Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 30 of 163
Found at i:9414577 original size:42 final size:41
Alignment explanation
Indices: 9414529--9414619 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
9414519 TAAGAAAATA
*
9414529 TTGTGGAGTT-ATCATT-GAAAACAACCTTCCATAATGGGAAGG
1 TTGTGGAGTTAAT-ATTAG-AAACAA-ATTCCATAATGGGAAGG
* * *
9414571 TTGTGGAGTTAATATTAGGAACAAATTTCATATTGGGAAGG
1 TTGTGGAGTTAATATTAGAAACAAATTCCATAATGGGAAGG
9414612 TTGTGGAG
1 TTGTGGAG
9414620 AAAACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 22 0.51
42 18 0.42
43 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (41 bp):
TTGTGGAGTTAATATTAGAAACAAATTCCATAATGGGAAGG
Found at i:9416651 original size:20 final size:20
Alignment explanation
Indices: 9416626--9416684 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
9416616 CGGAAAATAA
9416626 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9416646 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9416666 TTTCTGGAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
9416685 AATAAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9418087 original size:32 final size:32
Alignment explanation
Indices: 9418051--9418130 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
9418041 TGTCAATCAT
* *
9418051 TTCAATATCCAATAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* * *
9418083 TTCAATATCTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
9418115 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
9418131 CTAAAATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 2 0.05
32 38 0.95
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:9421645 original size:15 final size:15
Alignment explanation
Indices: 9421625--9421658 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9421615 AGGAATCTAA
9421625 TAACCATAAAGATGC
1 TAACCATAAAGATGC
9421640 TAACCATAAAGATGC
1 TAACCATAAAGATGC
9421655 TAAC
1 TAAC
9421659 TTTGTGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (15 bp):
TAACCATAAAGATGC
Found at i:9428711 original size:42 final size:42
Alignment explanation
Indices: 9428659--9428748 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
9428649 ACGGCCTAGC
* *
9428659 ACACTGCCTGGCACACAGTCATGTCACCCAAGTCAGAGAGTT
1 ACACGGCCTGGCACACAGCCATGTCACCCAAGTCAGAGAGTT
* * * *
9428701 ACACGGCCTGGCACACGGCCGTGTGACCCAAGTTAGAGAGTT
1 ACACGGCCTGGCACACAGCCATGTCACCCAAGTCAGAGAGTT
9428743 ACACGG
1 ACACGG
9428749 GCATGGACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.17
Consensus pattern (42 bp):
ACACGGCCTGGCACACAGCCATGTCACCCAAGTCAGAGAGTT
Found at i:9446570 original size:79 final size:80
Alignment explanation
Indices: 9446455--9446613 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 80
9446445 TTATATAATT
9446455 AAAAACTAAAAAAATACTTTGTTAATATAAATTATAACATTATAGCTTAAGGGGTGAGTAAATGT
1 AAAAACTAAAAAAATACTTTGTTAATATAAATTATAACATTATAGCTTAAGGGGTGAGTAAATGT
9446520 TATATAATGTGGACA
66 TATATAATGTGGACA
9446535 AAAAACT-AAAAAATACTTTGTTAATATAAATTATAACATTATAGCTTAAGGGGTGAGTAAATGT
1 AAAAACTAAAAAAATACTTTGTTAATATAAATTATAACATTATAGCTTAAGGGGTGAGTAAATGT
9446599 TATATAATGTGGACA
66 TATATAATGTGGACA
9446614 CTAAATCTAA
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 72 0.91
80 7 0.09
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (80 bp):
AAAAACTAAAAAAATACTTTGTTAATATAAATTATAACATTATAGCTTAAGGGGTGAGTAAATGT
TATATAATGTGGACA
Found at i:9459879 original size:30 final size:30
Alignment explanation
Indices: 9459843--9459899 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9459833 TGGGCATTTT
* * *
9459843 CACACGGGTTGGATGCAAGCCCATGTGTGC
1 CACACGGGCTAGATACAAGCCCATGTGTGC
*
9459873 CACACGGGCTAGATACACGCCCATGTG
1 CACACGGGCTAGATACAAGCCCATGTG
9459900 CCAGCCCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.18
Consensus pattern (30 bp):
CACACGGGCTAGATACAAGCCCATGTGTGC
Found at i:9463306 original size:19 final size:19
Alignment explanation
Indices: 9463279--9463318 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9463269 TAAGATTAAT
* *
9463279 TTTAGTTAATCTTAATTAG
1 TTTACTTAATCATAATTAG
*
9463298 TTTACTTAATCATGATTAG
1 TTTACTTAATCATAATTAG
9463317 TT
1 TT
9463319 AAACTCTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (19 bp):
TTTACTTAATCATAATTAG
Found at i:9467584 original size:15 final size:15
Alignment explanation
Indices: 9467564--9467599 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9467554 AACCTACAGC
*
9467564 TGAGGAAGACGAACT
1 TGAGGAAGACGAAAT
*
9467579 TGAGGAAGAGGAAAT
1 TGAGGAAGACGAAAT
9467594 TGAGGA
1 TGAGGA
9467600 GGAAAATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.39, T:0.14
Consensus pattern (15 bp):
TGAGGAAGACGAAAT
Found at i:9471107 original size:2 final size:2
Alignment explanation
Indices: 9471100--9471132 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9471090 CTTAATTAGC
9471100 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9471133 GGGCTAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9471317 original size:2 final size:2
Alignment explanation
Indices: 9471306--9471337 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9471296 CTAAATTAGC
9471306 TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9471338 GGGCTAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9471457 original size:205 final size:206
Alignment explanation
Indices: 9471093--9471505 Score: 819
Period size: 205 Copynumber: 2.0 Consensus size: 206
9471083 CAGTGAGCTT
9471093 AATTAGCTATATATATATATATATATATATTATATATATAGGGCTAAGATTATCCTAAATCTGAA
1 AATTAGCTATATATATATATATATATATATTATATATATAGGGCTAAGATTATCCTAAATCTGAA
9471158 GATCTCCAAGGACAAATATAAGGAACCTTAGCTTGTTTTTAGTTGTTATTTTAGAAGCAAATAAA
66 GATCTCCAAGGACAAATATAAGGAACCTTAGCTTGTTTTTAGTTGTTATTTTAGAAGCAAATAAA
9471223 TACAATAACTCTATCAACGGACCTGAGACCGAGAGCTTTTAGAATCCCTCAACAATTTACCTTTG
131 TACAATAACTCTATCAACGGACCTGAGACCGAGAGCTTTTAGAATCCCTCAACAATTTACCTTTG
9471288 TTGATGACCTA
196 TTGATGACCTA
9471299 AATTAGCTATA-ATATATATATATATATATTATATATATAGGGCTAAGATTATCCTAAATCTGAA
1 AATTAGCTATATATATATATATATATATATTATATATATAGGGCTAAGATTATCCTAAATCTGAA
9471363 GATCTCCAAGGACAAATATAAGGAACCTTAGCTTGTTTTTAGTTGTTATTTTAGAAGCAAATAAA
66 GATCTCCAAGGACAAATATAAGGAACCTTAGCTTGTTTTTAGTTGTTATTTTAGAAGCAAATAAA
9471428 TACAATAACTCTATCAACGGACCTGAGACCGAGAGCTTTTAGAATCCCTCAACAATTTACCTTTG
131 TACAATAACTCTATCAACGGACCTGAGACCGAGAGCTTTTAGAATCCCTCAACAATTTACCTTTG
9471493 TTGATGACCTA
196 TTGATGACCTA
9471504 AA
1 AA
9471506 ATCTCAAGCA
Statistics
Matches: 207, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
205 196 0.95
206 11 0.05
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (206 bp):
AATTAGCTATATATATATATATATATATATTATATATATAGGGCTAAGATTATCCTAAATCTGAA
GATCTCCAAGGACAAATATAAGGAACCTTAGCTTGTTTTTAGTTGTTATTTTAGAAGCAAATAAA
TACAATAACTCTATCAACGGACCTGAGACCGAGAGCTTTTAGAATCCCTCAACAATTTACCTTTG
TTGATGACCTA
Found at i:9472446 original size:16 final size:16
Alignment explanation
Indices: 9472408--9472446 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9472398 TGGCAATAGC
* *
9472408 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
9472424 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
9472440 AAAGAAA
1 AAAGAAA
9472447 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:9477562 original size:16 final size:16
Alignment explanation
Indices: 9477524--9477562 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9477514 TGGCAGTAGC
* *
9477524 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
9477540 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
9477556 AAAGAAA
1 AAAGAAA
9477563 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:9487988 original size:30 final size:30
Alignment explanation
Indices: 9487952--9488029 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
9487942 TTCGGCTATC
9487952 AATTATGAAAAGGGATGGTGACAACCATCA
1 AATTATGAAAAGGGATGGTGACAACCATCA
* *
9487982 AATTATGAAAAGGGATGGTGACGACCATTA
1 AATTATGAAAAGGGATGGTGACAACCATCA
9488012 AATTATGAAAAGGGATGG
1 AATTATGAAAAGGGATGG
9488030 CTTCAGGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACAACCATCA
Found at i:9488049 original size:30 final size:29
Alignment explanation
Indices: 9488015--9488119 Score: 131
Period size: 30 Copynumber: 3.5 Consensus size: 29
9488005 ACCATTAAAT
*
9488015 TATGAAAAGGGATGGCTTCAGG-TATCGTAC
1 TATGAAAAGGGATGGCTT-TGGCTATCG-AC
*
9488045 TATGAAAAGAGATGGCTTTGGCTATCGATC
1 TATGAAAAGGGATGGCTTTGGCTATCGA-C
* *
9488075 TATGAAAAGGGATGGCTTTGGCTATCAAAT
1 TATGAAAAGGGATGGCTTTGGCTATC-GAC
9488105 TATGAAAAGGGATGG
1 TATGAAAAGGGATGG
9488120 TGACGACCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.04
30 63 0.94
31 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (29 bp):
TATGAAAAGGGATGGCTTTGGCTATCGAC
Found at i:9488162 original size:60 final size:60
Alignment explanation
Indices: 9487955--9488164 Score: 167
Period size: 60 Copynumber: 3.5 Consensus size: 60
9487945 GGCTATCAAT
** ** *
9487955 TATGAAAAGGGATGG-TGACAACCATCAAATTATGAAAAGGGATGGTGACGACCATTAAAT
1 TATGAAAAGGGATGGCT-ATGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAAC
* ** ** * * ** * * *
9488015 TATGAAAAGGGATGGCT-TCAGGTATCGTACTATGAAAAGAGATGGCT-TTGGCTATCGATC
1 TATGAAAAGGGATGGCTATGA-CCATCAAATTATGAAAAGGGATGG-TGACGACCATCGAAC
* * *
9488075 TATGAAAAGGGATGGCTTTGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGCTATGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAAC
*
9488135 AATGAAAAGGGATGG-TGATGACCATCAAAT
1 TATGAAAAGGGATGGCT-ATGACCATCAAAT
9488165 GTGAAAAAGG
Statistics
Matches: 112, Mismatches: 32, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
59 3 0.03
60 106 0.95
61 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (60 bp):
TATGAAAAGGGATGGCTATGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:9494566 original size:16 final size:16
Alignment explanation
Indices: 9494545--9494575 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9494535 GTTTGCATTA
*
9494545 TTTTAATATTAAATAC
1 TTTTAAAATTAAATAC
9494561 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
9494576 ATATTCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAATTAAATAC
Found at i:9504286 original size:23 final size:23
Alignment explanation
Indices: 9504252--9504409 Score: 109
Period size: 23 Copynumber: 6.9 Consensus size: 23
9504242 GAACTTACCC
* *
9504252 CAAAGAGATTACAGCATACGCCA
1 CAAAGACATTACAGAATACGCCA
* * *
9504275 TAAAGACGTTACAGAATATGCCA
1 CAAAGACATTACAGAATACGCCA
* **
9504298 CATAGACATTACCTAATACGCCA
1 CAAAGACATTACAGAATACGCCA
* **
9504321 CAAAGACATTACAAAATATACCA
1 CAAAGACATTACAGAATACGCCA
* * * *
9504344 CAAAGCCATTATAGTATACGCTA
1 CAAAGACATTACAGAATACGCCA
* * * * *
9504367 CATAGGCATTTCATAATATGCCA
1 CAAAGACATTACAGAATACGCCA
* * *
9504390 TAAAGGCATTGCAGAATACG
1 CAAAGACATTACAGAATACG
9504410 TAACATAGGT
Statistics
Matches: 99, Mismatches: 36, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 99 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (23 bp):
CAAAGACATTACAGAATACGCCA
Found at i:9504317 original size:46 final size:46
Alignment explanation
Indices: 9504267--9504354 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
9504257 AGATTACAGC
* * * * *
9504267 ATACGCCATAAAGACGTTACAGAATATGCCACATAGACATTACCTA
1 ATACGCCACAAAGACATTACAAAATATACCACAAAGACATTACCTA
*
9504313 ATACGCCACAAAGACATTACAAAATATACCACAAAGCCATTA
1 ATACGCCACAAAGACATTACAAAATATACCACAAAGACATTA
9504355 TAGTATACGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (46 bp):
ATACGCCACAAAGACATTACAAAATATACCACAAAGACATTACCTA
Found at i:9504385 original size:46 final size:46
Alignment explanation
Indices: 9504327--9504431 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 46
9504317 GCCACAAAGA
* * *
9504327 CATTACAAAATATACCACAAAGCCATTATAGTATACGCT-ACATAGG
1 CATTTCAAAATATACCACAAAGCCATTACAGAATACG-TAACATAGG
* * * * *
9504373 CATTTCATAATATGCCATAAAGGCATTGCAGAATACGTAACATAGG
1 CATTTCAAAATATACCACAAAGCCATTACAGAATACGTAACATAGG
*
9504419 TATTTCAAAATAT
1 CATTTCAAAATAT
9504432 CTTGCATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 1 0.02
46 47 0.98
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (46 bp):
CATTTCAAAATATACCACAAAGCCATTACAGAATACGTAACATAGG
Found at i:9519953 original size:2 final size:2
Alignment explanation
Indices: 9519946--9519977 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9519936 ACTAAATTAC
9519946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9519978 TACAAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9520175 original size:17 final size:17
Alignment explanation
Indices: 9520153--9520185 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9520143 AATAGTAAAA
9520153 TATAAA-TATGAAATTAT
1 TATAAATTAT-AAATTAT
9520170 TATAAATTATAAATTA
1 TATAAATTATAAATTA
9520186 CAATCTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TATAAATTATAAATTAT
Found at i:9524131 original size:90 final size:90
Alignment explanation
Indices: 9523979--9524164 Score: 246
Period size: 90 Copynumber: 2.1 Consensus size: 90
9523969 TCTAGCAGAA
* * * * ** * *
9523979 TATTAATCTTCAAATCTGGTGGTTCATCCACATATTATCTGTTAGCTATTATCTGCAATTATGTT
1 TATTAAACTGCAAAACTGGTGGTTCATCCACACATTATCTGACAACTATTATCTACAATTATGTT
*
9524044 GTGTATTCACAACCATGTAGCAACG
66 GTGTATTCACAACCATCTAGCAACG
* * *
9524069 TATTAAACTGCAAAACTGGTGGTTCATCCACCCATTATCTGACAACTTTTATCTACATTTATGTT
1 TATTAAACTGCAAAACTGGTGGTTCATCCACACATTATCTGACAACTATTATCTACAATTATGTT
* *
9524134 GTGTATTCACAACCATCTGGTAACG
66 GTGTATTCACAACCATCTAGCAACG
9524159 TATTAA
1 TATTAA
9524165 CCGCAACTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (90 bp):
TATTAAACTGCAAAACTGGTGGTTCATCCACACATTATCTGACAACTATTATCTACAATTATGTT
GTGTATTCACAACCATCTAGCAACG
Found at i:9527317 original size:25 final size:25
Alignment explanation
Indices: 9527289--9527341 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
9527279 ATTTTTGAAT
*
9527289 TTGATAATGATTTTGTG-TTTTGTTA
1 TTGATAAT-AGTTTGTGATTTTGTTA
*
9527314 TTGATGATAGTTTGTGATTTTTGTTA
1 TTGATAATAGTTTGTGA-TTTTGTTA
9527340 TT
1 TT
9527342 TGTGGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 7 0.29
26 10 0.42
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (25 bp):
TTGATAATAGTTTGTGATTTTGTTA
Found at i:9530736 original size:30 final size:30
Alignment explanation
Indices: 9530670--9530737 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
9530660 AAATAAATAA
* *
9530670 ATAACTTTAAATGGTTTAGTGACTTAAATG
1 ATAACTTTAAATGGTTTAGTAACTCAAATG
* *
9530700 AAAACTTTCAAATGGTTTAGTAAC-CAAATT
1 ATAACTTT-AAATGGTTTAGTAACTCAAATG
9530730 ATAACTTT
1 ATAACTTT
9530738 TTTAGTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (30 bp):
ATAACTTTAAATGGTTTAGTAACTCAAATG
Found at i:9535116 original size:3 final size:3
Alignment explanation
Indices: 9535108--9535133 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9535098 ACCTAGGAAA
9535108 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
9535134 AGAGTTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9535800 original size:30 final size:30
Alignment explanation
Indices: 9535749--9535805 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9535739 GAGAAGGAAG
*
9535749 AAATAATAATGTGTTTCTTTTTCTTTTGGT
1 AAATAATAATGTGTTTCTTTTTATTTTGGT
9535779 AAAT-ATAATGTGTTTCTTTTTTATTTT
1 AAATAATAATGTGTTTC-TTTTTATTTT
9535806 TACTTATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.60
Consensus pattern (30 bp):
AAATAATAATGTGTTTCTTTTTATTTTGGT
Found at i:9544055 original size:22 final size:22
Alignment explanation
Indices: 9544030--9544072 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9544020 CAATTTCAAG
9544030 TTTAAATT-TGTACTAACTATTC
1 TTTAAATTATGT-CTAACTATTC
**
9544052 TTTATTTTATGTCTAACTATT
1 TTTAAATTATGTCTAACTATT
9544073 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAATTATGTCTAACTATTC
Found at i:9545604 original size:20 final size:19
Alignment explanation
Indices: 9545578--9545627 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
9545568 CATCGAAGAG
9545578 AAATTAGGGCAACAAAAGT
1 AAATTAGGGCAACAAAAGT
* *
9545597 GCAATTAGGAGC-ATAAAAGT
1 -AAATTAGG-GCAACAAAAGT
9545617 AAATTAGGGCA
1 AAATTAGGGCA
9545628 CCGTAGTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 14 0.56
21 2 0.08
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (19 bp):
AAATTAGGGCAACAAAAGT
Found at i:9545727 original size:40 final size:40
Alignment explanation
Indices: 9545683--9545761 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
9545673 GTACTAACAG
* *
9545683 GAGTATGAAAGTACTATTAGAAGCACTATAGTGCTATCAA
1 GAGTACGAAAGTACTATTAGAAGCACCATAGTGCTATCAA
* *
9545723 GAGTACGAAAGTACTGTTAGGAGCACCATAGTGCTATCA
1 GAGTACGAAAGTACTATTAGAAGCACCATAGTGCTATCA
9545762 GGAGCACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (40 bp):
GAGTACGAAAGTACTATTAGAAGCACCATAGTGCTATCAA
Found at i:9545766 original size:20 final size:20
Alignment explanation
Indices: 9545704--9545768 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
9545694 TACTATTAGA
* *
9545704 AGCACTATAGTGCTATCAAG
1 AGCACCATAGTGCTATCAGG
* * * * * *
9545724 AGTACGAAAGTACTGTTAGG
1 AGCACCATAGTGCTATCAGG
9545744 AGCACCATAGTGCTATCAGG
1 AGCACCATAGTGCTATCAGG
9545764 AGCAC
1 AGCAC
9545769 TTATTCAAGA
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (20 bp):
AGCACCATAGTGCTATCAGG
Found at i:9548318 original size:68 final size:68
Alignment explanation
Indices: 9548210--9548343 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
9548200 TGATTAAACT
* ** * * *
9548210 TAATCACTTTAATATAAGTTAATATGATACTTATCCAGATAAATATTTAATTTAATTTAATTTTA
1 TAATCACTTTAATATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATTA
9548275 AGA
66 AGA
* * *
9548278 TAATCACTTTAATTTTAAATTAATAAAATA-TTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTTTAA-TATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATT
9548342 AA
65 AA
9548344 TATTATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 43 0.77
69 13 0.23
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (68 bp):
TAATCACTTTAATATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATTA
AGA
Found at i:9551340 original size:68 final size:68
Alignment explanation
Indices: 9551232--9551365 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
9551222 TGATTAAACT
* ** * * *
9551232 TAATCACTTTAATATAAGTTAATATGATACTTATCCAGATAAATATTTAATTTAATTTAATTTTA
1 TAATCACTTTAATATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATTA
9551297 AGA
66 AGA
* * *
9551300 TAATCACTTTAATTTTAAATTAATAAAATA-TTATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTTTAA-TATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATT
9551364 AA
65 AA
9551366 TATTATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 43 0.77
69 13 0.23
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (68 bp):
TAATCACTTTAATATAAATTAATAAAATACTTATCAAGATAAATATTAAATTTAATTTAATATTA
AGA
Found at i:9551790 original size:17 final size:17
Alignment explanation
Indices: 9551768--9551806 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9551758 AAGATTTTTC
9551768 AAATTAATTTTTAAAGA
1 AAATTAATTTTTAAAGA
9551785 AAATTAATTTTTAAAGA
1 AAATTAATTTTTAAAGA
9551802 AAATT
1 AAATT
9551807 CTTTAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATTAATTTTTAAAGA
Found at i:9553386 original size:26 final size:26
Alignment explanation
Indices: 9553350--9553401 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9553340 AGCACCCATC
9553350 CAACCCTACACACCAATTAGTGTCGG
1 CAACCCTACACACCAATTAGTGTCGG
9553376 CAACCCTACACACCAATTAGTGTCGG
1 CAACCCTACACACCAATTAGTGTCGG
9553402 TATGACACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (26 bp):
CAACCCTACACACCAATTAGTGTCGG
Found at i:9554026 original size:62 final size:63
Alignment explanation
Indices: 9553888--9554028 Score: 162
Period size: 63 Copynumber: 2.3 Consensus size: 63
9553878 ATAACCCCTC
* * * * *
9553888 ACACGGCCTGGACACACGCCTGTGTCCCTGACCCATGTGACCCTAAATACCAAATAGTAAGTT
1 ACACGGCTTGGACACAAGCCCGTGTCCCTGACCCATGTGACCCTAAATACCAAACAATAAGTT
** * *
9553951 ACACACCTTGGACATAAGCCCGTGTCCCT-AGCCCATGTGA-CCTAAAGTA-CAAACAATGAGTT
1 ACACGGCTTGGACACAAGCCCGTGTCCCTGA-CCCATGTGACCCTAAA-TACCAAACAATAAGTT
9554013 ACACGGCTTGGACACA
1 ACACGGCTTGGACACA
9554029 CGTTTGTGTC
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
62 30 0.47
63 34 0.53
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (63 bp):
ACACGGCTTGGACACAAGCCCGTGTCCCTGACCCATGTGACCCTAAATACCAAACAATAAGTT
Found at i:9554038 original size:62 final size:63
Alignment explanation
Indices: 9553888--9554051 Score: 181
Period size: 62 Copynumber: 2.6 Consensus size: 63
9553878 ATAACCCCTC
* * *
9553888 ACACGGCCTGGACACACGCCTGTGTCCCT-GACCCATGTGACCCTAAATACCAAATAGTAAGTT
1 ACACGGCTTGGACACACGCCTGTGTCCCTAG-CCCATGTGACCCTAAATACCAAACAATAAGTT
** * * * *
9553951 ACACACCTTGGACATAAGCCCGTGTCCCTAGCCCATGTGA-CCTAAAGTA-CAAACAATGAGTT
1 ACACGGCTTGGACACACGCCTGTGTCCCTAGCCCATGTGACCCTAAA-TACCAAACAATAAGTT
** *
9554013 ACACGGCTTGGACACACGTTTGTGTCCCTAGCCCGTGTG
1 ACACGGCTTGGACACACGCCTGTGTCCCTAGCCCATGTG
9554052 CCTCTAATTC
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
62 47 0.57
63 34 0.41
64 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (63 bp):
ACACGGCTTGGACACACGCCTGTGTCCCTAGCCCATGTGACCCTAAATACCAAACAATAAGTT
Found at i:9565460 original size:16 final size:17
Alignment explanation
Indices: 9565441--9565474 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9565431 TGTTATTCAG
*
9565441 AATTT-AAATTATTTTA
1 AATTTCAAACTATTTTA
9565457 AATTTCAAACTATTTTA
1 AATTTCAAACTATTTTA
9565474 A
1 A
9565475 TTGAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTCAAACTATTTTA
Found at i:9568224 original size:15 final size:14
Alignment explanation
Indices: 9568206--9568239 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
9568196 CTGTTATTAT
*
9568206 TTTATTTTATATTTG
1 TTTATTTTAT-TTTA
9568221 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9568235 TTTAT
1 TTTAT
9568240 CAACTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:9568995 original size:19 final size:19
Alignment explanation
Indices: 9568968--9569004 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9568958 TAAAAATAAA
9568968 TTAACTTATATAAATATGG
1 TTAACTTATATAAATATGG
* *
9568987 TTAATTTATGTAAATATG
1 TTAACTTATATAAATATG
9569005 TTGCAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (19 bp):
TTAACTTATATAAATATGG
Found at i:9584134 original size:51 final size:51
Alignment explanation
Indices: 9584079--9584244 Score: 226
Period size: 51 Copynumber: 3.3 Consensus size: 51
9584069 GTAATACTCT
*
9584079 GTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
* * * * * * * **
9584130 GTGAAGGCTACAATGTGTATCGAGAAGCT-TTGGTCACGTGTGTAGTACTGT
1 GTGAAGGCTACTACGTGAATCGATAA-ATGATGGTCACATGTGTAGTACTAA
9584181 GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
9584232 GTGAAGGCTACTA
1 GTGAAGGCTACTA
9584245 TGTGTACCAA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
50 1 0.01
51 92 0.98
52 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
Found at i:9584238 original size:102 final size:102
Alignment explanation
Indices: 9584062--9584250 Score: 342
Period size: 102 Copynumber: 1.9 Consensus size: 102
9584052 TATCGATGAA
*
9584062 CACGTGTGTAATACTCTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAATACTCTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
9584127 TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
* *
9584164 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAATACTCTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
9584229 TAAGTGAAGGCTACTATGTGTA
66 TAAGTGAAGGCTACAATGTGTA
9584251 CCAAAAAGCT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAATACTCTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
Found at i:9584663 original size:37 final size:38
Alignment explanation
Indices: 9584594--9584666 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
9584584 ATGTATGGAA
* **
9584594 TTGAATTGAATATTAACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTAACTTGAAAATGAAAAAGTGAATT
* *
9584632 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTAACTTGAAAATGAAAAAGTGAA
9584667 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTAACTTGAAAATGAAAAAGTGAATT
Found at i:9592669 original size:63 final size:63
Alignment explanation
Indices: 9592591--9592772 Score: 211
Period size: 63 Copynumber: 2.9 Consensus size: 63
9592581 CTAGAGAAGG
* * * * * * * ***
9592591 TGTCAGTGCAGTGAATGATTTTGCATGCTGCGGTGCTTATGTAAAATAAAGTGGTGATGATTG
1 TGTCGGTGCAATGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGAACA
* * *
9592654 TGTTGGTGCAATGAATAATTGTGCGTGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGAACA
1 TGTCGGTGCAATGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGAACA
* * * *
9592717 TGTCGGTGCAATAAATGATTGTGCTTGTTGTAGTGCTTGTGGAAAATAAATTGGTG
1 TGTCGGTGCAATGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAATTGGTG
9592773 TTGTATGTGT
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 100 1.00
ACGTcount: A:0.26, C:0.08, G:0.30, T:0.36
Consensus pattern (63 bp):
TGTCGGTGCAATGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGAACA
Found at i:9592797 original size:63 final size:63
Alignment explanation
Indices: 9592623--9592864 Score: 211
Period size: 63 Copynumber: 3.9 Consensus size: 63
9592613 GCATGCTGCG
* * * * * * * *
9592623 GTGCTTATGTAAAATAAAGTGGTGATG-ATTGTGTTGGTGCAATGAATAATTGTGCGTGTTGTG
1 GTGCTTGTGGAAAATAAATTGGTGTTGTA-TGTGTTGATGCAAGGAATGATTGTGCGTGTTGTA
* * * ** * * ** *
9592686 GTGCTTGTGTAAAATAAATTGGTGATGAACATGTCGGTGCAATAAATGATTGTGCTTGTTGTA
1 GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGCAAGGAATGATTGTGCGTGTTGTA
* * *
9592749 GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGTAGGGAATGATTGTGCGTGCTG-A
1 GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGCAAGGAATGATTGTGCGTGTTGTA
* * * * *
9592811 GGTACATGTGGAAAATAAACTGTTGTTGTATGTATTGATGCAAGGAA-GATTGTG
1 -GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGCAAGGAATGATTGTG
9592865 TGTGCTAAGG
Statistics
Matches: 148, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
62 8 0.05
63 139 0.94
64 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (63 bp):
GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGCAAGGAATGATTGTGCGTGTTGTA
Found at i:9592892 original size:62 final size:63
Alignment explanation
Indices: 9592749--9592892 Score: 182
Period size: 63 Copynumber: 2.3 Consensus size: 63
9592739 GCTTGTTGTA
* * * * * *
9592749 GTGCTTGTGGAAAATAAATTGGTGTTGTATGTGTTGATGTAGGGAATGATTGTGCGTGCTGAG
1 GTGCATGTGGAAAATAAACTGGTGTTGTATGTATTGATGCAAGGAATGATTGTGCGTGCTAAG
* * *
9592812 GTACATGTGGAAAATAAACTGTTGTTGTATGTATTGATGCAAGGAA-GATTGTGTGTGCTAAG
1 GTGCATGTGGAAAATAAACTGGTGTTGTATGTATTGATGCAAGGAATGATTGTGCGTGCTAAG
* *
9592874 GTGCGTGTGAAAAATAAAC
1 GTGCATGTGGAAAATAAAC
9592893 CAGAGTTGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
62 30 0.43
63 39 0.57
ACGTcount: A:0.28, C:0.06, G:0.32, T:0.33
Consensus pattern (63 bp):
GTGCATGTGGAAAATAAACTGGTGTTGTATGTATTGATGCAAGGAATGATTGTGCGTGCTAAG
Found at i:9594296 original size:9 final size:9
Alignment explanation
Indices: 9594282--9594312 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
9594272 GTTAAATGAA
9594282 TCGAGTTAT
1 TCGAGTTAT
9594291 TCGAGTTAT
1 TCGAGTTAT
9594300 TCGAGTTAT
1 TCGAGTTAT
9594309 TCGA
1 TCGA
9594313 ATCAACTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9594382 original size:9 final size:9
Alignment explanation
Indices: 9594368--9594401 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
9594358 GTTTTTGAAT
9594368 TCGAATAAC
1 TCGAATAAC
9594377 TCGAATAAC
1 TCGAATAAC
*
9594386 TCGAATAAT
1 TCGAATAAC
9594395 TCGAATA
1 TCGAATA
9594402 TCAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9595280 original size:5 final size:5
Alignment explanation
Indices: 9595270--9595295 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9595260 GAACAAATAT
9595270 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
9595296 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:9595901 original size:14 final size:14
Alignment explanation
Indices: 9595879--9595972 Score: 71
Period size: 14 Copynumber: 6.7 Consensus size: 14
9595869 AAAAATTGGG
*
9595879 AATTTAGAATAAAA
1 AATTGAGAATAAAA
** *
9595893 AATTGAGAATTGAC
1 AATTGAGAATAAAA
*
9595907 GATTGAGAATAAAA
1 AATTGAGAATAAAA
* * **
9595921 AATCGAGAACAAGC
1 AATTGAGAATAAAA
9595935 AATTGAGAATAAAA
1 AATTGAGAATAAAA
* ** *
9595949 AATCGAGAGCAAGA
1 AATTGAGAATAAAA
9595963 AATTGAGAAT
1 AATTGAGAAT
9595973 CAAATTGTGA
Statistics
Matches: 56, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
14 56 1.00
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.20
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:9595903 original size:28 final size:28
Alignment explanation
Indices: 9595872--9595956 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
9595862 AATTTAAAAA
* *
9595872 AATTGGGAATTTAGAATAAAAAATTGAG
1 AATTGGGAATTGAGAATAAAAAATCGAG
*
9595900 AATTGACG-ATTGAGAATAAAAAATCGAG
1 AATTG-GGAATTGAGAATAAAAAATCGAG
*** *
9595928 AACAAGCAATTGAGAATAAAAAATCGAG
1 AATTGGGAATTGAGAATAAAAAATCGAG
9595956 A
1 A
9595957 GCAAGAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 46 0.98
29 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (28 bp):
AATTGGGAATTGAGAATAAAAAATCGAG
Found at i:9595961 original size:28 final size:28
Alignment explanation
Indices: 9595908--9595972 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
9595898 AGAATTGACG
*
9595908 ATTGAGAATAAAAAATCGAGAACAAGCA
1 ATTGAGAATAAAAAATCGAGAACAAGAA
*
9595936 ATTGAGAATAAAAAATCGAGAGCAAGAA
1 ATTGAGAATAAAAAATCGAGAACAAGAA
9595964 ATTGAGAAT
1 ATTGAGAAT
9595973 CAAATTGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.55, C:0.08, G:0.20, T:0.17
Consensus pattern (28 bp):
ATTGAGAATAAAAAATCGAGAACAAGAA
Found at i:9599418 original size:6 final size:6
Alignment explanation
Indices: 9599403--9599433 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
9599393 TGCATTTGTG
9599403 AAAATAA AAAATA AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA
9599434 TACATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:9599642 original size:3 final size:3
Alignment explanation
Indices: 9599634--9599673 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
9599624 ATATGTAGGT
*
9599634 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9599674 CAAAATTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9599678 original size:15 final size:15
Alignment explanation
Indices: 9599634--9599678 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
9599624 ATATGTAGGT
*
9599634 ATAATAATAATATATA
1 ATAATAATAATA-AAA
9599650 AT-ATAATAATAAAA
1 ATAATAATAATAAAA
*
9599664 ATAATAATAACAAAA
1 ATAATAATAATAAAA
9599679 TTGATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 20 0.77
16 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:9600149 original size:21 final size:21
Alignment explanation
Indices: 9600115--9600166 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
9600105 CATATCTTCT
9600115 AAGATTGC--ATATCATATCC
1 AAGATTGCATATATCATATCC
*
9600134 AAGATTGCATATATCATATCT
1 AAGATTGCATATATCATATCC
9600155 AAGATTGCATAT
1 AAGATTGCATAT
9600167 CCTCGAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGATTGCATATATCATATCC
Found at i:9600723 original size:44 final size:44
Alignment explanation
Indices: 9600599--9600723 Score: 189
Period size: 44 Copynumber: 2.8 Consensus size: 44
9600589 ATCAGATGCG
* * * *
9600599 ATCTTCAATCTATTCCACTGCTG-CCTAGGAAGATAGAATTCTCA
1 ATCTTCAACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACA
9600643 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
1 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
*
9600687 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG
9600724 GCTGGGGTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
44 73 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
Found at i:9600928 original size:88 final size:88
Alignment explanation
Indices: 9600723--9601312 Score: 792
Period size: 88 Copynumber: 6.7 Consensus size: 88
9600713 AGGGAGATAG
* * * *
9600723 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCAG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAGCCTG
* * *
9600788 CTCCACTACAACCCAGGGAGGCAA
65 CTTCGCTGCAACCCAGGGAGGCAA
* * *
9600812 GGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGGTAAGATTTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9600877 TTCGCTGTAACCCAGGGAGGCAA
66 TTCGCTGCAACCCAGGGAGGCAA
* * *
9600900 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAATGCAAGATTTGCTATTTTTTTAGCCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA--TTTTTAGCCT
* *
9600965 -ATTCCACTGCAACCCAGGG-GGCAA
64 GCTT-CGCTGCAACCCAGGGAGGCAA
* * * * *
9600989 GACAGGTGTCTTCGATTTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAGCCTG-
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
9601053 TTCAGTTACAACCCAGGGAGGCAA
66 TTC-GCTGCAACCCAGGGAGGCAA
* * * * *
9601077 GGCTGGTGTCTTCAATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATTTACTATTTTTAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
9601142 TTCGCTGCAACCCAGGGAGGCAA
66 TTCGCTGCAACCCAGGGAGGCAA
* *
9601165 GGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTTAGCCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAGCCTG
*
9601230 C-TCTGCTGCAACCCAGGGAGGCAC
65 CTTC-GCTGCAACCCAGGGAGGCAA
* *
9601254 GGCTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
9601313 CCGATCTGCT
Statistics
Matches: 442, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.00
87 23 0.05
88 212 0.48
89 183 0.41
90 23 0.05
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TTCGCTGCAACCCAGGGAGGCAA
Found at i:9601018 original size:177 final size:179
Alignment explanation
Indices: 9600723--9601311 Score: 847
Period size: 177 Copynumber: 3.3 Consensus size: 179
9600713 AGGGAGATAG
* * *
9600723 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACC-A
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTA
*
9600787 GC-TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAA
66 -CTTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAA
* *
9600851 GGTAAGATTTGCTATTTTTAGCCTGCTTC-GCTGTAACCCAGGGAGGCAA
130 GGTAAGATCTGCTATTTTTAGCCTGCTTCAGCTGCAACCCAGGGAGGCAA
* * *
9600900 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAATGCAAGATTTGCTATTTTTTTAGCCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTTAGCCT
* * *
9600965 A-TTCCACTGCAACCCAGGG-GGCAAGACAGGTGTCTTCGATTTG-TTTCGCTGTCGGTGCAGGA
65 ACTTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTT-GCTGTCGGTGCAGGA
* * * *
9601027 AGGCAAGATCTACTATTTTTAGCCTG-TTCAGTTACAACCCAGGGAGGCAA
129 AGGTAAGATCTGCTATTTTTAGCCTGCTTCAGCTGCAACCCAGGGAGGCAA
* * * *
9601077 GGCTGGTGTCTTCAATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATTTACTA-TTTTTAGCCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTA
*
9601141 CTT-CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAG
66 CTTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAG
* *
9601205 GTAAGATCTGCTATTTTTTAGCCTGC-TCTGCTGCAACCCAGGGAGGCAC
131 GTAAGATCTGCTA-TTTTTAGCCTGCTTCAGCTGCAACCCAGGGAGGCAA
* *
9601254 GGCTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTATTTTT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
9601312 ACCGATCTGC
Statistics
Matches: 364, Mismatches: 37, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
175 25 0.07
176 57 0.16
177 252 0.69
178 29 0.08
179 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (179 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTA
CTTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAG
GTAAGATCTGCTATTTTTAGCCTGCTTCAGCTGCAACCCAGGGAGGCAA
Found at i:9601219 original size:265 final size:265
Alignment explanation
Indices: 9600734--9601312 Score: 865
Period size: 265 Copynumber: 2.2 Consensus size: 265
9600724 GCTGGGGTCA
9600734 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCAGCTCCACTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAACCAGCTCCACTACAA
* * * *
9600799 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGGTAAGATTTGCT
65 CCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTACT
* *
9600864 ATTTTTAGCCTGCTTCGCTGTAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTC
130 ATTTTTAGCCTACTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTC
* * *
9600929 GGTGCAGGAATGCAAGATTTGCTATTTTTTTAGCCTATTCCACTGCAACCCAGGG-GGCAAGACA
195 GGTGCAGGAAGGCAAGATCTGCTA-TTTTTTAGCCTACTCCACTGCAACCCAGGGAGGCAAGACA
*
9600993 GGTGTCT
259 GGTGTCC
* * * * * * *
9601000 TCGATTTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAGCCTG-TTCAGTTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCAGCTCCA-CTACAA
*
9601064 CCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATTTACT
65 CCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTACT
**
9601129 ATTTTTAGCCTACTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTC
130 ATTTTTAGCCTACTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTC
* * ** * * *
9601194 GGTGCAGGAAGGTAAGATCTGCTATTTTTTAGCCTGCTCTGCTGCAACCCAGGGAGGCACGGCTG
195 GGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTACTCCACTGCAACCCAGGGAGGCAAGACAG
9601259 GTGTCC
260 GTGTCC
*
9601265 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTATTTTTA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
9601313 CCGATCTGCT
Statistics
Matches: 280, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
264 29 0.10
265 212 0.76
266 39 0.14
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (265 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCAGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTACTA
TTTTTAGCCTACTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCG
GTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTACTCCACTGCAACCCAGGGAGGCAAGACAGG
TGTCC
Found at i:9602564 original size:27 final size:27
Alignment explanation
Indices: 9602534--9602590 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
9602524 AATTTTCACC
9602534 TTGGCCTCTCCTTTTCTTTTTT-TTTTT
1 TTGGCCTCTCC-TTTCTTTTTTATTTTT
** * *
9602561 TTGGTTTTTTCTTTCTTTTTTATTTTT
1 TTGGCCTCTCCTTTCTTTTTTATTTTT
9602588 TTG
1 TTG
9602591 AAATATTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.02, C:0.14, G:0.09, T:0.75
Consensus pattern (27 bp):
TTGGCCTCTCCTTTCTTTTTTATTTTT
Found at i:9608371 original size:3 final size:3
Alignment explanation
Indices: 9608363--9608402 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
9608353 ATATGTAGGT
*
9608363 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9608403 CAAAATTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9608407 original size:15 final size:15
Alignment explanation
Indices: 9608363--9608407 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
9608353 ATATGTAGGT
*
9608363 ATAATAATAATATATA
1 ATAATAATAATA-AAA
9608379 AT-ATAATAATAAAA
1 ATAATAATAATAAAA
*
9608393 ATAATAATAACAAAA
1 ATAATAATAATAAAA
9608408 TTGATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 20 0.77
16 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:9608843 original size:22 final size:22
Alignment explanation
Indices: 9608818--9608895 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
9608808 TACAAATTAA
*
9608818 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTGCAAAATCAT
*
9608840 ATCTTCTAAGGTTGC-AAATCAT
1 ATC-TCTAAGATTGCAAAATCAT
*
9608862 ATC-C-AAGATTGCATATATCAT
1 ATCTCTAAGATTGCA-AAATCAT
9608883 AT-T-TAAGATTGCA
1 ATCTCTAAGATTGCA
9608896 TATCCTCGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.15
20 1 0.02
21 17 0.36
22 13 0.28
23 9 0.19
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (22 bp):
ATCTCTAAGATTGCAAAATCAT
Found at i:9608857 original size:23 final size:22
Alignment explanation
Indices: 9608808--9608864 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9608798 AAAGGGTATC
* *
9608808 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
9608829 TACAAAATCATATCTTCTAAGGT
1 TAC-AAATCATATCTTCTAAGAT
*
9608852 TGCAAATCATATC
1 TACAAATCATATC
9608865 CAAGATTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.60
23 9 0.30
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9611973 original size:29 final size:29
Alignment explanation
Indices: 9611914--9611973 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
9611904 TATGGTTTAA
*
9611914 TGTGCAATTGTATACATAAACTTTGATTT
1 TGTGCAATTGTATACATAAACTTTGAGTT
* * *
9611943 TGTGTAATTTTATACATGAAA-TTTTAGTT
1 TGTGCAATTGTATACAT-AAACTTTGAGTT
9611972 TG
1 TG
9611974 ATCCAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (29 bp):
TGTGCAATTGTATACATAAACTTTGAGTT
Found at i:9618496 original size:20 final size:20
Alignment explanation
Indices: 9618473--9618518 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9618463 TGTTAATATT
*
9618473 TTGTTATTTATTCAAATAGG
1 TTGTTACTTATTCAAATAGG
*
9618493 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
9618513 TTGTTA
1 TTGTTA
9618519 AGCTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:9621258 original size:18 final size:18
Alignment explanation
Indices: 9621235--9621276 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9621225 AGCCAACCTG
9621235 AACCCA-CATCCAACATGC
1 AACCCACCA-CCAACATGC
9621253 AACCCACCACCAACATGC
1 AACCCACCACCAACATGC
*
9621271 ATCCCA
1 AACCCA
9621277 TGATGACTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.38, C:0.48, G:0.05, T:0.10
Consensus pattern (18 bp):
AACCCACCACCAACATGC
Found at i:9622988 original size:20 final size:20
Alignment explanation
Indices: 9622965--9623010 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9622955 TGTTAATATT
* *
9622965 TTGTTATTTA-TTCAAATAGG
1 TTGTTACTTATTTC-AATAAG
9622985 TTGTTACTTATTTCAATAAG
1 TTGTTACTTATTTCAATAAG
9623005 TTGTTA
1 TTGTTA
9623011 AGCTTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTTCAATAAG
Found at i:9626301 original size:11 final size:11
Alignment explanation
Indices: 9626285--9626310 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9626275 ATTTTTTTAA
9626285 TTTTAAAATAC
1 TTTTAAAATAC
9626296 TTTTAAAATAC
1 TTTTAAAATAC
9626307 TTTT
1 TTTT
9626311 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:9626338 original size:18 final size:18
Alignment explanation
Indices: 9626317--9626351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9626307 TTTTTTTAAA
*
9626317 TTTTTT-AAATTTTAATT
1 TTTTTTAAAAATTTAATT
9626334 TTTTTTAAAAATTTAATT
1 TTTTTTAAAAATTTAATT
9626352 ACTTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTAAAAATTTAATT
Found at i:9629221 original size:86 final size:85
Alignment explanation
Indices: 9629060--9629223 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 85
9629050 AGCTCTTACA
* * * *
9629060 ATGCCAATGTCCCAAACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCAACGCCAATGTCCCAGACAGGGT
9629125 CTTACACGAAATCGTATACG
66 CTTACACGAAATCGTATACG
* * * * *
9629145 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGACGCCAATGTCCCAGA-TGT
1 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATC-AAATATCAACGCCAATGTCCCAGACAG-
9629208 GGTCTTACACGAAATC
63 GGTCTTACACGAAATC
9629224 ACATATCGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 28 0.42
86 37 0.55
87 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCAACGCCAATGTCCCAGACAGGGT
CTTACACGAAATCGTATACG
Found at i:9629243 original size:44 final size:43
Alignment explanation
Indices: 9629059--9629233 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
9629049 AAGCTCTTAC
* * * *
9629059 AATGCCAATGTCCCAAACGTGGTCTTACATGTAATCAAATATC-
1 AATGCC-ATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
**
9629102 AATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCGTATA-CG
1 AATGCCA-TGTCCCAGAC-GTGGTCTTACACGAAATCACATATCG
* * *
9629145 -ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 AATGCC-ATGTCCCAGACGTGGTCTTACACG-AAATCACATATCG
* *
9629189 -ACGCCAATGTCCCAGATGTGGTCTTACACGAAATCACATATCG
1 AATGCC-ATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
9629232 AA
1 AA
9629234 ATCCTATGTC
Statistics
Matches: 109, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
42 28 0.26
43 51 0.47
44 30 0.28
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
AATGCCATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
Found at i:9630239 original size:13 final size:13
Alignment explanation
Indices: 9630221--9630247 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9630211 CACAAACGAT
9630221 AAAATTTTCACAC
1 AAAATTTTCACAC
9630234 AAAATTTTCACAC
1 AAAATTTTCACAC
9630247 A
1 A
9630248 TATTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:9636522 original size:4 final size:4
Alignment explanation
Indices: 9636513--9636557 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
9636503 GCCATTTTTT
9636513 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
9636558 TTCTGATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:9644353 original size:21 final size:21
Alignment explanation
Indices: 9644324--9644382 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
9644314 AAAAGCTACA
9644324 GAATTCTATCGGTAGAACTGG
1 GAATTCTATCGGTAGAACTGG
* * * * *
9644345 GAGTTCTATTGATACAACTTG
1 GAATTCTATCGGTAGAACTGG
9644366 GAATTCTATCGGTAGAA
1 GAATTCTATCGGTAGAA
9644383 TGTACTCCAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (21 bp):
GAATTCTATCGGTAGAACTGG
Found at i:9647021 original size:21 final size:21
Alignment explanation
Indices: 9646992--9647050 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
9646982 AAAAGCTACA
9646992 GAATTCTATCGGTAGAACTGG
1 GAATTCTATCGGTAGAACTGG
* * * * *
9647013 GATTTCTATTGATACAACTTG
1 GAATTCTATCGGTAGAACTGG
9647034 GAATTCTATCGGTAGAA
1 GAATTCTATCGGTAGAA
9647051 TGTACTCCAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (21 bp):
GAATTCTATCGGTAGAACTGG
Found at i:9650005 original size:42 final size:42
Alignment explanation
Indices: 9649931--9650122 Score: 201
Period size: 42 Copynumber: 4.6 Consensus size: 42
9649921 TCGAAAGCTG
* * * * * *
9649931 AACAGAAGCTCATGAGAGCTAAA-TAGATACCCATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTAAACGA-AAACCCATAAGAGTTA
* * *
9649973 AACAGAAGCTCGTAAAAGCTGAACGAAAACCCATATGAGTTA
1 AACAGAAGCTCATAAAAGCTAAACGAAAACCCATAAGAGTTA
* * * *
9650015 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTA
1 AACAGAAGCTCATAAAAGCTAAACGAAAACCCATAAGAGTTA
* *
9650057 AACAGAAGCT-A-AAAGAGCTAAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAA-AGCTAAACGAAAACCCATAAGAGTTA
*
9650098 AATAGAAGCTCATAAAAGCTAAACG
1 AACAGAAGCTCATAAAAGCTAAACG
9650123 GAAAGTAAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 33 0.26
42 88 0.69
43 4 0.03
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTAAACGAAAACCCATAAGAGTTA
Found at i:9650039 original size:21 final size:21
Alignment explanation
Indices: 9649926--9650121 Score: 121
Period size: 21 Copynumber: 9.4 Consensus size: 21
9649916 GAAGCTCGAA
* *
9649926 AGCTGAACAGAAGCTCATGAG
1 AGCTAAACAGAAGCTCATAAG
* *
9649947 AGCTAAATAGATA-CCCATAAG
1 AGCTAAACAGA-AGCTCATAAG
* * * * *
9649968 GGTTGAACAGAAGCTCGTAAA
1 AGCTAAACAGAAGCTCATAAG
* * * *
9649989 AGCTGAAC-GAAAACCCATATG
1 AGCTAAACAG-AAGCTCATAAG
*
9650010 AGTTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
9650031 AGCTGAACAAAAACTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* *
9650052 AGTTAAACAGAAGCT-AAAAG
1 AGCTAAACAGAAGCTCATAAG
* *
9650072 AGCTAAAC-GAAAACTCATATG
1 AGCTAAACAG-AAGCTCATAAG
* * *
9650093 AGTTAAATAGAAGCTCATAAA
1 AGCTAAACAGAAGCTCATAAG
9650114 AGCTAAAC
1 AGCTAAAC
9650122 GGAAAGTAAA
Statistics
Matches: 125, Mismatches: 43, Indels: 14
0.69 0.24 0.08
Matches are distributed among these distances:
19 1 0.01
20 17 0.14
21 104 0.83
22 3 0.02
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Found at i:9650111 original size:83 final size:83
Alignment explanation
Indices: 9649931--9650121 Score: 240
Period size: 83 Copynumber: 2.3 Consensus size: 83
9649921 TCGAAAGCTG
* * * * * * * *
9649931 AACAGAAGCTCATGAGAGCTAAATAGATACCCATAAGGGTTGAACAGAAGCTCGTAAAAGCTGAA
1 AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTC-AAAAAGCTAAA
9649996 CGAAAACCCATATGAGTTA
65 CGAAAACCCATATGAGTTA
* *
9650015 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTAAACAGAAGCT-AAAAGAGCTAAA
1 AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTCAAAA-AGCTAAA
*
9650079 CGAAAACTCATATGAGTTA
65 CGAAAACCCATATGAGTTA
* *
9650098 AATAGAAGCTCATAAAAGCTAAAC
1 AACAGAAGCTCATAAGAGCTAAAC
9650122 GGAAAGTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
82 3 0.03
83 45 0.49
84 44 0.48
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (83 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTCAAAAAGCTAAAC
GAAAACCCATATGAGTTA
Found at i:9651969 original size:232 final size:232
Alignment explanation
Indices: 9651557--9652012 Score: 700
Period size: 232 Copynumber: 2.0 Consensus size: 232
9651547 GGCTGTTACA
* * * * * *
9651557 CTCTTAGTGTATTTCGATCTTAACAATTGGTATCAGAGCTAGAATTCTAGAGATAATTTTACCAC
1 CTCTTAGTGTATTTCAATCTTAAAAATTGGTATCAGAACTAGAACTCTAAAGACAATTTTACCAC
* * * * * *
9651622 TAAGAGAGAAGATCTTCAAGATATCTAGATGGAAGCCATAAGTTAAGAAATTTGCTTTATGGCAT
66 CAAGAGAGAAGATCCTCAAGATATCAAAATGGAAGCCATAAGTTAAGAAATTTACTTCATGGCAT
9651687 TGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
131 TGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
* *
9651752 ACCAACTACTTATATTGGAGAACAAGAATTTACCCCT
196 ACCAACTACTCATATTAGAGAACAAGAATTTACCCCT
* *
9651789 CTCTTGGTGTATTTCAATCTTAAAAATTGGTATC-GAAACTAGAACTCTAAAGACGATTTTACCA
1 CTCTTAGTGTATTTCAATCTTAAAAATTGGTATCAG-AACTAGAACTCTAAAGACAATTTTACCA
*
9651853 CCAAGAGAGAAGATCCTCAAGATATCAAAATGGAAGCTATAA-TTCAAGAAATTTACTTCATGGC
65 CCAAGAGAGAAGATCCTCAAGATATCAAAATGGAAGCCATAAGTT-AAGAAATTTACTTCATGGC
*
9651917 ATTGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCCTTTATTCAATG
129 ATTGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATG
* *
9651982 GCATCAACTACTCATATTAGAGAATAAGAAT
194 GCACCAACTACTCATATTAGAGAACAAGAAT
9652013 AAAGTTATTC
Statistics
Matches: 202, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
231 3 0.01
232 199 0.99
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (232 bp):
CTCTTAGTGTATTTCAATCTTAAAAATTGGTATCAGAACTAGAACTCTAAAGACAATTTTACCAC
CAAGAGAGAAGATCCTCAAGATATCAAAATGGAAGCCATAAGTTAAGAAATTTACTTCATGGCAT
TGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
ACCAACTACTCATATTAGAGAACAAGAATTTACCCCT
Found at i:9657903 original size:21 final size:21
Alignment explanation
Indices: 9657855--9657916 Score: 87
Period size: 19 Copynumber: 3.1 Consensus size: 21
9657845 TTCTTCAAGG
9657855 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
9657874 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
9657895 ATATACAATCTTAGA-A-GAT
1 ATATGCAATCTTAGATATGAT
9657914 ATA
1 ATA
9657917 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 25 0.62
20 1 0.03
21 14 0.35
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:9657945 original size:21 final size:23
Alignment explanation
Indices: 9657901--9657946 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
9657891 TGATATATAC
9657901 AATCTTAGAAGATATAATTTTGT
1 AATCTTAGAAGATATAATTTTGT
*
9657924 AATCTTAG-AGATTTAA-TTTGT
1 AATCTTAGAAGATATAATTTTGT
9657945 AA
1 AA
9657947 ATATCCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATAATTTTGT
Found at i:9658180 original size:23 final size:23
Alignment explanation
Indices: 9658136--9658180 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9658126 TCTTATTTTG
* *
9658136 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
9658159 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
9658181 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:9658594 original size:3 final size:3
Alignment explanation
Indices: 9658588--9658614 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9658578 TTATCTTTTC
9658588 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
9658615 TTTGTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9666339 original size:632 final size:632
Alignment explanation
Indices: 9665127--9666391 Score: 2521
Period size: 632 Copynumber: 2.0 Consensus size: 632
9665117 GAGCCATCGA
*
9665127 CCTGAAGTTGGCATGTCCAAGCCTTTGATGCCAGAGCTTGGAATCATCTGTAGAGGCTGTGTATG
1 CCTGAAATTGGCATGTCCAAGCCTTTGATGCCAGAGCTTGGAATCATCTGTAGAGGCTGTGTATG
9665192 CTGACTTTGAGTCATTTGGCCAATGAACCTCAAAGCATTTGTCAGTCATTGTGACTGTCATAAGG
66 CTGACTTTGAGTCATTTGGCCAATGAACCTCAAAGCATTTGTCAGTCATTGTGACTGTCATAAGG
9665257 CTTGATCCACTTGGATCAGCAATCTGGCACTGTTTGTCTTTGAACACAACTGAATAGCCTTTCTC
131 CTTGATCCACTTGGATCAGCAATCTGGCACTGTTTGTCTTTGAACACAACTGAATAGCCTTTCTC
9665322 GAGTAGTTGAGCTATGCTGAGAAGGTTTCTGTCAATCTCAGACACCAATAGCACATTCGAGATGA
196 GAGTAGTTGAGCTATGCTGAGAAGGTTTCTGTCAATCTCAGACACCAATAGCACATTCGAGATGA
9665387 CTTTGTTGCCTGTAGGAGTGCATATCAGGACATCTCCTTTTCCTTCAGCCTTTATAAACTGACCA
261 CTTTGTTGCCTGTAGGAGTGCATATCAGGACATCTCCTTTTCCTTCAGCCTTTATAAACTGACCA
9665452 TTTCCAACCTTGACCTTGGTTTTGCAGCTTCTGTCCAAGGTTTTGAACAAGGATGCATCTAGTGA
326 TTTCCAACCTTGACCTTGGTTTTGCAGCTTCTGTCCAAGGTTTTGAACAAGGATGCATCTAGTGA
9665517 CATGTGGTTAGTGCAGCCACTGTCCAATAGCCAACCTTTTAAACATTTCTTCTCAGCAGCTGAGC
391 CATGTGGTTAGTGCAGCCACTGTCCAATAGCCAACCTTTTAAACATTTCTTCTCAGCAGCTGAGC
9665582 AGGACATAGCAAAGACCTGCTCCTCTTGGTCACTACTATCTTCTGCCACTCGAGCTTTAGCCTTT
456 AGGACATAGCAAAGACCTGCTCCTCTTGGTCACTACTATCTTCTGCCACTCGAGCTTTAGCCTTT
9665647 AGTTGTTGAAATTGGCTCTGCCTTGGTTTGGTTTTGTTTTTACAAATCTTTTCAACATTACCCTT
521 AGTTGTTGAAATTGGCTCTGCCTTGGTTTGGTTTTGTTTTTACAAATCTTTTCAACATTACCCTT
9665712 CTTTTTGCAATGCTGGCATATAGCATCTAGTCTGAACCAGCATTTGT
586 CTTTTTGCAATGCTGGCATATAGCATCTAGTCTGAACCAGCATTTGT
9665759 CCTGAAATTGGCATGTCCAAGCCTTTGATGCCAGAGCTTGGAATCATCTGTAGAGGCTGTGTATG
1 CCTGAAATTGGCATGTCCAAGCCTTTGATGCCAGAGCTTGGAATCATCTGTAGAGGCTGTGTATG
9665824 CTGACTTTGAGTCATTTGGCCAATGAACCTCAAAGCATTTGTCAGTCATTGTGACTGTCATAAGG
66 CTGACTTTGAGTCATTTGGCCAATGAACCTCAAAGCATTTGTCAGTCATTGTGACTGTCATAAGG
9665889 CTTGATCCACTTGGATCAGCAATCTGGCACTGTTTGTCTTTGAACACAACTGAATAGCCTTTCTC
131 CTTGATCCACTTGGATCAGCAATCTGGCACTGTTTGTCTTTGAACACAACTGAATAGCCTTTCTC
9665954 GAGTAGTTGAGCTATGCTGAGAAGGTTTCTGTCAATCTCAGACACCAATAGCACATTCGAGATGA
196 GAGTAGTTGAGCTATGCTGAGAAGGTTTCTGTCAATCTCAGACACCAATAGCACATTCGAGATGA
9666019 CTTTGTTGCCTGTAGGAGTGCATATCAGGACATCTCCTTTTCCTTCAGCCTTTATAAACTGACCA
261 CTTTGTTGCCTGTAGGAGTGCATATCAGGACATCTCCTTTTCCTTCAGCCTTTATAAACTGACCA
9666084 TTTCCAACCTTGACCTTGGTTTTGCAGCTTCTGTCCAAGGTTTTGAACAAGGATGCATCTAGTGA
326 TTTCCAACCTTGACCTTGGTTTTGCAGCTTCTGTCCAAGGTTTTGAACAAGGATGCATCTAGTGA
9666149 CATGTGGTTAGTGCAGCCACTGTCCAATAGCCAACCTTTTAAACATTTCTTCTCAGCAGCTGAGC
391 CATGTGGTTAGTGCAGCCACTGTCCAATAGCCAACCTTTTAAACATTTCTTCTCAGCAGCTGAGC
9666214 AGGACATAGCAAAGACCTGCTCCTCTTGGTCACTACTATCTTCTGCCACTCGAGCTTTAGCCTTT
456 AGGACATAGCAAAGACCTGCTCCTCTTGGTCACTACTATCTTCTGCCACTCGAGCTTTAGCCTTT
9666279 AGTTGTTGAAATTGGCTCTGCCTTGGTTTGGTTTTGTTTTTACAAATCTTTTCAACATTACCCTT
521 AGTTGTTGAAATTGGCTCTGCCTTGGTTTGGTTTTGTTTTTACAAATCTTTTCAACATTACCCTT
9666344 CTTTTTGCAATGCTGGCATATAGCATCTAGTCTGAACCAGCATTTGT
586 CTTTTTGCAATGCTGGCATATAGCATCTAGTCTGAACCAGCATTTGT
9666391 C
1 C
9666392 TTCTGGATGA
Statistics
Matches: 632, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
632 632 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (632 bp):
CCTGAAATTGGCATGTCCAAGCCTTTGATGCCAGAGCTTGGAATCATCTGTAGAGGCTGTGTATG
CTGACTTTGAGTCATTTGGCCAATGAACCTCAAAGCATTTGTCAGTCATTGTGACTGTCATAAGG
CTTGATCCACTTGGATCAGCAATCTGGCACTGTTTGTCTTTGAACACAACTGAATAGCCTTTCTC
GAGTAGTTGAGCTATGCTGAGAAGGTTTCTGTCAATCTCAGACACCAATAGCACATTCGAGATGA
CTTTGTTGCCTGTAGGAGTGCATATCAGGACATCTCCTTTTCCTTCAGCCTTTATAAACTGACCA
TTTCCAACCTTGACCTTGGTTTTGCAGCTTCTGTCCAAGGTTTTGAACAAGGATGCATCTAGTGA
CATGTGGTTAGTGCAGCCACTGTCCAATAGCCAACCTTTTAAACATTTCTTCTCAGCAGCTGAGC
AGGACATAGCAAAGACCTGCTCCTCTTGGTCACTACTATCTTCTGCCACTCGAGCTTTAGCCTTT
AGTTGTTGAAATTGGCTCTGCCTTGGTTTGGTTTTGTTTTTACAAATCTTTTCAACATTACCCTT
CTTTTTGCAATGCTGGCATATAGCATCTAGTCTGAACCAGCATTTGT
Found at i:9686843 original size:76 final size:76
Alignment explanation
Indices: 9686707--9686869 Score: 308
Period size: 76 Copynumber: 2.1 Consensus size: 76
9686697 TCATTTCCAT
9686707 TTCATTTAATTCACGATTCTCATGTTGACGATTCGATTCAATTTCTCAATCTAATATACATTTCA
1 TTCATTTAA-TCACGATTCTCATGTTGACGATTCGATTCAATTTCTCAATCTAATATACATTTCA
9686772 ATACCACAATAA
65 ATACCACAATAA
*
9686784 TTCAATTAATCACGATTCTCATGTTGACGATTCGATTCAATTTCTCAATCTAATATACATTTCAA
1 TTCATTTAATCACGATTCTCATGTTGACGATTCGATTCAATTTCTCAATCTAATATACATTTCAA
9686849 TACCACAATAA
66 TACCACAATAA
9686860 TTCATTTAAT
1 TTCATTTAAT
9686870 TCAAATCATA
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
76 76 0.90
77 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (76 bp):
TTCATTTAATCACGATTCTCATGTTGACGATTCGATTCAATTTCTCAATCTAATATACATTTCAA
TACCACAATAA
Found at i:9687349 original size:16 final size:16
Alignment explanation
Indices: 9687328--9687360 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9687318 TTCGCTGTAT
*
9687328 TGGAATATAGGCGTAA
1 TGGAATAGAGGCGTAA
9687344 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
9687360 T
1 T
9687361 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:9691708 original size:23 final size:22
Alignment explanation
Indices: 9691669--9691712 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9691659 AAATAGACTC
*
9691669 ATTCAGCTTCAATTTCATATATT
1 ATTCAGCCTCAATTTCA-ATATT
9691692 ATTCAGCCTCTAA-TTCAATAT
1 ATTCAGCCTC-AATTTCAATAT
9691713 CCACCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTCAGCCTCAATTTCAATATT
Found at i:9691872 original size:37 final size:37
Alignment explanation
Indices: 9691786--9691872 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 37
9691776 AATGTACTCT
9691786 TTCATAATTTCACTTTTTCACTTTCAATCACAATTCAA
1 TTCA-AATTTCACTTTTTCACTTTCAATCACAATTCAA
*
9691824 TTCAAAATTCACTTTTTCA-TTTCTAAGTCA-ATATTCAA
1 TTCAAATTTCACTTTTTCACTTTC-AA-TCACA-ATTCAA
9691862 TTC-AATTTCAC
1 TTCAAATTTCAC
9691873 ACCTATATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 4 0.09
37 24 0.55
38 16 0.36
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCAAATTTCACTTTTTCACTTTCAATCACAATTCAA
Found at i:9692006 original size:45 final size:44
Alignment explanation
Indices: 9691942--9692034 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 44
9691932 AATAGATACT
* * *
9691942 CGGTGGATTTAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATG-TGTC
*
9691987 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGTGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGTGTC
9692031 CGGT
1 CGGT
9692035 TCACATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 7 0.16
45 37 0.84
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGTGTC
Found at i:9692134 original size:51 final size:48
Alignment explanation
Indices: 9692029--9692221 Score: 181
Period size: 51 Copynumber: 3.9 Consensus size: 48
9692019 AATCAATGTG
* * * * * *
9692029 TTCGGTTCACATAGTAGCCTGCGCATAGCACTACACATGTGGCCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACA-GTGACCA--AACA
* * *
9692080 TTCGATGCACGTAGTAGCCTGCACATAGTACTACACAGGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACA-GTGA-CCAAAC-A
* * * *
9692131 TTCGGTACGCATAGTAGCCTGCACATAGTACTACACA-TCGACCTATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACAGT-GACCAAACA
9692179 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACA-GTGA
9692222 ACAACACTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.03
49 37 0.31
50 6 0.05
51 70 0.59
52 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (48 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACAGTGACCAAACA
Found at i:9692245 original size:100 final size:101
Alignment explanation
Indices: 9692036--9692223 Score: 245
Period size: 100 Copynumber: 1.9 Consensus size: 101
9692026 GTGTTCGGTT
* * * *
9692036 CACATAGTAGCCTGCGCATAGCACTACACATGTGGCCATTACCATTCGATGCACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGCACTACACATGCGACCA-TACCATTCGATACACGTAGTAGCCTG
* * *
9692101 CACATAGTACTACACAGGTGATCGAAACTATTCGGTA
65 CACATAGTACTACACACGTGAACGAAACTATTCCGTA
* * * *
9692138 CGCATAGTAGCCTGCACATAGTACTACACAT-CGACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGCACTACACATGCGACCATACCATT-CGATACACGTAGTAGCCTG
9692201 CACATAGTACTACACACGTGAAC
65 CACATAGTACTACACACGTGAAC
9692224 AACACTTTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
99 6 0.08
100 38 0.51
101 3 0.04
102 28 0.37
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGCACTACACATGCGACCATACCATTCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGAACGAAACTATTCCGTA
Found at i:9694517 original size:20 final size:19
Alignment explanation
Indices: 9694467--9694517 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
9694457 AATAGTTCTG
*
9694467 TCTCTTGATGAACAGTTGTA
1 TCTCTTG-TGAACAATTGTA
9694487 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
9694504 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
9694518 GATTCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:9695287 original size:16 final size:19
Alignment explanation
Indices: 9695268--9695311 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
9695258 TAATTAAATT
9695268 ATAATATAA-C-ACAA-AA
1 ATAATATAATCTACAAGAA
9695284 ATAATATAATCTACAAGAA
1 ATAATATAATCTACAAGAA
*
9695303 AAAATATAA
1 ATAATATAA
9695312 ACATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 1 0.04
18 4 0.17
19 10 0.42
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (19 bp):
ATAATATAATCTACAAGAA
Found at i:9700072 original size:18 final size:17
Alignment explanation
Indices: 9700044--9700078 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9700034 ATTATTAAGA
*
9700044 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9700061 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9700079 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9700329 original size:16 final size:16
Alignment explanation
Indices: 9700308--9700377 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
9700298 TTGAATTGCT
*
9700308 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
9700324 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
9700340 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
9700356 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
9700372 AATACA
1 ATTACA
9700378 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.26, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:9715976 original size:13 final size:13
Alignment explanation
Indices: 9715958--9715998 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
9715948 TAGATTTTTC
9715958 CTAAATATTATTA
1 CTAAATATTATTA
9715971 CTAAATA--ATT-
1 CTAAATATTATTA
*
9715981 CTAAATATTATCA
1 CTAAATATTATTA
9715994 CTAAA
1 CTAAA
9715999 AAATTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 2 0.08
13 12 0.50
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:9715984 original size:23 final size:23
Alignment explanation
Indices: 9715958--9716009 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9715948 TAGATTTTTC
* *
9715958 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAAAAATT
9715981 CTAAATATTATCACTAAAAAATT
1 CTAAATATTATCACTAAAAAATT
*
9716004 CAAAAT
1 CTAAAT
9716010 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAAAAATT
Found at i:9723164 original size:26 final size:26
Alignment explanation
Indices: 9723121--9723183 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
9723111 TGATTAAGAT
* *
9723121 AATAAAATAAGGAAATA-TGAAAAATA
1 AATAAAATAA-AAAATATTCAAAAATA
9723147 AATAAAATAAAAATATATTCAAAAATA
1 AATAAAATAAAAA-ATATTCAAAAATA
*
9723174 CA-AAAATAAA
1 AATAAAATAAA
9723184 TTTAAGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (26 bp):
AATAAAATAAAAAATATTCAAAAATA
Found at i:9724061 original size:13 final size:13
Alignment explanation
Indices: 9724045--9724087 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9724035 TATATTTTTC
9724045 CTAAATATTATCA
1 CTAAATATTATCA
*
9724058 CTAAATA--ATTA
1 CTAAATATTATCA
9724069 -TAAATATTATCA
1 CTAAATATTATCA
9724081 CTAAATA
1 CTAAATA
9724088 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:9724096 original size:23 final size:23
Alignment explanation
Indices: 9724046--9724090 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9724036 ATATTTTTCC
9724046 TAAATATTATCACTAAATAATTA
1 TAAATATTATCACTAAATAATTA
9724069 TAAATATTATCACTAAATAATT
1 TAAATATTATCACTAAATAATT
9724091 CAAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTA
Found at i:9727324 original size:14 final size:13
Alignment explanation
Indices: 9727300--9727333 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9727290 ATTTTCATTG
9727300 TTTTAAATATATA
1 TTTTAAATATATA
*
9727313 TTTTACA-ATATA
1 TTTTAAATATATA
9727325 TTTTAAATA
1 TTTTAAATA
9727334 AATTGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTAAATATATA
Found at i:9734817 original size:40 final size:41
Alignment explanation
Indices: 9734759--9734846 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
9734749 ATTTTATCTG
* *
9734759 AATTTTTGTAAATATTTTGTACTGTTAATTATAAGTTTTAT
1 AATTTTTGTAAATATTTTGTACTATTAATTATAAGTCTTAT
* * * * *
9734800 -ATTTTTGTGAATCTTTTGTATTATTCATTATAGGTCTTAT
1 AATTTTTGTAAATATTTTGTACTATTAATTATAAGTCTTAT
9734840 AATTTTT
1 AATTTTT
9734847 TCCATTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 33 0.85
41 6 0.15
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (41 bp):
AATTTTTGTAAATATTTTGTACTATTAATTATAAGTCTTAT
Found at i:9734941 original size:34 final size:34
Alignment explanation
Indices: 9734893--9734958 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
9734883 CTACTATTAG
* *
9734893 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
9734927 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
9734959 GGTGAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (34 bp):
AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
Found at i:9738423 original size:20 final size:21
Alignment explanation
Indices: 9738398--9738437 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9738388 TTTTCAATGA
9738398 ATTTTTATTTATA-AAATTAT
1 ATTTTTATTTATATAAATTAT
*
9738418 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
9738438 AATAAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAT
Found at i:9740944 original size:375 final size:376
Alignment explanation
Indices: 9740242--9740993 Score: 1497
Period size: 375 Copynumber: 2.0 Consensus size: 376
9740232 ATTGAAAGAT
9740242 TTAAAAATAAATATAAATAACTTTATTTTTTAAAATAAATATTAATTTATAATTATTAAACATAA
1 TTAAAAATAAATATAAATAACTTTATTTTTTAAAATAAATATTAATTTATAATTATTAAACATAA
9740307 ATAAATATAAAAATATCAAATTTGAAACTCAAAACCCTAAGCCTGAAATCTAAACTTGAAAAATT
66 ATAAATATAAAAATATCAAATTTGAAACTCAAAACCCTAAGCCTGAAATCTAAACTTGAAAAATT
9740372 GGTTCATGAAACTCGAGAGAGAAATAAAATAATCATAATTAATATTTAATTATGTTTAAATAAAG
131 GGTTCATGAAACTCGAGAGAGAAATAAAATAATCATAATTAATATTTAATTATGTTTAAATAAAG
9740437 TTAGTAGTATTTATTTTCAAGTCCTTCAATATTTTTTATTTTACACTAGTGATGATTTGTCATCT
196 TTAGTAGTATTTATTTTCAAGTCCTTCAATATTTTTTATTTTACACTAGTGATGATTTGTCATCT
9740502 TATTATTAACTAATGGTGCATGAAATCTATACACCCACGGTTAGACTTGCTCATGGGCCGAGTCA
261 TATTATTAACTAATGGTGCATGAAATCTATACACCCACGGTTAGACTTGCTCATGGGCCGAGTCA
9740567 CCTAGCTCGACCCAAAGGCTCGCCCGAAAAGTGGAAGGGTTTGGGCAAAAA
326 CCTAGCTCGACCCAAAGGCTCGCCCGAAAAGTGGAAGGGTTTGGGCAAAAA
9740618 TTAAAAATAAA-ATAAATAACTTTATTTTTTAAAATAAATATTAATTTATAATTATTAAACATAA
1 TTAAAAATAAATATAAATAACTTTATTTTTTAAAATAAATATTAATTTATAATTATTAAACATAA
9740682 ATAAATATAAAAATATCAAATTTGAAACTCAAAACCCTAAGCCTGAAATCTAAACTTGAAAAATT
66 ATAAATATAAAAATATCAAATTTGAAACTCAAAACCCTAAGCCTGAAATCTAAACTTGAAAAATT
9740747 GGTTCATGAAACTCGAGAGAGAAATAAAATAATCATAATTAATATTTAATTATGTTTAAATAAAG
131 GGTTCATGAAACTCGAGAGAGAAATAAAATAATCATAATTAATATTTAATTATGTTTAAATAAAG
9740812 TTAGTAGTATTTATTTTCAAGTCCTTCAATATTTTTTATTTTACACTAGTGATGATTTGTCATCT
196 TTAGTAGTATTTATTTTCAAGTCCTTCAATATTTTTTATTTTACACTAGTGATGATTTGTCATCT
9740877 TATTATTAACTAATGGTGCATGAAATCTATACACCCACGGTTAGACTTGCTCATGGGCCGAGTCA
261 TATTATTAACTAATGGTGCATGAAATCTATACACCCACGGTTAGACTTGCTCATGGGCCGAGTCA
9740942 CCTAGCTCGACCCAAAGGCTCGCCCGAAAAGTGGAAGGGTTTGGGCAAAAA
326 CCTAGCTCGACCCAAAGGCTCGCCCGAAAAGTGGAAGGGTTTGGGCAAAAA
9740993 T
1 T
9740994 ATAGGCTCGA
Statistics
Matches: 376, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
375 365 0.97
376 11 0.03
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (376 bp):
TTAAAAATAAATATAAATAACTTTATTTTTTAAAATAAATATTAATTTATAATTATTAAACATAA
ATAAATATAAAAATATCAAATTTGAAACTCAAAACCCTAAGCCTGAAATCTAAACTTGAAAAATT
GGTTCATGAAACTCGAGAGAGAAATAAAATAATCATAATTAATATTTAATTATGTTTAAATAAAG
TTAGTAGTATTTATTTTCAAGTCCTTCAATATTTTTTATTTTACACTAGTGATGATTTGTCATCT
TATTATTAACTAATGGTGCATGAAATCTATACACCCACGGTTAGACTTGCTCATGGGCCGAGTCA
CCTAGCTCGACCCAAAGGCTCGCCCGAAAAGTGGAAGGGTTTGGGCAAAAA
Found at i:9741809 original size:3 final size:3
Alignment explanation
Indices: 9741801--9741841 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9741791 GTTTCATCAG
9741801 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9741842 TTTTAGTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9750858 original size:68 final size:68
Alignment explanation
Indices: 9750724--9750863 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 68
9750714 GTCTTCGTCT
* * ** ** *
9750724 ACAACCTACATGGCAGCTTATCTGCAAATATTGGTGGCTTCGCTCACAACCTTTATGGTGGTTTG
1 ACAACCTACATGGCAGCTTACCTGCAAATATTGGTGGCTTCGCTCACAAACTACATGGCAGCTTG
9750789 TCC
66 TCC
* * * *
9750792 ACAACCTACATGGTAGCTTGCCTGCGAATATTGGTGGCTTTG-TCCACAAACTACATGGCAGCTT
1 ACAACCTACATGGCAGCTTACCTGCAAATATTGGTGGCTTCGCT-CACAAACTACATGGCAGCTT
*
9750856 GTCT
65 GTCC
9750860 ACAA
1 ACAA
9750864 ATATTGATGG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (68 bp):
ACAACCTACATGGCAGCTTACCTGCAAATATTGGTGGCTTCGCTCACAAACTACATGGCAGCTTG
TCC
Found at i:9750885 original size:22 final size:22
Alignment explanation
Indices: 9750818--9750885 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
9750808 CTTGCCTGCG
*
9750818 AATATTGGTGGCTTTGTCCACA
1 AATATTGATGGCTTTGTCCACA
* * *
9750840 AACTA--CATGGCAGCTTGTCTACA
1 AA-TATTGATGGC--TTTGTCCACA
9750863 AATATTGATGGCTTTGTCCACA
1 AATATTGATGGCTTTGTCCACA
9750885 A
1 A
9750886 CCTATATGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
21 4 0.12
22 13 0.38
23 12 0.35
24 5 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (22 bp):
AATATTGATGGCTTTGTCCACA
Found at i:9750902 original size:23 final size:23
Alignment explanation
Indices: 9750768--9750902 Score: 75
Period size: 23 Copynumber: 6.0 Consensus size: 23
9750758 TGGCTTCGCT
* * *
9750768 CACAACCTTTATGGTGGTTTGTC
1 CACAACCTATATGGTAGCTTGTC
*
9750791 CACAACCTACATGGTAGCTTG-C
1 CACAACCTATATGGTAGCTTGTC
* *
9750813 CTGCGAA--TAT-TGGTGGCTTTGTC
1 C-AC-AACCTATATGGTAGC-TTGTC
* * *
9750836 CACAAACTACATGGCAGCTTGTC
1 CACAACCTATATGGTAGCTTGTC
* * * *
9750859 TACAA-ATAT-TGATGGCTTTGTC
1 CACAACCTATATGGTAGC-TTGTC
9750881 CACAACCTATATGGTAGCTTGT
1 CACAACCTATATGGTAGCTTGT
9750903 TTGCGAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 20
0.66 0.17 0.16
Matches are distributed among these distances:
21 12 0.15
22 19 0.23
23 38 0.47
24 12 0.15
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
CACAACCTATATGGTAGCTTGTC
Found at i:9750929 original size:45 final size:45
Alignment explanation
Indices: 9750779--9750921 Score: 207
Period size: 45 Copynumber: 3.2 Consensus size: 45
9750769 ACAACCTTTA
*
9750779 TGGTGG-TTTGTCCACAACCTACATGGTAGCTTGCCTGCGAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
* * * *
9750823 TGGTGGCTTTGTCCACAAACTACATGGCAGCTTGTCTACAAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
* * *
9750868 TGATGGCTTTGTCCACAACCTATATGGTAGCTTGTTTGCGAATAT
1 TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
9750913 TGGTGGCTT
1 TGGTGGCTT
9750922 CATCCACATA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 6 0.07
45 79 0.93
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (45 bp):
TGGTGGCTTTGTCCACAACCTACATGGTAGCTTGTCTGCGAATAT
Found at i:9755234 original size:42 final size:42
Alignment explanation
Indices: 9755173--9755316 Score: 198
Period size: 42 Copynumber: 3.4 Consensus size: 42
9755163 ACTGAGATGT
* * *
9755173 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTATGT
1 GATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
9755216 GATTCGTGTAAGATCATGTCTGGGACATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* * * *
9755258 GATTCATGTAACACCTTGTCTGGAACATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
9755300 AATTCGTGTAAGACCAT
1 GATTCGTGTAAGACCAT
9755317 AGCTAGCTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 84 0.95
43 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:9755352 original size:84 final size:84
Alignment explanation
Indices: 9755180--9755338 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 84
9755170 TGTGATTACG
* * * * ** * *
9755180 TGTAAGACCATGTCTGGGACATTGGCATTGTTATGTGATTCGTGTAAGATCATGTCTGGGACATT
1 TGTAACACCATGTCTGGAACATTGGCATCGATATGAAATTCGTGTAAGACCATGTCTGAGACATT
*
9755245 GGCATCGATATGAGATTCA
66 GGCATCGATATGAGATGCA
*
9755264 TGTAACACCTTGTCTGGAACATTGGCATCGATATGAAATTCGTGTAAGACCATAG-CT-AG-CTA
1 TGTAACACCATGTCTGGAACATTGGCATCGATATGAAATTCGTGTAAGACCAT-GTCTGAGAC-A
9755326 TTGGCATCGATAT
64 TTGGCATCGATAT
9755339 ATGATAGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
82 1 0.02
83 15 0.23
84 47 0.73
85 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (84 bp):
TGTAACACCATGTCTGGAACATTGGCATCGATATGAAATTCGTGTAAGACCATGTCTGAGACATT
GGCATCGATATGAGATGCA
Found at i:9757994 original size:20 final size:20
Alignment explanation
Indices: 9757969--9758068 Score: 112
Period size: 20 Copynumber: 5.0 Consensus size: 20
9757959 CTTGTACGGA
9757969 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* *
9757989 TTGCAC-TTGGTGCCTTTTT
1 TTGCACTTTGGTGCCTCTGT
* *
9758008 TTACACTTCGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* * *
9758028 TCGCACTATGGTGCCACTGT
1 TTGCACTTTGGTGCCTCTGT
* *
9758048 TTGCACTTCGGTGCCTTTGT
1 TTGCACTTTGGTGCCTCTGT
9758068 T
1 T
9758069 ACGTATCTAT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
19 16 0.25
20 47 0.75
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:9758055 original size:40 final size:39
Alignment explanation
Indices: 9757969--9758068 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 39
9757959 CTTGTACGGA
* * ** *
9757969 TTGCACTTTGGTGCCTCTGTTTGCACTTGGTGCCTTTTT
1 TTGCACTTCGGTGCCTCTGTTCGCACTTGGTGCCACTGT
*
9758008 TTACACTTCGGTGCCTCTGTTCGCACTATGGTGCCACTGT
1 TTGCACTTCGGTGCCTCTGTTCGCACT-TGGTGCCACTGT
*
9758048 TTGCACTTCGGTGCCTTTGTT
1 TTGCACTTCGGTGCCTCTGTT
9758069 ACGTATCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 24 0.46
40 28 0.54
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (39 bp):
TTGCACTTCGGTGCCTCTGTTCGCACTTGGTGCCACTGT
Found at i:9762331 original size:18 final size:19
Alignment explanation
Indices: 9762305--9762340 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9762295 CATGTGTTAT
*
9762305 AAATTACATAATA-AATAA
1 AAATAACATAATATAATAA
9762323 AAATAACATAATATAATA
1 AAATAACATAATATAATA
9762341 TATTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAACATAATATAATAA
Found at i:9764586 original size:44 final size:44
Alignment explanation
Indices: 9764509--9764613 Score: 103
Period size: 45 Copynumber: 2.4 Consensus size: 44
9764499 CTCATTTTCA
* *
9764509 TTTCCA-TT-TCCATTTTGAGAAACCTAAATTCATTTCTAAATG
1 TTTCCATTTCTCCATTTCGAGAAACCTAAATTCATTCCTAAATG
*
9764551 ATTT-CATTTCTCCATTTCGAAGAAACCGT-AA-TCATTCCTGAATG
1 -TTTCCATTTCTCCATTTCG-AGAAACC-TAAATTCATTCCTAAATG
*
9764595 TTTCCCATTTCTCTATTTC
1 TTT-CCATTTCTCCATTTC
9764614 TATCTATTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.04
43 8 0.15
44 19 0.37
45 22 0.42
46 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (44 bp):
TTTCCATTTCTCCATTTCGAGAAACCTAAATTCATTCCTAAATG
Found at i:9775525 original size:22 final size:23
Alignment explanation
Indices: 9775497--9775540 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9775487 GGCTTTATTT
9775497 ATTTGGTTT-TTATATTT-TTTGC
1 ATTTGGTTTATTAT-TTTCTTTGC
9775519 ATTTGGTTTATTATTTTCTTTG
1 ATTTGGTTTATTATTTTCTTTG
9775541 TGTATGCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.68
Consensus pattern (23 bp):
ATTTGGTTTATTATTTTCTTTGC
Done.