Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 278 of 318
Found at i:89047307 original size:14 final size:15
Alignment explanation
Indices: 89047268--89047305 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
89047258 AGACAATTTT
89047268 TAAAATAAATAATACA
1 TAAAA-AAATAATACA
*
89047284 TAAAAAAATAATATA
1 TAAAAAAATAATACA
89047299 TAAAAAA
1 TAAAAAA
89047306 TAGTTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATAATACA
Found at i:89055030 original size:3 final size:3
Alignment explanation
Indices: 89055009--89055246 Score: 165
Period size: 3 Copynumber: 78.7 Consensus size: 3
89054999 AAGAGAAATG
* * * ** * *
89055009 TAA TAA TTA TAA TAG TAA TAA TAA AAA TAA TGG TAG TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
89055057 TAA TAA TAA TAG TAA TAA TAA TAAA TAT TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * * *
89055103 TAAA GAA TAA CAA TAG TAA GGA CAA TAA TAA AAA GAA TAA TTA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
89055149 TAA TAC TAC TAC TAA AAA TAA TAA TGA TAG TAA TAA TAA TAA -AA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
89055197 TAA TAA TAA TAA TTAA TGA TAA TAA AAA TAA AAA TAA AAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89055243 -AA TA
1 TAA TA
89055247 GCAAAAATAA
Statistics
Matches: 179, Mismatches: 50, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
2 4 0.02
3 165 0.92
4 10 0.06
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:89056661 original size:60 final size:60
Alignment explanation
Indices: 89056584--89056720 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
89056574 TAGTGTTAAC
* *
89056584 TGGGCCTTAGCCCATATCAATATTAATATGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATATGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * * *
89056645 TGGGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATATGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
89056705 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
89056721 GAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 51 0.77
61 13 0.20
62 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATATGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:89064076 original size:19 final size:21
Alignment explanation
Indices: 89064020--89064083 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
89064010 AAAGTGGAAG
89064020 ATGCTAGAATATCAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
*
89064041 ATGCTAGAATATTAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
89064062 A-G-TAG-ATATGCAAAGAGAA
1 ATGCTAGAATAT-CAAAGAGAA
89064081 ATG
1 ATG
89064084 GAAAAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.10
19 12 0.31
20 2 0.05
21 21 0.54
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (21 bp):
ATGCTAGAATATCAAAGAGAA
Found at i:89065744 original size:46 final size:46
Alignment explanation
Indices: 89065682--89066001 Score: 480
Period size: 46 Copynumber: 7.0 Consensus size: 46
89065672 TTTGACATGA
* * * * * *
89065682 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * *** *
89065728 TTCCATGGTATCTTTCAACCACGGTGTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89065774 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89065820 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89065866 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89065912 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89065958 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
89066002 AGAGCACACT
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 247 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:89072352 original size:18 final size:20
Alignment explanation
Indices: 89072310--89072346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89072300 ATATTTTATG
*
89072310 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
89072329 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
89072347 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:89074557 original size:46 final size:46
Alignment explanation
Indices: 89074507--89074779 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
89074497 GCTCTCTAAT
* * *
89074507 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
89074553 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-ACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
89074598 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
89074644 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
89074690 ATGAAATGAATAAGACCATCGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
89074736 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
89074780 TCAAAGATAA
Statistics
Matches: 203, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
45 45 0.22
46 158 0.78
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:89074660 original size:91 final size:92
Alignment explanation
Indices: 89074505--89074774 Score: 380
Period size: 91 Copynumber: 2.9 Consensus size: 92
89074495 GTGCTCTCTA
* * * *
89074505 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
89074570 ATGGTTGAAAGATACCATGGCA-CCTG
66 ATGGTTGAAAGATACCATGGCAGCCTG
* * * *
89074596 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
*
89074661 ATGGTTGAAAGATACCATGGCAGCGTG
66 ATGGTTGAAAGATACCATGGCAGCCTG
* ** * *
89074688 ACATGAAATGAATAAGACCATCGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
* * *
89074753 ATAGTTGAAAGACACTATGGCA
66 ATGGTTGAAAGATACCATGGCA
89074775 TCATGTCAAA
Statistics
Matches: 157, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
91 79 0.50
92 78 0.50
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (92 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
ATGGTTGAAAGATACCATGGCAGCCTG
Found at i:89074790 original size:137 final size:136
Alignment explanation
Indices: 89074517--89074797 Score: 368
Period size: 137 Copynumber: 2.1 Consensus size: 136
89074507 ATGAAATGTG
* ** *
89074517 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATCGTTGAAAGA
* * * * * *
89074582 TACCATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
89074647 AAATAAA
130 AAATAAA
* *
89074654 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATCGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATCGTTGAAAGA
* * * *
89074719 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC-
66 TACCATGGC-ACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACG
89074782 AAAGATAAA
129 AAA-ATAAA
89074791 TAAGACC
1 TAAGACC
89074798 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
136 2 0.02
137 81 0.65
138 42 0.34
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATCGTTGAAAGA
TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGAA
AATAAA
Found at i:89076022 original size:21 final size:20
Alignment explanation
Indices: 89075996--89076059 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
89075986 CTCTGATACC
89075996 ATGCTAGAATATCAAAGAGAA
1 ATGCTAG-ATATCAAAGAGAA
*
89076017 ATGCTAGTATATTAAAGAGAA
1 ATGCTAG-ATATCAAAGAGAA
*
89076038 A--ATAGATATGCAAAGAGAA
1 ATGCTAGATAT-CAAAGAGAA
89076057 ATG
1 ATG
89076060 GAAAAACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 12 0.33
21 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.22
Consensus pattern (20 bp):
ATGCTAGATATCAAAGAGAA
Found at i:89079380 original size:25 final size:26
Alignment explanation
Indices: 89079340--89079390 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
89079330 CATATGTCTT
*
89079340 TTTTTTATGAGAATGT-TAAAATATA
1 TTTTTTATAAGAATGTATAAAATATA
* *
89079365 TTTTTTATAAGTATGTATCAAATATA
1 TTTTTTATAAGAATGTATAAAATATA
89079391 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (26 bp):
TTTTTTATAAGAATGTATAAAATATA
Found at i:89084506 original size:29 final size:29
Alignment explanation
Indices: 89084474--89084542 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
89084464 TGTTTTCATA
89084474 TTATTTTATGTAAATATTCTCTTTTAAAT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
* ** *
89084503 TTATTATATGTGTATATTCTCTTTTAAGT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
89084532 TTA-TTTATGTA
1 TTATTTTATGTA
89084543 TAATTTGGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (29 bp):
TTATTTTATGTAAATATTCTCTTTTAAAT
Found at i:89084993 original size:89 final size:90
Alignment explanation
Indices: 89084896--89085073 Score: 340
Period size: 90 Copynumber: 2.0 Consensus size: 90
89084886 TTTCATGTCG
89084896 TTTTCACATATTATTGTTCATACATGTAATTATA-TTTTTGTTTCTTGTTGTTACATCATGGTTA
1 TTTTCACATATTATTGTTCATACATGTAATTATATTTTTTGTTTCTTGTTGTTACATCATGGTTA
89084960 TATTTCCCATATTCACTCAATATCA
66 TATTTCCCATATTCACTCAATATCA
*
89084985 TTTTCACATATTATTGTTCATACATGTAATTATATTTTTTGTTTCTTGTTGTTGCATCATGGTTA
1 TTTTCACATATTATTGTTCATACATGTAATTATATTTTTTGTTTCTTGTTGTTACATCATGGTTA
89085050 TATTTCCCATATTCACTCAATATC
66 TATTTCCCATATTCACTCAATATC
89085074 GATTGTCCTT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 34 0.39
90 53 0.61
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (90 bp):
TTTTCACATATTATTGTTCATACATGTAATTATATTTTTTGTTTCTTGTTGTTACATCATGGTTA
TATTTCCCATATTCACTCAATATCA
Found at i:89085408 original size:127 final size:128
Alignment explanation
Indices: 89085259--89085502 Score: 427
Period size: 128 Copynumber: 1.9 Consensus size: 128
89085249 AATTTTCGTT
89085259 GCGTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
* *
89085323 GCTGGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCTAATTGGAGTTGCTTC
66 GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
*
89085386 GCGTGTTTTGGAAATCATGAGGTGATCTTAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
* * *
89085451 GTTAGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAATT
66 GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAATT
89085503 CGAATTGTTC
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
127 30 0.27
128 80 0.73
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (128 bp):
GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
Found at i:89086785 original size:19 final size:19
Alignment explanation
Indices: 89086761--89086806 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
89086751 TTGGGTGCAT
89086761 GAAAAAACA-AATTTGAATA
1 GAAAAAACAGAA-TTGAATA
89086780 GAAAAAACAGAATTGAATA
1 GAAAAAACAGAATTGAATA
89086799 GAATAAAA
1 GAA-AAAA
89086807 ATACAATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.17
Consensus pattern (19 bp):
GAAAAAACAGAATTGAATA
Found at i:89087642 original size:5 final size:5
Alignment explanation
Indices: 89087632--89087672 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
89087622 ATAATTATGC
*
89087632 TTTTA TTTTA TTTTA TTTTA TTTT- TGTT- TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
89087673 CTTTATCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 10 0.31
5 22 0.69
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:89087998 original size:31 final size:31
Alignment explanation
Indices: 89087963--89088023 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
89087953 TAGCTCAATG
89087963 ACTTAAATAAAAACATTTGAATAGTTTAGTA
1 ACTTAAATAAAAACATTTGAATAGTTTAGTA
* * * *
89087994 ACTTAAATTAAAACTTTTTATTAGTTTAGT
1 ACTTAAATAAAAACATTTGAATAGTTTAGT
89088024 GATCAATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
ACTTAAATAAAAACATTTGAATAGTTTAGTA
Found at i:89091018 original size:46 final size:46
Alignment explanation
Indices: 89090935--89091103 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 46
89090925 TTGTACATAG
**
89090935 TCACATATCACACATCG-TAGCCATAGCCCAGCCATGGTCTTACACGAA
1 TCACATATCACAC-T-GAT-GCCATAGCCCAGATATGGTCTTACACGAA
* *
89090983 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTACAC-GAA
* * *
89091030 GCACGTAATCACATATCTCTGATGCCATAGCCCA-ACTATGGTCTTACA-TAGA
1 TCACAT-ATCAC--A---CTGATGCCATAGCCCAGA-TATGGTCTTACACGA-A
*
89091082 TCACATATCACATTGATGCCAT
1 TCACATATCACACTGATGCCAT
89091104 GGTCCAACCA
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
46 32 0.32
47 9 0.09
48 18 0.18
49 1 0.01
50 1 0.01
51 6 0.06
52 6 0.06
53 26 0.26
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTACACGAA
Found at i:89092254 original size:23 final size:21
Alignment explanation
Indices: 89092185--89092268 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
89092175 TGATCAGTAT
* *
89092185 ACGACACATAA-GTGCTTGAA
1 ACGACACACAAGGTGCCTGAA
*
89092205 ACGACACACGAGGTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
*
89092226 AGGACACACAAGGTGCCTGAAA
1 ACGACACACAAGGTGCCTG-AA
* *
89092248 TACGACACATAAAGTGCCTGA
1 -ACGACACACAAGGTGCCTGA
89092269 TCAGTATAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.17
21 25 0.47
22 3 0.06
23 16 0.30
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (21 bp):
ACGACACACAAGGTGCCTGAA
Found at i:89092532 original size:29 final size:29
Alignment explanation
Indices: 89092454--89092533 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
89092444 CACCAAAATG
* * *
89092454 TCCAACCAAAACACACCAGTATCATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
*
89092483 TCC-TCCCAAACACACCAGAATAATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
89092511 TCCATCCAAAACACACCAGAATA
1 TCCATCCAAAACACACCAGAATA
89092534 GCACAAAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (29 bp):
TCCATCCAAAACACACCAGAATAATATAA
Found at i:89099625 original size:124 final size:125
Alignment explanation
Indices: 89099193--89099704 Score: 585
Period size: 125 Copynumber: 4.1 Consensus size: 125
89099183 GGCCAAACAT
* *
89099193 GAACTACCGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
* * * *
89099257 CTGCTTGAAGCA---TTTGGCACTATTTTTTAGAACCGT-TTTCTCAACATTATTTTTTCAA
66 CTGCTTGAAG-AGTTTTTGACACTATTTTTCAGAACCGTCTTT-TCAAAATTATTTTTTCAG
* * *
89099315 GAACTACTGTAGAAAAAGAGCG--AACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
* * * *
89099378 TTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGAGTTTTTGACACTATTTTTCAGAACCGTCTTTTCAAAATTATTTTTTCAG
* * * * ** * *
89099438 GAACTACTGTAGAAAAAAAGAGTCCATGTGGGAGCTTATTTCAGTAATTTTTTTGATAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
* * * * *
89099503 CTACTTAAAGAGTTTTTTAAACTATTTTTCAGAACTGTCTTTTCAAAATT-TTTTTTCAG
66 CTGCTTGAAGAGTTTTTGACACTATTTTTCAGAACCGTCTTTTCAAAATTATTTTTTCAG
* * * * *
89099562 GAACGACTGGAGAAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGTAATTTTACTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
* * *
89099627 CTGCTTGAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTT-AAAATTAATTTTTCTA-
66 CTGCTTGAAGAGTTTTTGACACTA-TTTTTCAGAACCGTCTT-TTCAAAATTATTTTTTC-AG
* *
89099688 AAACTACTGTAAAAAAA
1 GAACTACTGTAGAAAAA
89099705 TTTATTTTAA
Statistics
Matches: 324, Mismatches: 55, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
120 10 0.03
121 36 0.11
122 20 0.06
123 59 0.18
124 81 0.25
125 96 0.30
126 21 0.06
127 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
CTGCTTGAAGAGTTTTTGACACTATTTTTCAGAACCGTCTTTTCAAAATTATTTTTTCAG
Found at i:89099636 original size:249 final size:246
Alignment explanation
Indices: 89099193--89099704 Score: 642
Period size: 249 Copynumber: 2.1 Consensus size: 246
89099183 GGCCAAACAT
* *
89099193 GAACTACCGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTCAGTAATTTTACTGACAGTGCATCC
1 GAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTCAGTAATTTTACTGACAGTGCATCC
* * ** * * *
89099258 TGCTTGAAGCATTTGGCACTATTTTTTAGAACCGTTTTCTCAACATTATTTTTTCAAGAACTACT
66 TACTTAAAGCATTTGAAACTATTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAAGAACGACT
* * * *
89099323 GTAGAAAAAGAGCGAACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCTTGCTTGAAG
131 GGAGAAAAAGAGCGAACGTGGGAGCTTTTTTCAATAATTTTACTGACAATGCATCCTGCTTGAAG
*
89099388 CGTTTTTGACACTATTTTTT-AGAACCGTCTTCTCAAAATTATTTTTTC-A
196 CGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTA
* ** *
89099437 GGAACTACTGTAGAAAAAAAG-AGTCCATGTGGGAGCTTATTTCAGTAATTTTTTTGATAGTGCA
1 -GAACTACTGTAGAAAAAAAGCA-TCCACGTGGGAGCTT-TTTCAGTAATTTTACTGACAGTGCA
* * * *
89099501 TTCTACTTAAAG-AGTTTTTTAAACTATTTTTCAGAACTGTCTTT-TCAAAATT-TTTTTTCAGG
63 TCCTACTTAAAGCA---TTTGAAACTATTTTTCAGAACCGT-TTTCTCAAAATTATTTTTTCAAG
* * *
89099563 AACGACTGGAGAAAAAGAGCGTCTACGTGGGAGTTTTTTTCAGTAATTTTACTGACAATGCATCC
124 AACGACTGGAGAAAAAGAGCG--AACGTGGGAGCTTTTTTCAATAATTTTACTGACAATGCATCC
* *
89099628 TGCTTGAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTTAAAATTAATTTTTCTA
187 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTA
*
89099688 AAACTACTGTA-AAAAAA
1 GAACTACTGTAGAAAAAA
89099705 TTTATTTTAA
Statistics
Matches: 229, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
244 1 0.00
245 33 0.14
246 31 0.14
247 28 0.12
248 26 0.11
249 73 0.32
250 36 0.16
251 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (246 bp):
GAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTCAGTAATTTTACTGACAGTGCATCC
TACTTAAAGCATTTGAAACTATTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAAGAACGACT
GGAGAAAAAGAGCGAACGTGGGAGCTTTTTTCAATAATTTTACTGACAATGCATCCTGCTTGAAG
CGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTA
Found at i:89099828 original size:34 final size:33
Alignment explanation
Indices: 89099785--89099875 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 33
89099775 AAAAAAATTG
* *
89099785 AACCCTAATTTAATTAATTTTCTTGAAAACTC-TA
1 AACCATAATTTAATTAATTTT-TT-AAAACCCTTA
*
89099819 AACCATAATTTAAATAATTTATTTAAAACCCTTA
1 AACCATAATTTAATTAATTT-TTTAAAACCCTTA
*
89099853 AAACATAATTTAATTAATTTTTT
1 AACCATAATTTAATTAATTTTTT
89099876 TTAAAAAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 9 0.18
34 40 0.80
35 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (33 bp):
AACCATAATTTAATTAATTTTTTAAAACCCTTA
Found at i:89102524 original size:215 final size:215
Alignment explanation
Indices: 89102153--89102588 Score: 854
Period size: 215 Copynumber: 2.0 Consensus size: 215
89102143 AAAATGTAAA
89102153 ACTTTAGGGGTATCAAAAATAAGATTTCATAGGTTCATTCATGTAAAGATATAATGTATAAATTT
1 ACTTTAGGGGTATCAAAAATAAGATTTCATAGGTTCATTCATGTAAAGATATAATGTATAAATTT
*
89102218 TTTATATTGATGGATTGAATGAAATAATTGAATAGATCAAGAATTGGATCAAATCAGAGATAATC
66 TTGATATTGATGGATTGAATGAAATAATTGAATAGATCAAGAATTGGATCAAATCAGAGATAATC
89102283 GAGGAAAAGAAAAAAGTTGTAGATTAGTCATTAAAGTTTTAGCTTGTTTGGTATTTTGACCAGAT
131 GAGGAAAAGAAAAAAGTTGTAGATTAGTCATTAAAGTTTTAGCTTGTTTGGTATTTTGACCAGAT
89102348 AAGTTCATGTGGAACTTACT
196 AAGTTCATGTGGAACTTACT
89102368 ACTTTAGGGGTATCAAAAATAAGATTTCATAGGTTCATTCATGTAAAGATATAATGTATAAATTT
1 ACTTTAGGGGTATCAAAAATAAGATTTCATAGGTTCATTCATGTAAAGATATAATGTATAAATTT
89102433 TTGATATTGATGGATTGAATGAAATAATTGAATAGATCAAGAATTGGATCAAATCAGAGATAATC
66 TTGATATTGATGGATTGAATGAAATAATTGAATAGATCAAGAATTGGATCAAATCAGAGATAATC
*
89102498 GAGGAAAAGAAAAAAGTTGTAGATTAGTCCTTAAAGTTTTAGCTTGTTTGGTATTTTGACCAGAT
131 GAGGAAAAGAAAAAAGTTGTAGATTAGTCATTAAAGTTTTAGCTTGTTTGGTATTTTGACCAGAT
89102563 AAGTTCATGTGGAACTTACT
196 AAGTTCATGTGGAACTTACT
89102583 ACTTTA
1 ACTTTA
89102589 TTTTATGCTA
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 219 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (215 bp):
ACTTTAGGGGTATCAAAAATAAGATTTCATAGGTTCATTCATGTAAAGATATAATGTATAAATTT
TTGATATTGATGGATTGAATGAAATAATTGAATAGATCAAGAATTGGATCAAATCAGAGATAATC
GAGGAAAAGAAAAAAGTTGTAGATTAGTCATTAAAGTTTTAGCTTGTTTGGTATTTTGACCAGAT
AAGTTCATGTGGAACTTACT
Found at i:89104567 original size:12 final size:11
Alignment explanation
Indices: 89104529--89104583 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
89104519 AATCACTTTA
*
89104529 ATATTGAATTT
1 ATATTAAATTT
89104540 AT-TCTAATATTT
1 ATAT-TAA-ATTT
89104552 ATATTAAATTT
1 ATATTAAATTT
*
89104563 AATATTAAATCT
1 -ATATTAAATTT
89104575 -TATTAAATT
1 ATATTAAATT
89104584 AATAGAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 9 0.24
11 8 0.22
12 19 0.51
13 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:89106314 original size:41 final size:41
Alignment explanation
Indices: 89106257--89106413 Score: 192
Period size: 41 Copynumber: 3.9 Consensus size: 41
89106247 GAAAACACTG
*
89106257 TAAAAACTCAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* * *
89106298 TAAAAACTGAGCAATAGCAGCG-TTTTGGTACAAACGCAGC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* * ** *
89106338 TAAAAACTTAGCAATAGCGGTGTTTTTAATCCAAACGCCAC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* *
89106379 -AAAAAGTTGATCAATAGCGGCGTTTTTGGTCCAAA
1 TAAAAA-CTGAGCAATAGCGGCGTTTTTGGTCCAAA
89106414 TACCGCAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
40 40 0.42
41 56 0.58
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
Found at i:89106351 original size:81 final size:82
Alignment explanation
Indices: 89106257--89106413 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 82
89106247 GAAAACACTG
**
89106257 TAAAAACTCAGCAATAGCGGCGTTTTTGGTCCAAACGCAACTAAAAA-CTGAGCAATAGCAGCG-
1 TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAAC-AAAAAGCTGAGCAATAGCAGCGT
89106320 TTTTGGTACAAACGCAGC
65 TTTTGGTACAAACGCAGC
* * * * * *
89106338 TAAAAACTTAGCAATAGCGGTGTTTTTAATCCAAACGCCACAAAAAGTTGATCAATAGCGGCGTT
1 TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAACAAAAAGCTGAGCAATAGCAGCGTT
*
89106403 TTTGGTCCAAA
66 TTTGGTACAAA
89106414 TACCGCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 5 0.08
81 49 0.75
82 11 0.17
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (82 bp):
TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAACAAAAAGCTGAGCAATAGCAGCGTT
TTTGGTACAAACGCAGC
Found at i:89106523 original size:17 final size:18
Alignment explanation
Indices: 89106501--89106536 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
89106491 TTTTTTTCTT
89106501 ATTTTAGTTTGA-ATTTG
1 ATTTTAGTTTGATATTTG
*
89106518 ATTTTATTTTGATATTTG
1 ATTTTAGTTTGATATTTG
89106536 A
1 A
89106537 AACTAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
ATTTTAGTTTGATATTTG
Found at i:89107700 original size:165 final size:163
Alignment explanation
Indices: 89107512--89107874 Score: 451
Period size: 165 Copynumber: 2.2 Consensus size: 163
89107502 TTAGTGAGCT
* * *** * *
89107512 TAAATGTCAAGCATTAGTGGCGCTAGTGTAAAAGCGTTGCTAAATGTCGAGCATTAGCGACAGTA
1 TAAATGTCAAACATTAGTGGCGCTA-TGTAAAAACACCGCTAAATGTCGAGCATTAGCAACACTA
* * *
89107577 TTGGGAAAATACCGCAAATATATATGGGCATTAAGCTTGACGACGTCGTTTTATCAAAAAGGCGC
65 TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATC-AAAAGGCG-
*
89107642 AAAAAAT-GTTAGCA-GCGCTACTGGGAAAACACTGC
128 AAAAAATCATTAG-AGGCGCTACTGGGAAAACACTGC
* *
89107677 TAAATGTCAAACATTAGTGGCGCTATGGTAAAAACACCGCTAAATGTTGAGCATTAGCAACACTC
1 TAAATGTCAAACATTAGTGGCGCTAT-GTAAAAACACCGCTAAATGTCGAGCATTAGCAACACTA
* * * *
89107742 TTGGGAAAATGCCGCAAGTAAATATGGGCAGTAAGCTAGATGACGTCGTTTTATCAAAAGGCGTA
65 TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAGGCGAA
* * * *
89107807 AAAATCATTAGAGGTGCTATTGGGTAAACGCTGC
130 AAAATCATTAGAGGCGCTACTGGGAAAACACTGC
* *
89107841 TAAATGTTAATCATTAGTGGCGCTATTGTAAAAA
1 TAAATGTCAAACATTAGTGGCGCTA-TGTAAAAA
89107875 TGCCGCAAAA
Statistics
Matches: 171, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
163 7 0.04
164 60 0.35
165 104 0.61
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (163 bp):
TAAATGTCAAACATTAGTGGCGCTATGTAAAAACACCGCTAAATGTCGAGCATTAGCAACACTAT
TGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAGGCGAAA
AAATCATTAGAGGCGCTACTGGGAAAACACTGC
Found at i:89109657 original size:3 final size:3
Alignment explanation
Indices: 89109649--89109678 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
89109639 TATAATATCA
89109649 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
89109679 CATACAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:89115699 original size:59 final size:58
Alignment explanation
Indices: 89115616--89115741 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 58
89115606 TTAATATAAC
* *
89115616 ATTTGATATATGAACTGACAATTTTTTCCTAATTTGGTA-CTTATAACTTTTTTA-GCCCA
1 ATTTGGTATATGAACTGACAATTTTTT-CTAATTTGGTATC-TA-AACTTCTTTAGGCCCA
* *
89115675 ATTTGGTATCTGAACTTGAC-ATTTTTTTTAATTTGGTATCTAAACTTCTTTAGGGCCCA
1 ATTTGGTATATGAAC-TGACAATTTTTTCTAATTTGGTATCTAAACTTCTTTA-GGCCCA
89115734 ATTTGGTA
1 ATTTGGTA
89115742 CCTAAGATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
57 9 0.15
58 12 0.20
59 34 0.58
60 4 0.07
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (58 bp):
ATTTGGTATATGAACTGACAATTTTTTCTAATTTGGTATCTAAACTTCTTTAGGCCCA
Found at i:89115746 original size:29 final size:28
Alignment explanation
Indices: 89115704--89115776 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
89115694 CATTTTTTTT
*
89115704 AATTTGGTATCTAAACTTCTTTAGGGCCC
1 AATTTGGTACCTAAACTTCTTTA-GGCCC
* * **
89115733 AATTTGGTACCTAAGATTTTTTTAGGTTC
1 AATTTGGTACCTAA-ACTTCTTTAGGCCC
89115762 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
89115777 TTTATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 30 0.79
30 7 0.18
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTCTTTAGGCCC
Found at i:89116002 original size:24 final size:23
Alignment explanation
Indices: 89115964--89116009 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
89115954 TTTCAACTAA
89115964 TAAAATAATTAAATAAATAAAAC
1 TAAAATAATTAAATAAATAAAAC
* *
89115987 TAAAAGTAATTGAATATATAAAA
1 TAAAA-TAATTAAATAAATAAAA
89116010 TACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATAATTAAATAAATAAAAC
Found at i:89117328 original size:28 final size:29
Alignment explanation
Indices: 89117284--89117339 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
89117274 TATTTTATTG
89117284 TTAATTTTGTTATTATTTTAAGACATTTA
1 TTAATTTTGTTATTATTTTAAGACATTTA
*
89117313 TTAATTTT-TTATTATTTTGAGACATTT
1 TTAATTTTGTTATTATTTTAAGACATTT
89117340 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.61
Consensus pattern (29 bp):
TTAATTTTGTTATTATTTTAAGACATTTA
Found at i:89117765 original size:13 final size:13
Alignment explanation
Indices: 89117713--89117773 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
89117703 TTAAATCAAA
89117713 TTTTCAAAAAACAC
1 TTTTC-AAAAACAC
*
89117727 -TCTCAAAAACAC
1 TTTTCAAAAACAC
* *
89117739 TTTTTC-ATATCAC
1 -TTTTCAAAAACAC
89117752 TTTTCAAAAACAC
1 TTTTCAAAAACAC
89117765 TTTTCAAAA
1 TTTTCAAAA
89117774 CATTACCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
12 13 0.34
13 22 0.58
14 3 0.08
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:89119377 original size:42 final size:41
Alignment explanation
Indices: 89119270--89119462 Score: 209
Period size: 40 Copynumber: 4.8 Consensus size: 41
89119260 TTTTTTAAAC
89119270 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
* * * * *
89119311 CATTAG-GGCGTTTTTATCTGAGCGCCACTAATTCTCTGT-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
89119351 CTTTAGCCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
1 CTTTAG-CGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
* * * * * *
89119393 CATTAGTGGCG-TTTTATCTGAGCGCCACTAATTCTCTGT-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
*
89119433 CTTTA-CGGCATTTTTG-CTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA
89119463 AGTTCGTGTT
Statistics
Matches: 124, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 15 0.12
40 62 0.50
41 15 0.12
42 32 0.26
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
Found at i:89119413 original size:82 final size:81
Alignment explanation
Indices: 89119270--89119462 Score: 338
Period size: 82 Copynumber: 2.4 Consensus size: 81
89119260 TTTTTTAAAC
89119270 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGGGCGTTTTTATCTGAGCG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGGGCGTTTTTATCTGAGCG
89119335 CCACTAATTCTCTGTT
66 CCACTAATTCTCTGTT
89119351 CTTTAGCCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCG-TTTTATCTGAG
1 CTTTAG-CGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAG-GGCGTTTTTATCTGAG
89119415 CGCCACTAATTCTCTGTT
64 CGCCACTAATTCTCTGTT
*
89119433 CTTTA-CGGCATTTTTG-CTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA
89119463 AGTTCGTGTT
Statistics
Matches: 109, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
79 14 0.13
80 10 0.09
81 6 0.06
82 75 0.69
83 4 0.04
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (81 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGGGCGTTTTTATCTGAGCG
CCACTAATTCTCTGTT
Found at i:89119692 original size:81 final size:82
Alignment explanation
Indices: 89119600--89119773 Score: 300
Period size: 81 Copynumber: 2.2 Consensus size: 82
89119590 TGTTACTCTA
*
89119600 TTAGT-GCGTTTTAAGGGAAAACGCCGTAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
*
89119664 -TTCTGTAATTGAAAAT
66 TTTCTGTAATTGAAAAG
*
89119680 TTAGTGGCGTTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
89119745 TTTCTGTAATTGAAAAG
66 TTTCTGTAATTGAAAAG
89119762 TT-GTGGCGTTTT
1 TTAGTGGCGTTTT
89119774 TTCCGGGTAG
Statistics
Matches: 89, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
80 5 0.06
81 67 0.75
82 17 0.19
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (82 bp):
TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
TTTCTGTAATTGAAAAG
Found at i:89120666 original size:8 final size:10
Alignment explanation
Indices: 89120644--89120680 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
89120634 TATTTTTACT
89120644 TATATATGGA
1 TATATATGGA
*
89120654 TATATATGAA
1 TATATATGGA
89120664 TATATATGGA
1 TATATATGGA
89120674 TATATAT
1 TATATAT
89120681 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:89120788 original size:27 final size:27
Alignment explanation
Indices: 89120747--89120798 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
89120737 AATAAACAAA
* *
89120747 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
89120774 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
89120799 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:89122089 original size:14 final size:14
Alignment explanation
Indices: 89122070--89122099 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
89122060 AATAAAAGTT
89122070 TTTAGTTAATCATC
1 TTTAGTTAATCATC
89122084 TTTAGTTAATCATC
1 TTTAGTTAATCATC
89122098 TT
1 TT
89122100 GCTGTTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:89122618 original size:10 final size:10
Alignment explanation
Indices: 89122589--89122625 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
89122579 TGATATCTCA
89122589 AACTATGGGT
1 AACTATGGGT
89122599 AACTAGTGGGT
1 AACTA-TGGGT
89122610 AACTATGGGT
1 AACTATGGGT
89122620 -ACTATG
1 AACTATG
89122626 TATTATCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (10 bp):
AACTATGGGT
Found at i:89123813 original size:17 final size:17
Alignment explanation
Indices: 89123770--89123812 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
89123760 TTTAAATTTA
89123770 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89123787 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89123804 TTACATAAA
1 TTAC-TAAA
89123813 TTTGTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:89123821 original size:57 final size:53
Alignment explanation
Indices: 89123709--89123852 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 53
89123699 ATCGATTGAA
89123709 TTTAAA-TTATTACT-AATACATTACTTACTAAAATAAATACTTACAAATTTG
1 TTTAAATTTATTACTAAATACATTACTTACTAAAATAAATACTTACAAATTTG
*
89123760 TTTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTG
1 TTTAAATTTATTACT-AAATACATTACTTACTAAAATA-AATACTTAC--AAATTTG
*
89123817 TTTAAATTTATTTCTAAATACATTACTTACTAAAAT
1 TTTAAATTTATTACTAAATACATTACTTACTAAAAT
89123853 TGTTTAAATT
Statistics
Matches: 85, Mismatches: 2, Indels: 7
0.90 0.02 0.07
Matches are distributed among these distances:
51 6 0.07
52 8 0.09
54 21 0.25
55 8 0.09
56 21 0.25
57 21 0.25
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (53 bp):
TTTAAATTTATTACTAAATACATTACTTACTAAAATAAATACTTACAAATTTG
Found at i:89123865 original size:38 final size:39
Alignment explanation
Indices: 89123787--89123887 Score: 161
Period size: 38 Copynumber: 2.6 Consensus size: 39
89123777 AATACATTAC
*
89123787 TTACTAAAATACATTACTTACATAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTAC-TAAAATTGTTTAAATTTA
*
89123827 TTTCT-AAATACATTACTTACTAAAATTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTGTTTAAATTTA
89123865 TTACTAAAATACATTAC-TACTAA
1 TTACTAAAATACATTACTTACTAA
89123888 TATTATTACT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 27 0.47
39 26 0.46
40 4 0.07
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.44
Consensus pattern (39 bp):
TTACTAAAATACATTACTTACTAAAATTGTTTAAATTTA
Found at i:89123902 original size:39 final size:39
Alignment explanation
Indices: 89123787--89123899 Score: 117
Period size: 39 Copynumber: 2.9 Consensus size: 39
89123777 AATACATTAC
*
89123787 TTACTAAAATACATTACTTACATAA-ATT-TGTTTAAATTTA
1 TTACT-AAATACATTACTTAC-TAATATTAT-TCTAAATTTA
* * *
89123827 TTTCTAAATACATTACTTACTAAAATTGTT-TAAATTTA
1 TTACTAAATACATTACTTACTAATATTATTCTAAATTTA
89123865 TTACTAAAATACATTAC-TACTAATATTATTACTAA
1 TTACT-AAATACATTACTTACTAATATTATT-CTAA
89123900 TTTGTTTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
38 26 0.41
39 30 0.47
40 8 0.12
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (39 bp):
TTACTAAATACATTACTTACTAATATTATTCTAAATTTA
Found at i:89123925 original size:36 final size:36
Alignment explanation
Indices: 89123877--89123999 Score: 144
Period size: 36 Copynumber: 3.3 Consensus size: 36
89123867 ACTAAAATAC
*
89123877 ATTAC-TACTAATATTATTACTAATTTGTTTAAATTT
1 ATTACTTATTAATATTATTACTAATTTGTTT-AATTT
89123913 ATTA-TTATTAATATTATTACTAATTTGTTTAATTT
1 ATTACTTATTAATATTATTACTAATTTGTTTAATTT
89123948 ATTACTTATTACTTACTAATTTATTACTAAATTT-TTTAATTT
1 ATTACTTATTA---A-T-A-TTATTACT-AATTTGTTTAATTT
89123990 ATTACTTATT
1 ATTACTTATT
89124000 TTTTATTTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
35 9 0.12
36 34 0.44
39 1 0.01
40 1 0.01
41 1 0.01
42 26 0.34
43 5 0.06
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (36 bp):
ATTACTTATTAATATTATTACTAATTTGTTTAATTT
Found at i:89123972 original size:42 final size:41
Alignment explanation
Indices: 89123877--89123999 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 41
89123867 ACTAAAATAC
89123877 ATTACTACTAATATTATTACTAATTTGTTTAAATTTATTA-TT
1 ATTACTACTAAT-TTATTACTAATTTGTTT-AATTTATTACTT
89123919 ATTA--A-T-A-TTATTACTAATTTGTTTAATTTATTACTT
1 ATTACTACTAATTTATTACTAATTTGTTTAATTTATTACTT
89123955 ATTACTTACTAATTTATTACTAAATTT-TTTAATTTATTACTT
1 ATTAC-TACTAATTTATTACT-AATTTGTTTAATTTATTACTT
89123997 ATT
1 ATT
89124000 TTTTATTTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 16
0.82 0.00 0.18
Matches are distributed among these distances:
35 9 0.12
36 23 0.32
38 1 0.01
39 2 0.03
40 2 0.03
41 1 0.01
42 30 0.41
43 5 0.07
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (41 bp):
ATTACTACTAATTTATTACTAATTTGTTTAATTTATTACTT
Found at i:89124272 original size:20 final size:20
Alignment explanation
Indices: 89124249--89124360 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
89124239 ACATTATTTA
89124249 TTTTTTTTATTTTTATTTTT
1 TTTTTTTTATTTTTATTTTT
* **
89124269 TTTTTTTAATTTTTATTTAA
1 TTTTTTTTATTTTTATTTTT
** *
89124289 TTTTAATTATTTTT-TTATT
1 TTTTTTTTATTTTTATTTTT
* * * **
89124308 ATTTTTTTAATTTAATTAAT
1 TTTTTTTTATTTTTATTTTT
89124328 TTTTTTTT-TTTTTATTTTT
1 TTTTTTTTATTTTTATTTTT
89124347 TTTTTTTTATTTTT
1 TTTTTTTTATTTTT
89124361 TAAGGGTAAG
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
19 26 0.37
20 44 0.63
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTTTT
Found at i:89124301 original size:29 final size:28
Alignment explanation
Indices: 89124269--89124344 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
89124259 TTTTATTTTT
89124269 TTTTTTTAATTTTTATTTAATTTTAATT-A
1 TTTTTTT-ATTTTTATTTAA-TTTAATTAA
*
89124298 TTTTTTTATTATTTTTTTAATTTAATTAA
1 TTTTTTTATT-TTTATTTAATTTAATTAA
*
89124327 TTTTTTTTTTTTTTATTT
1 -TTTTTTTATTTTTATTT
89124345 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.24
29 22 0.54
30 9 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTTTTTATTTTTATTTAATTTAATTAA
Found at i:89124331 original size:1 final size:1
Alignment explanation
Indices: 89124327--89124361 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
89124317 ATTTAATTAA
* *
89124327 TTTTTTTTTTTTTTATTTTTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
89124362 AAGGGTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:89129756 original size:21 final size:21
Alignment explanation
Indices: 89129730--89129800 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
89129720 CTACAACTTA
* *
89129730 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
89129751 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
89129772 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
89129793 AAGCAGAG
1 AAGCAGAG
89129801 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:89130043 original size:14 final size:14
Alignment explanation
Indices: 89130024--89130057 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
89130014 ATTGCTATTG
89130024 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
89130038 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
89130052 TTTGCT
1 GTTGCT
89130058 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:89130223 original size:43 final size:42
Alignment explanation
Indices: 89130109--89130495 Score: 397
Period size: 42 Copynumber: 9.2 Consensus size: 42
89130099 CCAAAATAGT
* * *
89130109 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
89130153 GGCG--TTTGTAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
***** *
89130193 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
89130236 GGCGTTTTCCCTT--AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTT--TTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
89130278 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
89130320 GGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
89130362 GGCGTTTTTTT-TAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
89130403 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
89130445 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
89130487 GGCGTTTTT
1 GGCGTTTTT
89130496 GTTTGTAAAC
Statistics
Matches: 301, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
40 35 0.12
41 38 0.13
42 192 0.64
43 32 0.11
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
Found at i:89130261 original size:125 final size:123
Alignment explanation
Indices: 89130124--89130447 Score: 360
Period size: 125 Copynumber: 2.6 Consensus size: 123
89130114 TTTTGTATAA
* * * *
89130124 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAATGCCACTAAAGAACATGTTCTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAACGCCACTAAAGAACATGGTCTT
89130189 TAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT
66 TAGCGGC-ATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-CCTT
* ** * *
89130249 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTGTAAAAACGCCACTAAAGAACATGGTC
* ***** * * **
89130314 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTT
64 TTTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTT
* * ** * * *
89130374 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG--TTTGTAAAAACGCCACTAAAGAACATGGTC
89130439 TTTAGCGGC
64 TTTAGCGGC
89130448 GTTTTTTTCT
Statistics
Matches: 175, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
125 104 0.59
126 40 0.23
127 31 0.18
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (123 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAACGCCACTAAAGAACATGGTCTT
TAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTT
Found at i:89130274 original size:42 final size:42
Alignment explanation
Indices: 89130210--89130495 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
89130200 AGAAAAAAAA
**
89130210 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
89130252 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
89130294 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
89130336 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
89130377 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
89130419 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
89130461 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
89130496 GTTTGTAAAC
Statistics
Matches: 226, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
41 38 0.17
42 182 0.81
43 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:89130453 original size:125 final size:125
Alignment explanation
Indices: 89130207--89130495 Score: 463
Period size: 125 Copynumber: 2.3 Consensus size: 125
89130197 ATTAGAAAAA
* *
89130207 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TCTTAAGCGCCGCTAAAGAACATGATC
* *
89130272 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-
65 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT-CT
* *
89130333 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTAAGCGCCGCTAAAGAACATGATCT
*
89130398 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
66 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* * *
89130458 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
89130496 GTTTGTAAAC
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 115 0.76
126 36 0.24
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (125 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
Found at i:89130854 original size:25 final size:25
Alignment explanation
Indices: 89130814--89130872 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
89130804 TGAAAATGGG
*
89130814 GAGTTTTGGGTATTAGTTAAACGAT
1 GAGTTTTGGATATTAGTTAAACGAT
* * *
89130839 GAGTTTTGGATGTTAGTTAGACGGT
1 GAGTTTTGGATATTAGTTAAACGAT
89130864 GAGTTTTGG
1 GAGTTTTGG
89130873 GGTGTTAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.41
Consensus pattern (25 bp):
GAGTTTTGGATATTAGTTAAACGAT
Found at i:89151603 original size:12 final size:11
Alignment explanation
Indices: 89151565--89151619 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
89151555 AATCACTTTA
*
89151565 ATATTGAATTT
1 ATATTAAATTT
89151576 AT-TCTAATATTT
1 ATAT-TAA-ATTT
89151588 ATATTAAATTT
1 ATATTAAATTT
*
89151599 AATATTAAATCT
1 -ATATTAAATTT
89151611 -TATTAAATT
1 ATATTAAATT
89151620 AATAGAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 9 0.24
11 8 0.22
12 19 0.51
13 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:89153347 original size:41 final size:41
Alignment explanation
Indices: 89153290--89153446 Score: 192
Period size: 41 Copynumber: 3.9 Consensus size: 41
89153280 GAAAACACTG
*
89153290 TAAAAACTCAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* * *
89153331 TAAAAACTGAGCAATAGCAGCG-TTTTGGTACAAACGCAGC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* * ** *
89153371 TAAAAACTTAGCAATAGCGGTGTTTTTAATCCAAACGCCAC
1 TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
* *
89153412 -AAAAAGTTGATCAATAGCGGCGTTTTTGGTCCAAA
1 TAAAAA-CTGAGCAATAGCGGCGTTTTTGGTCCAAA
89153447 TACCGCAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
40 40 0.42
41 56 0.58
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
TAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCAAC
Found at i:89153384 original size:81 final size:82
Alignment explanation
Indices: 89153290--89153446 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 82
89153280 GAAAACACTG
**
89153290 TAAAAACTCAGCAATAGCGGCGTTTTTGGTCCAAACGCAACTAAAAA-CTGAGCAATAGCAGCG-
1 TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAAC-AAAAAGCTGAGCAATAGCAGCGT
89153353 TTTTGGTACAAACGCAGC
65 TTTTGGTACAAACGCAGC
* * * * * *
89153371 TAAAAACTTAGCAATAGCGGTGTTTTTAATCCAAACGCCACAAAAAGTTGATCAATAGCGGCGTT
1 TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAACAAAAAGCTGAGCAATAGCAGCGTT
*
89153436 TTTGGTCCAAA
66 TTTGGTACAAA
89153447 TACCGCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 5 0.08
81 49 0.75
82 11 0.17
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (82 bp):
TAAAAACTCAGCAATAGCGGCGTTTTTAATCCAAACGCAACAAAAAGCTGAGCAATAGCAGCGTT
TTTGGTACAAACGCAGC
Found at i:89153556 original size:17 final size:18
Alignment explanation
Indices: 89153534--89153569 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
89153524 TTTTTTTCTT
89153534 ATTTTAGTTTGA-ATTTG
1 ATTTTAGTTTGATATTTG
*
89153551 ATTTTATTTTGATATTTG
1 ATTTTAGTTTGATATTTG
89153569 A
1 A
89153570 AACTAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
ATTTTAGTTTGATATTTG
Found at i:89154781 original size:164 final size:165
Alignment explanation
Indices: 89154546--89154907 Score: 462
Period size: 164 Copynumber: 2.2 Consensus size: 165
89154536 TTAGTGAGCT
* *** * *
89154546 TAAATGTCAAGCATTAGTGGCGCTA-GTGTAAAAGCGTTGCTAAATGTCGAGCATTAGCGACAGT
1 TAAATGTCAAACATTAGTGGCGCTATG-GTAAAAGCACCGCTAAATGTCGAGCATTAGCAACACT
* * *
89154610 ATTGGGAAAATACCGCAAATATATATGGGCATTAAGCTTGACGACGTCGTTTTATCAAAAAGGCG
65 ATTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCG
*
89154675 CAAAAAAT-GTTAGCA-GCGCTACTGGGAAAACACTGC
130 -AAAAAATCATTAG-AGGCGCTACTGGGAAAACACTGC
* *
89154711 TAAATGTCAAACATTAGTGGCGCTATGGTAAAA-CACCGCTAAATGTTGAGCATTAGCAACACTC
1 TAAATGTCAAACATTAGTGGCGCTATGGTAAAAGCACCGCTAAATGTCGAGCATTAGCAACACTA
* * * *
89154775 TTGGGAAAATGCCGCAAGTAAATATGGGCAGTAAGCTAGATGACGTCGTTTTATCAAAAAGGCGT
66 TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCGA
* * * *
89154840 AAAAATCATTAGAGGTGCTATTGGGTAAACGCTGC
131 AAAAATCATTAGAGGCGCTACTGGGAAAACACTGC
* * *
89154875 TAAATGTTAATCATTAGTGGCGCTATTGTAAAA
1 TAAATGTCAAACATTAGTGGCGCTATGGTAAAA
89154908 ATGCCGCAAA
Statistics
Matches: 171, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
163 7 0.04
164 133 0.78
165 30 0.18
166 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (165 bp):
TAAATGTCAAACATTAGTGGCGCTATGGTAAAAGCACCGCTAAATGTCGAGCATTAGCAACACTA
TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCGA
AAAAATCATTAGAGGCGCTACTGGGAAAACACTGC
Found at i:89156693 original size:3 final size:3
Alignment explanation
Indices: 89156685--89156714 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
89156675 TATAATATCA
89156685 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
89156715 CATACAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:89162809 original size:59 final size:61
Alignment explanation
Indices: 89162690--89162817 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 61
89162680 TTAATATAAC
* *
89162690 ATTTGATATATGAACTTGACAATTTTTTCCTAATTTGGTACTTATAACTTTTTTTAGCCCA
1 ATTTGGTATATGAACTTGACAATTTTTTCCTAATTTGGTACTTATAACTTTCTTTAGCCCA
* *
89162751 ATTTGGTATCTGAACTTGAC-ATTTTTT-TTAATTTGGTA-TCTA-AAC-TTCTTTAGGGCCCA
1 ATTTGGTATATGAACTTGACAATTTTTTCCTAATTTGGTACT-TATAACTTTCTTTA--GCCCA
89162810 ATTTGGTA
1 ATTTGGTA
89162818 CCTAAGATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
57 6 0.10
58 4 0.07
59 25 0.42
60 7 0.12
61 18 0.30
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (61 bp):
ATTTGGTATATGAACTTGACAATTTTTTCCTAATTTGGTACTTATAACTTTCTTTAGCCCA
Found at i:89162822 original size:29 final size:28
Alignment explanation
Indices: 89162780--89162852 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
89162770 CATTTTTTTT
*
89162780 AATTTGGTATCTAAACTTCTTTAGGGCCC
1 AATTTGGTACCTAAACTTCTTTA-GGCCC
* * **
89162809 AATTTGGTACCTAAGATTTTTTTAGGTTC
1 AATTTGGTACCTAA-ACTTCTTTAGGCCC
89162838 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
89162853 TTTATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 30 0.79
30 7 0.18
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTCTTTAGGCCC
Found at i:89163080 original size:24 final size:23
Alignment explanation
Indices: 89163042--89163087 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
89163032 TTTCAACTAA
89163042 TAAAATAATTAAATAAATAAAAC
1 TAAAATAATTAAATAAATAAAAC
* *
89163065 TAAAAGTAATTGAATATATAAAA
1 TAAAA-TAATTAAATAAATAAAA
89163088 TACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATAATTAAATAAATAAAAC
Found at i:89164325 original size:11 final size:11
Alignment explanation
Indices: 89164309--89164348 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
89164299 GTTTGCTCCG
89164309 TATTTTGCTAC
1 TATTTTGCTAC
* *
89164320 TATTTTACTAT
1 TATTTTGCTAC
*
89164331 TATGTTGCTAC
1 TATTTTGCTAC
89164342 TATTTTG
1 TATTTTG
89164349 ATGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:89164423 original size:30 final size:30
Alignment explanation
Indices: 89164388--89164446 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
89164378 TATTTTATTG
89164388 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
*
89164418 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
89164447 GCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:89164851 original size:13 final size:13
Alignment explanation
Indices: 89164832--89164895 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
89164822 TAAATCAAAT
89164832 TTTTCAAAAACAC
1 TTTTCAAAAACAC
*
89164845 TTCTCAAAAACAC
1 TTTTCAAAAACAC
* *
89164858 TTTTTC-ATATCAC
1 -TTTTCAAAAACAC
89164871 TTTTCAAAAACAC
1 TTTTCAAAAACAC
89164884 TTTTCAAAAACA
1 TTTTCAAAAACA
89164896 TTACCAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.12
13 34 0.79
14 4 0.09
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:89166467 original size:41 final size:41
Alignment explanation
Indices: 89166403--89166596 Score: 223
Period size: 41 Copynumber: 4.7 Consensus size: 41
89166393 TTTTAAACCT
*
89166403 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
89166444 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
89166485 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
89166526 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
89166567 TTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTAT-CTAAGCGCCGCTAA
89166597 AGTTCGTGTT
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.02
41 120 0.94
42 4 0.03
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:89166538 original size:82 final size:82
Alignment explanation
Indices: 89166401--89166596 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
89166391 TTTTTTAAAC
89166401 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
89166466 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
89166483 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
89166548 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
*
89166565 CTTTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAA
89166597 AGTTCGTGTT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
81 1 0.01
82 111 0.99
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
GCCACTAATTCTCTGTT
Found at i:89166832 original size:82 final size:82
Alignment explanation
Indices: 89166736--89166912 Score: 327
Period size: 82 Copynumber: 2.2 Consensus size: 82
89166726 GTGTACTCTA
*
89166736 TTAGTGGCGTTTTAAGGGAAAACGCCGTAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
*
89166801 TTTCTGTAATTGAAAAT
66 TTTCTGTAATTGAAAAG
*
89166818 TTAGTGGCGTTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
89166883 TTTCTGTAATTGAAAAG
66 TTTCTGTAATTGAAAAG
89166900 TTAGTGGCGTTTT
1 TTAGTGGCGTTTT
89166913 TTCCGGTAGC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (82 bp):
TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
TTTCTGTAATTGAAAAG
Found at i:89167834 original size:8 final size:10
Alignment explanation
Indices: 89167812--89167848 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
89167802 TATTTTTACT
89167812 TATATATGGA
1 TATATATGGA
*
89167822 TATATATGAA
1 TATATATGGA
89167832 TATATATGGA
1 TATATATGGA
89167842 TATATAT
1 TATATAT
89167849 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:89167957 original size:27 final size:27
Alignment explanation
Indices: 89167916--89167967 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
89167906 AATAAACAAA
* *
89167916 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
89167943 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
89167968 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:89169300 original size:14 final size:14
Alignment explanation
Indices: 89169281--89169310 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
89169271 ATAAAAGGTT
89169281 TTTAGTTAATCATC
1 TTTAGTTAATCATC
89169295 TTTAGTTAATCATC
1 TTTAGTTAATCATC
89169309 TT
1 TT
89169311 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:89169872 original size:11 final size:11
Alignment explanation
Indices: 89169835--89169874 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
89169825 GAATATCTCA
89169835 AACT-ATGGGT
1 AACTAATGGGT
*
89169845 AACTAGTGGGT
1 AACTAATGGGT
89169856 AACTAATGGGT
1 AACTAATGGGT
89169867 AACTAATG
1 AACTAATG
89169875 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:89171235 original size:17 final size:17
Alignment explanation
Indices: 89171213--89171511 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
89171203 GTTAAATTTA
89171213 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
89171230 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
89171247 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
89171270 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89171287 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
89171304 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
89171327 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
89171344 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
89171367 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89171384 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
89171401 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
89171414 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
89171428 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
89171445 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
89171468 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89171485 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
89171502 TTACTAAAAT
1 TTACTAAAAT
89171512 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:89171286 original size:40 final size:40
Alignment explanation
Indices: 89171230--89171393 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
89171220 AATACATTAC
*
89171230 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
89171270 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
89171323 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
89171367 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
89171394 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:89171292 original size:57 final size:57
Alignment explanation
Indices: 89171204--89171353 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
89171194 CGATTGAATG
89171204 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
89171261 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
89171318 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
89171354 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:89171349 original size:97 final size:97
Alignment explanation
Indices: 89171233--89171544 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
89171223 ACATTACTTA
*
89171233 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
89171298 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
89171330 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
89171395 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
89171430 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
89171495 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
89171528 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
89171545 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:89171391 original size:57 final size:60
Alignment explanation
Indices: 89171330--89171454 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
89171320 AAATTTATTT
89171330 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
89171387 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
89171448 CTAAAAT
1 CTAAAAT
89171455 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:89171462 original size:101 final size:100
Alignment explanation
Indices: 89171225--89171527 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
89171215 ACTAAAATAC
*
89171225 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
89171290 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
89171326 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
89171388 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
89171423 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
89171488 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
89171524 ATTA
1 ATTA
89171528 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:89171471 original size:40 final size:43
Alignment explanation
Indices: 89171379--89171494 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
89171369 ACTAAAATAC
*
89171379 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
89171423 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
89171465 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
89171495 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:89171498 original size:57 final size:57
Alignment explanation
Indices: 89171423--89171544 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
89171413 GTTTAAATTT
* *
89171423 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
89171480 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
89171537 GTTACTTA
1 ATTACTTA
89171545 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:89171534 original size:13 final size:13
Alignment explanation
Indices: 89171516--89171560 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
89171506 TAAAATTTGT
89171516 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
89171529 TTAAATATGTTAC
1 TTAAATTTATTAC
89171542 TTAAATTTATTAC
1 TTAAATTTATTAC
89171555 TTAAAT
1 TTAAAT
89171561 AATTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:89171790 original size:73 final size:73
Alignment explanation
Indices: 89171707--89171856 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
89171697 TAAAATAAAA
89171707 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
89171772 TTAATAAT
66 TTAATAAT
89171780 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
89171845 TTAATAAT
66 TTAATAAT
89171853 TATA
1 TATA
89171857 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:89171823 original size:38 final size:38
Alignment explanation
Indices: 89171708--89171824 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
89171698 AAAATAAAAT
89171708 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
89171746 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
89171781 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
89171819 ATAAAA
1 ATAAAA
89171825 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:89171921 original size:19 final size:18
Alignment explanation
Indices: 89171897--89172099 Score: 96
Period size: 19 Copynumber: 11.6 Consensus size: 18
89171887 TATTAAATAA
89171897 TACATAATAACTTACAACT
1 TACATAAT-ACTTACAACT
*
89171916 TACATAATACATT-TAACT
1 TACATAATAC-TTACAACT
*
89171934 TACAT--TACTTACATA-A
1 TACATAATACTTACA-ACT
89171950 TACATAATAACTTACAACT
1 TACATAAT-ACTTACAACT
**
89171969 TACATAATACATT-TGACT
1 TACATAATAC-TTACAACT
* *
89171987 GACATAATACATT-TAACT
1 TACATAATAC-TTACAACT
*
89172005 TAC---A-ACTTAC-ACAA
1 TACATAATACTTACAAC-T
89172019 TACATAATAACTTACAACT
1 TACATAAT-ACTTACAACT
* *
89172038 TACATAATACATAATAACT
1 TACATAATAC-TTACAACT
* *
89172057 TGC---A-ACTTAC-ACAA
1 TACATAATACTTACAAC-T
89172071 TACATAATAACTTACAACT
1 TACATAAT-ACTTACAACT
89172090 TACATAATAC
1 TACATAATAC
89172100 ATAATAACTT
Statistics
Matches: 140, Mismatches: 20, Indels: 49
0.67 0.10 0.23
Matches are distributed among these distances:
13 6 0.04
14 9 0.06
15 5 0.04
16 10 0.07
17 3 0.02
18 40 0.29
19 63 0.45
20 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (18 bp):
TACATAATACTTACAACT
Found at i:89171976 original size:26 final size:26
Alignment explanation
Indices: 89171893--89172196 Score: 416
Period size: 26 Copynumber: 12.1 Consensus size: 26
89171883 ATTTTATTAA
89171893 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
89171919 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
89171946 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
89171972 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
89171990 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
89172015 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
89172041 ATAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
89172067 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
89172093 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
89172119 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
89172144 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
89172169 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
89172195 AT
1 AT
89172197 TTAACTTACA
Statistics
Matches: 248, Mismatches: 17, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.05
20 3 0.01
23 4 0.02
25 69 0.28
26 136 0.55
27 15 0.06
28 9 0.04
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:89172204 original size:11 final size:10
Alignment explanation
Indices: 89172188--89172241 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
89172178 AATAACTTAC
89172188 AACTTACATTT
1 AACTTACA-TT
89172199 AACTTACA-T
1 AACTTACATT
89172208 AA--TACATTT
1 AACTTACA-TT
89172217 AACTTACA-T
1 AACTTACATT
89172226 AACTTACA-T
1 AACTTACATT
89172235 AACTTAC
1 AACTTAC
89172242 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:89172233 original size:147 final size:145
Alignment explanation
Indices: 89171893--89172196 Score: 430
Period size: 154 Copynumber: 2.0 Consensus size: 145
89171883 ATTTTATTAA
* *
89171893 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAAT
1 ATAATACATAATAAC-TACAACTTACACAATACA-ATAACTTACA-TACTTACATAATACATAAT
*
89171958 AACTTACAACTTACATAATACATTTGACTGACATAATACATTTAACTTACAACTTACACAATACA
63 AACTTACAACTTACATAATACATTTAACTGACATAATACATTTAACTTACAACTTACACAATACA
89172023 TAATAACTTACAACTTAC
128 TAATAACTTACAACTTAC
*
89172041 ATAATACATAATAACTTGCAACTTACACAATACATAATAACTTACA-ACTTACATAATACATAAT
1 ATAATACATAATAAC-TACAACTTACACAATAC--AATAACTTACATACTTACATAATACATAAT
*
89172105 AACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACA
63 AACTTACAACTTACATAATACATTTAACTGAC-A--T----AATACATTTAACTTACAACTTACA
*
89172170 TAATACATAATAACTTACAACTTAC
121 CAATACATAATAACTTACAACTTAC
89172195 AT
1 AT
89172197 TTAACTTACA
Statistics
Matches: 141, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
147 48 0.34
148 32 0.23
149 9 0.06
150 2 0.01
154 50 0.35
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (145 bp):
ATAATACATAATAACTACAACTTACACAATACAATAACTTACATACTTACATAATACATAATAAC
TTACAACTTACATAATACATTTAACTGACATAATACATTTAACTTACAACTTACACAATACATAA
TAACTTACAACTTAC
Found at i:89172237 original size:18 final size:18
Alignment explanation
Indices: 89172077--89172241 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
89172067 ACAATACATA
89172077 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
89172093 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
89172112 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
89172126 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
89172144 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
89172162 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
89172179 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
89172195 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
89172213 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
89172233 ATAACTTAC
1 ATAACTTAC
89172242 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:89177710 original size:21 final size:21
Alignment explanation
Indices: 89177684--89177754 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
89177674 CTACAACTTA
* *
89177684 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
89177705 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
89177726 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
89177747 AAGCAGAG
1 AAGCAGAG
89177755 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:89177995 original size:14 final size:14
Alignment explanation
Indices: 89177976--89178009 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
89177966 ATTGCTATTG
89177976 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
89177990 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
89178004 TTTGCT
1 GTTGCT
89178010 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:89178257 original size:41 final size:41
Alignment explanation
Indices: 89178077--89178527 Score: 577
Period size: 42 Copynumber: 10.9 Consensus size: 41
89178067 TTTTGTATAA
* * * **
89178077 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
** * ******
89178117 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCT
* * **
89178159 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC-T
89178201 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
89178242 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
89178283 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCT
* * *
89178325 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTT-T
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
*
89178365 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
1 --AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCT
*
89178409 AAGCGCCGCTAAAGAACATGATC-TTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCT
*
89178450 AAGCGCCGCTAAAGAACATGATC-TTAGCGGCGTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
* *
89178490 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
89178528 GTTTGTAAAC
Statistics
Matches: 371, Mismatches: 31, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
40 61 0.16
41 146 0.39
42 157 0.42
43 6 0.02
44 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCT
Found at i:89178352 original size:166 final size:165
Alignment explanation
Indices: 89178077--89178526 Score: 604
Period size: 166 Copynumber: 2.7 Consensus size: 165
89178067 TTTTGTATAA
* * * ** ** *
89178077 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
****** * * *
89178141 TTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT-AAGC
66 TTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT--CTTAAAAC
89178205 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCT
128 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
89178242 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
* * *
89178307 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACG
66 TTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTA-AAACG
89178372 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
129 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
* *
89178409 AAGCGCCGCTAAAGAACATGATC-TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGTTC
*
89178473 -TTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
65 TTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT
89178527 TGTTTGTAAA
Statistics
Matches: 254, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
164 2 0.01
165 73 0.29
166 119 0.47
167 60 0.24
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (165 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTAAAACGCC
GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
Found at i:89194285 original size:42 final size:42
Alignment explanation
Indices: 89194234--89194690 Score: 616
Period size: 42 Copynumber: 10.9 Consensus size: 42
89194224 GTTTACAAAC
* *
89194234 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
89194276 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
89194318 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
89194360 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
89194402 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
89194444 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
89194486 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
89194528 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
89194570 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ***
89194613 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
89194653 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
89194691 TTATACAAAA
Statistics
Matches: 380, Mismatches: 29, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
40 33 0.09
41 8 0.02
42 305 0.80
43 34 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:89194782 original size:14 final size:14
Alignment explanation
Indices: 89194759--89194792 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
89194749 GCCCTCCTGT
*
89194759 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
89194773 AGCAACATTTCAAA
1 AGCAACATTTCAAA
89194787 AGCAAC
1 AGCAAC
89194793 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:89195083 original size:21 final size:21
Alignment explanation
Indices: 89195015--89195085 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
89195005 TTTTGCTCTG
* *
89195015 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
89195036 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
89195057 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
89195078 CTCTGCTT
1 CTCTGCTT
89195086 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:89200571 original size:11 final size:9
Alignment explanation
Indices: 89200523--89200686 Score: 76
Period size: 7 Copynumber: 19.0 Consensus size: 9
89200513 AATTGCAATG
89200523 GTAAGTTAT
1 GTAAGTTAT
89200532 GTAAGTTAT
1 GTAAGTTAT
89200541 GTAAGTTAAAT
1 GTAAGTT--AT
89200552 GT-A-TTAT
1 GTAAGTTAT
89200559 GTAAGTTAAAT
1 GTAAGTT--AT
89200570 GTAAG-T-T
1 GTAAGTTAT
89200577 GTAAGTTAT
1 GTAAGTTAT
*
89200586 -TATGTATTAT
1 GTAAG--TTAT
89200596 GTAAG-T-T
1 GTAAGTTAT
89200603 GTAAGTTAAAT
1 GTAAGTT--AT
*
89200614 GT-A-TTGT
1 GTAAGTTAT
89200621 GTAAG-T-T
1 GTAAGTTAT
89200628 GTAAGTTAAT
1 GTAAGTT-AT
89200638 GT-A-TTAT
1 GTAAGTTAT
89200645 GTAAG-T-T
1 GTAAGTTAT
89200652 GTAAGTTAT
1 GTAAGTTAT
*
89200661 -TATGTATTAT
1 GTAAG--TTAT
89200671 GTAAG-T-T
1 GTAAGTTAT
89200678 GTAAGTTAT
1 GTAAGTTAT
89200687 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 58
0.66 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 20 0.17
9 26 0.21
10 14 0.12
11 20 0.17
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:89200598 original size:19 final size:19
Alignment explanation
Indices: 89200537--89200851 Score: 80
Period size: 18 Copynumber: 16.6 Consensus size: 19
89200527 GTTATGTAAG
*
89200537 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
89200555 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
89200574 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
89200592 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
89200617 TTGTGTAAGTTGTAAGTTAATGTA
1 TTATGTAAG-T-T-A-TT-ATGTA
* *
89200641 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
89200657 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
89200675 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* ** *
89200693 TTGTGTAAGTT-GCAAG--
1 TTATGTAAGTTATTATGTA
*
89200709 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
89200727 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
89200745 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* * *
89200770 TTATGTCAGTCA-AATGTA
1 TTATGTAAGTTATTATGTA
* *
89200788 TTATGTAAGTT-GTAAGTTA
1 TTATGTAAGTTATTATG-TA
*
89200807 TTATGT-A-TTATGTAAGTA
1 TTATGTAAGTTAT-TATGTA
*
89200825 --ATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
89200841 TTATGTAAGTT
1 TTATGTAAGTT
89200852 GTAAGTTATT
Statistics
Matches: 225, Mismatches: 35, Indels: 74
0.67 0.10 0.22
Matches are distributed among these distances:
14 2 0.01
15 11 0.05
16 15 0.07
17 5 0.02
18 75 0.33
19 55 0.24
20 2 0.01
21 2 0.01
22 4 0.02
23 5 0.02
24 15 0.07
25 34 0.15
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:89200602 original size:26 final size:26
Alignment explanation
Indices: 89200568--89200870 Score: 416
Period size: 26 Copynumber: 12.1 Consensus size: 26
89200558 TGTAAGTTAA
89200568 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
89200594 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
89200619 GTGTAAGTTGTAAGTTA--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
89200643 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
89200669 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
89200695 GTGTAAGTTGCAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
89200721 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
89200747 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
89200772 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
89200790 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
89200816 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
89200843 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
89200869 AT
1 AT
89200871 TTAATAAAAT
Statistics
Matches: 248, Mismatches: 16, Indels: 26
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.05
19 1 0.00
21 3 0.01
22 3 0.01
24 24 0.10
25 43 0.17
26 138 0.56
27 15 0.06
28 9 0.04
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:89200800 original size:69 final size:70
Alignment explanation
Indices: 89200714--89200846 Score: 241
Period size: 69 Copynumber: 1.9 Consensus size: 70
89200704 GCAAGTTATT
*
89200714 ATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGT-TGTAAGTTAAATGTATTATGTCA
1 ATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTATGTAAGTTAAATGTATTATGTCA
89200778 GTCAA
66 GTCAA
89200783 ATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATTATGT
1 ATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT-ATGTAAGTTAAATGTATTATGT
89200847 AAGTTGTAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 40 0.66
71 21 0.34
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (70 bp):
ATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTATGTAAGTTAAATGTATTATGTCA
GTCAA
Found at i:89200848 original size:18 final size:18
Alignment explanation
Indices: 89200755--89200851 Score: 87
Period size: 18 Copynumber: 5.4 Consensus size: 18
89200745 TTGTGTAAGT
89200755 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
89200773 TGTCAGTCAAATGTATTA
1 TGTAAGTTAAATGTATTA
*
89200791 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
89200810 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
89200826 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
89200844 TGTAAGTT
1 TGTAAGTT
89200852 GTAAGTTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 5 0.08
17 3 0.05
18 36 0.57
19 11 0.17
20 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:89200863 original size:19 final size:19
Alignment explanation
Indices: 89200665--89200866 Score: 95
Period size: 19 Copynumber: 11.5 Consensus size: 19
89200655 AGTTATTATG
89200665 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
89200684 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * * *
89200699 AAGT-TGCAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
89200716 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
89200736 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
89200751 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
89200767 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
89200785 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
89200805 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
89200823 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
89200838 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
89200858 TATTATGTA
1 TATTATGTA
89200867 TTATTTAATA
Statistics
Matches: 137, Mismatches: 23, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
14 9 0.07
15 12 0.09
16 10 0.07
17 12 0.09
18 36 0.26
19 50 0.36
20 8 0.06
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:89200962 original size:34 final size:34
Alignment explanation
Indices: 89200924--89201035 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 34
89200914 ATTAATAATA
89200924 TTTAATAAAATAACATTTTATTTTAATAGTCAAT
1 TTTAATAAAATAACATTTTATTTTAATAGTCAAT
* * * *
89200958 TTTAAT--ATTCCACATATTT-TTTATAATTATTAATAAT
1 TTTAATAAAAT-AACAT-TTTATTT-TAA-TAGT--CAAT
89200995 ATTTAATAAAATAACATTTTATTTTAATAGTCAA-
1 -TTTAATAAAATAACATTTTATTTTAATAGTCAAT
89201029 TTTAATA
1 TTTAATA
89201036 TTCCACATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
32 2 0.03
33 14 0.23
34 12 0.20
35 5 0.08
37 6 0.10
38 12 0.20
39 7 0.12
40 2 0.03
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (34 bp):
TTTAATAAAATAACATTTTATTTTAATAGTCAAT
Found at i:89201054 original size:72 final size:72
Alignment explanation
Indices: 89200907--89201050 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
89200897 ACATTACTAA
89200907 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
89200972 TATTTTT
66 TATTTTT
89200979 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAA-TTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
89201043 TATTTTT
66 TATTTTT
89201050 T
1 T
89201051 TATATTTTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 22 0.31
72 50 0.69
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (72 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTT
Found at i:89201218 original size:13 final size:13
Alignment explanation
Indices: 89201200--89201235 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
89201190 ATTTATAATT
*
89201200 ATTTAAGTAATAA
1 ATTTAAGTAACAA
*
89201213 ATTTAAGTAACAT
1 ATTTAAGTAACAA
89201226 ATTTAAGTAA
1 ATTTAAGTAA
89201236 AATTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAACAA
Found at i:89201269 original size:17 final size:17
Alignment explanation
Indices: 89201247--89201545 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
89201237 ATTTAAACAA
89201247 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
89201264 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
89201281 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
89201298 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
89201321 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
89201337 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
89201348 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
89201365 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
89201382 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
89201399 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
89201422 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
89201439 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
89201462 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
89201479 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
89201496 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
89201519 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
89201536 ATTTTAGTAA
1 ATTTTAGTAA
89201546 TAAATTTAAC
Statistics
Matches: 224, Mismatches: 20, Indels: 76
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.02
13 4 0.02
14 4 0.02
16 10 0.04
17 137 0.61
18 5 0.02
22 5 0.02
23 48 0.21
24 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:89201308 original size:57 final size:57
Alignment explanation
Indices: 89201235--89201554 Score: 360
Period size: 57 Copynumber: 6.1 Consensus size: 57
89201225 TATTTAAGTA
89201235 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
1 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
89201292 AAATTTAAACAAATTTTAGTAAGTAATGTA--TT--TAAGTAAT-TA----A-T-A-
1 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
* * *
89201337 AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
1 AAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
* *
89201393 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG-AAATAA---A-TTTA--AAC
1 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
89201443 AAATTT-----A----T-GTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
1 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
*
89201490 AAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAAT
1 AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
89201547 AAATTTAA
1 AAATTTAA
89201555 CATTCAATCG
Statistics
Matches: 220, Mismatches: 11, Indels: 64
0.75 0.04 0.22
Matches are distributed among these distances:
40 18 0.08
41 6 0.03
44 14 0.06
45 16 0.07
46 4 0.02
47 9 0.04
48 9 0.04
49 2 0.01
50 8 0.04
52 7 0.03
53 10 0.05
54 1 0.00
55 4 0.02
56 17 0.08
57 95 0.43
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
AAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAAT
Found at i:89201310 original size:40 final size:40
Alignment explanation
Indices: 89201264--89201374 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 40
89201254 TAAGTAATGT
89201264 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
89201304 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAA
89201348 ATTTTAGTAAGTAATGTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
89201375 GTAATGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
40 25 0.38
41 1 0.02
43 1 0.02
44 38 0.58
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:89201412 original size:40 final size:40
Alignment explanation
Indices: 89201365--89201471 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
89201355 TAAGTAATGT
89201365 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
89201405 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
89201445 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
89201472 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:89202889 original size:11 final size:11
Alignment explanation
Indices: 89202873--89202912 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
89202863 GATGATAATA
89202873 CATTAGTTACC
1 CATTAGTTACC
89202884 CATTAGTTACC
1 CATTAGTTACC
*
89202895 CACTAGTTACC
1 CATTAGTTACC
89202906 CA-TAGTT
1 CATTAGTT
89202913 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:89203454 original size:14 final size:14
Alignment explanation
Indices: 89203435--89203464 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
89203425 CACGAACAGC
89203435 AAGATGATTAACTA
1 AAGATGATTAACTA
89203449 AAGATGATTAACTA
1 AAGATGATTAACTA
89203463 AA
1 AA
89203465 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:89204792 original size:26 final size:27
Alignment explanation
Indices: 89204753--89204803 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
89204743 TCTTACTTTT
*
89204753 AAATAATTAATTACCAATTTATTTAAC
1 AAATAATTAATTACCAACTTATTTAAC
*
89204780 AAATAA-TAATTACTAACTTATTTA
1 AAATAATTAATTACCAACTTATTTA
89204804 TTGTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (27 bp):
AAATAATTAATTACCAACTTATTTAAC
Found at i:89204892 original size:8 final size:10
Alignment explanation
Indices: 89204869--89204905 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
89204859 TAATAACTAT
89204869 ATATATATCC
1 ATATATATCC
*
89204879 ATATATATTC
1 ATATATATCC
89204889 ATATATATCC
1 ATATATATCC
89204899 ATATATA
1 ATATATA
89204906 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:89205958 original size:82 final size:81
Alignment explanation
Indices: 89205789--89205964 Score: 300
Period size: 83 Copynumber: 2.2 Consensus size: 81
89205779 ATACCGGGAA
*
89205789 AAAACGCCACTAACTTTTCAATACAGAAAGAACGGTGACGTTTTCACAAAATTGTAGACATATTT
1 AAAACGCCACTAAATTTTCAATACAGAAAGAACGGTGACGTTTTCACAAAATTGTAGACATATTT
*
89205854 GCGGGCGTTTTACCTT
66 ACGGGCGTTTTACCTT
89205870 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAA-TACAGAAAG-AACGGTGACGTTTTCACAAAATTGTAGACATAT
*
89205935 TTAC-GGCGTTTTCCCTT
64 TTACGGGCGTTTTACCTT
89205952 AAAACGCCACTAA
1 AAAACGCCACTAA
89205965 TAGAGTACAC
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
81 20 0.22
82 34 0.38
83 36 0.40
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.28
Consensus pattern (81 bp):
AAAACGCCACTAAATTTTCAATACAGAAAGAACGGTGACGTTTTCACAAAATTGTAGACATATTT
ACGGGCGTTTTACCTT
Found at i:89206227 original size:41 final size:40
Alignment explanation
Indices: 89206102--89206294 Score: 146
Period size: 40 Copynumber: 4.8 Consensus size: 40
89206092 AACACGAACT
* *
89206102 TTAGCGCGCTTAGCAAAAAAATGCCGCT-AAGA-ACAGAGAA
1 TTAGCGCGCTTAG-ACAAAAACGCCGCTAAAGATAC-GAGAA
* * * * * *
89206142 TTTAGTGGCGCTCCAGATAAAAA-GCCACT-ATGATACGAGCA
1 -TTAG-CGCGCT-TAGACAAAAACGCCGCTAAAGATACGAGAA
89206183 TTAGCGCCGCTTAGACAAAAACGCCGCTAAAGA-ACAGAGAA
1 TTAGCG-CGCTTAGACAAAAACGCCGCTAAAGATAC-GAGAA
* * * * * *
89206224 TTAGTGCGCTCAGATAAAAACGCCACTAATGATACGAGCA
1 TTAGCGCGCTTAGACAAAAACGCCGCTAAAGATACGAGAA
89206264 TTAGCGGCGCTTAGAC-AAAACGCCGCTAAAG
1 TTAGC-GCGCTTAGACAAAAACGCCGCTAAAG
89206295 GTTTAAAAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
39 9 0.08
40 58 0.48
41 38 0.32
42 13 0.11
43 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (40 bp):
TTAGCGCGCTTAGACAAAAACGCCGCTAAAGATACGAGAA
Found at i:89206256 original size:81 final size:81
Alignment explanation
Indices: 89206102--89206294 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
89206092 AACACGAACT
* *
89206102 TTAGCGCGCTTAGCAAAAAAATGCCGCT-AAGAACAGAGAATTTAGTGGCGCTCCAGATAAAAAG
1 TTAGCGCGCTTAG-ACAAAAACGCCGCTAAAGAACAGAGAATTTAGTGGCGCTCCAGATAAAAAG
89206166 CCACTATGATACGAGCA
65 CCACTATGATACGAGCA
89206183 TTAGCGCCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAA-TTAGT-GCGCT-CAGATAAAAAC
1 TTAGCG-CGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTTAGTGGCGCTCCAGATAAAAA-
89206245 GCCACTAATGATACGAGCA
64 GCCACT-ATGATACGAGCA
89206264 TTAGCGGCGCTTAGAC-AAAACGCCGCTAAAG
1 TTAGC-GCGCTTAGACAAAAACGCCGCTAAAG
89206295 GTTTAAAAAA
Statistics
Matches: 105, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
79 10 0.10
80 26 0.25
81 49 0.47
82 20 0.19
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (81 bp):
TTAGCGCGCTTAGACAAAAACGCCGCTAAAGAACAGAGAATTTAGTGGCGCTCCAGATAAAAAGC
CACTATGATACGAGCA
Done.