Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 6 of 18
Found at i:998976 original size:13 final size:13
Alignment explanation
Indices: 998958--998995 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
998948 ATAATCCCCC
998958 TGTATCGATACAG
1 TGTATCGATACAG
*
998971 TGTATCGATACAT
1 TGTATCGATACAG
998984 TGTATCGATACA
1 TGTATCGATACA
998996 AAGAAAAATG
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:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1001097 original size:15 final size:15
Alignment explanation
Indices: 1001077--1001106 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1001067 ATTTCGTTTG
*
1001077 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1001092 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1001107 AGATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1002939 original size:21 final size:21
Alignment explanation
Indices: 1002910--1002954 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1002900 AAGTTTTTAT
*
1002910 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1002930 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1002952 TTT
1 TTT
1002955 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1008461 original size:20 final size:20
Alignment explanation
Indices: 1008418--1008463 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1008408 AAATCTTTTG
1008418 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1008439 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1008459 CAAAA
1 CAAAA
1008464 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1010875 original size:32 final size:33
Alignment explanation
Indices: 1010832--1010896 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1010822 TAGCCAAACT
*
1010832 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
1010864 TGTATCAATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
1010897 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:1012304 original size:20 final size:21
Alignment explanation
Indices: 1012279--1012333 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1012269 GTATCGATAC
**
1012279 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
*
1012299 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACATGAAAAG
1012320 AATGTATCGATACA
1 AATGTATCGATACA
1012334 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:1017995 original size:21 final size:21
Alignment explanation
Indices: 1017971--1018022 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1017961 GAACTAGAGG
**
1017971 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTACAAA
1017992 AGAAAA-GAAATGAGTTACAAA
1 AGAAAATG-AATGAGTTACAAA
1018013 ATGAAAATGA
1 A-GAAAATGA
1018023 TGAATTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 6 0.23
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAAAATGAATGAGTTACAAA
Found at i:1021114 original size:33 final size:32
Alignment explanation
Indices: 1021068--1021132 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
1021058 ATACACCTAG
**
1021068 ATGTATCGGTACATATTGC-TTAGTATCGATACA
1 ATGTATCAATACATATT-CATTA-TATCGATACA
*
1021101 ATGTATCAATACATGTTCATTATATCGATACA
1 ATGTATCAATACATATTCATTATATCGATACA
1021133 TCATGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
ATGTATCAATACATATTCATTATATCGATACA
Found at i:1021818 original size:36 final size:34
Alignment explanation
Indices: 1021760--1021875 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 34
1021750 AGTGATTGTG
**
1021760 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCCGTG-AAAAGATA-GGAGAA
*
1021796 AGGTTCTATCTTAGCCCGTGAAAAGACATGGAG--
1 AGGTTCTATCTTAGCCCGTGAAAAGATA-GGAGAA
*
1021829 -GTTTCTATCTTAGCCCGTGAAAAGAT---AGAA
1 AGGTTCTATCTTAGCCCGTGAAAAGATAGGAGAA
1021859 AGGTTTCTATCTTAGCC
1 AGG-TTCTATCTTAGCC
1021876 TTGAAAGATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.03
31 1 0.01
32 37 0.54
35 11 0.16
36 18 0.26
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCCGTGAAAAGATAGGAGAA
Found at i:1021840 original size:32 final size:32
Alignment explanation
Indices: 1021792--1021875 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 32
1021782 AAAGATAGGG
1021792 AGAAAGG-TTCTATCTTAGCCCGTGAAAAGAC
1 AGAAAGGTTTCTATCTTAGCCCGTGAAAAGAC
* *
1021823 ATG-GAGGTTTCTATCTTAGCCCGTGAAAAGAT
1 A-GAAAGGTTTCTATCTTAGCCCGTGAAAAGAC
1021855 AGAAAGGTTTCTATCTTAGCC
1 AGAAAGGTTTCTATCTTAGCC
1021876 TTGAAAGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
31 5 0.11
32 42 0.89
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (32 bp):
AGAAAGGTTTCTATCTTAGCCCGTGAAAAGAC
Found at i:1023148 original size:40 final size:40
Alignment explanation
Indices: 1023111--1023209 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
1023101 CTGACAAGCC
* * *
1023111 AACAAATTAGAAAGGTTGATTGGGACAAAATCAACAAGTT
1 AACAAATGAGAAAGGTTGATTGGGAAAAAATCAACAAGTA
*
1023151 AACAAATGA-AAAGGATTGATTGGGAAAAAATTAACAAGTA
1 AACAAATGAGAAAGG-TTGATTGGGAAAAAATCAACAAGTA
*
1023191 AACAAATGAGAAGGGTTGA
1 AACAAATGAGAAAGGTTGA
1023210 CTAAGATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.10
40 43 0.83
41 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.22, T:0.20
Consensus pattern (40 bp):
AACAAATGAGAAAGGTTGATTGGGAAAAAATCAACAAGTA
Found at i:1024066 original size:20 final size:20
Alignment explanation
Indices: 1024041--1024095 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1024031 GTTTAGGACA
*
1024041 ATGTATCAATACAATTATTC
1 ATGTATCGATACAATTATTC
1024061 ATGTATCGATACAATTATTC
1 ATGTATCGATACAATTATTC
1024081 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1024096 GTGCCATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTATTC
Found at i:1025828 original size:21 final size:20
Alignment explanation
Indices: 1025795--1025835 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1025785 AAGGTGTTGG
1025795 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
*
1025815 ACATAGCTCAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
1025836 CATGGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:1026762 original size:20 final size:19
Alignment explanation
Indices: 1026737--1026808 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1026727 ATTTGCCTGC
1026737 ATGTATCGATACATTAAATA
1 ATGTATCGATACA-TAAATA
*
1026757 ATGTATCGATACCAT-GATAA
1 ATGTATCGATA-CATAAAT-A
*
1026777 ATGTATCGATACA-AAACTT
1 ATGTATCGATACATAAA-TA
1026796 ATGTATCGATACA
1 ATGTATCGATACA
1026809 ATTTGTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 18 0.40
20 25 0.56
21 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATAAATA
Found at i:1027552 original size:52 final size:51
Alignment explanation
Indices: 1027473--1027930 Score: 333
Period size: 52 Copynumber: 8.7 Consensus size: 51
1027463 TTAAAGATGA
* * *
1027473 TAAAGATGA-GAAGAGTGCCAA-AGTGCTGATTCAAGGTCAGCGATGTTGGGCT
1 TAAAGATGATAAAG-GTGCCAATA-TGCTGATTCAAGG-CAGCGACGTTGGACT
* *
1027525 TAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCTAGCGATGTTGGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGC-AGCGACGTTGGACT
* * * * * *
1027577 T-AAGAACGA-AGAAGGTGCCAATGTGTTGATTCAAGGCCGCAACATTGGACT
1 TAAAG-ATGATA-AAGGTGCCAATATGCTGATTCAAGGCAGCGACGTTGGACT
* * * *
1027628 TAAAGATGATAAAGGTGCCAATATACTGATTCAAGGCCAACGATGTTAGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACGTTGGACT
* * * *
1027680 TGAGAA-A-GA-AGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACT
1 T-A-AAGATGATA-AAGGTGCCAATATGCTGATTCAAGG-CAGCGACGTTGGACT
* *
1027732 TAAAGATGATAAAGGTGAGAAGAGTGCCAA-AGTGCTGATTAAAGGTCAGCGACGTTGGGCT
1 TAAAGATG----A--T-A-AAG-GTGCCAATA-TGCTGATTCAAGG-CAGCGACGTTGGACT
* * * *
1027793 TAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGTGATGTTAGACT
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACGTTGGACT
* * ** *
1027845 T-AAGAAAGA-AGAAGGTGCCAATGTGCTGATTCAAGGCTAGAAACATTGGACT
1 TAAAG-ATGATA-AAGGTGCCAATATGCTGATTCAAGGC-AGCGACGTTGGACT
*
1027897 TAATGATGATAAAGGTGCCAATATGCTGATTCAA
1 TAAAGATGATAAAGGTGCCAATATGCTGATTCAA
1027931 AGCTAGTGAT
Statistics
Matches: 325, Mismatches: 52, Indels: 58
0.75 0.12 0.13
Matches are distributed among these distances:
50 2 0.01
51 49 0.15
52 212 0.65
53 13 0.04
54 3 0.01
55 1 0.00
56 1 0.00
57 1 0.00
60 5 0.02
61 38 0.12
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.24
Consensus pattern (51 bp):
TAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCAGCGACGTTGGACT
Found at i:1027672 original size:103 final size:103
Alignment explanation
Indices: 1027481--1027748 Score: 374
Period size: 103 Copynumber: 2.6 Consensus size: 103
1027471 GATAAAGATG
* * * ** * *
1027481 AGAAGAGTGCCAAAGTGCTGATTCAAGGTCAGCGATGTTGGGCTTAAAGATGATAAAGATGCCAA
1 AGAAG-GTGCCAATGTGCTGATTCAAGG-CCGCAACATTGGACTTAAAGATGATAAAGGTGCCAA
* * * * *
1027546 TATGCTGATTCAAGGCTAGCGATGTTGGACTTAAGAACGA
64 TATACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGA
*
1027586 AGAAGGTGCCAATGTGTTGATTCAAGGCCGCAACATTGGACTTAAAGATGATAAAGGTGCCAATA
1 AGAAGGTGCCAATGTGCTGATTCAAGGCCGCAACATTGGACTTAAAGATGATAAAGGTGCCAATA
*
1027651 TACTGATTCAAGGCCAACGATGTTAGACTTGAGAAAGA
66 TACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGA
*
1027689 AGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAAGGTG
1 AGAAGGTGCCAATGTGCTGATTCAAGGCC-GCAACATTGGACTTAAAGATGATAAAGGTG
1027749 AGAAGAGTGC
Statistics
Matches: 146, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
103 92 0.63
104 49 0.34
105 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (103 bp):
AGAAGGTGCCAATGTGCTGATTCAAGGCCGCAACATTGGACTTAAAGATGATAAAGGTGCCAATA
TACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGA
Found at i:1027899 original size:165 final size:163
Alignment explanation
Indices: 1027586--1027913 Score: 494
Period size: 165 Copynumber: 2.0 Consensus size: 163
1027576 TTAAGAACGA
* * * * *
1027586 AGAAGGTGCCAATGTGTTGATTCAAGGCCGCAACATTGGACTTAAAGATGATAAAGGTGCCAATA
1 AGAAGGTGCCAAAGTGCTGATTAAAGGCAGCAACATTGGACTTAAAGATGATAAAGATGCCAATA
*
1027651 TACTGATTCAAGGCCAACGATGTTAGACTTGAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGG
66 TACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGG
*
1027716 CCAGCAACATTAGACTTAAAGATGATAAAGGTG
131 CCAGAAACATTAGACTTAAAGATGATAAAGGTG
* * *
1027749 AGAAGAGTGCCAAAGTGCTGATTAAAGGTCAGCGACGTTGGGCTTAAAGATGATAAAGATGCCAA
1 AGAAG-GTGCCAAAGTGCTGATTAAAGG-CAGCAACATTGGACTTAAAGATGATAAAGATGCCAA
* **
1027814 TATGCTGATTCAAGGCCAGTGATGTTAGACTTAAGAAAGAAGAAGGTGCCAATGTGCTGATTCAA
64 TATACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGAAGAAGGTGCCAATGTGCTGATTCAA
* * *
1027879 GGCTAGAAACATTGGACTTAATGATGATAAAGGTG
129 GGCCAGAAACATTAGACTTAAAGATGATAAAGGTG
1027914 CCAATATGCT
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 5 0.03
164 19 0.13
165 123 0.84
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (163 bp):
AGAAGGTGCCAAAGTGCTGATTAAAGGCAGCAACATTGGACTTAAAGATGATAAAGATGCCAATA
TACTGATTCAAGGCCAACGATGTTAGACTTAAGAAAGAAGAAGGTGCCAATGTGCTGATTCAAGG
CCAGAAACATTAGACTTAAAGATGATAAAGGTG
Found at i:1027945 original size:52 final size:51
Alignment explanation
Indices: 1027786--1027951 Score: 181
Period size: 52 Copynumber: 3.2 Consensus size: 51
1027776 GTCAGCGACG
* * * *
1027786 TTGGGCTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGTGATG
1 TTGGACTT-AAGATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATA
* * * ** *
1027838 TTAGACTTAAGAAAGA-AGAAGGTGCCAATGTGCTGATTCAAGGCTAGAAACA
1 TTGGACTTAAG-ATGATA-AAGGTGCCAATATGCTGATTCAAGGCTAGTGATA
*
1027890 TTGGACTTAATGATGATAAAGGTGCCAATATGCTGATTCAAAGCTAGTGATA
1 TTGGACTTAA-GATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATA
*
1027942 TTGGATTTAA
1 TTGGACTTAA
1027952 AGGTGTGACG
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
51 4 0.04
52 86 0.93
53 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
TTGGACTTAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATA
Found at i:1028189 original size:43 final size:43
Alignment explanation
Indices: 1028123--1028206 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
1028113 AAAAGGATGA
* * * *
1028123 TAAAGGTGTCAATATGCTGATTCAAGGCCAACGATATTGGACT
1 TAAAGGTGCCAATATGCTAATTCAAGACCAACGACATTGGACT
* * *
1028166 TAAAGGTGCCAATGTGTTAATTCAAGACCAATGACATTGGA
1 TAAAGGTGCCAATATGCTAATTCAAGACCAACGACATTGGA
1028207 GTTAGAAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTAATTCAAGACCAACGACATTGGACT
Found at i:1028257 original size:32 final size:32
Alignment explanation
Indices: 1028219--1028347 Score: 145
Period size: 32 Copynumber: 4.0 Consensus size: 32
1028209 TAGAAAGAGA
*
1028219 TGCCACCAACTTGTGTAGGCTTTTAA-AAGGGT
1 TGCCACCAACTTGTGTGGGC-TTTAAGAAGGGT
* *
1028251 TACCACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
* * * *
1028283 TGTCATCGACTTGTGTGGGCTTTAAGGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
* *
1028315 TGCCACCAGCTTATGTGGGCTTTGAA-AAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-AAGAAGGGT
1028347 T
1 T
1028348 CTCCACTTGG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
31 5 0.06
32 75 0.91
33 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
Found at i:1028577 original size:28 final size:28
Alignment explanation
Indices: 1028517--1028589 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
1028507 ATATACAGCA
1028517 AGTGCCACTGA-TTGTGGACTTCGAAAAG
1 AGTGCCACTGACTTGTGGACTTC-AAAAG
*
1028545 A-TGCCACTAACTTGTGGACTT-AAAAG
1 AGTGCCACTGACTTGTGGACTTCAAAAG
*
1028571 AGGTGCCACTGACTAGTGG
1 A-GTGCCACTGACTTGTGG
1028590 GCTTTGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.15
27 8 0.21
28 25 0.64
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (28 bp):
AGTGCCACTGACTTGTGGACTTCAAAAG
Found at i:1030894 original size:22 final size:22
Alignment explanation
Indices: 1030849--1030893 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
1030839 TAACAAAGGA
1030849 TTGAATAAAACCGAAAATTATT
1 TTGAATAAAACCGAAAATTATT
*
1030871 TTGAA-AATACCGAAAATTATT
1 TTGAATAAAACCGAAAATTATT
1030892 TT
1 TT
1030894 TATTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
TTGAATAAAACCGAAAATTATT
Found at i:1031262 original size:13 final size:13
Alignment explanation
Indices: 1031244--1031269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1031234 ACACACAATA
1031244 TGTATCGATACAT
1 TGTATCGATACAT
1031257 TGTATCGATACAT
1 TGTATCGATACAT
1031270 CACAAAATGT
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:1031280 original size:33 final size:32
Alignment explanation
Indices: 1031224--1031291 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
1031214 GTAGCTAAAT
*
1031224 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
1031256 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1031289 TTG
1 TTG
1031292 GCTTGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1032372 original size:33 final size:33
Alignment explanation
Indices: 1032335--1032401 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1032325 TTCAATGATT
1032335 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1032368 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1032401 T
1 T
1032402 TTAAGCTACT
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:1032373 original size:13 final size:13
Alignment explanation
Indices: 1032355--1032379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032345 CATAAAATGT
1032355 TGTATCGATACAA
1 TGTATCGATACAA
1032368 TGTATCGATACA
1 TGTATCGATACA
1032380 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:1032460 original size:13 final size:13
Alignment explanation
Indices: 1032442--1032466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032432 ATTACTCAAA
1032442 TGTATCGATACAT
1 TGTATCGATACAT
1032455 TGTATCGATACA
1 TGTATCGATACA
1032467 CTGATCTTTG
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:1032603 original size:52 final size:52
Alignment explanation
Indices: 1032475--1032595 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1032465 CACTGATCTT
*
1032475 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1032527 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1032579 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1032596 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:1041016 original size:47 final size:50
Alignment explanation
Indices: 1040927--1041024 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 50
1040917 AGGGTCAAAT
*
1040927 TCTGGAAAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
**
1040977 TCTGG-AAAATT-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
1041024 T
1 T
1041025 TGTATCGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
47 25 0.57
48 8 0.18
49 6 0.14
50 5 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (50 bp):
TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
Found at i:1041030 original size:13 final size:13
Alignment explanation
Indices: 1041012--1041049 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1041002 CAGCATTCTC
*
1041012 TGTATCGATACAT
1 TGTATCGATACAG
1041025 TGTATCGATACAG
1 TGTATCGATACAG
*
1041038 TGTATCAATACA
1 TGTATCGATACA
1041050 AGGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1041514 original size:20 final size:21
Alignment explanation
Indices: 1041489--1041531 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1041479 GCAGCACCCA
* *
1041489 CCAGGTCGCGAC-GGGCATCC
1 CCAGGTCGCAACTGGGCAACC
1041509 CCAGGTCGCAACTGGGCAACC
1 CCAGGTCGCAACTGGGCAACC
1041530 CC
1 CC
1041532 CACACTAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.19, C:0.42, G:0.30, T:0.09
Consensus pattern (21 bp):
CCAGGTCGCAACTGGGCAACC
Found at i:1043653 original size:13 final size:13
Alignment explanation
Indices: 1043635--1043660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1043625 ACACACAATA
1043635 TGTATCGATACAT
1 TGTATCGATACAT
1043648 TGTATCGATACAT
1 TGTATCGATACAT
1043661 CACAAAATGT
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:1043671 original size:33 final size:32
Alignment explanation
Indices: 1043615--1043682 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
1043605 GTAGCTAAAT
*
1043615 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
1043647 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1043680 TTG
1 TTG
1043683 GCTTGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1055301 original size:22 final size:22
Alignment explanation
Indices: 1055273--1055318 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1055263 TATCCTCGAT
1055273 AACAATAATTTAGGTAAAAGTA
1 AACAATAATTTAGGTAAAAGTA
1055295 AACAATAATTTAGGTAAAAGTA
1 AACAATAATTTAGGTAAAAGTA
1055317 AA
1 AA
1055319 GATGATCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (22 bp):
AACAATAATTTAGGTAAAAGTA
Found at i:1058087 original size:13 final size:13
Alignment explanation
Indices: 1058069--1058095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1058059 TACAATCAAC
1058069 ATGTATCGATACA
1 ATGTATCGATACA
1058082 ATGTATCGATACA
1 ATGTATCGATACA
1058095 A
1 A
1058096 AGCATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1058477 original size:41 final size:40
Alignment explanation
Indices: 1058404--1058482 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
1058394 GATGCAAACA
*
1058404 GACTAAGATAAAACCATATGAGTAAATAAGTTAGAAAGGTT
1 GACTAAGACAAAACCATATGAGTAAATAAGTTA-AAAGGTT
* * *
1058445 GACTGAGACAAAACCATA-GAAGTCAATGAGTTAAAAGG
1 GACTAAGACAAAACCATATG-AGTAAATAAGTTAAAAGG
1058483 GCTTTACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.20
Consensus pattern (40 bp):
GACTAAGACAAAACCATATGAGTAAATAAGTTAAAAGGTT
Found at i:1058737 original size:66 final size:62
Alignment explanation
Indices: 1058667--1059128 Score: 202
Period size: 66 Copynumber: 7.1 Consensus size: 62
1058657 TATTATAGTT
* *
1058667 AACTAAGGGTGAGCATGGTGAAATCTAAGTAAAAAAAAGGTTGACCAAAGTAAAACTGATAAAGT
1 AACTAAGGGTGA-CA-GG-GAAAACTAAGTAAAAAAAAGGTTGACCAAGGTAAAA-TGATAAAGT
1058732 C
62 C
* * **
1058733 AACTAAAGGTGATCAGGGAAAAACTTAAGTAAAAAAGAGGTT-AGCCAAGGCGAAATCGATAAAG
1 AACTAAGGGTGA-CAGGG-AAAAC-TAAGTAAAAAAAAGGTTGA-CCAAGGTAAAAT-GATAAAG
1058797 TC
61 TC
* *
1058799 AACTAAGGGTGACTAGGGCAAAACCTATGTTAAAAAAAGGTTGACCAAGGTAAAATTGATATAA-
1 AACTAAGGGTGAC-AGGG-AAAA-CTAAGTAAAAAAAAGGTTGACCAAGGTAAAA-TGATA-AAG
*
1058863 TA
61 TC
* * * * ** * ** * * *
1058865 AAATAA-GGAGACA---AAACCTAACTTGAAAAGAGGTTGATTAGGGCAAAACTAATAAAGTC
1 AACTAAGGGTGACAGGGAAAACTAAGTAAAAAAAAGGTTGACCAAGGTAAAA-TGATAAAGTC
* * * * ** *
1058924 AATTAAGGGT-AGCTAGGGTGGAACCTAAGTAAAAAAAGGGTTGAGTAAGGCAAAATTGATAAAG
1 AACTAAGGGTGA-C-A-GG-GAAAACTAAGTAAAAAAAAGGTTGACCAAGGTAAAA-TGATAAAG
*
1058988 TT
61 TC
* * * * * *
1058990 AAGTAAGGGTGACTAGGGTAGAACCTAAGTTGAAAAAAA-GTTGACAAAGGCAAAACCGATAAAG
1 AACTAAGGGTGAC-AGGG-A-AAACTAAG-TAAAAAAAAGGTTGACCAAGGTAAAA-TGATAAAG
1059054 TC
61 TC
* * ** ** * * * *
1059056 AACTTAGGGTAACTAGAGTTAAACATAAGTTGAAAAGAGGTTGACCAAGGAAAAATCAATATAGT
1 AACTAAGGGTGAC-AG-GGAAAAC-TAAGTAAAAAAAAGGTTGACCAAGGTAAAAT-GATAAAGT
1059121 C
62 C
1059122 AACTAAG
1 AACTAAG
1059129 AATGACCAGG
Statistics
Matches: 304, Mismatches: 66, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
58 2 0.01
59 34 0.11
60 6 0.02
61 1 0.00
64 3 0.01
65 25 0.08
66 219 0.72
67 14 0.05
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (62 bp):
AACTAAGGGTGACAGGGAAAACTAAGTAAAAAAAAGGTTGACCAAGGTAAAATGATAAAGTC
Found at i:1059151 original size:66 final size:66
Alignment explanation
Indices: 1058879--1059166 Score: 179
Period size: 66 Copynumber: 4.4 Consensus size: 66
1058869 AAGGAGACAA
* ** * * * * **
1058879 AACCTAACTTGAAAAGAGGTTGATTAGGGCAAAACTAATAAAGTCAATTAAGGGT-AGCTAGGGT
1 AACCTAAGTTGAAAAGAGGTTGACAAAGGAAAAACCAATAAAGTCAACTAAGAATGA-CTAGGGT
*
1058943 GG
65 AG
* * ** * *** * * **
1058945 AACCTAAG-TAAAAAAAGGGTTGAGTAAGGCAAAATTGATAAAGTTAAGTAAGGGTGACTAGGGT
1 AACCTAAGTTGAAAAGA-GGTTGACAAAGGAAAAACCAATAAAGTCAACTAAGAATGACTAGGGT
1059009 AG
65 AG
* * * * * ** * *
1059011 AACCTAAGTTGAAAAAAAGTTGACAAAGGCAAAACCGATAAAGTCAACTTAGGGTAACTAGAGTT
1 AACCTAAGTTGAAAAGAGGTTGACAAAGGAAAAACCAATAAAGTCAACTAAGAATGACTAG-GGT
1059076 A-
65 AG
* * * * *
1059077 AACATAAGTTGAAAAGAGGTTGACCAAGGAAAAATCAATATAGTCAACTAAGAATGACCAGGGTA
1 AACCTAAGTTGAAAAGAGGTTGACAAAGGAAAAACCAATAAAGTCAACTAAGAATGACTAGGGTA
1059142 G
66 G
*
1059143 AACCTAAGTCT-AAAAGGGGTTGAC
1 AACCTAAGT-TGAAAAGAGGTTGAC
1059167 GAGGGCAAAA
Statistics
Matches: 179, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
65 9 0.05
66 158 0.88
67 12 0.07
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (66 bp):
AACCTAAGTTGAAAAGAGGTTGACAAAGGAAAAACCAATAAAGTCAACTAAGAATGACTAGGGTA
G
Found at i:1059369 original size:66 final size:65
Alignment explanation
Indices: 1059306--1059439 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 65
1059296 AATTAGGGTG
* * * * * * *
1059306 AAACTGATAAAGTTAGCTAAGGGTGACTAGGGCAAAACCTAAGTCAATAATAGGTTGACTAGGGC
1 AAACTAATAAAGTCAACTAA-GGTAACTAGAGCAAAACCTAAGTCAAAAAAAGGTTGACTAGGGC
1059371 A
65 A
* * * *
1059372 AAACTAATAAAGTCAACTGATGTAACTAGAGCAAAGCCTAAGTCAAAAAAAGGTTGACCAGGGCA
1 AAACTAATAAAGTCAACTAAGGTAACTAGAGCAAAACCTAAGTCAAAAAAAGGTTGACTAGGGCA
1059437 AAA
1 AAA
1059440 ACCATGAAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 41 0.72
66 16 0.28
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (65 bp):
AAACTAATAAAGTCAACTAAGGTAACTAGAGCAAAACCTAAGTCAAAAAAAGGTTGACTAGGGCA
Found at i:1060758 original size:12 final size:12
Alignment explanation
Indices: 1060735--1060791 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
1060725 TTTGTTTTAT
*
1060735 TTTTTTCCTTTC
1 TTTTTTCTTTTC
1060747 TTTTTTCTTTTC
1 TTTTTTCTTTTC
* *
1060759 TTCTTTCTTTTG
1 TTTTTTCTTTTC
1060771 TTTTTTACTATTTC
1 TTTTTT-CT-TTTC
1060785 TATTTTT
1 T-TTTTT
1060792 TTGGTTGGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 26 0.70
13 2 0.05
14 4 0.11
15 5 0.14
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:1060776 original size:19 final size:17
Alignment explanation
Indices: 1060729--1060776 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
1060719 ATTATTTTTG
1060729 TTTTATTTTTTTCCTTTC
1 TTTT-TTTTTTTCCTTTC
*
1060747 TTTTTTCTTTTCTTCTTTC
1 TTTTTT-TTTT-TCCTTTC
*
1060766 TTTTGTTTTTT
1 TTTTTTTTTTT
1060777 ACTATTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.12
18 12 0.46
19 11 0.42
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTCCTTTC
Found at i:1063517 original size:20 final size:20
Alignment explanation
Indices: 1063492--1063531 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1063482 TCGATAGAAA
*
1063492 TAGTGAATATATTGATACAT
1 TAGTGAATATATCGATACAT
*
1063512 TAGTGAATGTATCGATACAT
1 TAGTGAATATATCGATACAT
1063532 GTTTGAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (20 bp):
TAGTGAATATATCGATACAT
Found at i:1066147 original size:28 final size:28
Alignment explanation
Indices: 1066089--1066147 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1066079 TATTCCAACT
*
1066089 CCATCATTTTCGAGGAGATAATCTAATC
1 CCATCATTTTCGAGGAGATAATCTAACC
* * *
1066117 CCATCATTTTCGAGGGGATACTCTTACC
1 CCATCATTTTCGAGGAGATAATCTAACC
1066145 CCA
1 CCA
1066148 CTTTTACTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (28 bp):
CCATCATTTTCGAGGAGATAATCTAACC
Found at i:1066294 original size:28 final size:28
Alignment explanation
Indices: 1066262--1066332 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
1066252 TTTCATCTCC
* *
1066262 GGGGATACTCCATCCCCATCATTTTCGA
1 GGGGATACTCCAACCCCATCATTTTCAA
*
1066290 GGGGATAATCCAACCCCATCATTTTCAA
1 GGGGATACTCCAACCCCATCATTTTCAA
*
1066318 GGAGATACTCCAACC
1 GGGGATACTCCAACC
1066333 TCATTTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATCATTTTCAA
Found at i:1066310 original size:188 final size:184
Alignment explanation
Indices: 1065993--1066386 Score: 459
Period size: 188 Copynumber: 2.1 Consensus size: 184
1065983 TTATTCACCA
* * *
1065993 TCGGGGATACTTAAACCCCATCATTTTTGAAGGGATACTCCAACCCCATTTTTACTTTCAAAATA
1 TCGGGGATACTTCAACCTCATCATTTTTGAAGGGATACACCAACCCCATTTTTACTTTCAAAATA
* * * * *
1066058 TCAATTTTTCTCCGTTGGGGATATTCCAACTCCATCATTTTCGAGGAGATAATCTAATCCCATCA
66 TCAATTTTTCTCCG-CGGGGATACTCCAACCCCATCATTTTCGAGGAGATAATCCAACCCCATCA
* * ** *
1066123 TTTTCGAGGGGATACTCTTACCCCACTTTTACTTCCAAAAGCATCAAATTTTTTACC
130 TTTTCAAGGAGATACTCCAACCCCACTTTTACTACCAAAA-CAT-AAATTTTTTACC
* * * ** *
1066180 GTCGGGGATACTTCAACCTTATGATTTTTG-AGAGGATACACTAACCCTTTTTTTATTTTCAAAA
1 -TCGGGGATACTTCAACCTCATCATTTTTGAAG-GGATACACCAACCCCATTTTTACTTTCAAAA
* *
1066244 TATCAATTTTTCATCTC-CGGGGATACTCCATCCCCATCATTTTCGAGGGGATAATCCAACCCCA
64 TATCAATTTTTC-TC-CGCGGGGATACTCCAACCCCATCATTTTCGAGGAGATAATCCAACCCCA
* * * * *
1066308 TCATTTTCAAGGAGATACTCCAACCTCATTTTTACTACCAAAATATTAATTTTTTATC
127 TCATTTTCAAGGAGATACTCCAACCCCACTTTTACTACCAAAACATAAATTTTTTACC
* *
1066366 TCGGGGGTACTCCAACCTCAT
1 TCGGGGATACTTCAACCTCAT
1066387 ATTCTGAGAA
Statistics
Matches: 174, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
185 18 0.10
186 10 0.06
187 4 0.02
188 139 0.80
189 2 0.01
190 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (184 bp):
TCGGGGATACTTCAACCTCATCATTTTTGAAGGGATACACCAACCCCATTTTTACTTTCAAAATA
TCAATTTTTCTCCGCGGGGATACTCCAACCCCATCATTTTCGAGGAGATAATCCAACCCCATCAT
TTTCAAGGAGATACTCCAACCCCACTTTTACTACCAAAACATAAATTTTTTACC
Found at i:1068205 original size:13 final size:13
Alignment explanation
Indices: 1068187--1068212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1068177 CTATTTATGA
1068187 TGTATCGATACAC
1 TGTATCGATACAC
1068200 TGTATCGATACAC
1 TGTATCGATACAC
1068213 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1068332 original size:21 final size:22
Alignment explanation
Indices: 1068302--1068355 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
1068292 ACAGTGACCT
1068302 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1068324 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1068345 ATGAACAGTGA
1 ATGAACAGTGA
1068356 AAATGAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1068443 original size:53 final size:53
Alignment explanation
Indices: 1068380--1068515 Score: 227
Period size: 53 Copynumber: 2.5 Consensus size: 53
1068370 TACTTCCAAA
1068380 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
1 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
* *
1068433 GTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCCT
1 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
* *
1068486 ATATCGATACATATTTGTTTGTATCGATAC
1 GTATCGATACATATTT-TGTGTATCGATAC
1068516 TATGCAATTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (53 bp):
GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
Found at i:1068512 original size:20 final size:21
Alignment explanation
Indices: 1068503--1068555 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1068493 TACATATTTG
1068503 TTTGTATCGATAC-TATGCAA
1 TTTGTATCGATACATATGCAA
**
1068523 TTTGTATCGATACAT-TTAAA
1 TTTGTATCGATACATATGCAA
*
1068543 TGTGTATCGATAC
1 TTTGTATCGATAC
1068556 TTTTCAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTGTATCGATACATATGCAA
Found at i:1068621 original size:21 final size:21
Alignment explanation
Indices: 1068595--1068635 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1068585 GTCAACCTTG
1068595 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1068616 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1068636 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1070248 original size:13 final size:13
Alignment explanation
Indices: 1070230--1070254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1070220 ACTGAAGTAA
1070230 TGTATCGATACAT
1 TGTATCGATACAT
1070243 TGTATCGATACA
1 TGTATCGATACA
1070255 ATCTGGAAAA
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:1070853 original size:23 final size:24
Alignment explanation
Indices: 1070808--1070854 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1070798 CAAAGAATTG
*
1070808 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1070832 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1070855 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1073986 original size:13 final size:13
Alignment explanation
Indices: 1073968--1073993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1073958 CTATTTATGA
1073968 TGTATCGATACAC
1 TGTATCGATACAC
1073981 TGTATCGATACAC
1 TGTATCGATACAC
1073994 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1074113 original size:21 final size:22
Alignment explanation
Indices: 1074083--1074136 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
1074073 ACAGTGACCT
1074083 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1074105 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1074126 ATGAACAGTGA
1 ATGAACAGTGA
1074137 AAATGAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1074224 original size:53 final size:53
Alignment explanation
Indices: 1074161--1074296 Score: 227
Period size: 53 Copynumber: 2.5 Consensus size: 53
1074151 TACTTCCAAA
1074161 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
1 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
* * *
1074214 GTATCGATACATATTGTGTGTATCGGTACAAATTTGGCTACTGCCAATGTCCT
1 GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
*
1074267 GTATCGATACATATTTGTTTGTATCGATAC
1 GTATCGATACATATTT-TGTGTATCGATAC
1074297 TATGCAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.86
54 11 0.14
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (53 bp):
GTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACCT
Found at i:1074291 original size:20 final size:21
Alignment explanation
Indices: 1074266--1074336 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
1074256 GCCAATGTCC
***
1074266 TGTATCGATACATAT-TTGTT
1 TGTATCGATACATATGCAATT
1074286 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATATGCAATT
** *
1074306 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATGCAATT
1074326 TGTATCGATAC
1 TGTATCGATAC
1074337 TTTTCAGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.07
20 39 0.91
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATATGCAATT
Found at i:1074402 original size:21 final size:21
Alignment explanation
Indices: 1074376--1074416 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1074366 GTCAACCTTG
1074376 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1074397 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1074417 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1076317 original size:13 final size:13
Alignment explanation
Indices: 1076299--1076355 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1076289 CATAAACTGT
1076299 TGTATCGATACAA
1 TGTATCGATACAA
1076312 TGTATCGATACATAA
1 TGTATCGATAC--AA
1076327 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1076344 TGTATCGATACA
1 TGTATCGATACA
1076356 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1076336 original size:19 final size:17
Alignment explanation
Indices: 1076276--1076374 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 17
1076266 AATTTCAACG
1076276 ATTTGTATCGATACATAA
1 ATTTGTATCGATACAT-A
1076294 ACTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
1076311 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
1076326 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
1076343 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
1076358 AGTTTTGTATCGATACA
1 A--TTTGTATCGATACA
1076375 ATGTAAGCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.01
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:1076337 original size:32 final size:32
Alignment explanation
Indices: 1076279--1076379 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1076269 TTCAACGATT
*
1076279 TGTATCGATACATAAACTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1076312 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1076344 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1076376 TGTA
1 TGTA
1076380 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1076435 original size:13 final size:13
Alignment explanation
Indices: 1076417--1076441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1076407 ATTACTCAAA
1076417 TGTATCGATACAT
1 TGTATCGATACAT
1076430 TGTATCGATACA
1 TGTATCGATACA
1076442 CTGATCTTTG
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:1079694 original size:20 final size:20
Alignment explanation
Indices: 1079662--1079702 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1079652 GAGTTCTGGT
1079662 AAAAGAAATTGTATCGATAC
1 AAAAGAAATTGTATCGATAC
1079682 AAAAGTAAA-TGTATCGATAC
1 AAAAG-AAATTGTATCGATAC
1079702 A
1 A
1079703 TTCCCATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (20 bp):
AAAAGAAATTGTATCGATAC
Found at i:1091088 original size:20 final size:19
Alignment explanation
Indices: 1091063--1091137 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
1091053 AAAATGCCTG
1091063 AATGTATCGATACATTGTAA
1 AATGTATCGATACA-TGTAA
*
1091083 AATGTATCGATACA-ATAA
1 AATGTATCGATACATGTAA
* *
1091101 GCAACGTATCGATACCATGCAA
1 --AATGTATCGATA-CATGTAA
1091123 AATGTATCGATACAT
1 AATGTATCGATACAT
1091138 TTGGGTAACC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 36 0.78
21 2 0.04
22 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACATGTAA
Found at i:1091177 original size:20 final size:20
Alignment explanation
Indices: 1091152--1091206 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1091142 GTAACCCCAG
1091152 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
1091172 AATGTATCGATGCAATGAAC
1 AATGTATCGATACAATGAAC
*
1091192 AATGCATCGATACAA
1 AATGTATCGATACAA
1091207 ACTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1092028 original size:43 final size:43
Alignment explanation
Indices: 1091797--1092157 Score: 261
Period size: 45 Copynumber: 8.3 Consensus size: 43
1091787 AAGTAGGTCT
* ** * **
1091797 TGCTCCTTGAGGACAAAGGAAAAAAAGAAAGGAAAGTG--TCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
* * **
1091838 TGCT-TCTCGAGGACAAA--AGAAAGAGGAAAATAAAGTGTGTCC
1 TGCTCT-TTGAGGACAAAGGGGAAA-AGGAAAATAAAGTGCATCC
* * * * * **
1091880 TACTCTTTGAGTATAAAAGGGAAAA-GAAGGGAATGAAGTGTGTCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAA---AATAAAGTGCATCC
* * * *
1091925 TGCTCTTTGAGGACAAAAGAGAAAA-GAAGGGAATGGAA-TGCGTCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAA---AAT-AAAGTGCATCC
1091970 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
* * * *
1092013 TGCTCTTTGTGGACAAAAGAGAAAAGGAAAATAAAATGCATCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
* * * * *
1092056 TGCTTTTTGAGGACAAAGAGGAAAAGAAGGAAATGAAGTGCGTCC
1 TGCTCTTTGAGGACAAAGGGGAAAAG--GAAAATAAAGTGCATCC
* * * *
1092101 TACTCTTTGAGGACAAGGGGGAAGAGAAAAATAAAGTGCATCC
1 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
1092144 TGCTCTTTGAGGAC
1 TGCTCTTTGAGGAC
1092158 TAGGAGGTGC
Statistics
Matches: 261, Mismatches: 44, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
39 4 0.02
40 11 0.04
41 14 0.05
42 19 0.07
43 97 0.37
44 4 0.02
45 106 0.41
46 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (43 bp):
TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCC
Found at i:1092032 original size:88 final size:87
Alignment explanation
Indices: 1091797--1092157 Score: 297
Period size: 88 Copynumber: 4.2 Consensus size: 87
1091787 AAGTAGGTCT
* * * ** *
1091797 TGCTCCTTGAGGACAAAG-GAAAAAAAGAAAGGAAAGTG--TCCTGCT-TCTCGAGGACAAAAGA
1 TGCTCTTTGAGGACAAAGAGGAAAAGAGAAAATAAAGTGCATCCTGCTCT-TTGAGGACAAAAGA
* * **
1091858 -AAGAGGAAAATAAAGTGTGTCC
65 GAAAAGGAAAATAAAATGCATCC
* * * ** * **
1091880 TACTCTTTGAGTATAAA-AGGGAAAAGAAGGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAG
1 TGCTCTTTGAGGACAAAGA-GGAAAAG-AGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG
** *
1091944 AGAAAA-GAAGGGAATGGAATGCGTCC
64 AGAAAAGGAA---AATAAAATGCATCC
* *
1091970 TGCTCTTTGAGGACAAAGGGGAAAAG-GAAAATAAAGTGCATCCTGCTCTTTGTGGACAAAAGAG
1 TGCTCTTTGAGGACAAAGAGGAAAAGAGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
1092034 AAAAGGAAAATAAAATGCATCC
66 AAAAGGAAAATAAAATGCATCC
* * * * * ** *
1092056 TGCTTTTTGAGGACAAAGAGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAGGGG
1 TGCTCTTTGAGGACAAAGAGGAAAAG-AGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGA
* * *
1092121 GAAGAGAAAAATAAAGTGCATCC
65 GAAAAGGAAAATAAAATGCATCC
1092144 TGCTCTTTGAGGAC
1 TGCTCTTTGAGGAC
1092158 TAGGAGGTGC
Statistics
Matches: 220, Mismatches: 44, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
83 13 0.06
84 5 0.02
85 8 0.04
86 35 0.16
87 23 0.10
88 102 0.46
89 3 0.01
90 31 0.14
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (87 bp):
TGCTCTTTGAGGACAAAGAGGAAAAGAGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
AAAAGGAAAATAAAATGCATCC
Found at i:1092083 original size:176 final size:173
Alignment explanation
Indices: 1091797--1092116 Score: 410
Period size: 176 Copynumber: 1.8 Consensus size: 173
1091787 AAGTAGGTCT
* *
1091797 TGCTCCTTGAGGACAAAGGAAAAAAAGAAAGGAAAGTGTCCTGCTTCTCGAGGACAAAAGAAAGA
1 TGCTCCTTGAGGACAAAGGAAAAAAAGAAAAGAAAGTGTCCTGCTTCTCGAGGACAAAAGAAAAA
* ** * * * * *
1091862 GGAAAATAAAGTGTGTCCTACTCTTTGAGTATAAAAGGGAAAAGAAGGGAATGAAGTGTGTCCTG
66 GGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
1091927 CTCTTTGAGGACAAAAGAGAAAAGAAGGGAATGGAATGCGTCC
131 CTCTTTGAGGACAAAAGAGAAAAGAAGGGAATGGAATGCGTCC
* ** * * * *
1091970 TGCTCTTTGAGGACAAAGGGGAAAAGGAAAATAAAGTGCATCCTGC-TCTTTGTGGACAAAAGAG
1 TGCTCCTTGAGGACAAAGGAAAAAAAGAAAAGAAAGTG--TCCTGCTTC-TCGAGGACAAAAGA-
* *
1092034 AAAAGGAAAATAAAATGCATCCTGCTTTTTGAGGAC-AAAGAGGAAAAGAAGGAAATGAAGTGCG
62 AAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAG-GGAAAAGAAGGAAATGAAGTGCG
1092098 TCCTACTCTTTGAGGACAA
126 TCCTACTCTTTGAGGACAA
1092117 GGGGGAAGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
173 32 0.26
174 2 0.02
175 22 0.18
176 67 0.54
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (173 bp):
TGCTCCTTGAGGACAAAGGAAAAAAAGAAAAGAAAGTGTCCTGCTTCTCGAGGACAAAAGAAAAA
GGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTA
CTCTTTGAGGACAAAAGAGAAAAGAAGGGAATGGAATGCGTCC
Found at i:1092098 original size:131 final size:131
Alignment explanation
Indices: 1091922--1092157 Score: 377
Period size: 131 Copynumber: 1.8 Consensus size: 131
1091912 ATGAAGTGTG
* *
1091922 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAATGGAATGCGTCCTGCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGGAATGCGTCCTACTCTTTGAGGACAAA
* *
1091987 GGGGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGTGGACAAAAGAGAAAAGGAAAATAAAATGC
66 GGGGAAAAGAAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAATGC
1092052 A
131 A
*
1092053 TCCTGCTTTTTGAGGAC-AAAGAGGAAAAGAAGGAAAT-GAAGTGCGTCCTACTCTTTGAGGACA
1 TCCTGCTCTTTGAGGACAAAAGA-GAAAAGAAGGAAATGGAA-TGCGTCCTACTCTTTGAGGACA
* *
1092116 AGGGGGAAGAGAAAAATAAAGTGCATCCTGCTCTTTGAGGAC
64 AAGGGGAAAAGAAAAATAAAGTGCATCCTGCTCTTTGAGGAC
1092158 TAGGAGGTGC
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
130 8 0.08
131 88 0.92
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (131 bp):
TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGGAATGCGTCCTACTCTTTGAGGACAAA
GGGGAAAAGAAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAGAAAAGGAAAATAAAATGC
A
Found at i:1092314 original size:61 final size:59
Alignment explanation
Indices: 1092141--1092335 Score: 297
Period size: 60 Copynumber: 3.3 Consensus size: 59
1092131 ATAAAGTGCA
* * *
1092141 TCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTT-GAAGG--AGGTG
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCG
1092198 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCG
*
1092259 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAGGCG
1092319 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1092336 AAGGGGGAAG
Statistics
Matches: 128, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
56 1 0.01
57 44 0.34
58 4 0.03
60 52 0.41
61 27 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCG
Found at i:1092356 original size:221 final size:224
Alignment explanation
Indices: 1092098--1092559 Score: 786
Period size: 224 Copynumber: 2.1 Consensus size: 224
1092088 ATGAAGTGCG
* *
1092098 TCCTACTCTTTGAGGACAAGGGGGAAGAGAAAAATAAAGTGCATCCTGCTCTTTGAGGACTAGGA
1 TCCTACTCTTTGAGGACAAGGGGGAAGAGAAAAATAAAGTGCATCCTACTCTTTCAGGACTAGGA
*
1092163 GGTGCCACCAACTTGTGTGGGCTTTGAA-G-G-AGGTGTCCTGCTCTTTGAGGACTAAAGGGTGC
66 GGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGC
1092225 CACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCA
131 CACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCA
*
1092290 ACTTGTGTGGGCTTTAAAAGGGAAAGGCA
196 ACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
1092319 TCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAATAAAGTGCGTCCTACTCTTTCAGGACTAGGA
1 TCCTACTCTTTGAGGACAAGGGGGAAGAGAAAAATAAAGTGCATCCTACTCTTTCAGGACTAGGA
* *
1092384 GGTGCCCCCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTTCTCTTTGAGGACTAAAGGGTGC
66 GGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGC
* * *
1092449 CACTAACTTGTGTGGGCTTTAACAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCA
131 CACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCA
1092514 ACTTGTGTGGGCTTTAAAAGGAAAAGGCA
196 ACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
1092543 TTCTACTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
1092560 TGGAGGGTGC
Statistics
Matches: 224, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
221 87 0.39
222 1 0.00
223 1 0.00
224 135 0.60
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (224 bp):
TCCTACTCTTTGAGGACAAGGGGGAAGAGAAAAATAAAGTGCATCCTACTCTTTCAGGACTAGGA
GGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGC
CACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCA
ACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:1092435 original size:103 final size:102
Alignment explanation
Indices: 1092252--1092438 Score: 270
Period size: 103 Copynumber: 1.8 Consensus size: 102
1092242 TTTAAAAGGA
* *
1092252 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAGG
1 AAAGGCGTCCTACTCTTTCAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAGG
1092317 CATCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAT
66 CATCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAT
* * *
1092354 AAAGTGCGTCCTACTCTTTCAGGACTAGGAGGTGCCCCCAACTTGTGTGGGCTTT-GAA-GGAGA
1 AAAG-GCGTCCTACTCTTTCAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGA-A
* *
1092417 AGGCGTCCTTCTCTTTGAGGAC
63 AGGCATCCTGCTCTTTGAGGAC
1092439 TAAAGGGTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
102 7 0.09
103 43 0.57
104 25 0.33
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (102 bp):
AAAGGCGTCCTACTCTTTCAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAGG
CATCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAT
Found at i:1092504 original size:61 final size:61
Alignment explanation
Indices: 1092354--1092745 Score: 435
Period size: 60 Copynumber: 6.5 Consensus size: 61
1092344 AGAGGAAAAT
* * * * *
1092354 AAAGTGCGTCCTACTCTTTCAGGACT-AGGAGGTGCCCCCAACTTGTGTGGGCTTT-GAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
1092415 GAAGGCGTCCTTCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAACAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
1092476 AAAGGTGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * ** *
1092536 AAAGGCATTCTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
* ** *
1092598 AAAGGTGTCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTT-TGGTGGGTTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGT-GTGGGCTTTAAAAGGA
* * ** *
1092659 AAAGGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTT------A
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
1092715 AAAGGCGTCCTGCTCTTTAAGGACTAAAGGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1092746 CGAAAGGAGA
Statistics
Matches: 285, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
55 3 0.01
56 24 0.08
60 94 0.33
61 91 0.32
62 72 0.25
63 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:1092675 original size:183 final size:182
Alignment explanation
Indices: 1092364--1092719 Score: 520
Period size: 183 Copynumber: 1.9 Consensus size: 182
1092354 AAAGTGCGTC
* * * *
1092364 CTACTCTTTCAGGACTAGGAGGTGCCCCCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCCTTCT
1 CTACTCTTTCAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGGCGTCCTGCT
* * *
1092429 CTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAACAGGAAAAGGTGTCCTGCTCTTT
66 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* *
1092494 GAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATT
131 GAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATT
* *
1092545 CTACTCTTTGAGGACT-GGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCT
1 CTACTCTTTCAGGACTAGGA-GGTGCCACCAACTTGTGTGGGCTTTG--AAGAAAAAGGCGTCCT
* * *
1092609 GCTCTTTGAGGACTAAAATGTGCCACCAACTT-TGGTGGGTTTTAAAAGGAAAAGGTGTCTTGCT
63 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT-GTGGGCTTTAAAAGGAAAAGGTGTCCTGCT
1092673 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGG
127 CTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGG
1092720 CGTCCTGCTC
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
180 3 0.02
181 40 0.26
182 1 0.01
183 79 0.51
185 32 0.21
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (182 bp):
CTACTCTTTCAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGAAAAAGGCGTCCTGCT
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
GAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATT
Found at i:1092841 original size:100 final size:99
Alignment explanation
Indices: 1092663--1092939 Score: 393
Period size: 100 Copynumber: 2.8 Consensus size: 99
1092653 AAAGGAAAAG
* * *
1092663 GTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTT---A--AAAGGCGT
1 GTGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGT
*
1092723 CCTGCTCTTTAAGGACTAAAGGGCGAAAGGAGAGA
65 CCTGCTCTTTAAGGACTAAAGGGCGAAAGAAGAGA
* * *
1092758 GTGTCCTGCTCTTTGAGGACTCGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGGAAAGGCAT
1 GTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAGGCGT
1092823 CCTGCTCTTTAAGGACTAAAGGGCGAAAGAAGAGA
65 CCTGCTCTTTAAGGACTAAAGGGCGAAAGAAGAGA
* * *
1092858 GTGTCCTACTCTTTGAGGACTAGAAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
1 GTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCGT
*
1092923 CCTGCTCTTTGAGGACT
65 CCTGCTCTTTAAGGACT
1092940 GAAAAGTGAA
Statistics
Matches: 161, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
94 24 0.15
95 21 0.13
97 1 0.01
99 2 0.01
100 113 0.70
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (99 bp):
GTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTC
CTGCTCTTTAAGGACTAAAGGGCGAAAGAAGAGA
Found at i:1098866 original size:20 final size:20
Alignment explanation
Indices: 1098841--1098912 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
1098831 TACCTAGATG
1098841 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
1098861 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* * * *
1098881 TATCGATATATTCTGCAATT
1 TATCGATACATTTTTCAATA
1098901 TATCGATACATT
1 TATCGATACATT
1098913 ATGTCTTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:1098905 original size:40 final size:39
Alignment explanation
Indices: 1098838--1098915 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1098828 TTTTACCTAG
* *
1098838 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
1098878 ATGTATCGATATATTCTGCAATTTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
1098916 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:1112742 original size:5 final size:5
Alignment explanation
Indices: 1112734--1112781 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
1112724 AAAAAAAAGT
*
1112734 AAAAC AAAAC AAAA- AAAAC AAAAAT AAAAC AAAAC AAAA- AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1112782 AAATAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 8 0.21
5 26 0.68
6 4 0.11
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.02
Consensus pattern (5 bp):
AAAAC
Found at i:1112751 original size:14 final size:13
Alignment explanation
Indices: 1112724--1112798 Score: 73
Period size: 14 Copynumber: 5.5 Consensus size: 13
1112714 TTTACACCCA
1112724 AAAAAAAAGTAAAAC
1 AAAAAAAA--AAAAC
1112739 AAAACAAAAAAAAC
1 AAAA-AAAAAAAAC
*
1112753 --AAAAATAAAAC
1 AAAAAAAAAAAAC
1112764 AAAACAAAAAAAAC
1 AAAA-AAAAAAAAC
*
1112778 AAAAAAATAAAAAT
1 AAAAAAA-AAAAAC
1112792 AAAAAAA
1 AAAAAAA
1112799 CCAAGAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 5 0.10
14 29 0.56
15 4 0.08
16 4 0.08
ACGTcount: A:0.85, C:0.08, G:0.01, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:1112751 original size:25 final size:25
Alignment explanation
Indices: 1112723--1112798 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
1112713 CTTTACACCC
*
1112723 AAAAA-AAAAGTAAAACAAAACAAA
1 AAAAACAAAAATAAAACAAAACAAA
1112747 AAAAACAAAAATAAAACAAAACAAA
1 AAAAACAAAAATAAAACAAAACAAA
* *
1112772 AAAAACAAAAA-AATA-AAAATAAA
1 AAAAACAAAAATAAAACAAAACAAA
1112795 AAAA
1 AAAA
1112799 CCAAGAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 11 0.23
24 8 0.17
25 29 0.60
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.05
Consensus pattern (25 bp):
AAAAACAAAAATAAAACAAAACAAA
Found at i:1112809 original size:1 final size:1
Alignment explanation
Indices: 1112723--1112798 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
1112713 CTTTACACCC
** * * * * * * * *
1112723 AAAAAAAAAGTAAAACAAAACAAAAAAAACAAAAATAAAACAAAACAAAAAAAACAAAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1112788 AAATAAAAAAA
1 AAAAAAAAAAA
1112799 CCAAGAAAAA
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.05
Consensus pattern (1 bp):
A
Found at i:1112809 original size:14 final size:13
Alignment explanation
Indices: 1112724--1112824 Score: 50
Period size: 13 Copynumber: 7.8 Consensus size: 13
1112714 TTTACACCCA
*
1112724 AAAAAAAAGTAAAAC
1 AAAAAAAA--AAACC
*
1112739 AAAACAAAAAAAAC
1 AAAA-AAAAAAACC
*
1112753 -AAAAATAAAA-C
1 AAAAAAAAAAACC
*
1112764 AAAACAAAAAAAAC
1 AAAA-AAAAAAACC
*
1112778 -AAAAAAATAA--
1 AAAAAAAAAAACC
*
1112788 AAATAAAAAAACC
1 AAAAAAAAAAACC
* *
1112801 AAGAAAAAATAGCC
1 AA-AAAAAAAAACC
1112815 AAAAAAAAAA
1 AAAAAAAAAA
1112825 GAAAAGGGTC
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
11 9 0.13
12 15 0.22
13 21 0.30
14 16 0.23
15 4 0.06
16 4 0.06
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAACC
Found at i:1114071 original size:29 final size:29
Alignment explanation
Indices: 1114031--1115296 Score: 1337
Period size: 28 Copynumber: 44.5 Consensus size: 29
1114021 TGTTCATCCC
*
1114031 TTTCAAAGCCCACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114060 TTTCAAAGCCCACGAGTCAGTAGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114089 TTTCAAAGCCCATAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114118 TTTCAAAGCCCCCAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1114147 TTT-AAAGCCC-CTAAGTCAGTGGCACTC-
1 TTTCAAAGCCCAC-AAGTCAGTGGCACTCT
* *
1114174 TTTCAAAGCCCACAAGTCAATGGCATTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114202 TTTCAAAGCCCACAAGTTAGTAGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1114230 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114258 TTTC-AAGCCTATAAGTCAATGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114285 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114313 TTTCAAAGCCCACAAGTCAGTCGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114341 TTTCAGAGCCCATAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114369 TTTCGAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114397 TTTCGAAGTCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114425 TTTCAAAGCCCACACAAGTCGGTGGCAACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
* *
1114457 TTTCAAAGCACACAAGTCAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114486 TTTCAAAGCCTACGAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1114514 CTTC-AAGCCCACGAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114542 TTT--AAGCCCACGAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1114568 TTTCAAAGCCCACAAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114596 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114624 TTTCAAAGCCCACGCAAGTCAGTGGTACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
1114655 TTT-AAAGCTCACACAAGTCAGTGGCAC-AT
1 TTTCAAAGC-C-CACAAGTCAGTGGCACTCT
* *
1114684 TTTCAAAGCCCACGAGTTAGTGGCAC-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-T
*
1114713 TTTCAAAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1114741 TTTCAAAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114769 TTTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
1114800 TTT-AAAGCCCATGCAAGTCAGTGGCAC-AT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
1114829 TTTC-AAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114856 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1114884 TTTCAAAGCGCACGCAAGTCAGTGGCA-TCCT
1 TTTCAAAGC-C-CACAAGTCAGTGGCACT-CT
* * * *
1114915 TTT-AAAGCCCACACAAGTTAGTAGTACTTT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
* *
1114945 TTTCAAAGCCCACGCAAGTCAATGGCACTCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
* * *
1114976 TTTCAAAGCCAATAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* **
1115004 TTTCAAATCCCATGAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1115032 TTTC-AAGCCCACAAGTCAGTGGCA--CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1115058 TTTC-AAGCCCACAAGTCAGTGGCACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1115085 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1115113 TTTCAAAGCCCACAAGTTAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
1115141 TTTC-AAGCCCACAAGTCAGTGGCA-TTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
1115168 TTTCACAGCCCACAAGTTAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1115196 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
1115224 TTTCAAAGCCCATAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* **
1115253 TTTCAAAGCCCATAAG-CTAGTAGTAACTCT
1 TTTCAAAGCCCACAAGTC-AGT-GGCACTCT
1115283 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1115297 CGTGTCGGTG
Statistics
Matches: 1075, Mismatches: 112, Indels: 99
0.84 0.09 0.08
Matches are distributed among these distances:
26 31 0.03
27 139 0.13
28 509 0.47
29 187 0.17
30 153 0.14
31 43 0.04
32 13 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:1114283 original size:111 final size:112
Alignment explanation
Indices: 1114031--1115296 Score: 1400
Period size: 111 Copynumber: 11.1 Consensus size: 112
1114021 TGTTCATCCC
* * *
1114031 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTAGCACCCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAA
* * *
1114096 GCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCCCAAGTTAGTGGCACCCT
64 GCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* **
1114147 TTT-AAAGCCC-CTAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATTCTTTCAAAG
1 TTTCAAAGCCCAC-AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
1114210 CCCACAAGTTAGTAGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCT
65 CCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
1114258 TTTC-AAGCCTATAAGTCAATGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1114322 CCACAAGTCAGTCGCACCCTTTCAGAGCCCATAAGTCAGTGGCACCC
66 CCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCT
* * * * *
1114369 TTTCGAAGCCCACAAGTCAGTGGCACCCTTTCGAAGTCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-
* * *
1114434 CCACACAAGTCGGTGGCAACTCCTTTCAAAGCACACAAGTCAGTGGTACTCT
65 CC-CACAAGTCAGTGGC-ACT-CTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * * * *
1114486 TTTCAAAGCCTACGAGTCAGTGGCACCCCTTC-AAGCCCACGAGTCAGTGGCACCCTTT-TAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1114549 CCACGAGTTAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCA-CT
66 CCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
1114595 CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTCAGTGGTACCCTTTTA
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCA
* *
1114659 AAGCTCACACAAGTCAGTGGCACAT-TTTCAAAGCCCACGAGTTAGTGGCACCAT
62 AAGC-C-CACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTGGCACC-T
* * *
1114713 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1114778 CCACGCAAGTCAGTGGCACCCTTTTAAAGCCCATGCAAGTCAGTGGCACAT
66 CCA--CAAGTCAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
1114829 TTTC-AAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * *
1114893 GCACGCAAGTCAGTGGCA-TCCTTTTAAAGCCCACACAAGTTAGTAGTACTTT
66 -C-CACAAGTCAGTGGCACT-CTTTCAAAG-CC-CACAAGTCAGTGGCAC-CT
* * *
1114945 TTTCAAAGCCCACGCAAGTCAATGGCACTCCTTTCAAAGCCAATAAGTCAGTGGCACCCTTTCAA
1 TTTCAAAGCCCA--CAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* **
1115010 ATCCCATGAGTCAGTGGCAC-CTTTTC-AAGCCCACAAGTCAGTGGCA-CT
63 AGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
1115058 TTTC-AAGCCCACAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* **
1115122 CCACAAGTTAGTGGCA-TCTTTTC-AAGCCCACAAGTCAGTGGCATTT
66 CCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
1115168 TTTCACAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * **
1115232 CCCATAAGTCAGTGACACTCTTTTCAAAGCCCATAAG-CTAGTAGTAACTCT
65 CCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTC-AGT-GGCAC-CT
1115283 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1115297 CGTGTCGGTG
Statistics
Matches: 984, Mismatches: 117, Indels: 99
0.82 0.10 0.08
Matches are distributed among these distances:
109 74 0.08
110 48 0.05
111 200 0.20
112 92 0.09
113 75 0.08
114 45 0.05
115 191 0.19
116 101 0.10
117 93 0.09
118 17 0.02
119 14 0.01
120 34 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (112 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:1115949 original size:20 final size:20
Alignment explanation
Indices: 1115903--1115953 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1115893 TTTTACCCAG
* *
1115903 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* *
1115923 ATATATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
1115943 ATGTATCGATA
1 ATGTATCGATA
1115954 TATTATGTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:1121238 original size:4 final size:4
Alignment explanation
Indices: 1121231--1121255 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1121221 CAAAACAAAC
1121231 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1121256 CCTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1123455 original size:79 final size:78
Alignment explanation
Indices: 1123324--1123541 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 78
1123314 AACTGGGCTA
* * * **
1123324 GAGTATCCCTGATTATGGAAAATCGATGTTTTGGACGTAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCTTGATTATAGAAAATCGGTGTTTTAAAC-TAAAATCGGGGTTGGAGTATCCCCTCAA
1123389 AAATAACAGGGTTG
65 AAATAACAGGGTTG
* **
1123403 GAGTATCCTTGATTATAGAAAATCGGTATTTTAAAACTAAAATCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCTTGATTATAGAAAATCGGTGTTTT-AAACTAAAATCGGGGTTGGAGTATCCCCTCAA
1123468 AAATAACAGGGTTG
65 AAATAACAGGGTTG
* * * *
1123482 GAGTATACTTGATTATAGAAAATTGGTGTTTTGAAA-TAAAATCGGAGTTAGAGTATCCCC
1 GAGTATCCTTGATTATAGAAAATCGGTGTTTT-AAACTAAAATCGGGGTTGGAGTATCCCC
1123542 ATTGTGAAGT
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 22 0.18
79 100 0.81
80 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
GAGTATCCTTGATTATAGAAAATCGGTGTTTTAAACTAAAATCGGGGTTGGAGTATCCCCTCAAA
AATAACAGGGTTG
Found at i:1123727 original size:51 final size:51
Alignment explanation
Indices: 1123631--1123846 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 51
1123621 TGACATAACG
* * * *
1123631 GGGTTGGAGTA-CCCCGATTATGAAAAATCAATATTTTAGATATAAAACTA
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAACTA
* * * * *
1123681 GGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAA-TC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAACTA
** * *
1123731 GGAGTTGGAGTATCCCCGATTGCGATAAATCGATGCTTTT--AAA-AAAAATCA
1 GG-GTTGGAGTATCCCCGATTATGAAAAATCGATG-TTTTGGAAATAAAACT-A
* * * * *
1123782 GAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC-C
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAACTA
1123832 GGGATTGGAGTATCC
1 GGG-TTGGAGTATCC
1123847 TTGAGATGAA
Statistics
Matches: 133, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
49 8 0.06
50 48 0.36
51 70 0.53
52 7 0.05
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAACTA
Found at i:1126204 original size:13 final size:13
Alignment explanation
Indices: 1126186--1126216 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1126176 ATACAATAAG
*
1126186 CAATGTATTGATA
1 CAATGTATCGATA
1126199 CAATGTATCGATA
1 CAATGTATCGATA
1126212 CAATG
1 CAATG
1126217 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1126243 original size:20 final size:20
Alignment explanation
Indices: 1126200--1126253 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1126190 GTATTGATAC
*
1126200 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
1126220 AATGTATCGATACCATGCA-A
1 AATGTATCGATACAATG-AGA
*
1126240 AATGTATTGATACA
1 AATGTATCGATACA
1126254 TCTGGGCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:1131936 original size:17 final size:18
Alignment explanation
Indices: 1131893--1131952 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
1131883 TAAAAAAGAG
1131893 GAAAAAAAG-CAAAAAATA
1 GAAAAAAAGACAAAAAA-A
** *
1131911 GCTAGAAAGAC-AAAAAA
1 GAAAAAAAGACAAAAAAA
1131928 GAAAAAAAGACAAAAAAA
1 GAAAAAAAGACAAAAAAA
1131946 GAAAAAA
1 GAAAAAA
1131953 CTCGAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 9 0.26
18 24 0.71
19 1 0.03
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (18 bp):
GAAAAAAAGACAAAAAAA
Found at i:1133460 original size:28 final size:28
Alignment explanation
Indices: 1133359--1133484 Score: 89
Period size: 28 Copynumber: 4.5 Consensus size: 28
1133349 TATAAAGTAT
*
1133359 AAGCCCACACTAGCTAGCA-ATTAAGTCA
1 AAGCCCACACTAGCTGGCACA-TAAGTCA
* * * * *
1133387 AAGCCTATATTAGCTGGTATTCAT--GTTA
1 AAGCCCACACTAGCTGGCA--CATAAGTCA
* *
1133415 AAGCCCATA-TAGTTGGCACATAAGTCA
1 AAGCCCACACTAGCTGGCACATAAGTCA
* * * *
1133442 AAGTCCACAGTAGCTGGCACTTAAGTGA
1 AAGCCCACACTAGCTGGCACATAAGTCA
1133470 AAGCCCACACTAGCT
1 AAGCCCACACTAGCT
1133485 ATCACCTAGT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
25 3 0.04
27 17 0.23
28 53 0.71
30 1 0.01
31 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (28 bp):
AAGCCCACACTAGCTGGCACATAAGTCA
Found at i:1133826 original size:25 final size:25
Alignment explanation
Indices: 1133798--1133850 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1133788 ATTTTATGAG
* *
1133798 TTTTGCAT-TTTTTTCTTGTAGCAC
1 TTTTTCATGTTTTTTCTTGTAGCAA
1133822 TTTTTCATGTTTTTTCTTGTAGCAA
1 TTTTTCATGTTTTTTCTTGTAGCAA
1133847 TTTT
1 TTTT
1133851 CCAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTTTCATGTTTTTTCTTGTAGCAA
Found at i:1136374 original size:21 final size:21
Alignment explanation
Indices: 1136341--1136381 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1136331 CTAAGTAAAA
1136341 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1136362 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1136382 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1136447 original size:21 final size:20
Alignment explanation
Indices: 1136418--1136474 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
1136408 AAAACTCTGA
**
1136418 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
1136438 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
1136459 ATAGTATCGATACACA
1 AAAGTATCGATACACA
1136475 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:1136545 original size:53 final size:53
Alignment explanation
Indices: 1136462--1136598 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1136452 AGATTGCATA
*
1136462 GTATCGATACACACAAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
* *
1136516 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAAATT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
*
1136569 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1136599 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
Found at i:1136585 original size:18 final size:19
Alignment explanation
Indices: 1136562--1136598 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1136552 TGGCAGTAGC
1136562 CAAAAT-TGTATCGATACA
1 CAAAATATGTATCGATACA
1136580 CAAAATATGTATCGATACA
1 CAAAATATGTATCGATACA
1136599 TTGGTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAAATATGTATCGATACA
Found at i:1136641 original size:10 final size:10
Alignment explanation
Indices: 1136622--1136652 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1136612 AATCTCATTT
1136622 TCACTGTTCA
1 TCACTGTTCA
*
1136632 TCACTATTCA
1 TCACTGTTCA
1136642 TCACTGTTCA
1 TCACTGTTCA
1136652 T
1 T
1136653 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1136674 original size:21 final size:22
Alignment explanation
Indices: 1136640--1136695 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1136630 CATCACTATT
1136640 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1136662 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1136683 CATCACTGTTCAT
1 CATCACTGTTCAT
1136696 AGATCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1137221 original size:34 final size:35
Alignment explanation
Indices: 1137158--1137224 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1137148 CTAAGTGATT
1137158 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1137194 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1137225 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1137496 original size:15 final size:16
Alignment explanation
Indices: 1137475--1137517 Score: 79
Period size: 15 Copynumber: 2.8 Consensus size: 16
1137465 TGAGCTCACA
1137475 AATTTTATGTATTAAG
1 AATTTTATGTATTAAG
1137491 AA-TTTATGTATTAAG
1 AATTTTATGTATTAAG
1137506 AATTTTATGTAT
1 AATTTTATGTAT
1137518 AGTTAAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
AATTTTATGTATTAAG
Found at i:1137553 original size:20 final size:21
Alignment explanation
Indices: 1137509--1137554 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1137499 TATTAAGAAT
*
1137509 TTTATGTATAGTTAAATTCAA
1 TTTATGGATAGTTAAATTCAA
1137530 -TTATGGATAGTT-AATTCAA
1 TTTATGGATAGTTAAATTCAA
1137549 TTTATG
1 TTTATG
1137555 TATTAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (21 bp):
TTTATGGATAGTTAAATTCAA
Found at i:1138393 original size:24 final size:24
Alignment explanation
Indices: 1138365--1138415 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1138355 CATTACTGTA
*
1138365 CATCATTGTTCATATATCACTACT
1 CATCACTGTTCATATATCACTACT
* *
1138389 CATCACTGTTCATGTATCACTATT
1 CATCACTGTTCATATATCACTACT
1138413 CAT
1 CAT
1138416 ATATCGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (24 bp):
CATCACTGTTCATATATCACTACT
Found at i:1140586 original size:21 final size:21
Alignment explanation
Indices: 1140562--1140613 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1140552 GAACTAGAGG
**
1140562 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTACAAA
1140583 AGAAAA-GAAATGAGTTACAAA
1 AGAAAATG-AATGAGTTACAAA
1140604 ATGAAAATGA
1 A-GAAAATGA
1140614 TGAATTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 6 0.23
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAAAATGAATGAGTTACAAA
Found at i:1141534 original size:21 final size:21
Alignment explanation
Indices: 1141501--1141541 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1141491 TCTAAGTAAA
1141501 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1141522 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1141542 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1141606 original size:20 final size:19
Alignment explanation
Indices: 1141581--1141651 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1141571 ACCCTGAAAA
1141581 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1141601 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1141620 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1141641 GTATCGATACA
1 GTATCGATACA
1141652 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1141704 original size:53 final size:53
Alignment explanation
Indices: 1141621--1141757 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1141611 AAATTGCATA
1141621 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1141675 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1141728 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1141758 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1141800 original size:10 final size:10
Alignment explanation
Indices: 1141781--1141811 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1141771 AATCTCATTT
1141781 TCACTGTTCA
1 TCACTGTTCA
*
1141791 TCACTATTCA
1 TCACTGTTCA
1141801 TCACTGTTCA
1 TCACTGTTCA
1141811 T
1 T
1141812 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1141833 original size:21 final size:22
Alignment explanation
Indices: 1141799--1141878 Score: 108
Period size: 21 Copynumber: 3.6 Consensus size: 22
1141789 CATCACTATT
1141799 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1141821 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
* *
1141842 CATCACTGTTCACGTATCGTTAAA
1 CATCACTGTTCATGTATCG--ATA
*
1141866 AATCACTGTTCAT
1 CATCACTGTTCAT
1141879 CACTATTCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.41
22 17 0.33
24 13 0.25
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1141925 original size:13 final size:13
Alignment explanation
Indices: 1141907--1141932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1141897 ACATATTTGT
1141907 GTGTATCGATACA
1 GTGTATCGATACA
1141920 GTGTATCGATACA
1 GTGTATCGATACA
1141933 TCATAAATAG
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:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1144951 original size:20 final size:20
Alignment explanation
Indices: 1144928--1145000 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1144918 ACAATTCAAA
1144928 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1144948 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1144969 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1144989 GTATCGATACAT
1 GTATCGATACAT
1145001 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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1144972 original size:21 final size:21
Alignment explanation
Indices: 1144946--1145021 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1144936 ACATGTTGCA
1144946 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1144967 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1144987 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1145008 ATGTATCGATACAT
1 ATGTATCGATACAT
1145022 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1144979 original size:41 final size:41
Alignment explanation
Indices: 1144928--1145021 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1144918 ACAATTCAAA
*
1144928 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1144969 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1145010 GTATCGATACAT
1 GTATCGATACAT
1145022 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1147298 original size:21 final size:21
Alignment explanation
Indices: 1147265--1147309 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1147255 TTGCAAGTTG
*
1147265 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1147287 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1147307 AAA
1 AAA
1147310 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1151210 original size:20 final size:21
Alignment explanation
Indices: 1151141--1151216 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 21
1151131 AATGTCCAAA
1151141 ATGTATCGATACATATTTT-T
1 ATGTATCGATACATATTTTCT
* **
1151161 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T--ATTTTCT
1151186 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATATTTTCT
*
1151206 TTGTATCGATA
1 ATGTATCGATA
1151217 TAATGTATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 26 0.59
22 1 0.02
23 1 0.02
24 3 0.07
25 13 0.30
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (21 bp):
ATGTATCGATACATATTTTCT
Found at i:1151225 original size:13 final size:13
Alignment explanation
Indices: 1151207--1151244 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1151197 CATTTTTCTT
*
1151207 TGTATCGATATAA
1 TGTATCGATACAA
*
1151220 TGTATCGATACAC
1 TGTATCGATACAA
1151233 TGTATCGATACA
1 TGTATCGATACA
1151245 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1153711 original size:20 final size:20
Alignment explanation
Indices: 1153688--1153760 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1153678 ACAATTCAAA
1153688 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1153708 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1153729 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1153749 GTATCGATACAT
1 GTATCGATACAT
1153761 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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1153732 original size:21 final size:21
Alignment explanation
Indices: 1153706--1153781 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1153696 ACATGTTGCA
1153706 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1153727 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1153747 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1153768 ATGTATCGATACAT
1 ATGTATCGATACAT
1153782 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1153739 original size:41 final size:41
Alignment explanation
Indices: 1153688--1153781 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1153678 ACAATTCAAA
*
1153688 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1153729 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1153770 GTATCGATACAT
1 GTATCGATACAT
1153782 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1153838 original size:13 final size:13
Alignment explanation
Indices: 1153820--1153845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1153810 TACAGCAAGT
1153820 ATGTATCGATACA
1 ATGTATCGATACA
1153833 ATGTATCGATACA
1 ATGTATCGATACA
1153846 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:1160620 original size:52 final size:52
Alignment explanation
Indices: 1160493--1160684 Score: 194
Period size: 52 Copynumber: 3.7 Consensus size: 52
1160483 GGTGCTATTT
* *
1160493 TGCTAATTCAA--CTCAGTGATATTAGACTTAAAGA-AAAAAAGGTGCCAATG
1 TGCTAATTCAAGGC-CAGCGATATTAGACTTAAAGATGAAAAAGGTGCCAATG
* * * * * * *
1160543 TGTTGATTCGAGGCCAGCGACATTAGACTTAAAGATGAGAAAGATGCCAATA
1 TGCTAATTCAAGGCCAGCGATATTAGACTTAAAGATGAAAAAGGTGCCAATG
* * *
1160595 TGCTAATTCAAGTCTAGCGATATTAGACTT-AAGAAAGAAAAAGGTGCCAATG
1 TGCTAATTCAAGGCCAGCGATATTAGACTTAAAG-ATGAAAAAGGTGCCAATG
* * * *
1160647 TGTTGATTCAAGGCCATCGATATTGGACTTAAAGATGA
1 TGCTAATTCAAGGCCAGCGATATTAGACTTAAAGATGA
1160685 TAACGATGAG
Statistics
Matches: 111, Mismatches: 26, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
50 8 0.07
51 22 0.20
52 78 0.70
53 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (52 bp):
TGCTAATTCAAGGCCAGCGATATTAGACTTAAAGATGAAAAAGGTGCCAATG
Done.