTGAAACTCTTGATTCATTTGAATG
GTATATGCACTATAGCAATATCATTGTAATAGTGCACCGTGTTACAAATCCCAAAGTGAAAAATA
AATAAA
Found at i:1914492 original size:79 final size:79
Alignment explanation
Indices: 1914354--1914532 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 79
1914344 TGGGGATGAC
* *
1914354 AACGGGGCTGGAGTATCCCTTGATTATGGAAAATCGATGTTTTGGAAACAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCC-TGATTATGAAAAATCGATGTTTTGGAAACAAAATCGGGGTTGGAG
*
1914419 TATCCCCTTGAAAAT
65 TATCCCCTCGAAAAT
* *
1914434 AACGGGGTTGGAGTATCTCC-GATTGTGAAAAATCGATGTTTTGGAAATCAAACT-GGGGTTGGA
1 AACGGGGTTGGAGTATC-CCTGATTATGAAAAATCGATGTTTTGGAAA-CAAAATCGGGGTTGGA
1914497 GTATCCCCTCGAAAAT
64 GTATCCCCTCGAAAAT
**
1914513 AATAGGGTTGGAGTATCCCT
1 AACGGGGTTGGAGTATCCCT
1914533 AATGAAATAA
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 2 0.02
79 64 0.72
80 21 0.24
81 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGTTTTGGAAACAAAATCGGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:1918252 original size:20 final size:20
Alignment explanation
Indices: 1918227--1918303 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1918217 GTAAAAAGAT
1918227 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* * *
1918247 AGAATGTATCAATATATTCA
1 AGAATGTATCGATACATTGA
*
1918267 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1918287 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1918304 CTAGGTACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1919282 original size:32 final size:32
Alignment explanation
Indices: 1919135--1919659 Score: 498
Period size: 32 Copynumber: 17.3 Consensus size: 32
1919125 TCCGGACTTT
1919135 TGGGTTGCCACCGAC-T-TGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1919165 --AGATGCCACCGAC-T-TGTGGACTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919193 --GGATGCCACTGAC-T-TGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1919221 --AGATGCCACCGAC-T-TATGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1919249 TGGGTTGCCATCGACTTATGTGGGCTTTAAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
1919281 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919313 TGGGTTGCCACCAACTTGTGTGGG-TTTCAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
*
1919344 TGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919376 T--GATGCCACGGAC-T-TGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1919404 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919436 TAGGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * * *
1919468 TGGGTTGCCTCCAACTTGTGTAGGCTTTCAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919500 TGAGTTGCCACTGACTTGTGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
1919532 TGGGTTGCCACCAAC-T-TGTAGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * * *
1919562 T--GATGCCACTGAC-T-TATAGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * * *
1919590 AGAGTTGCCACCGACTCGTGTAGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
* * *
1919622 AGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA
1 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
1919651 -GGG-TGCCAC
1 TGGGTTGCCAC
1919660 TAACTTATGG
Statistics
Matches: 427, Mismatches: 55, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
28 121 0.28
29 14 0.03
30 54 0.13
31 40 0.09
32 198 0.46
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (32 bp):
TGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
Found at i:1919408 original size:155 final size:154
Alignment explanation
Indices: 1919135--1919646 Score: 588
Period size: 155 Copynumber: 3.4 Consensus size: 154
1919125 TCCGGACTTT
* * * * * *
1919135 TGGGTTGCCACCGAC-T-TGTGGGCTTTGAAA--AGATGCCACCGACTTGTG-GACTTTGAAA-G
1 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGCTTTCAAATG
* * *
1919194 -GATGCCACTGAC-T-TGTGGGCTTTGAAAAGATGCCACCGACTTATGGGCTTTGAAATGGGTTG
66 AGTTGCCACTGACTTGTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTGAAATGGGTTG
1919256 CCATCGACTTATGTGGGCTTTAAAA
131 CCA-CGACTTATGTGGGCTTTAAAA
*
1919281 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGTTTCAAATG
1 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGCTTTCAAATG
* *
1919346 AGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACGGACTTGTGGGCTTTGAAATGGGTTG
66 AGTTGCCACTGACTTGTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTGAAATGGGTTG
* *
1919411 CCACCGACTTGTGTGGGCTTTGAAA
131 CCA-CGACTTATGTGGGCTTTAAAA
* *
1919436 TAGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCTCCAACTTGTGTAGGCTTTCAAAT
1 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGT-GGCTTTCAAAT
* * *
1919501 GAGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTAGGCTTTGAAAT--G
65 GAGTTGCCACTGACTTGTGTGGGCTTTGAAAT--GATGCCACCGACTTGTGGGCTTTGAAATGGG
* *
1919564 ATGCCACTGACTTA--TAGGCTTTGAAAA
128 TTGCCAC-GACTTATGTGGGCTTT-AAAA
* * * * * * **
1919591 -GAGTTGCCACCGACTCGTGTAGGCTTTGAAAAGAG-TGCCACTGACTTGTG-GGCTTT
1 TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGCTTT
1919647 GAAAGGGTGC
Statistics
Matches: 315, Mismatches: 37, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
146 14 0.04
147 1 0.00
148 14 0.04
150 15 0.05
151 13 0.04
152 1 0.00
153 22 0.07
154 36 0.11
155 123 0.39
156 52 0.17
158 24 0.08
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (154 bp):
TGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGCTTTCAAATG
AGTTGCCACTGACTTGTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTGAAATGGGTTG
CCACGACTTATGTGGGCTTTAAAA
Found at i:1919674 original size:28 final size:28
Alignment explanation
Indices: 1919537--1919676 Score: 81
Period size: 28 Copynumber: 4.8 Consensus size: 28
1919527 TGAAATGGGT
* *
1919537 TGCCACCAACTTGTAGG-CTTTGAAATGA-
1 TGCCACTAACTTAT-GGCCTTTGAAA-GAG
*
1919565 TGCCACTGACTTATAGG-CTTTGAAAAGAG
1 TGCCACTAACTTAT-GGCCTTTG-AAAGAG
** *
1919594 TTGCCACCGACTCGTGTAGG-CTTTGAAAAGAG
1 -TGCCACTAACT--TAT-GGCCTTTG-AAAGAG
* * * *
1919626 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTAACTTATGGCCTTTGAAAGAG
1919654 TGCCACTAACTTATGGCCTTTGA
1 TGCCACTAACTTATGGCCTTTGA
1919677 CGAGATGAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
28 48 0.50
29 11 0.11
30 10 0.10
31 10 0.10
32 17 0.18
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (28 bp):
TGCCACTAACTTATGGCCTTTGAAAGAG
Found at i:1925724 original size:23 final size:23
Alignment explanation
Indices: 1925698--1925744 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1925688 AAAATAATGG
*
1925698 GAATGAATAGCCAA-AAAAAAAAA
1 GAATGAACA-CCAATAAAAAAAAA
*
1925721 GAATGAACATCAATAAAAAAAAA
1 GAATGAACACCAATAAAAAAAAA
1925744 G
1 G
1925745 TGGCTCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.68, C:0.09, G:0.13, T:0.11
Consensus pattern (23 bp):
GAATGAACACCAATAAAAAAAAA
Found at i:1930033 original size:20 final size:20
Alignment explanation
Indices: 1929987--1930060 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1929977 AAAAAGACAG
* *
1929987 AATGTATCGATATATT-GAA
1 AATGTATCGATACATTCAAA
* *
1930006 ATTGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1930026 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1930046 AATGTATCGATACAT
1 AATGTATCGATACAT
1930061 CTGGGTACTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1932516 original size:13 final size:13
Alignment explanation
Indices: 1932469--1932498 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1932459 GTAAACCCAG
1932469 AATGTATCGATAC
1 AATGTATCGATAC
1932482 AATGTATCGATAC
1 AATGTATCGATAC
1932495 AATG
1 AATG
1932499 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1934536 original size:61 final size:62
Alignment explanation
Indices: 1934451--1935067 Score: 715
Period size: 61 Copynumber: 10.3 Consensus size: 62
1934441 ATGAAATGGG
* * * * **
1934451 TCCTGCTCCTTGGGGACTAG-AAGGTGCCACCAACTGGTATGGGCTTTGCAAGGAGAAA-GCA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCA
* * * *
1934512 TCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAATGCG
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1934573 TCTTGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGTCG
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * **
1934635 TCTTGCTCTTTGAGGACTAG-AAGGTGTCACCAACTTGTGTGAACTTTAAAAGGAAAAGG-A
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1934695 GTCCTACTCCTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCA
1 -TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
1934757 TCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
1934817 TCCTGCTCATTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
1934878 TCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
1934940 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* ** *
1934994 TCCTGCTCTTTGAAGACT-GAAAAATGCCACCAATTTGTGTGGGCTTT-----G-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1935049 TCCTGCTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
1935068 AAGAGTGAAA
Statistics
Matches: 495, Mismatches: 50, Indels: 27
0.87 0.09 0.05
Matches are distributed among these distances:
54 23 0.05
55 50 0.10
59 1 0.00
60 86 0.17
61 219 0.44
62 116 0.23
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:1948749 original size:107 final size:107
Alignment explanation
Indices: 1948635--1948918 Score: 394
Period size: 107 Copynumber: 2.7 Consensus size: 107
1948625 TAAAACTGGA
* *
1948635 GTTGGAGTATCTCCACGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTG
1 GTTGGAGTATCTCCACGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTA
* * *
1948700 GAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATTACAAG
66 GAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAAG
* * *
1948742 GTTGGAGTATCTCCGA-TGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAATTTGGTGGTTT
1 GTTGGAGTATCTCC-ACGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTT
* **
1948806 AGAAATAAAACCGAGGTTGGAGTATCCCTTCGGAAATAACAAG
65 AGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAAG
* * *
1948849 GTTGGAGTATC-CC-CGATGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTT
1 GTTGGAGTATCTCCACG--GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTT
1948912 TAGAAAT
64 TAGAAAT
1948919 TTAACAAAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
106 2 0.01
107 153 0.98
108 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (107 bp):
GTTGGAGTATCTCCACGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTA
GAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAAG
Found at i:1948758 original size:79 final size:79
Alignment explanation
Indices: 1948508--1948758 Score: 288
Period size: 79 Copynumber: 3.2 Consensus size: 79
1948498 CAACGAGGTA
* * * * * *
1948508 GAGTATCCCCTGACTATGGAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTATCCCCTTG
1 GAGTATCCCC-GATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCG
1948573 AAAATAACGGGGTTG
65 AAAATAACGGGGTTG
* * * * *
1948588 TAGTATCCCCAATTATGAAAAATCGGTGTTTTGGAAATAAAA-CTGGAGTTGGAGTATCTCCACG
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCG
* *
1948652 GAAATAATGGGGTTG
65 AAAATAACGGGGTTG
* * * *
1948667 GAGTATCCCCGATTGTGAAAATTTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
* **
1948732 AAATTACAAGGTTG
66 AAATAACGGGGTTG
*
1948746 GAGTATCTCCGAT
1 GAGTATCCCCGAT
1948759 GAAATAACGG
Statistics
Matches: 141, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.01
79 130 0.92
80 10 0.07
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (79 bp):
GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AAATAACGGGGTTG
Found at i:1948893 original size:28 final size:28
Alignment explanation
Indices: 1948817--1948893 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
1948807 GAAATAAAAC
1948817 CGAGGTTGGAGTATCCCTTCG--GAAATAA
1 CGAGGTTGGAGTATCCC--CGATGAAATAA
*
1948845 CAAGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCGATGAAATAA
1948873 CGAGGTTGGAGTATCCCCGAT
1 CGAGGTTGGAGTATCCCCGAT
1948894 TATGAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.04
28 43 0.96
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGATGAAATAA
Found at i:1951252 original size:49 final size:51
Alignment explanation
Indices: 1951197--1951331 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 51
1951187 AAAAATGCCT
* * * *
1951197 GAATGTATTGATACATTAAAAAATGTATCGATACATCTGGGT-AAA-CCAA
1 GAATGTATCGATACAATAAACAATGTATCGATACACCTGGGTAAAACCCAA
* * *
1951246 GAATGTATCGATACAATAAACAATGTATCGAGAGACCTGGGTAAAACCCTA
1 GAATGTATCGATACAATAAACAATGTATCGATACACCTGGGTAAAACCCAA
* *
1951297 GAATTTATCGATACAATGAACAATGTATCGATACA
1 GAATGTATCGATACAATAAACAATGTATCGATACA
1951332 AATTGTGAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 36 0.49
50 3 0.04
51 34 0.47
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (51 bp):
GAATGTATCGATACAATAAACAATGTATCGATACACCTGGGTAAAACCCAA
Found at i:1952229 original size:13 final size:13
Alignment explanation
Indices: 1952191--1952247 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
1952181 AGAAAACTTA
1952191 AAAAACAAAACTAAT
1 AAAAACAAAA--AAT
* * *
1952206 TAAAACTAAAACT
1 AAAAACAAAAAAT
1952219 AAAAACAAAAAAT
1 AAAAACAAAAAAT
* *
1952232 AAAATCAAATAAT
1 AAAAACAAAAAAT
1952245 AAA
1 AAA
1952248 TAAACTGAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 26 0.76
15 8 0.24
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAACAAAAAAT
Found at i:1954937 original size:47 final size:47
Alignment explanation
Indices: 1954886--1955016 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
1954876 TCAAAACAAG
* *
1954886 TCTTTTGTGGAGGCATCCAAAGCATTTAAAGATTTTTTATAAAATAA
1 TCTTTAGTGAAGGCATCCAAAGCATTTAAAGATTTTTTATAAAATAA
* * * * * *
1954933 TCTTTGGTGTAGGCTTCTAAAGCATTTAAAGATTTTTTATAGAATGA
1 TCTTTAGTGAAGGCATCCAAAGCATTTAAAGATTTTTTATAAAATAA
* * *
1954980 TCTTTAATTAAGGCATCCAAAGCATTTAAAAATTTTT
1 TCTTTAGTGAAGGCATCCAAAGCATTTAAAGATTTTT
1955017 AAAAAATGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (47 bp):
TCTTTAGTGAAGGCATCCAAAGCATTTAAAGATTTTTTATAAAATAA
Found at i:1956334 original size:11 final size:12
Alignment explanation
Indices: 1956308--1956336 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1956298 TAATGTTGTG
1956308 TTTTT-CATGGC
1 TTTTTGCATGGC
1956319 TTTTTGCATGGC
1 TTTTTGCATGGC
1956331 TTTTTG
1 TTTTTG
1956337 GTTCTGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.59
Consensus pattern (12 bp):
TTTTTGCATGGC
Found at i:1956988 original size:17 final size:17
Alignment explanation
Indices: 1956966--1957020 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
1956956 TAAGGAAACT
1956966 AGAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAGAGAA
*
1956983 AGAAAAATAAAAGAGAA
1 AGAAAAAAAAAAGAGAA
* *
1957000 AAACAAAGAAAAAAGATAA
1 AGA-AAA-AAAAAAGAGAA
1957019 AG
1 AG
1957021 TTTCTTGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 18 0.58
18 3 0.10
19 10 0.32
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
AGAAAAAAAAAAGAGAA
Found at i:1958151 original size:13 final size:13
Alignment explanation
Indices: 1958133--1958158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1958123 CAATTTTTTG
1958133 TGTATCGATACAT
1 TGTATCGATACAT
1958146 TGTATCGATACAT
1 TGTATCGATACAT
1958159 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1960534 original size:21 final size:21
Alignment explanation
Indices: 1960510--1960556 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1960500 TTTAATGCTG
1960510 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
1960530 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
1960551 ATTTTG
1 ATTTTG
1960557 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1960695 original size:13 final size:13
Alignment explanation
Indices: 1960677--1960715 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1960667 ATAATCACCC
*
1960677 TGTATCGATACAG
1 TGTATCGATACAA
1960690 TGTATCGATACAA
1 TGTATCGATACAA
1960703 TGTATCGATACAA
1 TGTATCGATACAA
1960716 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1960726 original size:20 final size:20
Alignment explanation
Indices: 1960701--1960779 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1960691 GTATCGATAC
1960701 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1960721 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1960746 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1960766 CATGTATCGATACA
1 AATGTATCGATACA
1960780 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1962814 original size:15 final size:15
Alignment explanation
Indices: 1962794--1962824 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1962784 ATTTCGTTTG
*
1962794 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1962809 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1962824 G
1 G
1962825 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1964648 original size:21 final size:21
Alignment explanation
Indices: 1964619--1964663 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1964609 AAGTTTTCAT
*
1964619 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1964639 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1964661 TTT
1 TTT
1964664 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 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1965346 original size:33 final size:33
Alignment explanation
Indices: 1965309--1965375 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1965299 TTCAACGATT
1965309 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1965342 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1965375 T
1 T
1965376 TTAAGGTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1965347 original size:13 final size:13
Alignment explanation
Indices: 1965329--1965353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1965319 CATAAAATGT
1965329 TGTATCGATACAA
1 TGTATCGATACAA
1965342 TGTATCGATACA
1 TGTATCGATACA
1965354 TATTTTTTTG
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:1965438 original size:13 final size:13
Alignment explanation
Indices: 1965420--1965444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1965410 ATTACTCACA
1965420 TGTATCGATACAT
1 TGTATCGATACAT
1965433 TGTATCGATACA
1 TGTATCGATACA
1965445 CGGATCTTTG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1965581 original size:52 final size:52
Alignment explanation
Indices: 1965453--1965573 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1965443 CACGGATCTT
*
1965453 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1965505 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1965557 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1965574 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1970526 original size:13 final size:13
Alignment explanation
Indices: 1970508--1970533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1970498 CAATTTTTTG
1970508 TGTATCGATACAT
1 TGTATCGATACAT
1970521 TGTATCGATACAT
1 TGTATCGATACAT
1970534 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1973623 original size:51 final size:51
Alignment explanation
Indices: 1973517--1973632 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
1973507 TTCTGAGGGG
** * * * * *
1973517 ATACTCCAACCTTGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
1 ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATGAGGA
1973568 ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGA-GA
1 ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAAT-GAGGA
*
1973619 ATACTTCAACCCCG
1 ATACTCCAACCCCG
1973633 TTATTTTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (51 bp):
ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATGAGGA
Found at i:1973659 original size:28 final size:28
Alignment explanation
Indices: 1973619--1973688 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
1973609 ACAATCGAGA
* * *
1973619 ATACTTCAACCCCGTTATTTTTGAGGGG
1 ATACTCCAACCCCGTTATTTATGAAGGG
1973647 ATACTCCAACCCCGTTATTTATGAAGGG
1 ATACTCCAACCCCGTTATTTATGAAGGG
*
1973675 ATACTCTAACCCCG
1 ATACTCCAACCCCG
1973689 ATTTTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (28 bp):
ATACTCCAACCCCGTTATTTATGAAGGG
Found at i:1973698 original size:107 final size:107
Alignment explanation
Indices: 1973564--1973765 Score: 323
Period size: 107 Copynumber: 1.9 Consensus size: 107
1973554 TTTCATAATT
* *
1973564 AGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGAATACTTCAAC
1 AGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAAC
* **
1973629 CCCGTTATTTTTGAGGGGATACTCCAACCCCGTTATTTATGA
66 CCCGTTATTTTCGAGGACATACTCCAACCCCGTTATTTATGA
* * * *
1973671 AGGGATACTCTAACCCCGATTTTATTTCCAAAATACCAATTTTCCACAATTGGGAATACTCCAAC
1 AGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAAC
1973736 CCCGTTATTTTCGAGGACATACTCCAACCC
66 CCCGTTATTTTCGAGGACATACTCCAACCC
1973766 TAGTTTTATT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 86 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (107 bp):
AGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGAGAATACTCCAAC
CCCGTTATTTTCGAGGACATACTCCAACCCCGTTATTTATGA
Found at i:1973809 original size:79 final size:76
Alignment explanation
Indices: 1973646--1973861 Score: 211
Period size: 79 Copynumber: 2.7 Consensus size: 76
1973636 TTTTTGAGGG
* * *
1973646 GATACTCCAACCCCGTTATTTATGAAGG-GATACTCTAACCCCGATTTTATTTCCAAAATACCAA
1 GATACTCCAACCCCGTTATTT-TG-AGGAGATACTCCAACCCAG-TTTTATTTCCAAAACACCAA
** *
1973710 TTTTCCACAATTGG
63 TTTTCCACAAACGA
*
1973724 GAATACTCCAACCCCGTTATTTTCGAGGACATACTCCAACCCTAGTTTTATTTCCAAAACACCAA
1 G-ATACTCCAACCCCGTTATTTT-GAGGAGATACTCCAACCC-AGTTTTATTTCCAAAACACCAA
*
1973789 TTTTTCACAACACGA
63 TTTTCCACAA-ACGA
* ** * *
1973804 GATACTCCGACCTTGTTATTTTTGA-GAGGATACCCCAACCCCAGTTTTATCTCCAAAA
1 GATACTCCAACCCCGTTA-TTTTGAGGA-GATACTCCAA-CCCAGTTTTATTTCCAAAA
1973862 TATTAAATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 7 0.06
79 99 0.85
80 10 0.09
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (76 bp):
GATACTCCAACCCCGTTATTTTGAGGAGATACTCCAACCCAGTTTTATTTCCAAAACACCAATTT
TCCACAAACGA
Found at i:1981538 original size:62 final size:62
Alignment explanation
Indices: 1979957--1981537 Score: 1909
Period size: 62 Copynumber: 25.6 Consensus size: 62
1979947 CCTTTTAGCA
* * * * *
1979957 CTTTCAGTCCTCAAAGAGCAGGATGCCTTGTCC-TTTTAAAGCCCACACAAGATGGTGGCAT
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
** * * *
1980018 CTTTCGGTCCTCAAAGAGTAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * ** * * **
1980079 CTTTTAGTCCTCAAAAAGAAGGAAACCTTTTTCTTTTCAAAGCCCACAATAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1980141 CTTTCAGTCCTTAAAGAGTAGGATGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * ** *
1980202 CCTTTAGTCCTCAAAGAGCAGGACT-TCTTTTCCTTTTTAAAGCCCACACGAGTTAGTGTTAT
1 CTTTTAGTCCTCAAAGAGCAGGA-TGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
** * * * * *
1980264 CTTTTAGTCCTCAAAGAGCAGGACACCTTTTTC-TTTTAATG-CCACATGAGCTAGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1980324 TTTTTAGTCCTCAAAAAGCACGATGCCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1980386 CTTTTTAGTCCTTAAAGAGCAGGACGCC-CTTCATTTTTAAAGCCCACACGAGTTGGTGGCAC
1 C-TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
1980448 CATTTAGTCCTCAAAGAGCAGGACAT-CGTTTT--TTTTTCAAAGCCCACACGAATTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGG--ATGCCTTTTCCTTTTT-AAAGCCCACACGAGTTGGTGGCAC
* *
1980510 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGATGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
1980572 TTTTTTAGTCCTCAAAGAGCAAGACGCC-TTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 -CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
1980634 CCTTTAGTCCTCAAAGAGGAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1980696 TTTTTAGTCCTCAAAAAGCACGATGCCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
1980758 CTTTTTAGTCCTTAAAGAGCAGGACGCC-CTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 C-TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1980820 CATTTAGTCCTCAAAGAGCAGGACAT-CGTTTT--TTTTCAAAGCCCACACGAATTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGG--ATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* *
1980881 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGATGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * *
1980943 TTTTTTAGTCCTCAAAGAGCAAGACGCC-TTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 -CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1981005 CCTTTAGTCCTCAAAGAGGAGGATACCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1981067 TTTTTAGTCCTCAAAAAGCACGATGCCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * *
1981129 CTTTTTAGTCTTTAAAGAGCAGGACGCC-CTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 C-TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * * **
1981191 CATTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACTAGTTGGTTACAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
*** * *
1981253 CTTTTAGTCCTCAAAGAGCAGGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * * * **
1981315 CCTTTAGTCCTTAAAGAGTAGGATACCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * *
1981377 CCTTCAGTCCTCAAAGAGCAAGATGCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
* * * * *
1981439 CCTTTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
** *
1981501 CTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTT
1 CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1981538 CTTCTTTGTC
Statistics
Matches: 1318, Mismatches: 175, Indels: 53
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.00
60 48 0.04
61 307 0.23
62 839 0.64
63 122 0.09
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (62 bp):
CTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
Found at i:1981550 original size:38 final size:38
Alignment explanation
Indices: 1981507--1981860 Score: 200
Period size: 38 Copynumber: 8.8 Consensus size: 38
1981497 GCACCTTTTA
*
1981507 GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCTTCTTT
1 GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCTCCTTT
*
1981545 GTCCTCAAAGAGCATGACACATTTCATTTCCTTCTTTTC-CCTTTT
1 GTCCTCAAAGAGCAGGACAC----C-TTT--TTCTTTTCTCC-TTT
* * * *
1981590 GTCTTTAGAGAGCAGGATGCACTTTATTTCCTTTT-TCCTTT
1 GTCCTCAAAGAGCAGGA--CACCTT-TTT-CTTTTCTCCTTT
* * * *
1981631 GCCCTCAAAGAGCAGGATGA-CTTTTCCTTTTC-CCTTA
1 GTCCTCAAAGAGCAGGA-CACCTTTTTCTTTTCTCCTTT
** * * *
1981668 GTCCTCGTAGGGCAAGACGA-CTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGAC-ACCTTTTTCTTTTCTCCTTT
* *
1981706 GTCCTCAAAGAGCAGGGCACACTTCATTTCTTTTATTCCTTT
1 GTCCTCAAAGAGCAGGACAC-CTT--TTTCTTTT-CTCCTTT
* * * *
1981748 GTCCTTAAAGAGCAAGATGA-CTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGA-CACCTTTTTCTTTTCTCCTTT
* *
1981786 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTTCCTTTTT
1 GTCCTCAAAGAGCAGGACAC-CTT--TTT-CTTT-TCTCC--TTT
**
1981831 GTCCTCAAAGAGCAGGATGCCTTTTT-TTTT
1 GTCCTCAAAGAGCAGGACACCTTTTTCTTTT
1981861 GCAAAGCCCA
Statistics
Matches: 243, Mismatches: 43, Indels: 59
0.70 0.12 0.17
Matches are distributed among these distances:
37 35 0.14
38 59 0.24
39 16 0.07
40 4 0.02
41 30 0.12
42 37 0.15
43 9 0.04
44 4 0.02
45 46 0.19
47 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (38 bp):
GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCTCCTTT
Found at i:1981775 original size:80 final size:81
Alignment explanation
Indices: 1981500--1981855 Score: 327
Period size: 80 Copynumber: 4.4 Consensus size: 81
1981490 GTTAGTGGCA
* * * * *
1981500 CCTTTTAGTCCTCAAAGAGCAGGA-CACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCATGACA
1 CCTTTT-GTCCTCAAAGAGCAAGATGA-CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACA
*
1981564 CATTTCATTTCCTTCTTTT
64 CACTTCATTTCCTT-TTTT
* * * * *
1981583 CCCTTTTGTCTTTAGAGAGCAGGATGCACTTTATTTCCTTTT-TCCTTTGCCCTCAAAGAGCAGG
1 -CCTTTTGTCCTCAAAGAGCAAGATG-AC--T-TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGG
**
1981647 A-TGAC-T--TTTCC--TTTT
61 ACACACTTCATTTCCTTTTTT
* * ** * * *
1981662 CCCTTAGTCCTCGTAGGGCAAGACGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGGCACA
1 CCTTTTGTCCTCAAAGAGCAAGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACA
1981727 CTTCATTT-CTTTTATT
66 CTTCATTTCCTTTT-TT
* *
1981743 CC-TTTGTCCTTAAAGAGCAAGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCA
1 CCTTTTGTCCTCAAAGAGCAAGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACA
1981807 CTTCATTTCCTTTCTTT
66 CTTCATTTCCTTT-TTT
* *
1981824 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTT
1 CC-TTTTGTCCTCAAAGAGCAAGATGACTTTT
1981856 TTTTTGCAAA
Statistics
Matches: 220, Mismatches: 35, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
74 9 0.04
75 22 0.10
76 2 0.01
77 3 0.01
78 17 0.08
79 7 0.03
80 64 0.29
81 12 0.05
82 6 0.03
83 39 0.18
84 8 0.04
85 2 0.01
86 21 0.10
87 8 0.04
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (81 bp):
CCTTTTGTCCTCAAAGAGCAAGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACA
CTTCATTTCCTTTTTT
Found at i:1981928 original size:62 final size:61
Alignment explanation
Indices: 1981824--1982110 Score: 337
Period size: 62 Copynumber: 4.6 Consensus size: 61
1981814 TCCTTTCTTT
* *
1981824 CCTTTTTGTCCTCAAAGAGCAGG-ATGCCTTTTT-TTTTGCAAAGCCCACACGGGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGCA--CCTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCA
*
1981886 CATTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGC-AGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * **
1981948 CCTTTTAGTCCTCAAATAGC-GGGATGCCTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGCA--CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * ** *
1982010 CCCTTTAGTCCTCAAAGAGTAGGATACGTTTTTGTTTTCGTAGCCTACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGG-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
1982072 CCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTC
1 CCTTTTAGTCCTCAAAGAGC-AGGCACCTTTTTCTTTTC
1982111 TTCTTTGTCC
Statistics
Matches: 192, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
60 3 0.02
62 176 0.92
63 11 0.06
64 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:1981943 original size:572 final size:570
Alignment explanation
Indices: 1981252--1982681 Score: 2317
Period size: 572 Copynumber: 2.5 Consensus size: 570
1981242 GTTGGTTACA
* ***
1981252 CCTTTTAGTCCTCAAAGAGCAGGGCACCTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCACC
1 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTT-TTTTGCAAAGCCCACACGAGTTGGTGGCACC
* * * **
1981316 CTTTAGTCCTTAAAGAG-TAGGATACCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCT
65 TTTTAGTCCTCAAAGAGCAAGG-TACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
* * * **
1981380 TCAGTCCTCAAAGAGCAAGATGCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTA
129 TTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTA
*
1981445 GTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCTTTTAGTC
194 GTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
*
1981510 CTCAAAGAGCAGGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCATGACACATTTCATTTC
259 CTCAAAGAGCAGGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTC
* * *
1981575 CTTCTTTTCCCTTTTGTCTTTAGAGAGCAGGATGCACTTTATTTCCTTTTTCCTTTGCCCTCAAA
324 CTTCTTTTCCCTTTTGTCTTTAGAGAGCACGACGCACTTTATTTCCTTTTTCCTTTACCCTCAAA
* *
1981640 GAGCAGGATGACTTTTCCTTTTCCCTTAGTCCTCGTAGGGCAAGACGACTTTTCCTTTTCTCCTT
389 GAGCAGGATGACTTTTCCTTTTCCCTTAGTCCTCGAAGGGCAACACGACTTTTCCTTTTCTCCTT
1981705 TGTCCTCAAAGAGCAGGGCACACTTCATTT-CTTTTATTCCTTTGTCCTTAAAGAGCAAGATGAC
454 TGTCCTC-AA-AGCAGGGCACACTTCATTTCCTTTT-TTCCTTTGTCCTTAAAGAGCAAGATGAC
1981769 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTT
516 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTT
* *
1981824 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGGGTTGGTGGCACAT
1 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCT
* *
1981889 TTTAGTCCTCAAAGAGCAAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTT
66 TTTAGTCCTCAAAGAGCAAGGTACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * *
1981954 AGTCCTCAAATAGCGGGATGCCTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTAGT
131 AGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTAGT
* * * * ** *
1982019 CCTCAAAGAGTAGGATACGTTTTTGTTTTCGTAGCCTACACGAGTTGGTGGCACCTTTTAGTCCT
196 CCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT
*
1982084 CAAAGAGCAAGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCT
261 CAAAGAGCAGGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCT
*
1982149 TCTTTTCCCTTTTGTCTTTAGAGAGCACGACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGA
326 TCTTTTCCCTTTTGTCTTTAGAGAGCACGACGCACTTTATTTCCTTTTTCCTTTACCCTCAAAGA
* * * * * *
1982214 GCCGGATGACTTTTCCTTTTCCCTTTGTCCTTGAAGGGCAACATGACTTTTGCTTTTTTCCTTTG
391 GCAGGATGACTTTTCCTTTTCCCTTAGTCCTCGAAGGGCAACACGACTTTTCCTTTTCTCCTTTG
*
1982279 TCCTCAAAGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAGAGCAAGATGACTTTTC
456 TCCTCAAAGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTAAAGAGCAAGATGACTTTTC
1982344 CTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTT
521 CTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTT
* *
1982394 CCTTTTTATCCTCAAAGAGTAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCT
* * *
1982459 TTTTGTCCTCAAAGAGCAGGGTTCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
66 TTTAGTCCTCAAAGAGCAAGGTACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
*
1982524 AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTCAAAGCCCACTTAAGTTGGTGGCACCCTTTAG
131 AGTCCTCAAAGAGCAGGATG-CTTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTAG
*
1982589 TCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
195 TCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCC
*
1982654 TTAAAGAGCAGGACACCTTTTTCTTTTC
260 TCAAAGAGCAGGACACCTTTTTCTTTTC
1982682 AAAGCCCACA
Statistics
Matches: 787, Mismatches: 67, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
570 240 0.30
571 136 0.17
572 408 0.52
573 3 0.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (570 bp):
CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCT
TTTAGTCCTCAAAGAGCAAGGTACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
AGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTAGT
CCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT
CAAAGAGCAGGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCT
TCTTTTCCCTTTTGTCTTTAGAGAGCACGACGCACTTTATTTCCTTTTTCCTTTACCCTCAAAGA
GCAGGATGACTTTTCCTTTTCCCTTAGTCCTCGAAGGGCAACACGACTTTTCCTTTTCTCCTTTG
TCCTCAAAGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTAAAGAGCAAGATGACTTTTC
CTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTT
Found at i:1982048 original size:124 final size:124
Alignment explanation
Indices: 1981824--1982110 Score: 380
Period size: 124 Copynumber: 2.3 Consensus size: 124
1981814 TCCTTTCTTT
* *
1981824 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTT-TTTTGCAAAGCCCACACGGGTTGGTGGCACA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCACA
*
1981888 TTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
65 CTTTAGTCCTCAAAGAGCAAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * ** *
1981948 CCTTTTAGTCCTCAAATAGCGGGATGCCTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCC
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACAC
* * * * ** *
1982013 TTTAGTCCTCAAAGAG-TAGGATACGTTTTTGTTTTCGTAGCCTACACGAGTTGGTGGCA
66 TTTAGTCCTCAAAGAGCAAGG-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* **
1982072 CCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTC
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTC
1982111 TTCTTTGTCC
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
123 3 0.02
124 134 0.95
125 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (124 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACAC
TTTAGTCCTCAAAGAGCAAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:1982231 original size:37 final size:37
Alignment explanation
Indices: 1982188--1982369 Score: 161
Period size: 38 Copynumber: 4.8 Consensus size: 37
1982178 ACGCACTTTA
* **
1982188 TTTCCTTTTTCCTTTATCCTCAAAGAGCCGGATGACT
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGATGACT
* ** * *
1982225 TTTCCTTTTCCCTTTGTCCTTGAAGGGCAACATGACT
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGATGACT
* * * *
1982262 TTTGCTTTTTTCCTTTGTCCTCAAAGCAGGGCACA-CT-TCA
1 TTT-CCTTTTTCCTTTGTCCTCAAAG-A--GCA-AGATGACT
**
1982302 TTTCCTTTTTTCCTTTGTCCTTGAAGAGCAAGATGACT
1 TTTCC-TTTTTCCTTTGTCCTCAAAGAGCAAGATGACT
1982340 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCA
1 TTTCCTTTT-TCCTTTGTCCTCAAAGAGCA
1982370 GGACGCACTT
Statistics
Matches: 112, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
36 1 0.01
37 40 0.36
38 42 0.38
39 2 0.02
40 22 0.20
41 4 0.04
42 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (37 bp):
TTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGATGACT
Found at i:1982338 original size:78 final size:80
Alignment explanation
Indices: 1982099--1982398 Score: 296
Period size: 78 Copynumber: 3.8 Consensus size: 80
1982089 AGCAAGACAC
* * *
1982099 CTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTGT
1 CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTT-TTTT-CC-TTTGT
* *
1982164 -CTTTAGAGAGC-ACGACGCA
63 CCTTGA-AGAGCAAC-ATG-A
* * ** *
1982183 CTTTATTTCCTTTT-TCCTTTATCCTCAAAGAGCCGGA-TGAC-T--TTTCC-TTTTCCCTTTGT
1 C--T-TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTTTTTCCTTTGT
*
1982242 CCTTGAAGGGCAACATGA
63 CCTTGAAGAGCAACATGA
* * *
1982260 CTTTTGCTTTTTTCCTTTGTCCTC-AA-AGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCT
1 CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTTTTTCCTTTGTCCT
*
1982323 TGAAGAGCAAGATGA
66 TGAAGAGCAACATGA
*
1982338 CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTTCCTTT
1 CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTT-TTTCCTTT
1982399 TTATCCTCAA
Statistics
Matches: 178, Mismatches: 24, Indels: 31
0.76 0.10 0.13
Matches are distributed among these distances:
73 5 0.03
74 12 0.07
75 13 0.07
77 7 0.04
78 60 0.34
79 10 0.06
80 25 0.14
81 9 0.05
82 5 0.03
84 2 0.01
85 1 0.01
86 21 0.12
87 8 0.04
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (80 bp):
CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTTTTTCCTTTGTCCT
TGAAGAGCAACATGA
Found at i:1982354 original size:38 final size:38
Alignment explanation
Indices: 1982188--1982369 Score: 156
Period size: 37 Copynumber: 4.8 Consensus size: 38
1982178 ACGCACTTTA
* * **
1982188 TTTCCTTTT-TCCTTTATCCTCAAAGAGCCGGATGACT
1 TTTCCTTTTCTCCTTTGTCCTTAAAGAGCAAGATGACT
* * *
1982225 TTTCCTTTTC-CCTTTGTCCTTGAAGGGCAACATGACT
1 TTTCCTTTTCTCCTTTGTCCTTAAAGAGCAAGATGACT
* * * * * *
1982262 TTTGCTTTTTTCCTTTGTCCTCAAAGCAGGGCACA-CT-TCA
1 TTTCCTTTTCTCCTTTGTCCTTAAAG-A--GCA-AGATGACT
* *
1982302 TTTCCTTTTTTCCTTTGTCCTTGAAGAGCAAGATGACT
1 TTTCCTTTTCTCCTTTGTCCTTAAAGAGCAAGATGACT
*
1982340 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCA
1 TTTCCTTTTCTCCTTTGTCCTTAAAGAGCA
1982370 GGACGCACTT
Statistics
Matches: 113, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
36 1 0.01
37 41 0.36
38 41 0.36
39 1 0.01
40 24 0.21
41 4 0.04
42 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (38 bp):
TTTCCTTTTCTCCTTTGTCCTTAAAGAGCAAGATGACT
Found at i:1982498 original size:62 final size:62
Alignment explanation
Indices: 1982398--1982801 Score: 614
Period size: 62 Copynumber: 6.5 Consensus size: 62
1982388 TTCTTTCCTT
* *
1982398 TTTA-TCCTCAAAGAGTAGGATGCCTTTTT-TTTTGCAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCACCC
* * *
1982459 TTTTGTCCTCAAAGAGCAGGGTTCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
***
1982521 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTCAAAGCCCACTTAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
1982584 TTTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
1982646 TTTAGTCCTTAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
1982708 TTTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACAT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
1982770 TTTAGTCCTTAAAGAGCAGGACACCTTTTTCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT
1982802 GTTCTTCTTT
Statistics
Matches: 311, Mismatches: 29, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
61 3 0.01
62 246 0.79
63 62 0.20
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:1982626 original size:187 final size:186
Alignment explanation
Indices: 1982398--1982799 Score: 628
Period size: 187 Copynumber: 2.2 Consensus size: 186
1982388 TTCTTTCCTT
* *
1982398 TTTA-TCCTCAAAGAGTAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCCTTT
* ***
1982462 TGTCCTCAAAGAGCAGGGTTCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
66 AGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
** *
1982527 CCTCAAAGAGCAGGATGCCTTTTTTCTTTTCAAAGCCCACTTAAGTTGGTGGCACCC
131 CCTCAAAGAGCAGGATG-CTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACAC
*
1982584 TTTAGTCCTCAAAGAGCAGGATG-CTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTT-TTTGCAAAGCCCACACGAGTTGGTGGCACCCTT
*
1982648 TAGTCCTTAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
65 TAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAG
* *
1982713 TCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACAT
130 TCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACAC
* **
1982770 TTTAGTCCTTAAAGAGCAGGACACCTTTTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT
1982800 CTGTTCTTCT
Statistics
Matches: 197, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
186 65 0.33
187 132 0.67
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (186 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCCTTT
AGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
CCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACAC
Found at i:1982926 original size:37 final size:38
Alignment explanation
Indices: 1982883--1983124 Score: 170
Period size: 37 Copynumber: 6.1 Consensus size: 38
1982873 ATGCACTTTA
*
1982883 TTTCCTTTTTCCTTTATCCTCAAAGAGCAGGACGAC-T
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGACTT
* * ** * * *
1982920 TTTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTT
1 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGACTT
*
1982958 TTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGGCAC-ACTT
1 TTTCCTTTT-TCCTTTGTCCTCAAAGAGCA-GG-ACGACTT
* **
1982998 CATTTCCTTTTTTCCTTTGTCCTTGAAA-AGCAGGATAAC-T
1 --TTTCC-TTTTTCCTTTGTCC-TCAAAGAGCAGGACGACTT
1983038 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATAC-ACTT
1 TTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGG--ACGACTT
* * *
1983078 CATTTCCTTTCTTTCTTTTTTGTCCTCAAAGAGCAGGATGCCTT
1 --TTTCC-TT-TTTC--CTTTGTCCTCAAAGAGCAGGACGACTT
1983122 TTT
1 TTT
1983125 TTTTACAAAG
Statistics
Matches: 160, Mismatches: 24, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
37 36 0.22
38 30 0.19
39 17 0.11
40 9 0.06
41 5 0.03
42 26 0.16
43 13 0.08
44 5 0.03
45 19 0.12
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (38 bp):
TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGACTT
Found at i:1983030 original size:42 final size:42
Alignment explanation
Indices: 1982808--1983116 Score: 218
Period size: 45 Copynumber: 7.5 Consensus size: 42
1982798 TTCTGTTCTT
* * * *
1982808 CTTTGTCCTCAAAGAGTAAGACACATTTCATTTCCTTCTTTTCC
1 CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTT-TTTT-C
* * * * * *
1982852 CTTTTGTCTTTAGAGAGTAGGATGCACTTTATTTCC-TTTTTC
1 C-TTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTTTTC
* *
1982894 CTTTATCCTCAAAGAGCAGG--ACGAC-T--TTTCC-TTTTCC
1 CTTTGTCCTCAAAGAGCAGGATAC-ACTTCATTTCCTTTTTTC
* ** * * *
1982931 CTTAGTCCTTGAAGGGCAAGAT-GACTT--TTT-CTTTTTCTC
1 CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTTT-TC
**
1982970 CTTTGTCCTCAAAGAGCAGGGCACACTTCATTTCCTTTTTTC
1 CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTTTTC
* *
1983012 CTTTGTCCTTGAAA-AGCAGGATA-AC-T--TTTCCTTTTCTC
1 CTTTGTCC-TCAAAGAGCAGGATACACTTCATTTCCTTTTTTC
1983050 CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTCTTTC
1 CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTT-TTTC
*
1983093 TTTTTTGTCCTCAAAGAGCAGGAT
1 --CTTTGTCCTCAAAGAGCAGGAT
1983117 GCCTTTTTTT
Statistics
Matches: 207, Mismatches: 38, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
37 31 0.15
38 36 0.17
39 20 0.10
40 8 0.04
41 16 0.08
42 30 0.14
43 17 0.08
44 2 0.01
45 47 0.23
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (42 bp):
CTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTTTTC
Found at i:1983049 original size:80 final size:81
Alignment explanation
Indices: 1982774--1983092 Score: 289
Period size: 80 Copynumber: 4.0 Consensus size: 81
1982764 GCACATTTTA
* * * * * * *
1982774 GTCCTT-AAAGAGCAGGACACCTTTTT-CTGTTCTTCTTTGTCCTCAAAGAGTAAGACACATTTC
1 GTCCTTGAAA-AGCAGGATAACTTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTC
1982837 ATTTCCTTCTTTTCCCTTTT
65 ATTTCCTT-TTTT-CC-TTT
* * * * * *
1982857 GT-CTTTAGAGAGTAGGATGCACTTTATTTCCTTTT-TCCTTTATCCTCAAAGAGCAGGAC-GAC
1 GTCCTTGA-AAAGCAGGAT-AAC-TT-TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACAC
* *
1982919 -T--TTTCC-TTTTCCCTTA
62 TTCATTTCCTTTTTTCCTTT
** * * * *
1982935 GTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGGCACACTTCA
1 GTCCTTGAAAAGCAGGATAACTTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
1983000 TTTCCTTTTTTCCTTT
66 TTTCCTTTTTTCCTTT
*
1983016 GTCCTTGAAAAGCAGGATAAC-TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATACACTTCA
1 GTCCTTGAAAAGCAGGATAACTTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
1983080 TTTCCTTTCTTTC
66 TTTCCTTT-TTTC
1983093 TTTTTTGTCC
Statistics
Matches: 190, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
75 8 0.04
76 24 0.13
77 4 0.02
78 12 0.06
79 6 0.03
80 56 0.29
81 30 0.16
82 8 0.04
83 9 0.05
84 3 0.02
85 3 0.02
86 23 0.12
87 4 0.02
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (81 bp):
GTCCTTGAAAAGCAGGATAACTTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
TTTCCTTTTTTCCTTT
Found at i:1983052 original size:38 final size:38
Alignment explanation
Indices: 1982883--1983116 Score: 186
Period size: 38 Copynumber: 5.9 Consensus size: 38
1982873 ATGCACTTTA
* **
1982883 TTTCCTTTT-TCCTTTATCCTCAAAGAGCAGGACGACT
1 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATAACT
* ** * * *
1982920 TTTCCTTTTC-CCTTAGTCCTTGAAGGGCAAGATGACTT
1 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATAAC-T
* **
1982958 TTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGGCACACTT
1 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATA-AC-T
* *
1982998 CATTTCCTTTTTTCCTTTGTCCTTGAAA-AGCAGGATAACT
1 --TTTCCTTTTCTCCTTTGTCC-TCAAAGAGCAGGATAACT
1983038 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATACACTT
1 TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATA-AC-T
**
1983078 CATTTCCTTTCTTTCTTTTTTGTCCTCAAAGAGCAGGAT
1 --TTTCC--T-TTTCTCCTTTGTCCTCAAAGAGCAGGAT
1983117 GCCTTTTTTT
Statistics
Matches: 157, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
37 32 0.20
38 38 0.24
39 18 0.11
40 6 0.04
41 2 0.01
42 30 0.19
43 4 0.03
44 1 0.01
45 26 0.17
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (38 bp):
TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGATAACT
Found at i:1983196 original size:62 final size:62
Alignment explanation
Indices: 1983099--1983502 Score: 621
Period size: 62 Copynumber: 6.5 Consensus size: 62
1983089 TTTCTTTTTT
* *
1983099 GTCCTCAAAGAGCAGGATGCCTTTTT-TTTTACAAAGCCCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-CAAAGCCCACACGAGTTGGTGGCACCCTTTA
* * * *
1983161 GTCCTCAAAAAGCAGGGCACCTTTTTCTTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
* * * **
1983223 GTCATCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
* * * *
1983285 GTCCTCAAAGAGCAGGATGCTTTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
* *
1983347 GTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
*
1983409 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
*
1983471 GTCCTCAAAGAGCAGGACACCTTTTTCTTTTC
1 GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTC
1983503 TTCTTTGTCC
Statistics
Matches: 313, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 309 0.99
63 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (62 bp):
GTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
Found at i:1983483 original size:697 final size:696
Alignment explanation
Indices: 1981835--1983771 Score: 3053
Period size: 697 Copynumber: 2.8 Consensus size: 696
1981825 CTTTTTGTCC
*** **
1981835 TCAAAGAGCAGGATGCCTTTTT-TTTTGCAAAGCCCACACGGGTTGGTGGCACATTTTAGTCCTC
1 TCAAAGAGCAGGATGCCTTTTTCTTTT-CAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTC
* *
1981899 AAAGAGCAAGGCA--CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCA
65 AAAGAGC-AGG-ATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
* * * **
1981962 AATAGCGGGATGCCTTTTTCTTTTCAAAGCCCACTTGAGTTGGTGGCACCCTTTAGTCCTCAAAG
128 AAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
* * * * ** *
1982027 AGTAGGATACGTTTTTGTTTTCGTAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC
193 AGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC
* *
1982092 AAGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCC
258 AGGACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTCC
* *
1982157 CTTTTGTCTTTAGAGAGCACGACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCCGGATG
323 CTTTTGTCTTTAGAGAGTA-GACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATG
* * *
1982222 ACTTTTCCTTTTCCCTTTGTCCTTGAAGGGCAACATGACTTTTGCTTTTT-TCCTTTGTCCTC-A
387 ACTTTTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAA
* * *
1982285 A-AGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAGAGCAAGATGACTTTTCCTTTT
452 AGAGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAAAGCAGGATAACTTTTCCTTTT
** *
1982349 CTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTTCCTTTTTATCCTCAAAGAGT
517 CTCCTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTCTTTCCTTTTTATCCTCAAAGAGC
* * *
1982414 AGGATGCCTTTTTTTTTGCAAAGCCCACACGAGTTGGTGGCACCTTTTTGTCCTCAAAGAGCAGG
582 AGGATGCCTTTTTTTTTACAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGG
** *
1982479 GTTCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
647 GCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCA
*
1982529 TCAAAGAGCAGGATGCCTTTTTTCTTTTCAAAGCCCACTTAAGTTGGTGGCACCCTTTAGTCCTC
1 TCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTC
*
1982594 AAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAA
65 AAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAA
*
1982659 GAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAG
130 GAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAG
* * *
1982724 CAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAGTCCTTAAAGAGCAG
195 CAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAG
* *
1982789 GACACCTTTTTCTGTTCTTCTTTGTCCTCAAAGAGTAAGACACATTTCATTTCCTTCTTTTCCCT
260 GACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTCCCT
* *
1982854 TTTGTCTTTAGAGAGTAGGATGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGACGAC
325 TTTGTCTTTAGAGAGTA-GACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATGAC
1982919 TTTTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAAAG
389 TTTTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAAAG
1982984 AGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAAAGCAGGATAACTTTTCCTTTTCT
454 AGCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAAAGCAGGATAACTTTTCCTTTTCT
* *
1983049 CCTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTCTTTCTTTTTTGTCCTCAAAGAGCAG
519 CCTTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTCTTTCCTTTTTATCCTCAAAGAGCAG
1983114 GATGCCTTTTTTTTTACAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGGC
584 GATGCCTTTTTTTTTACAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGGC
*
1983179 ACCTTTTTCTTTTCAAAGCCCATACGAGTTGGTGGCACCCTTTAGTCA
649 ACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCA
*
1983227 TCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTCA
1 TCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTCA
* *
1983292 AAGAGCAGGATGCTTTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAG
66 AAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
* *
1983357 AGCAAGACGCCTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGC
131 AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGC
*
1983422 AGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG
196 AGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG
* *
1983487 ACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCTTTCTTTTCCTTT
261 ACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTCCCTT
* * *
1983552 TTGTCTTTAGAGAGCTAGACACAATTAATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATGACT
326 TTGTCTTTAGAGAG-TAGACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATGACT
* * *
1983617 TTTCCTTTTCCCTTAGTCCTCGAAGGGCAAGACGAC-TTTTCTTTTTCTCCTTTGTCCTTAAAGA
390 TTTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAAAGA
* * * **
1983681 GCAGGGCACACTTCATTTCCTTTTCTCATTTGTCC-TCAAAGAGCAGGGCACACTTCATTTCCTT
455 GCAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAA-AGCAGGATA-AC-T--TTTCCTT
* **
1983745 TTTTCCTTTGTCCTTGAAGAGCAGGAT
515 TTCTCCTTTGTCCTCAAAGAGCAGGAT
1983772 GACTTTTCCT
Statistics
Matches: 1147, Mismatches: 83, Indels: 20
0.92 0.07 0.02
Matches are distributed among these distances:
693 1 0.00
694 20 0.02
695 377 0.33
696 83 0.07
697 388 0.34
698 247 0.22
700 31 0.03
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (696 bp):
TCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTCA
AAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGC
AGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG
ACACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTCCCTT
TTGTCTTTAGAGAGTAGACGCACTTTATTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATGACTT
TTCCTTTTCCCTTAGTCCTTGAAGGGCAAGATGACTTTTTCTTTTTCTCCTTTGTCCTCAAAGAG
CAGGGCACACTTCATTTCCTTTTTTCCTTTGTCCTTGAAAAGCAGGATAACTTTTCCTTTTCTCC
TTTGTCCTCAAAGAGCAGGATACACTTCATTTCCTTTCTTTCCTTTTTATCCTCAAAGAGCAGGA
TGCCTTTTTTTTTACAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGGCAC
CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCA
Found at i:1983573 original size:45 final size:45
Alignment explanation
Indices: 1983494--1983611 Score: 104
Period size: 45 Copynumber: 2.7 Consensus size: 45
1983484 AGGACACCTT
* *
1983494 TTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCATTTC
1 TTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACAATTAATTTC
* * *
1983539 TTTCTTTTCCTT-TTTGTCTTTAGAGAGCTA-GACACAATTAATTTC
1 TTTCTTTT-CTTCTTTGTCCTCAAAGAG-TAGGACACAATTAATTTC
* * *
1983584 ---CTTTT-TCCTTTATCCTCAAAGAGCAGGA
1 TTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGA
1983612 TGACTTTTCC
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
40 2 0.03
41 13 0.22
42 5 0.09
45 33 0.57
46 5 0.09
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (45 bp):
TTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACAATTAATTTC
Found at i:1983661 original size:36 final size:36
Alignment explanation
Indices: 1983580--1983683 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 36
1983570 ACACAATTAA
* * *
1983580 TTTCCTTTTTCCTTTATCCTCAAAGAGCAGGATGACT
1 TTTCC-TTTTCCCTTATCCTCAAAGAGCAAGACGACT
* *
1983617 TTTCCTTTTCCCTTAGTCCTCGAAGGGCAAGACGACT
1 TTTCCTTTTCCCTTA-TCCTCAAAGAGCAAGACGACT
* * *
1983654 TTTCTTTTTCTCCTTTGTCCTTAAAGAGCA
1 TTTCCTTTTC-CC-TTATCCTCAAAGAGCA
1983684 GGGCACACTT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
36 9 0.17
37 31 0.57
38 12 0.22
39 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCTTTTCCCTTATCCTCAAAGAGCAAGACGACT
Found at i:1983713 original size:42 final size:41
Alignment explanation
Indices: 1983471--1983952 Score: 324
Period size: 41 Copynumber: 11.8 Consensus size: 41
1983461 GCACCTTTTA
* *
1983471 GTCCTCAAAGAGCAGGACAC-CTT-TTT-CTTTTCTTCTTT
1 GTCCTCAAAGAGCAGGGCACACTTATTTCCTTTTCTCCTTT
* * * * *
1983509 GTCCTCAAAGAGTAGGACACATTTCATTTCTTTCTTTTCCTTTTT
1 GTCCTCAAAGAGCAGGGCACACTT-ATTTCCTT-TTCTCC--TTT
* * * * *
1983554 GTCTTTAGAGAGCTA-GACACAATTAATTTCCTTTT-TCCTTT
1 GTCCTCAAAGAGC-AGGGCACACTT-ATTTCCTTTTCTCCTTT
* * *
1983595 ATCCTCAAAGAGCA-GG-ATGAC-T-TTTCCTTTTC-CCTTA
1 GTCCTCAAAGAGCAGGGCA-CACTTATTTCCTTTTCTCCTTT
* * * *
1983632 GTCCTCGAAGGGCA-AG-ACGAC-T-TTTCTTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGGCAC-ACTTATTTCCTTTTCTCCTTT
* *
1983670 GTCCTTAAAGAGCAGGGCACACTTCATTTCCTTTTCTCATTT
1 GTCCTCAAAGAGCAGGGCACACTT-ATTTCCTTTTCTCCTTT
*
1983712 GTCCTCAAAGAGCAGGGCACACTTCATTTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGGCACACTT-ATTTCCTTTTCTCCTTT
** *
1983754 GTCCTTGAAGAGCA-GG-ATGAC-T-TTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGGCA-CACTTATTTCCTTTTCTCCTTT
* * *
1983792 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTCTTTCCTTTTT
1 GTCCTCAAAGAGCAGGGCACACTT-ATTTCCTTT-TCTCC--TTT
*
1983837 GTCCTCAAAGAGCAGGATGCACTC-TATTTCCTTTTC-CCTTT
1 GTCCTCAAAGAGCAGG--GCACACTTATTTCCTTTTCTCCTTT
* *
1983878 GTCCTCAAAGAGCATGATGCACTC-TATTTCCTTTTC-CCTTT
1 GTCCTCAAAGAGCA-G-GGCACACTTATTTCCTTTTCTCCTTT
* * *
1983919 GTCCTCAAAGGGCATGACACACTTTATTTCCTTT
1 GTCCTCAAAGAGCAGGGCACAC-TTATTTCCTTT
1983953 CTTCCCTTAT
Statistics
Matches: 356, Mismatches: 56, Indels: 61
0.75 0.12 0.13
Matches are distributed among these distances:
37 38 0.11
38 61 0.17
39 14 0.04
40 9 0.03
41 82 0.23
42 76 0.21
43 13 0.04
44 3 0.01
45 55 0.15
46 2 0.01
47 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGGCACACTTATTTCCTTTTCTCCTTT
Found at i:1983788 original size:122 final size:121
Alignment explanation
Indices: 1983569--1984017 Score: 409
Period size: 122 Copynumber: 3.7 Consensus size: 121
1983559 TAGAGAGCTA
* * * * *
1983569 GACACAATTAATTTCCTTTT-TCCTTTATCCTCAAAGAGCA-GG-ATGAC-T--TTTCCTTTTCC
1 GACACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGCA-CACTTCATTTCCTTTTCC
* * * * * *
1983628 CTTAGTCCTCGAAGGGCAAGACGACTTTTCTTTTTCTCCTTTGTCCTTAAAGAGCAG
65 CTTTGTCCTCGAAGAGCAGGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAG
* *
1983685 GGCACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGCACACTTCATTTCCTTTTTTC
1 GACACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGCACACTTCATTTCC-TTTTCC
*
1983750 CTTTGTCCTTGAAGAGCAGGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAG
65 CTTTGTCCTCGAAGAGCAGGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAG
* * * *
1983807 GACGCACTTCATTTCCTTTCTTTCCTTTTTGTCCTCAAAGAGCAGGATGCACTC-T-ATTTCCTT
1 GACACACTTCATTTCCTTT-TCT-C-ATTTGTCCTCAAAGAGCAGG--GCACACTTCATTTCCTT
* * * *
1983870 TTCCCTTTGTCCTCAAAGAGCATGATGCACTCTATTTCCTTTTC-CCTTTGTCCTCAAAGGGCAT
61 TTCCCTTTGTCCTCGAAGAGCAGGATG-A--CT-TTTCCTTTTCTCCTTTGTCCTCAAAGAGCAG
* ** * * * * * *
1983934 GACACACTTTATTTCC-TTTCTTCCCTTATCTTCAAGGAGCAGGACCCATTTCA-TTCTCTTTT-
1 GACACACTTCATTTCCTTTTC-TCATTTGTCCTCAAAGAGCAGGGCACACTTCATTTC-CTTTTC
*
1983996 CCTTTGTCCTGGAAGAGCAGGA
64 CCTTTGTCCTCGAAGAGCAGGA
1984018 CATACTCCTT
Statistics
Matches: 273, Mismatches: 40, Indels: 33
0.79 0.12 0.10
Matches are distributed among these distances:
116 17 0.06
117 18 0.07
118 4 0.01
119 2 0.01
121 5 0.02
122 74 0.27
123 25 0.09
124 47 0.17
125 28 0.10
126 4 0.01
127 39 0.14
128 10 0.04
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (121 bp):
GACACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGCACACTTCATTTCCTTTTCCC
TTTGTCCTCGAAGAGCAGGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAG
Found at i:1983793 original size:80 final size:80
Alignment explanation
Indices: 1983579--1983928 Score: 330
Period size: 80 Copynumber: 4.3 Consensus size: 80
1983569 GACACAATTA
* * *
1983579 ATTTCC-TTTTTCCTTTATCCTCAAAGAGCAGGATGACT-TTTCCTTTTCCCTTAGTCCTCGAAG
1 ATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGATGACTATTTCCTTTTCCCTTTGTCCTCAAAG
* *
1983642 GGCA-AG-ACGAC-T-
66 AGCAGGGCAC-ACTTC
* * *
1983654 -TTT-CTTTTTCTCCTTTGTCCTTAAAGAGCAGGGCA-CACTTCATTTCCTTTTCTCATTTGTCC
1 ATTTCCTTTTT-TCCTTTGTCCTCAAAGAGCA-GG-ATGAC-T-ATTTCCTTTTC-CCTTTGTCC
1983716 TCAAAGAGCAGGGCACACTTC
60 TCAAAGAGCAGGGCACACTTC
**
1983737 ATTTCCTTTTTTCCTTTGTCCTTGAAGAGCAGGATGACT-TTTCCTTTTCTCCTTTGTCCTCAAA
1 ATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGATGACTATTTCCTTTTC-CCTTTGTCCTCAAA
* *
1983801 GAGCAGGACGCACTTC
65 GAGCAGGGCACACTTC
1983817 ATTTCCTTTCTTTCCTTTTTGTCCTCAAAGAGCAGGATGCACTCTATTTCCTTTTCCCTTTGTCC
1 ATTTCCTTT-TTTCC--TTTGTCCTCAAAGAGCAGGATG-A--CTATTTCCTTTTCCCTTTGTCC
* *
1983882 TCAAAGAGCATGATGCACTC-T-
60 TCAAAGAGCA-G-GGCACACTTC
*
1983903 ATTTCC-TTTTCCCTTTGTCCTCAAAG
1 ATTTCCTTTTTTCCTTTGTCCTCAAAG
1983929 GGCATGACAC
Statistics
Matches: 231, Mismatches: 20, Indels: 41
0.79 0.07 0.14
Matches are distributed among these distances:
73 1 0.00
74 7 0.03
75 18 0.08
76 4 0.02
77 2 0.01
79 10 0.04
80 62 0.27
81 8 0.03
82 18 0.08
83 24 0.10
84 27 0.12
85 8 0.03
86 27 0.12
87 12 0.05
88 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.39
Consensus pattern (80 bp):
ATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGATGACTATTTCCTTTTCCCTTTGTCCTCAAAG
AGCAGGGCACACTTC
Found at i:1984029 original size:283 final size:277
Alignment explanation
Indices: 1983471--1984080 Score: 608
Period size: 283 Copynumber: 2.2 Consensus size: 277
1983461 GCACCTTTTA
* * * * *
1983471 GTCCTCAAAGAGCAGGA-CACCTTTTTCTTTTCTTCTTTGTCCTCAAAGAGTAGGACACATTTCA
1 GTCCTCGAAGAGCAGGATGA-C-TTTTCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
* * * *
1983535 TTTCTTTCTTTTCCTTTTTGTCTTTAGAGAGCTAGACACAATTAATTTCCTTTTTCCTTTATCCT
64 TTTCTTTCTTTTCCTTTTTGTCCTCAAAGAGCTAGACACAATTAATTTCCTTTTCCCTTTATCCT
* *
1983600 CAAAGAGCAGGATGACTTTTCCTTTTCCCTTAGTCCTCGAAGGGCAAGACGACTTTTCTTTTTCT
129 CAAAGAGCAGGATGACTTTTCCTTTTCCCTTAGTCCTCAAAGGGCAAGACCACTTTTCTTTTTCT
* * *
1983665 CCTTTGTCCTTAAAGAGCAGGGCACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGC
194 CCCTTATCCTTAAAGAGCAGGACACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGC
* *
1983730 ACACTTCATTTCCTTTTTTCCTTT
259 ACAC-TCATCTCC--TTTT-C-TC
* *
1983754 GTCCTTGAAGAGCAGGATGACTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCAT
1 GTCCTCGAAGAGCAGGATGACTTTT-CTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCAT
** * *
1983819 TTCCTTTC-TTTCCTTTTTGTCCTCAAAGAGC-AGGATGCACTCT-ATTTCCTTTTCCCTTTGTC
65 TT-CTTTCTTTTCCTTTTTGTCCTCAAAGAGCTA-GACACAAT-TAATTTCCTTTTCCCTTTATC
* * *
1983881 CTCAAAGAGCATGATGCACTCTATTTCCTTTTCCCTTTGTCCTCAAAGGGCATGACACACTTTAT
127 CTCAAAGAGCAGGATG-A--CT-TTTCCTTTTCCCTTAGTCCTCAAAGGGCAAGAC-CACTTT-T
* * *
1983946 -TTCCTTTCTTCCCTTAT-CTTCAAGGAGCAGGACCCATTTCA-TTCTCTTTTC-C-TTTGTCCT
186 CTT--TTTC-TCCCTTATCCTT-AAAGAGCAGGACACACTTCATTTC-CTTTTCTCATTTGTCCT
**
1984006 GGAAGAGCA-GG-ACA-T-A-CTCCTTTTCTC
246 CAAAGAGCAGGGCACACTCATCTCCTTTTCTC
*
1984033 GTCCTCGAAGAGTAGGATGTAC--TTC-TTT-TCCTTTGTCCTCAAAGAGCA
1 GTCCTCGAAGAGCAGGATG-ACTTTTCTTTTCTCCTTTGTCCTCAAAGAGCA
1984081 AGATGCCCCT
Statistics
Matches: 278, Mismatches: 32, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
275 20 0.07
276 3 0.01
277 1 0.00
278 2 0.01
279 18 0.06
280 3 0.01
281 4 0.01
282 5 0.02
283 113 0.41
284 9 0.03
285 1 0.00
286 2 0.01
287 33 0.12
288 9 0.03
289 16 0.06
290 11 0.04
291 28 0.10
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (277 bp):
GTCCTCGAAGAGCAGGATGACTTTTCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCATT
TCTTTCTTTTCCTTTTTGTCCTCAAAGAGCTAGACACAATTAATTTCCTTTTCCCTTTATCCTCA
AAGAGCAGGATGACTTTTCCTTTTCCCTTAGTCCTCAAAGGGCAAGACCACTTTTCTTTTTCTCC
CTTATCCTTAAAGAGCAGGACACACTTCATTTCCTTTTCTCATTTGTCCTCAAAGAGCAGGGCAC
ACTCATCTCCTTTTCTC
Found at i:1984078 original size:34 final size:34
Alignment explanation
Indices: 1983990--1984080 Score: 105
Period size: 32 Copynumber: 2.7 Consensus size: 34
1983980 CATTTCATTC
*
1983990 TCTTTTCCTTTGTCCTGGAAGAGCAGGACATACT
1 TCTTTTCCTTTGTCCTCGAAGAGCAGGACATACT
* * * **
1984024 CCTTTT-C-TCGTCCTCGAAGAGTAGGATGTACT
1 TCTTTTCCTTTGTCCTCGAAGAGCAGGACATACT
*
1984056 TCTTTTCCTTTGTCCTCAAAGAGCA
1 TCTTTTCCTTTGTCCTCGAAGAGCA
1984081 AGATGCCCCT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
32 25 0.56
33 2 0.04
34 18 0.40
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (34 bp):
TCTTTTCCTTTGTCCTCGAAGAGCAGGACATACT
Found at i:1984475 original size:20 final size:20
Alignment explanation
Indices: 1984452--1984524 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1984442 ACAATTCAAA
1984452 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1984472 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
1984493 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1984513 GTATCGATACAT
1 GTATCGATACAT
1984525 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1984495 original size:21 final size:21
Alignment explanation
Indices: 1984469--1984545 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
1984459 TACATGTTGC
1984469 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
1984490 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
1984510 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
1984530 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
1984546 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:1984503 original size:41 final size:41
Alignment explanation
Indices: 1984452--1984545 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
1984442 ACAATTCAAA
1984452 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
1984493 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1984534 GTATCGATACAT
1 GTATCGATACAT
1984546 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1984602 original size:13 final size:13
Alignment explanation
Indices: 1984584--1984609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1984574 TACAGCAAGT
1984584 ATGTATCGATACA
1 ATGTATCGATACA
1984597 ATGTATCGATACA
1 ATGTATCGATACA
1984610 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1988691 original size:15 final size:15
Alignment explanation
Indices: 1988671--1988701 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1988661 TAAAAATGTC
*
1988671 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1988686 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1988701 C
1 C
1988702 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1990800 original size:13 final size:13
Alignment explanation
Indices: 1990782--1990819 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1990772 CATTTTTATT
1990782 TGTATCGATACAA
1 TGTATCGATACAA
*
1990795 TGTATCGATACAC
1 TGTATCGATACAA
1990808 TGTATCGATACA
1 TGTATCGATACA
1990820 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1992713 original size:48 final size:48
Alignment explanation
Indices: 1992659--1992754 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
1992649 GGGGAGATAA
1992659 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1992707 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1992755 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:1993330 original size:20 final size:20
Alignment explanation
Indices: 1993307--1993379 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1993297 ACAATTCAAA
1993307 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1993327 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
1993348 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1993368 GTATCGATACAT
1 GTATCGATACAT
1993380 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1993350 original size:21 final size:21
Alignment explanation
Indices: 1993324--1993400 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
1993314 TACATGTTGC
1993324 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
1993345 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
1993365 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
1993385 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
1993401 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:1993358 original size:41 final size:41
Alignment explanation
Indices: 1993307--1993400 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
1993297 ACAATTCAAA
1993307 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
1993348 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1993389 GTATCGATACAT
1 GTATCGATACAT
1993401 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1993457 original size:13 final size:13
Alignment explanation
Indices: 1993439--1993464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1993429 TACAGCAAGT
1993439 ATGTATCGATACA
1 ATGTATCGATACA
1993452 ATGTATCGATACA
1 ATGTATCGATACA
1993465 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1994863 original size:19 final size:20
Alignment explanation
Indices: 1994841--1994889 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 20
1994831 AAACTAGGAA
1994841 AAAAAAGAGAAAG-A-AAA-
1 AAAAAAGAGAAAGAACAAAG
*
1994858 ATAAAAGAGAAA-AACAAAG
1 AAAAAAGAGAAAGAACAAAG
*
1994877 AAAAAAGATAAAG
1 AAAAAAGAGAAAG
1994890 TTTCTTGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 10 0.40
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAAAGAGAAAGAACAAAG
Found at i:1998133 original size:79 final size:79
Alignment explanation
Indices: 1997706--1998158 Score: 438
Period size: 79 Copynumber: 5.7 Consensus size: 79
1997696 ATTCATGTTT
* * * * * * * * * * *
1997706 TTATTTTCGAGGGGATACTCTAATCCCGATTTTATTTCTAGAATACCAAATTTTCACAATCGCGG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
* **
1997771 ATACTCCAATCTTA
66 ATACTCCAACCCCA
* * * * *
1997785 TTTTTTTTGAGGGGATACTCTAACCTCGGTTTTATTTTCAAAACATTAATTTTTCATAATCGGGG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
**
1997850 ATACTCCAACCCTG
66 ATACTCCAACCCCA
* * * *
1997864 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTAATTCTAAAACACCAATTTTTCATAATCGGGA
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
* *
1997929 ATACTTCAACCTCA
66 ATACTCCAACCCCA
* * * * * ** * * * * *
1997943 TTATTTTTTAGAGAATATTCCAAGCGTGGTTTTAGTTCCAAAACACCAATTTTTCACAATCAGAG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
1998008 ATACTCCAACCCCA
66 ATACTCCAACCCCA
* * *
1998022 TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
* * *
1998087 ATACTTCGACCCCG
66 ATACTCCAACCCCA
* ** * * *
1998101 TTATTTTTGAGGGGATACCCCAACCCCAATTTTATCTCCAAAATATTAAATTTTTCAT
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTTCAT
1998159 CCGGAGATGT
Statistics
Matches: 303, Mismatches: 70, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
79 293 0.97
80 10 0.03
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (79 bp):
TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
ATACTCCAACCCCA
Found at i:1998134 original size:158 final size:157
Alignment explanation
Indices: 1997706--1998143 Score: 489
Period size: 158 Copynumber: 2.8 Consensus size: 157
1997696 ATTCATGTTT
* * * * * *
1997706 TTATTTTCGAGGGGATACTCTAATCCCGATTTTATTTCTAGAATACCAAATTTTCACAATCGCGG
1 TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGG
* * * * * * * **
1997771 ATACTCCAATCTTATTTTTTTTGAGGGGATACTCTAACCTCGGTTTTATTTTCAAAACATTAATT
66 ATACTTCAACCTCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTA-TTCCAAAACACCAATT
* * * **
1997836 TTTCATAATCGGGGATACTCCAACCCTG
130 TTTCACAATCAGAGATACTCCAACCCCA
* * * * *
1997864 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTAATTCTAAAACACCAATTTTTCATAATCGGGA
1 TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGG
* * * * * **
1997929 ATACTTCAACCTCATTATTTTTTAGAGAATATTCCAAGCGTGGTTTTAGTTCCAAAACACCAATT
66 ATACTTCAACCTCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTA-TTCCAAAACACCAATT
1997994 TTTCACAATCAGAGATACTCCAACCCCA
130 TTTCACAATCAGAGATACTCCAACCCCA
* *
1998022 TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATCGGGG
1 TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGG
* * * * **
1998087 ATACTTCGACCCCGTTATTTTTGAGGGGATACCCCAACCCCAATTTTATCTCCAAAA
66 ATACTTCAACCTCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTAT-TCCAAAA
1998144 TATTAAATTT
Statistics
Matches: 227, Mismatches: 52, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
157 1 0.00
158 226 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (157 bp):
TTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGG
ATACTTCAACCTCATTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTCCAAAACACCAATTT
TTCACAATCAGAGATACTCCAACCCCA
Found at i:1999761 original size:59 final size:58
Alignment explanation
Indices: 1999683--1999867 Score: 219
Period size: 58 Copynumber: 3.2 Consensus size: 58
1999673 GATTTCTTAC
* * *
1999683 ATGTTAAGGTCATTCAGGTCATTTTCCATGATGTATGGACTTTTATGCAAATTTTATGT
1 ATGTTAAGGTCATTCAGGTCATTTTCCATGATCTAAGGAATTTTATGC-AATTTTATGT
* * * * *
1999742 ATGTTAGGGTCATTGAGGTCATCTTCCATGATCTAAGGATTTTTATGCAATTTTATGA
1 ATGTTAAGGTCATTCAGGTCATTTTCCATGATCTAAGGAATTTTATGCAATTTTATGT
* * * * *
1999800 ATGTTACA-GTCATTTAGGTCATTTTTCATGATCTAAGGAATTTTAAGCAATTTCATAT
1 ATGTTA-AGGTCATTCAGGTCATTTTCCATGATCTAAGGAATTTTATGCAATTTTATGT
*
1999858 ATGTTGAGGT
1 ATGTTAAGGT
1999868 TTTTTAGATC
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
57 1 0.01
58 64 0.60
59 42 0.39
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (58 bp):
ATGTTAAGGTCATTCAGGTCATTTTCCATGATCTAAGGAATTTTATGCAATTTTATGT
Found at i:1999880 original size:58 final size:58
Alignment explanation
Indices: 1999683--1999892 Score: 156
Period size: 58 Copynumber: 3.6 Consensus size: 58
1999673 GATTTCTTAC
* * * * * * * * *
1999683 ATGTTA-AGGTCATTCAGGTCATTTTCCATGATGTATGGACTTTTATGCAAATTTTATGT
1 ATGTTACA-GTCATTTAGATCATTTTTCATGATCTAAGGAATTTTAAGC-AATTTCATGA
** * * * * * * *
1999742 ATGTTAGGGTCATTGAGGTCATCTTCCATGATCTAAGGATTTTTATGCAATTTTATGA
1 ATGTTACAGTCATTTAGATCATTTTTCATGATCTAAGGAATTTTAAGCAATTTCATGA
*
1999800 ATGTTACAGTCATTTAGGTCATTTTTCATGATCTAAGGAATTTTAAGCAATTTCAT-A
1 ATGTTACAGTCATTTAGATCATTTTTCATGATCTAAGGAATTTTAAGCAATTTCATGA
* ** *
1999857 TATGTTGA-GGTTTTTTAGATCATTTTTCATTATCTA
1 -ATGTT-ACAGTCATTTAGATCATTTTTCATGATCTA
1999893 TTGACTTTTT
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
57 1 0.01
58 85 0.66
59 42 0.33
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (58 bp):
ATGTTACAGTCATTTAGATCATTTTTCATGATCTAAGGAATTTTAAGCAATTTCATGA
Found at i:2002946 original size:20 final size:20
Alignment explanation
Indices: 2002921--2002959 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2002911 TTATATATGA
2002921 AAAAATTGAAT-TCATATCAC
1 AAAAATT-AATATCATATCAC
2002941 AAAAATTAATATCATATCA
1 AAAAATTAATATCATATCA
2002960 ATAAACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAATTAATATCATATCAC
Found at i:2003520 original size:11 final size:12
Alignment explanation
Indices: 2003468--2003534 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 12
2003458 GGAACTAGTT
2003468 TAAAAA-TAAAA
1 TAAAAATTAAAA
2003479 T-AAAA-TAAAA
1 TAAAAATTAAAA
*
2003489 T-AAAATAAATAA
1 TAAAAATTAA-AA
*
2003501 TCTAAAATTAAAA
1 T-AAAAATTAAAA
*
2003514 -GAAAATTAAAA
1 TAAAAATTAAAA
2003525 TAAAAATTAA
1 TAAAAATTAA
2003535 TAACATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 14 0.30
11 13 0.28
12 11 0.23
13 2 0.04
14 7 0.15
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:2003537 original size:41 final size:40
Alignment explanation
Indices: 2003470--2003550 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
2003460 AACTAGTTTA
* *
2003470 AAAATAAAATAAAATAAAATAAAATAA-ATAATCTAAAATT
1 AAAAGAAAATAAAATAAAATAAAATAACATAA-ATAAAATT
*
2003510 AAAAGAAAATTAAAATAAAA-ATTAATAACATAAATAAAATT
1 AAAAGAAAA-TAAAATAAAATA-AAATAACATAAATAAAATT
2003551 TTGGAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 9 0.26
41 22 0.63
42 4 0.11
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (40 bp):
AAAAGAAAATAAAATAAAATAAAATAACATAAATAAAATT
Found at i:2003549 original size:5 final size:5
Alignment explanation
Indices: 2003470--2003529 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
2003460 AACTAGTTTA
** *
2003470 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AATCT AAAATT AAAAG AAAATT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAA-T
2003521 AAAAT AAAA
1 AAAAT AAAA
2003530 ATTAATAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.09
5 33 0.72
6 9 0.20
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:2005128 original size:66 final size:66
Alignment explanation
Indices: 2004858--2005309 Score: 291
Period size: 66 Copynumber: 7.0 Consensus size: 66
2004848 TGATGCAGTT
* * * * * * * * *
2004858 AAGCAAAGATGACTAGGATGTAA-CCTAGGTCT-AGAGGGTTGACCAGGGCAAAATTGATAC-AG
1 AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACTAATACAAT
2004920 C
66 C
* * * * * * * * **
2004921 TAACCAAAGATGACCAAGATGTAA-CCTAGGTTTAAAA-GGTTCACTAGGATGAAA-TCAATACA
1 -AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACT-AATACA
2004983 ATC
64 ATC
* * * * * * * *
2004986 AAACAAAGGTGGCTAGGATATAATCCTAGGTTTAAAAGGGTTAACCA-GGC-AAAATCAATACAG
1 AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACT-AATACAA
2005049 TC
65 TC
* * * *
2005051 AAGTGAAGGTGACTAGGATATAATCCTGGGTCTAAAAAGGTTGGCTAGGGCGAAACTAATACAAT
1 AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACTAATACAAT
*
2005116 T
66 C
* * *
2005117 AAGCGAAGGTGACCAAGG-TATAATCCTAGGTCTAAAAGGGTTGACTAGGGTGAAACCAATACAA
1 AAGCGAAGGTGA-CTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACTAATACAA
2005181 TC
65 TC
* * * * * ** * *
2005183 AGGCGAAGGTGACCAAGATATAATCTTAGGTCTAAAAGGGTTGACAAAAGC-AGAACTGATACAG
1 AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGA-AACTAATACAA
2005247 TC
65 TC
* * * * * * * *
2005249 AAAC-ATATGTGACTAGGATGTAA-CCTATGTCT-AAAGGGTTAATTAGGGCAAAACTTATACA
1 AAGCGA-AGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACTAATACA
2005310 GTTAAACAAC
Statistics
Matches: 306, Mismatches: 69, Indels: 26
0.76 0.17 0.06
Matches are distributed among these distances:
63 1 0.00
64 85 0.28
65 78 0.25
66 134 0.44
67 8 0.03
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (66 bp):
AAGCGAAGGTGACTAGGATATAATCCTAGGTCTAAAAGGGTTGACTAGGGCGAAACTAATACAAT
C
Found at i:2005442 original size:64 final size:62
Alignment explanation
Indices: 2004942--2005445 Score: 239
Period size: 66 Copynumber: 7.8 Consensus size: 62
2004932 GACCAAGATG
* * * * * *
2004942 TAACCTAGGTTTAAAAGGTTCACTAGGATGAAATCAATACAATCAAACAAAGGTGGCTAGGATA
1 TAACCTAGGTCTAAAGGGTTGACTAGGGTGAAATCAATACAGTCAAAC-AAGGTGACTAGGA-A
* * * ** **
2005006 TAATCCTAGGTTTAAAAGGGTTAACCA-GGCAAAATCAATACAGTCAAGTGAAGGTGACTAGGAT
1 TAA-CCTAGGTCT-AAAGGGTTGACTAGGGTGAAATCAATACAGTCAA-ACAAGGTGACTAGGA-
2005070 A
62 A
* * * * * * * *
2005071 TAATCCTGGGTCTAAAAAGGTTGGCTAGGGCGAAA-CTAATACAATTAAGCGAAGGTGACCAAGG
1 TAA-CCTAGGTCT-AAAGGGTTGACTAGGGTGAAATC-AATACAGTCAAAC-AAGGTGA-CTAGG
*
2005135 TA
61 AA
* * ** * *
2005137 TAATCCTAGGTCTAAAAGGGTTGACTAGGGTGAAACCAATACAATCAGGCGAAGGTGACCAAGAT
1 TAA-CCTAGGTCT-AAAGGGTTGACTAGGGTGAAATCAATACAGTCAAAC-AAGGTGACTAGGA-
2005202 A
62 A
* * * ** * * *
2005203 TAATCTTAGGTCTAAAAGGGTTGACAAAAGCAGAACT-GATACAGTCAAACATATGTGACTAGGA
1 TAA-CCTAGGTCT-AAAGGGTTGAC-TAGGGTGAAATCAATACAGTCAAACA-AGGTGACTAGGA
*
2005267 TG
62 -A
* * * * * * * ** ** *
2005269 TAACCTATGTCTAAAGGGTTAATTAGGG-CAAAACTTATACAGTTAAACAA--CAACCCGAAAA
1 TAACCTAGGTCTAAAGGGTTGACTAGGGTGAAATC-AATACAGTCAAACAAGGTGACTAG-GAA
* * * *
2005330 TAACCTAAGTCTAAAGGGTTGACCAGGGTGAAA-CTAATATAGTTAAACAAGGATGACTAGGAA
1 TAACCTAGGTCTAAAGGGTTGACTAGGGTGAAATC-AATACAGTCAAACAAGG-TGACTAGGAA
* *
2005393 GTAACCTAGGTCTAAAGAGTTGACTAGGGTGAAATCGATACAGTCAAACAAGG
1 -TAACCTAGGTCTAAAGGGTTGACTAGGGTGAAATCAATACAGTCAAACAAGG
2005446 GAAAAATGTT
Statistics
Matches: 337, Mismatches: 83, Indels: 40
0.73 0.18 0.09
Matches are distributed among these distances:
61 42 0.12
62 6 0.02
63 5 0.01
64 71 0.21
65 73 0.22
66 130 0.39
67 10 0.03
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (62 bp):
TAACCTAGGTCTAAAGGGTTGACTAGGGTGAAATCAATACAGTCAAACAAGGTGACTAGGAA
Found at i:2014939 original size:13 final size:13
Alignment explanation
Indices: 2014921--2014946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2014911 CATTTTGGGA
2014921 TGTATCGATACAT
1 TGTATCGATACAT
2014934 TGTATCGATACAT
1 TGTATCGATACAT
2014947 ATTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2014943 original size:33 final size:32
Alignment explanation
Indices: 2014901--2014964 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2014891 TACAAGCCAA
*
2014901 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
2014934 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
2014965 AATAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:2015064 original size:13 final size:13
Alignment explanation
Indices: 2015046--2015070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2015036 ACATTTGGTC
2015046 ATGTATCGATACA
1 ATGTATCGATACA
2015059 ATGTATCGATAC
1 ATGTATCGATAC
2015071 TATGCATTAT
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):
ATGTATCGATACA
Found at i:2015103 original size:20 final size:19
Alignment explanation
Indices: 2015080--2015118 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
2015070 CTATGCATTA
2015080 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
2015100 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
2015119 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:2017559 original size:13 final size:13
Alignment explanation
Indices: 2017541--2017576 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2017531 ATAAACCCTT
*
2017541 TGTATCGATACAC
1 TGTATCGATACAA
2017554 TGTATCGATACAA
1 TGTATCGATACAA
2017567 TGTATCGATA
1 TGTATCGATA
2017577 TAGAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2017803 original size:16 final size:17
Alignment explanation
Indices: 2017776--2017807 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2017766 ATTTTCAACA
2017776 TCAAACATCACAAAATC
1 TCAAACATCACAAAATC
2017793 TCAAA-ATCACAAAAT
1 TCAAACATCACAAAAT
2017808 TTAATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (17 bp):
TCAAACATCACAAAATC
Found at i:2022111 original size:3 final size:3
Alignment explanation
Indices: 2022103--2022136 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2022093 TCTGAGTCAC
*
2022103 CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
2022137 GTCCTTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:2023747 original size:19 final size:20
Alignment explanation
Indices: 2023702--2023753 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2023692 TTACAAGCCA
*
2023702 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
2023722 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
*
2023742 -TGTATCAATACA
1 ATGTATCGATACA
2023754 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Done.