Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 240 of 325
Found at i:78476550 original size:15 final size:15
Alignment explanation
Indices: 78476525--78476568 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
78476515 ATTATGTTAA
78476525 ATTGAATGTGAATTAT
1 ATTG-ATGTGAATTAT
*
78476541 ATTGATGTGACTTAT
1 ATTGATGTGAATTAT
78476556 ATTGATGTGAATT
1 ATTGATGTGAATT
78476569 GTTTGATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (15 bp):
ATTGATGTGAATTAT
Found at i:78478079 original size:21 final size:22
Alignment explanation
Indices: 78478055--78478108 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
78478045 CGACCTTCAG
* *
78478055 CACGGGTGTGT-CCTAGGATCA
1 CACGGGCGTGTCCCTAGGACCA
* *
78478076 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
78478098 CACGGGCGTGT
1 CACGGGCGTGT
78478109 GAGCCCTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:78478559 original size:8 final size:8
Alignment explanation
Indices: 78478548--78478618 Score: 64
Period size: 8 Copynumber: 9.2 Consensus size: 8
78478538 GTTCATTTGT
78478548 TTTTATTA
1 TTTTATTA
78478556 TTTTATTA
1 TTTTATTA
*
78478564 TTTTAATA
1 TTTTATTA
78478572 TTATT-TTA
1 TT-TTATTA
78478580 TTTTATT-
1 TTTTATTA
78478587 TTATT-TTA
1 TT-TTATTA
78478595 TTTTA-T-
1 TTTTATTA
78478601 TTTTA-TA
1 TTTTATTA
78478608 TTTTTATTA
1 -TTTTATTA
78478617 TT
1 TT
78478619 ACTAATATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
6 6 0.11
7 9 0.17
8 34 0.64
9 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:78478580 original size:5 final size:5
Alignment explanation
Indices: 78478553--78478603 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
78478543 TTTGTTTTTA
*
78478553 TTATT TTA-- TTATT TTAATA TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TT-ATT TTATT TTATT TTATT TTATT TTATT TTATT
78478602 TT
1 TT
78478604 TATATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 3 0.07
5 34 0.83
6 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:78479458 original size:24 final size:23
Alignment explanation
Indices: 78479418--78479462 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
78479408 TATTTATTTA
78479418 TTTTTACTTTTGTTTGTACTTTTC
1 TTTTTACTTTTGTTTGT-CTTTTC
*
78479442 TTTTTATTTTTAG-TTGTCTTT
1 TTTTTACTTTT-GTTTGTCTTT
78479463 ATGTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 14 0.74
25 1 0.05
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (23 bp):
TTTTTACTTTTGTTTGTCTTTTC
Found at i:78482325 original size:49 final size:49
Alignment explanation
Indices: 78482253--78482484 Score: 320
Period size: 49 Copynumber: 4.7 Consensus size: 49
78482243 ATGGTATGCA
* * * * *
78482253 TAGTAGCCAGCACTTAGTACTACACATGCGACCATTTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** *
78482302 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * *
78482352 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
*
78482403 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
78482452 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
78482485 TCACAATAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 73 0.46
50 47 0.30
51 39 0.25
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:78482417 original size:101 final size:98
Alignment explanation
Indices: 78482253--78482483 Score: 327
Period size: 100 Copynumber: 2.3 Consensus size: 98
78482243 ATGGTATGCA
* * * * * * *
78482253 TAGTAGCCAGCACTTAGTACTACACATGCGACCATTTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAGTTATCAGGTACACATAGTAGCCTGCACTTA
78482318 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACC-AACCATCTGATACACG
*
78482352 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-AAGTTATCAGGTACACATAGTAGCCTGCACT
* ** *
78482417 TAGTACTACACATGTGACCAATTATCTGGTACACG
64 TAGTACTACACACGTGACCAACCATCTGATACACG
78482452 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
78482484 CTCACAATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.38
101 44 0.37
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAGTTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCAACCATCTGATACACG
Found at i:78483166 original size:30 final size:30
Alignment explanation
Indices: 78483132--78483191 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78483122 CTTTAATACG
78483132 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
78483162 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
78483192 GGCTTGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:78487685 original size:47 final size:47
Alignment explanation
Indices: 78487622--78487726 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
78487612 CCCTTCGGGA
* *
78487622 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
78487669 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
78487716 CTTATCACATA
1 CTTATCACATA
78487727 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:78492430 original size:17 final size:17
Alignment explanation
Indices: 78492381--78492437 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
78492371 ATATGCTTTT
*
78492381 TATAATAATAAATTATATA
1 TATAA-AATAAGTTATA-A
* * *
78492400 TTTGAAATATGTTATAA
1 TATAAAATAAGTTATAA
78492417 TATAAAATAAGTTATAA
1 TATAAAATAAGTTATAA
78492434 TATA
1 TATA
78492438 TTAAGCGGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 19 0.61
18 9 0.29
19 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TATAAAATAAGTTATAA
Found at i:78493783 original size:24 final size:24
Alignment explanation
Indices: 78493751--78493867 Score: 128
Period size: 24 Copynumber: 4.9 Consensus size: 24
78493741 GAAATGACAT
78493751 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
78493775 TGGCACTATGTGTGCAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
78493799 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * * *
78493824 -GGCACTTTGTGTGTGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
78493847 TGGCACTATGTGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
78493868 CCTTGACCGA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
23 1 0.01
24 74 0.96
25 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:78494486 original size:5 final size:5
Alignment explanation
Indices: 78494476--78494512 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
78494466 TTGTGTATTC
78494476 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
78494513 TAACAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:78494495 original size:14 final size:15
Alignment explanation
Indices: 78494476--78494512 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
78494466 TTGTGTATTC
78494476 TTTATTTTATTTTA-
1 TTTATTTTATTTTAT
78494490 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
78494505 TTTATTTT
1 TTTATTTT
78494513 TAACAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:78498934 original size:5 final size:5
Alignment explanation
Indices: 78498924--78498955 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
78498914 TTGTGTGTTC
78498924 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
78498956 TCACAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:78498938 original size:9 final size:9
Alignment explanation
Indices: 78498924--78498954 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
78498914 TTGTGTGTTC
78498924 TTTATTTTA
1 TTTATTTTA
78498933 TTTATTTTA
1 TTTATTTTA
78498942 TTTTATTTTA
1 -TTTATTTTA
78498952 TTT
1 TTT
78498955 TTCACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:78499789 original size:23 final size:24
Alignment explanation
Indices: 78499722--78499797 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 24
78499712 ACTATTATAT
78499722 TTTGTTCGACTGTTCACACATGAA
1 TTTGTTCGACTGTTCACACATGAA
* *
78499746 TTATTTTAGTAATACTGTTCACACATGAA
1 TT-TGTTCG----ACTGTTCACACATGAA
78499775 -TTGTTCGACTGTTCACACATGAA
1 TTTGTTCGACTGTTCACACATGAA
78499798 CTATTATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
23 16 0.37
24 2 0.05
25 4 0.09
27 4 0.09
28 1 0.02
29 16 0.37
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (24 bp):
TTTGTTCGACTGTTCACACATGAA
Found at i:78503141 original size:45 final size:45
Alignment explanation
Indices: 78503036--78503299 Score: 358
Period size: 45 Copynumber: 5.9 Consensus size: 45
78503026 TGAATTCATC
* *
78503036 CACCGACATT-TAGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
* * *
78503078 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATCT
1 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
78503123 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
78503168 CA-CTAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGA-CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
** *
78503213 CACCGGTATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* * * *
78503258 CACCGGCATCATAGCCTGCTAGGCTCCAAGGCCTGAATAGTA
1 CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
78503300 CCGTACGATA
Statistics
Matches: 202, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
42 9 0.04
43 18 0.09
44 6 0.03
45 167 0.83
46 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:78508347 original size:330 final size:329
Alignment explanation
Indices: 78507579--78508417 Score: 1472
Period size: 324 Copynumber: 2.6 Consensus size: 329
78507569 ATTGAAATAG
*
78507579 AATCAAAGTTCATGTATAACATTGCACATTTAAACAAATTTTCATGTGTAGTTTTGGGATTTATC
1 AATCAAAGTTCATGTATAACATTGCACATTTAACCAAA-TTTCATGTGTAGTTTTGGGATTTATC
78507644 TCTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACATTA
65 TCTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACATTA
* *
78507709 AATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAATTTTATCAATCAAAATGTCATTCAAATCACAG
130 AATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAGTTTTATCAATCAAAATGTCATTCAAATCACAC
*
78507774 CATATACAAATTACTTATTCATTTTTAAGAAAAATAAAAAGATTAAAGTACCTTAGAATAATATA
195 CATATACAAATTACTTATTCATTTTTAAGAAAAATAAAAAGATTAAAGTACCCTAGAATAATATA
*
78507839 ACTTATTTGAAATACGAAAAGGCATTTTTATAATTTCTCAAATTGAAATATCCTGTATAAAGTTG
260 ACTTATTTGAAATACGAAAAGGCATTTTTATAATTTCTCAAATTGAAATATCCTCTATAAAGTTG
*
78507904 TAGAA
325 TACAA
78507909 AATC-AA----ATGTATAACATTGCACATTTAACCAAATTTCATGTGTAGTTTTGGGATTTATCT
1 AATCAAAGTTCATGTATAACATTGCACATTTAACCAAATTTCATGTGTAGTTTTGGGATTTATCT
*
78507969 CTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACGTTAA
66 CTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACATTAA
*
78508034 ATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAGTTTTATCAATCAAAATGTCATTCAAATCTCACC
131 ATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAGTTTTATCAATCAAAATGTCATTCAAATCACACC
*
78508099 ATATACAAATTACTTATTCATTTTTTAAGAAAAATAAAAAGATTAAAGTACCCTAGAGTAATATA
196 ATATACAAATTACTTATTCA-TTTTTAAGAAAAATAAAAAGATTAAAGTACCCTAGAATAATATA
* * *
78508164 ACTTATTTTAAATATGAAAAGGCATTTTTATAATTTCTCAAATTGAAATGTCCTCTATAAAGTTG
260 ACTTATTTGAAATACGAAAAGGCATTTTTATAATTTCTCAAATTGAAATATCCTCTATAAAGTTG
78508229 TACAA
325 TACAA
*
78508234 AATCAAAGTTCATGTATAACATTGCATATTTAACCAAATTTCATGTGTAGTTTTGGGATTTATCT
1 AATCAAAGTTCATGTATAACATTGCACATTTAACCAAATTTCATGTGTAGTTTTGGGATTTATCT
* *
78508299 CTATATATAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGCATAAAACACATTAA
66 CTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACATTAA
* *
78508364 ATTAAAGTTTTGGTTGGGTGGCAAAGTTAAAGTTTTATCAATCAAAATGTCATT
131 ATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAGTTTTATCAATCAAAATGTCATT
78508418 TTAAAGTTTT
Statistics
Matches: 485, Mismatches: 18, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
324 173 0.36
325 137 0.28
326 2 0.00
329 2 0.00
330 171 0.35
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (329 bp):
AATCAAAGTTCATGTATAACATTGCACATTTAACCAAATTTCATGTGTAGTTTTGGGATTTATCT
CTATATACAATTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAACACATTAA
ATTAAAGTTTTGGTTGAGTGGTAAAGTTAAAGTTTTATCAATCAAAATGTCATTCAAATCACACC
ATATACAAATTACTTATTCATTTTTAAGAAAAATAAAAAGATTAAAGTACCCTAGAATAATATAA
CTTATTTGAAATACGAAAAGGCATTTTTATAATTTCTCAAATTGAAATATCCTCTATAAAGTTGT
ACAA
Found at i:78508430 original size:28 final size:28
Alignment explanation
Indices: 78508390--78508445 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
78508380 GGTGGCAAAG
78508390 TTAAAGTTTTATCAATCAAAATGTCATT
1 TTAAAGTTTTATCAATCAAAATGTCATT
78508418 TTAAAGTTTTATCAATCAAAATGTCATT
1 TTAAAGTTTTATCAATCAAAATGTCATT
78508446 CAAATCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
TTAAAGTTTTATCAATCAAAATGTCATT
Found at i:78522976 original size:31 final size:31
Alignment explanation
Indices: 78522938--78523292 Score: 322
Period size: 31 Copynumber: 11.7 Consensus size: 31
78522928 GTGTACAATA
* * *
78522938 TGAAAAGTGGTAACTTCAGCTATCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* *
78522969 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* * *
78523000 TGAAAAGTGGTAGTTTCGGCTACCTGGTCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* *
78523031 TGAAAAGTGGTAGCTTTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* *
78523062 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
78523093 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* * *
78523124 TGAAAAGTGGTAGC-TCTAGTTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATTAG
* * * * *
78523155 TGAATAGTGATAGCTTCAGCTATC-GAAT-G
1 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
* *
78523184 TGAAAAG-GGATAGCTTCGGCTATC-GAAT-G
1 TGAAAAGTGG-TAGCTTCGGCTACCTGATTAG
* * *
78523213 TGAAAAG-GGATATCTTCGGCTATC-GAAT-G
1 TGAAAAGTGG-TAGCTTCGGCTACCTGATTAG
* *
78523242 TGAAAAG-GGATAGCTTCGGCTATC-GAAT-G
1 TGAAAAGTGG-TAGCTTCGGCTACCTGATTAG
*
78523271 TGAAAAG-GGATAGCTTTGGCTA
1 TGAAAAGTGG-TAGCTTCGGCTA
78523293 TCAAATGTGA
Statistics
Matches: 293, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
28 1 0.00
29 102 0.35
30 4 0.01
31 184 0.63
32 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
Found at i:78523097 original size:93 final size:93
Alignment explanation
Indices: 78522938--78523205 Score: 373
Period size: 93 Copynumber: 2.9 Consensus size: 93
78522928 GTGTACAATA
* * * *
78522938 TGAAAAGTGGTAACTTCAGCTATCTGATTAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
1 TGAAAAGTGGTAGCTTTAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
* *
78523003 AAAGTGGTAGTTTCGGCTACCTGGTCAG
66 AAAGTGGTAGCTTCGGCTACCTGATCAG
*
78523031 TGAAAAGTGGTAGCTTTGGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
1 TGAAAAGTGGTAGCTTTAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
*
78523096 AAAGTGGTAGCTTCGGCTACCTGATTAG
66 AAAGTGGTAGCTTCGGCTACCTGATCAG
* * * * *
78523124 TGAAAAGTGGTAGCTCTAGTTACCTGATCAGTGAATAGTGATAGCTTCAGCTATC-GA--ATGTG
1 TGAAAAGTGGTAGCTTTAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCA-GTG
78523186 AAAAG-GGATAGCTTCGGCTA
65 AAAAGTGG-TAGCTTCGGCTA
78523206 TCGAATGTGA
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
90 3 0.02
91 20 0.13
92 2 0.01
93 134 0.84
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (93 bp):
TGAAAAGTGGTAGCTTTAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
AAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:78523195 original size:29 final size:29
Alignment explanation
Indices: 78523154--78523307 Score: 254
Period size: 29 Copynumber: 5.3 Consensus size: 29
78523144 TACCTGATCA
* * *
78523154 GTGAATAGTGATAGCTTCAGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
78523183 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
*
78523212 GTGAAAAGGGATATCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
78523241 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
* *
78523270 GTGAAAAGGGATAGCTTTGGCTATCAAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
78523299 GTGAAAAGG
1 GTGAAAAGG
78523308 TTAGGTATAC
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:78523460 original size:33 final size:32
Alignment explanation
Indices: 78523300--78523458 Score: 176
Period size: 32 Copynumber: 4.9 Consensus size: 32
78523290 CTATCAAATG
** *
78523300 TGAAAAGGTTAGGTATACTTTGTGCATATCACA
1 TGAAAAGGTTAGGTATACTTTGTGTGTA-CACT
* *
78523333 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTAGGTATACTTTGTGTGTACACT
* *
78523365 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTAGGTATACTTTGTGTGTACACT
** *
78523397 TGAAAAGGAAAGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGTTAGGTATACTTTGTGTGTACAC-T
**
78523429 ATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 -TGAAAAGGTTAGGTATACTTTGTGTGTAC
78523459 CACTCAGGAA
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
31 1 0.01
32 60 0.53
33 52 0.46
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
TGAAAAGGTTAGGTATACTTTGTGTGTACACT
Found at i:78526222 original size:17 final size:17
Alignment explanation
Indices: 78526202--78526260 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
78526192 TTCAAGACTC
78526202 ATGTAATGTTTTTAATT
1 ATGTAATGTTTTTAATT
* **
78526219 ATGTAGTGATTCATAGATTT
1 ATGTAATG-TTTTTA-A-TT
*
78526239 ATGTAATATTTTTAATT
1 ATGTAATGTTTTTAATT
78526256 ATGTA
1 ATGTA
78526261 GTGATTCAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 14 0.44
18 5 0.16
19 5 0.16
20 8 0.25
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (17 bp):
ATGTAATGTTTTTAATT
Found at i:78526242 original size:20 final size:18
Alignment explanation
Indices: 78526214--78526268 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
78526204 GTAATGTTTT
78526214 TAATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
* **
78526232 TAGATTTATGTAAT-ATTTT
1 TA-A-TTATGTAGTGATTCA
78526251 TAATTATGTAGTGATTCA
1 TAATTATGTAGTGATTCA
78526269 AAGACTTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 8 0.29
18 6 0.21
19 6 0.21
20 8 0.29
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (18 bp):
TAATTATGTAGTGATTCA
Found at i:78526243 original size:37 final size:37
Alignment explanation
Indices: 78526195--78526306 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
78526185 TGTTAATTTC
*
78526195 AAGACTCATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* * *
78526232 TAGATTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
**
78526269 AAGACTTACATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
78526306 A
1 A
78526307 TTCGGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:78526323 original size:9 final size:9
Alignment explanation
Indices: 78526305--78526379 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
78526295 GTAGTGATTC
78526305 AATTCGGGT
1 AATTCGGGT
*
78526314 AATTCAGGT
1 AATTCGGGT
78526323 AATTCGGGT
1 AATTCGGGT
*
78526332 AA-TCGGTT
1 AATTCGGGT
*
78526340 AATTCGGTT
1 AATTCGGGT
78526349 AATTCGGGT
1 AATTCGGGT
**
78526358 AATTCGTTT
1 AATTCGGGT
*
78526367 AATTCGGTT
1 AATTCGGGT
78526376 AATT
1 AATT
78526380 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
8 7 0.12
9 51 0.88
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:78526342 original size:26 final size:27
Alignment explanation
Indices: 78526305--78526379 Score: 109
Period size: 26 Copynumber: 2.8 Consensus size: 27
78526295 GTAGTGATTC
*
78526305 AATTCGGGTAATTCAGG-TAATTCGGGT
1 AATTCGGTTAATTC-GGTTAATTCGGGT
78526332 AAT-CGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
78526358 AATTCGTTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
78526380 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.05
26 22 0.50
27 20 0.45
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:78537066 original size:42 final size:42
Alignment explanation
Indices: 78537007--78537133 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
78536997 TTAGGGTTAC
*
78537007 TGAGATTACGTGTAAGACCATATCTGGGATATGGTATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
78537049 TGAGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
78537092 CGAGATTACATGTAAGACCATATCTGGGATATGACATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
78537134 CAGTACTGTG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 36 0.51
43 35 0.49
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:78546103 original size:26 final size:26
Alignment explanation
Indices: 78546074--78546127 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
78546064 TCCTCTCTCA
78546074 AGCCATATAACAGGG-AGCTCACAAAG
1 AGCCAT-TAACAGGGAAGCTCACAAAG
**
78546100 AGCCATTAATTGGGAAGCTCACAAAG
1 AGCCATTAACAGGGAAGCTCACAAAG
78546126 AG
1 AG
78546128 TCTATCAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (26 bp):
AGCCATTAACAGGGAAGCTCACAAAG
Found at i:78557325 original size:28 final size:28
Alignment explanation
Indices: 78557285--78557435 Score: 268
Period size: 28 Copynumber: 5.4 Consensus size: 28
78557275 AAAAGTAAGG
78557285 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
78557313 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
*
78557341 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
*
78557369 ACTAAGTGTGCGAGTTTGATTATATAGT
1 ACTAAGTGTGCGAGTTTGATTATATAGC
78557397 ACTAAGTGTGCGAG-TTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
*
78557424 ACTGAGTGTGCG
1 ACTAAGTGTGCG
78557436 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.19
28 95 0.81
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATTATATAGC
Found at i:78564706 original size:28 final size:28
Alignment explanation
Indices: 78564641--78564819 Score: 279
Period size: 28 Copynumber: 6.4 Consensus size: 28
78564631 GAGATTGCCG
* * * *
78564641 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
78564670 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78564698 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78564726 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78564754 CTAAGTGTGCGAGTTTGATTATATAGTA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78564782 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78564809 CTGAGTGTGCG
1 CTAAGTGTGCG
78564820 GACTTAATAT
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 103 0.73
29 15 0.11
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:78566697 original size:24 final size:24
Alignment explanation
Indices: 78566651--78566698 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
78566641 TTAAGAGGAG
*
78566651 GATCTGGAGGAAGAATCTAAAGAA
1 GATCTGGAGGAAGAACCTAAAGAA
78566675 GATCTGGAGGAAG-ACCTATAAGAA
1 GATCTGGAGGAAGAACCTA-AAGAA
78566699 AATCCTGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (24 bp):
GATCTGGAGGAAGAACCTAAAGAA
Found at i:78569815 original size:43 final size:42
Alignment explanation
Indices: 78569707--78569815 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 42
78569697 TTTACGTATC
* * * *
78569707 AGACCACATCTGGGACATCGACATCGTATCTAATTTCATGTA
1 AGACCACGTCTGGGACATCGGCATCATATCTAATTACATGTA
* **
78569749 AGACC-CTGTCTGGGATAGAGGCATCAATAT-TGAATTACATGTA
1 AGACCAC-GTCTGGGACATCGGCATC-ATATCT-AATTACATGTA
*
78569792 AGACCACGTCCGGGACATCGGCAT
1 AGACCACGTCTGGGACATCGGCAT
78569816 TGTACTTGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
41 1 0.02
42 19 0.37
43 31 0.60
44 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (42 bp):
AGACCACGTCTGGGACATCGGCATCATATCTAATTACATGTA
Found at i:78575631 original size:93 final size:93
Alignment explanation
Indices: 78575518--78575689 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
78575508 CGCCCATAAG
*
78575518 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
78575582 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
78575611 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78575676 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78575690 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 74 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78575685 original size:46 final size:47
Alignment explanation
Indices: 78575511--78575686 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 47
78575501 TGTAACCCGC
* *
78575511 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
78575557 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
78575607 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
78575650 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78575687 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.54
47 31 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:78585990 original size:40 final size:40
Alignment explanation
Indices: 78585946--78586177 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
78585936 ATAACCACAA
* * * *
78585946 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
78585986 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
78586026 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
78586066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
78586106 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
78586146 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
78586178 CATTCAAATG
Statistics
Matches: 182, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 177 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:78592497 original size:15 final size:15
Alignment explanation
Indices: 78592475--78592528 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
78592465 TATCTTATCT
78592475 TGGATTTCTTTATTC
1 TGGATTTCTTTATTC
* *
78592490 TGGGTTTCTCTA-TC
1 TGGATTTCTTTATTC
78592504 TTGGATTTCTTTATTC
1 -TGGATTTCTTTATTC
*
78592520 -GGTTTTCTT
1 TGGATTTCTT
78592529 ATTATCTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 10 0.31
15 20 0.62
16 2 0.06
ACGTcount: A:0.09, C:0.15, G:0.17, T:0.59
Consensus pattern (15 bp):
TGGATTTCTTTATTC
Found at i:78592504 original size:30 final size:29
Alignment explanation
Indices: 78592470--78592527 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
78592460 CATAGTATCT
78592470 TATCTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTC-GGGTTTCTC
*
78592500 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGGTTTCT
78592528 TATTATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.59
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGGTTTCTC
Found at i:78599780 original size:25 final size:25
Alignment explanation
Indices: 78599744--78599795 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
78599734 AAGGTAAGGA
*
78599744 CTGCAATTTAATTTCTATAACTTAT
1 CTGCAATCTAATTTCTATAACTTAT
78599769 CTGCAATCTAATTTCTATAACTTAT
1 CTGCAATCTAATTTCTATAACTTAT
78599794 CT
1 CT
78599796 TGGTGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (25 bp):
CTGCAATCTAATTTCTATAACTTAT
Found at i:78600548 original size:41 final size:41
Alignment explanation
Indices: 78600503--78600583 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
78600493 ATTCATGAAG
* * *
78600503 GATATCCTGTCCAAGAAATGAAGACTAGGATAATTTGAGAA
1 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGAA
78600544 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGA
1 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGA
78600584 TGGTAGCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (41 bp):
GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGAA
Found at i:78606418 original size:173 final size:173
Alignment explanation
Indices: 78606129--78606473 Score: 663
Period size: 173 Copynumber: 2.0 Consensus size: 173
78606119 CCTCCGAGTC
78606129 TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
1 TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
* *
78606194 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAGTCAGATGTATGGTATGCAGAAACAGATT
66 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
78606259 GGGCCTGAGCCCATCACAGATAGTATTAGGTGGGCCTTAGCCA
131 GGGCCTGAGCCCATCACAGATAGTATTAGGTGGGCCTTAGCCA
78606302 TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
1 TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
78606367 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
66 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
*
78606432 GGGCCTGAGCCTATCACAGATAGTATTAGGTGGGCCTTAGCC
131 GGGCCTGAGCCCATCACAGATAGTATTAGGTGGGCCTTAGCC
78606474 TAATAACTGA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 169 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (173 bp):
TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
GGGCCTGAGCCCATCACAGATAGTATTAGGTGGGCCTTAGCCA
Found at i:78610310 original size:46 final size:46
Alignment explanation
Indices: 78610142--78610308 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
78610132 TGTAACCCGC
* * *
78610142 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
* * * *
78610188 CCATAAGTGAACTCAGACTCAACTTAACAAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAG-TTCGGA---C-A-TTCGCAT
* *
78610238 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
*
78610281 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
78610309 GAATATCCCA
Statistics
Matches: 95, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 52 0.55
47 24 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
Found at i:78613549 original size:43 final size:43
Alignment explanation
Indices: 78613493--78613649 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
78613483 AATGCCATAG
* * *
78613493 CCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCAGTGT
1 CCCAGATATGGTCTTACACGTAATCACAATA-CGATGCCAATGT
* * * * *
78613536 CCTAGATAGGGTCTTACACGAAATCATAATACGATGCCAATAT
1 CCCAGATATGGTCTTACACGTAATCACAATACGATGCCAATGT
*
78613579 CCCAGATATGGTCTTACACATAATCACAATAC-ATTGCCAATGT
1 CCCAGATATGGTCTTACACGTAATCACAATACGA-TGCCAATGT
* *
78613622 CCCAGACATGGTCTTACATGTAATCACA
1 CCCAGATATGGTCTTACACGTAATCACA
78613650 TCTTGATAAC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 91 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGTAATCACAATACGATGCCAATGT
Found at i:78621380 original size:43 final size:43
Alignment explanation
Indices: 78621307--78621391 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
78621297 ATGTGAATCT
*
78621307 GATATGTGTTTACGAGTAAGACCCTATCTGGGACAG-TGGCATC
1 GATATGTGATTACGAGTAAGACCCTATCTGGGAC-GTTGGCATC
*
78621350 GATATGTGATTAC-ATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 GATATGTGATTACGA-GTAAGACC-CTATCTGGGACGTTGGCAT
78621392 TGTTCGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGAGTAAGACCCTATCTGGGACGTTGGCATC
Found at i:78629779 original size:5 final size:5
Alignment explanation
Indices: 78629769--78629864 Score: 92
Period size: 5 Copynumber: 18.8 Consensus size: 5
78629759 TATGTCTTTC
* *
78629769 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AGAA- AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT -AAAAT
78629814 AAAAAT GAAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAGAAT
1 -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT
78629861 AAAA
1 AAAA
78629865 AGATAGGAGG
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 39 0.50
6 29 0.37
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:78629812 original size:27 final size:26
Alignment explanation
Indices: 78629769--78629865 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 26
78629759 TATGTCTTTC
* **
78629769 AAAATAAAATAAT-AAAATTGAAATG
1 AAAATAAAAAAATAAAAATAAAAATG
78629794 AAAATAGAAAAAATAAAAATAAAAATG
1 AAAATA-AAAAAATAAAAATAAAAATG
78629821 AAAATAAAATAAA-ATAAAAT-AAAAT-
1 AAAATAAAA-AAATA-AAAATAAAAATG
78629846 AAAATAAATAAGAATAAAAA
1 AAAATAAA-AA-AATAAAAA
78629866 GATAGGAGGA
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
25 15 0.24
26 22 0.35
27 25 0.40
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (26 bp):
AAAATAAAAAAATAAAAATAAAAATG
Found at i:78629823 original size:32 final size:33
Alignment explanation
Indices: 78629769--78629864 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 33
78629759 TATGTCTTTC
* *
78629769 AAAATAAAATAATAAAATTG-AAATGAAAATAGAA-
1 AAAAT-AAA-AATAAAAATGAAAAT-AAAATAAAAT
78629803 AAAATAAAAATAAAAATGAAAATAAAATAAAAT
1 AAAATAAAAATAAAAATGAAAATAAAATAAAAT
78629836 AAAAT-AAAAT-AAAAT--AAATAAGAATAAAA
1 AAAATAAAAATAAAAATGAAAATAA-AATAAAA
78629865 AGATAGGAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.11
30 7 0.12
31 5 0.09
32 22 0.39
33 12 0.21
34 5 0.09
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (33 bp):
AAAATAAAAATAAAAATGAAAATAAAATAAAAT
Found at i:78635233 original size:13 final size:13
Alignment explanation
Indices: 78635211--78635243 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
78635201 AAGGGTTTGT
78635211 TTAT-TAAACTAA
1 TTATCTAAACTAA
78635223 TTATCTAAACTAA
1 TTATCTAAACTAA
*
78635236 TTAACTAA
1 TTATCTAA
78635244 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:78636495 original size:39 final size:39
Alignment explanation
Indices: 78636441--78636519 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
78636431 ATAAATATGC
* *
78636441 TAAGTATTTGGGGTATAAATATGTATAATTTGGTATTTA
1 TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
78636480 TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
1 TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
78636519 T
1 T
78636520 CACATAGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (39 bp):
TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
Found at i:78639655 original size:97 final size:97
Alignment explanation
Indices: 78639548--78639744 Score: 394
Period size: 97 Copynumber: 2.0 Consensus size: 97
78639538 TGCATCAATT
78639548 TAACCATATTAACAACCACCAACAAGCATCAATATACCATAAGTACCTCAAACCCAAAACAACAT
1 TAACCATATTAACAACCACCAACAAGCATCAATATACCATAAGTACCTCAAACCCAAAACAACAT
78639613 TACATGCCATAACATCAACTAAACATCAGAAA
66 TACATGCCATAACATCAACTAAACATCAGAAA
78639645 TAACCATATTAACAACCACCAACAAGCATCAATATACCATAAGTACCTCAAACCCAAAACAACAT
1 TAACCATATTAACAACCACCAACAAGCATCAATATACCATAAGTACCTCAAACCCAAAACAACAT
78639710 TACATGCCATAACATCAACTAAACATCAGAAA
66 TACATGCCATAACATCAACTAAACATCAGAAA
78639742 TAA
1 TAA
78639745 GTCCACCTCT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.18
Consensus pattern (97 bp):
TAACCATATTAACAACCACCAACAAGCATCAATATACCATAAGTACCTCAAACCCAAAACAACAT
TACATGCCATAACATCAACTAAACATCAGAAA
Found at i:78641117 original size:137 final size:138
Alignment explanation
Indices: 78640886--78641148 Score: 345
Period size: 137 Copynumber: 1.9 Consensus size: 138
78640876 GGGCCTGTTT
* *
78640886 ACACAAGCTGATGGTCGGAATGTAAGTTACACGATGCTACTCACACAAGTTGATGAGTATCCACA
1 ACACAAGCTGACGGTCGGAATGTAAGCTACACGATGCTACTCACACAAGTTGATGAGTATCCACA
* * * * *
78640951 ACTAATGCTAGACCACAGCCATCGATAGGACATTCAGGACCAGCACCCAAAATATTGTAACCTGG
66 ACTAATGCTAGAACACAACCATCGATAGGACATTCAGGACCAACACCCAAAACATGGTAACCTGG
78641016 GATTGCTC
131 GATTGCTC
* * * **
78641024 ACACAAGCTGACGGTCGGAATGT-AGCTACACGATGAC-GCTTACACAAGTTGATGAGTATTCGT
1 ACACAAGCTGACGGTCGGAATGTAAGCTACACGATG-CTACTCACACAAGTTGATGAGTATCCAC
* *
78641087 AACTAATG-TCAGAACTCAACCATTCG-TAGGACATTCAGTACCAACACCCAAAACATGGTAAC
65 AACTAATGCT-AGAACACAACCA-TCGATAGGACATTCAGGACCAACACCCAAAACATGGTAAC
78641149 ACTAATGGCA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
136 1 0.01
137 81 0.75
138 26 0.24
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (138 bp):
ACACAAGCTGACGGTCGGAATGTAAGCTACACGATGCTACTCACACAAGTTGATGAGTATCCACA
ACTAATGCTAGAACACAACCATCGATAGGACATTCAGGACCAACACCCAAAACATGGTAACCTGG
GATTGCTC
Found at i:78641722 original size:13 final size:13
Alignment explanation
Indices: 78641704--78641728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78641694 GTAAATTCAT
78641704 CAAAATTACTTAA
1 CAAAATTACTTAA
78641717 CAAAATTACTTA
1 CAAAATTACTTA
78641729 TAAATAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTACTTAA
Found at i:78654747 original size:40 final size:40
Alignment explanation
Indices: 78654701--78654845 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
78654691 CTCGCACAAG
* * * * *
78654701 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
78654741 GCCTTCGGCACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
78654781 GTCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
78654822 GCCTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
78654846 CATTCGAGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 57 0.66
41 25 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:78656076 original size:38 final size:38
Alignment explanation
Indices: 78656034--78656109 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
78656024 CAAGAACTCC
78656034 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
*
78656072 TTCCTCCTTCCTTAGAATTTTCGGCCAAAATAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
78656110 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:78662156 original size:130 final size:131
Alignment explanation
Indices: 78661918--78662178 Score: 506
Period size: 130 Copynumber: 2.0 Consensus size: 131
78661908 ATTTATTGAG
78661918 AAATCATTTAGTCTATTTTTGCTATCATAATAACAATTTAGATTAATTTGAACAATATATAATAA
1 AAATCATTTAGTCTATTTTTGCTATCATAATAACAATTTAGATTAATTTGAACAATATATAATAA
78661983 TTAAAAAATAATTTATTGTACTTAAATTATTAGCATATTTAATTTTAATTAATTTTGATAAATTT
66 TTAAAAAATAATTTATTGTACTTAAATTATTAGCATATTTAATTTTAATTAATTTTGATAAATTT
78662048 T
131 T
78662049 AAAT-ATTTAGTCTATTTTTGCTATCATAATAACAATTTAGATTAATTTGAACAATATATAATAA
1 AAATCATTTAGTCTATTTTTGCTATCATAATAACAATTTAGATTAATTTGAACAATATATAATAA
*
78662113 TTGAAAAATAATTTATTGTACTTAAATTATTAGCATATTTAATTTTAATTAATTTTGATAAATTT
66 TTAAAAAATAATTTATTGTACTTAAATTATTAGCATATTTAATTTTAATTAATTTTGATAAATTT
78662178 T
131 T
78662179 TATTTCTTTT
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
130 125 0.97
131 4 0.03
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (131 bp):
AAATCATTTAGTCTATTTTTGCTATCATAATAACAATTTAGATTAATTTGAACAATATATAATAA
TTAAAAAATAATTTATTGTACTTAAATTATTAGCATATTTAATTTTAATTAATTTTGATAAATTT
T
Found at i:78662189 original size:21 final size:21
Alignment explanation
Indices: 78662165--78662220 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 21
78662155 TTTTAATTAA
78662165 TTTTGATAAATTTTTATTTCT
1 TTTTGATAAATTTTTATTTCT
78662186 TTTTGACAATAAATTTTTATTTCT
1 TTTTG---ATAAATTTTTATTTCT
*
78662210 TTTTGACAAAT
1 TTTTGATAAAT
78662221 CCGCACAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 10 0.32
24 21 0.68
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTGATAAATTTTTATTTCT
Found at i:78662213 original size:25 final size:24
Alignment explanation
Indices: 78662170--78662218 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
78662160 ATTAATTTTG
78662170 ATAAATTTTTATTTCTTTTTGACA
1 ATAAATTTTTATTTCTTTTTGACA
78662194 ATAAATTTTTATTTCTTTTTGACA
1 ATAAATTTTTATTTCTTTTTGACA
78662218 A
1 A
78662219 ATCCGCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (24 bp):
ATAAATTTTTATTTCTTTTTGACA
Found at i:78668714 original size:81 final size:81
Alignment explanation
Indices: 78668579--78668794 Score: 254
Period size: 81 Copynumber: 2.7 Consensus size: 81
78668569 TTAGAATACT
** * ** * * *
78668579 TTAGTTTACCAAATTACCAAAATACCCTTGGTTTACAAAATTAACAAAATACCCCTGGTTTGTAA
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGCAA
*
78668644 AATTACTAAAATACCC
66 AATTACCAAAATACCC
78668660 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGCAA
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGCAA
78668725 AATTACCAAAATACCC
66 AATTACCAAAATACCC
* * * ** *** *
78668741 CTAATTTATGAAATTACTGAAATA-CCCTCGACCTGTAAAATTACCAAAGTACCC
1 TTAGTTTATAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCC
78668795 TCAATTTATA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
80 4 0.03
81 112 0.97
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGCAA
AATTACCAAAATACCC
Found at i:78668743 original size:27 final size:27
Alignment explanation
Indices: 78668580--78668767 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
78668570 TAGAATACTT
* *
78668580 TAGTTTACCAAATTACCAAAATACCCT
1 TAGTTTACAAAATTACCAAAATACCCC
* *
78668607 TGGTTTACAAAATTAACAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
* ** * *
78668634 TGGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTACAAAATTACCAAAATACCCC
*
78668661 TAGTTTATAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
* **
78668688 TGGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
*
78668715 TAGTTTGCAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
* ** **
78668742 TAATTTATGAAATTACTGAAATACCC
1 TAGTTTACAAAATTACCAAAATACCC
78668768 TCGACCTGTA
Statistics
Matches: 138, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:78668767 original size:54 final size:54
Alignment explanation
Indices: 78668589--78668742 Score: 254
Period size: 54 Copynumber: 2.9 Consensus size: 54
78668579 TTAGTTTACC
* *
78668589 AAATTACCAAAATACCCTTGGTTTACAAAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* *
78668643 AAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* *
78668697 AAATTACCAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCT
78668743 AATTTATGAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:78668781 original size:54 final size:55
Alignment explanation
Indices: 78668589--78668811 Score: 213
Period size: 54 Copynumber: 4.1 Consensus size: 55
78668579 TTAGTTTACC
* * ** * ** *
78668589 AAATTACCAAAATACCCT-TGGTTTACAAAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTAATTTATA
* ** *
78668643 AAATTACTAAAATACCCT-TAGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTAATTTATA
* * *
78668697 AAATTACCAAAATACCC-CTAGTTTGCAAAATTACCAAAATACCCCTAATTTATG
1 AAATTACTAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTAATTTATA
* * ** *
78668751 AAATTACTGAAATACCCTCGA-CCTGTAAAATTACCAAAGTA-CCCTCAATTTATA
1 AAATTACTAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCT-AATTTATA
*
78668805 GAATTAC
1 AAATTAC
78668812 CATTTTACCC
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.03
54 140 0.96
55 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (55 bp):
AAATTACTAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTAATTTATA
Found at i:78668809 original size:27 final size:27
Alignment explanation
Indices: 78668641--78668837 Score: 114
Period size: 27 Copynumber: 7.3 Consensus size: 27
78668631 CCCTGGTTTG
* * * *
78668641 TAAAATTACTAAAATACCCTTAGTTTA
1 TAAAATTACCAAAGTACCCTCAATTTA
* ** *
78668668 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAGTACCCTC-AATTTA
* * *
78668695 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAGTACCCTC-AATTTA
* *
78668722 CAAAATTACCAAAATACCC-CTAATTTA
1 TAAAATTACCAAAGTACCCTC-AATTTA
* * * ** *
78668749 TGAAATTACTGAAA-TACCCTCGACCTG
1 TAAAATTAC-CAAAGTACCCTCAATTTA
78668776 TAAAATTACCAAAGTACCCTCAATTTA
1 TAAAATTACCAAAGTACCCTCAATTTA
* *** *
78668803 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAGTACCCTCAATTTA
78668830 TAAAATTA
1 TAAAATTA
78668838 TAGAAATACC
Statistics
Matches: 139, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
26 3 0.02
27 132 0.95
28 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAGTACCCTCAATTTA
Found at i:78668863 original size:27 final size:27
Alignment explanation
Indices: 78668840--78669162 Score: 412
Period size: 27 Copynumber: 12.0 Consensus size: 27
78668830 TAAAATTATA
* * *
78668840 GAAATACCCTTCTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
78668867 GAAATACCCTTGTAAAGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
78668894 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
78668921 AAAATACCCCTGTAAGATAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
*
78668948 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
*
78668975 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* * * *
78669002 AAAATACCCCTGTAGGGTAGAAATATT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
78669029 GAAATACCCCTATAGGGTAGAGTTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
*
78669056 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* *
78669083 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
78669110 GAGATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
78669137 GAGATACCCTTATAAGGTAGAATTAC
1 GAAATACCCCTGTAAGGTAGAATTAC
78669163 CATTTTGCCC
Statistics
Matches: 265, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 265 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATTACT
Found at i:78669300 original size:21 final size:21
Alignment explanation
Indices: 78669275--78669324 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
78669265 ATATTGTTAT
*
78669275 ACATGATAGGACATGATATGC
1 ACATGATAGGACATGATAAGC
* **
78669296 ACATGATATGTTATGATAAGC
1 ACATGATAGGACATGATAAGC
78669317 ACATGATA
1 ACATGATA
78669325 TGCTACGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (21 bp):
ACATGATAGGACATGATAAGC
Found at i:78669301 original size:11 final size:11
Alignment explanation
Indices: 78669275--78669349 Score: 59
Period size: 11 Copynumber: 7.1 Consensus size: 11
78669265 ATATTGTTAT
*
78669275 ACATGATA-GG
1 ACATGATATGC
78669285 ACATGATATGC
1 ACATGATATGC
78669296 ACATGATATG-
1 ACATGATATGC
** *
78669306 TTATGATAAGC
1 ACATGATATGC
78669317 ACATGATATGC
1 ACATGATATGC
*
78669328 TAC--GATATAC
1 -ACATGATATGC
*
78669338 ACATTATATGC
1 ACATGATATGC
78669349 A
1 A
78669350 TGGGTTGGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
9 2 0.04
10 21 0.42
11 25 0.50
12 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (11 bp):
ACATGATATGC
Found at i:78669325 original size:21 final size:21
Alignment explanation
Indices: 78669287--78669326 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78669277 ATGATAGGAC
*
78669287 ATGATATGCACATGATATGTT
1 ATGATAAGCACATGATATGTT
78669308 ATGATAAGCACATGATATG
1 ATGATAAGCACATGATATG
78669327 CTACGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
ATGATAAGCACATGATATGTT
Found at i:78669334 original size:21 final size:21
Alignment explanation
Indices: 78669289--78669348 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
78669279 GATAGGACAT
* * *
78669289 GATATGCACATGATATGTTAT
1 GATAAGCACATGATATGCTAC
78669310 GATAAGCACATGATATGCTAC
1 GATAAGCACATGATATGCTAC
*
78669331 GATATA-CACATTATATGC
1 GATA-AGCACATGATATGC
78669349 ATGGGTTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
GATAAGCACATGATATGCTAC
Found at i:78671551 original size:27 final size:27
Alignment explanation
Indices: 78671448--78671552 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
78671438 GAATACTTTT
* *
78671448 ATTTACCAAATTACTGAAATATCCTCG
1 ATTTACAAAATTACTGAAATACCCTCG
* ** * * *
78671475 ACTTGTAAAATTAC-CAAAGTACCCCCA
1 ATTTACAAAATTACTGAAA-TACCCTCG
* ***
78671502 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACTGAAATACCCTCG
78671529 ATTTACAAAATTACTGAAATACCC
1 ATTTACAAAATTACTGAAATACCC
78671553 CTGTAGGGTA
Statistics
Matches: 55, Mismatches: 21, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTTACAAAATTACTGAAATACCCTCG
Found at i:78671567 original size:27 final size:27
Alignment explanation
Indices: 78671537--78671660 Score: 185
Period size: 27 Copynumber: 4.6 Consensus size: 27
78671527 CGATTTACAA
78671537 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
78671564 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
78671591 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
78671618 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
78671645 AATTTCTGAGATACCC
1 AATTACTGAAATACCC
78671661 TTATGGGGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:78671669 original size:27 final size:27
Alignment explanation
Indices: 78671537--78671677 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
78671527 CGATTTACAA
*
78671537 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
78671564 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* ** *
78671591 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
78671618 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* * * * *
78671645 AATTTCTGAGATACCCTTATGGGGTAA
1 AATTACTGAAATACCCCTATAGGGTAG
78671672 AATTAC
1 AATTAC
78671678 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:78672302 original size:6 final size:6
Alignment explanation
Indices: 78672293--78672408 Score: 76
Period size: 6 Copynumber: 18.8 Consensus size: 6
78672283 TTGCATTCAC
* * *
78672293 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TCTG
* * * *
78672342 AATTCTG ATTCTG ATTTTG ATTTTG ATTCT- ATCACCTG ATTCTG ATTCTA
1 -ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
78672392 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
78672409 AGTTCAGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 70 0.81
7 7 0.08
8 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:78672324 original size:25 final size:25
Alignment explanation
Indices: 78672296--78672357 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
78672286 CATTCACATT
*
78672296 CTGATTCTGATTCTGTTACCTG-ATA
1 CTGATTCTGATTCTGTCACC-GAATA
*
78672321 CTGATTCTGATTCTGTCACCGAATT
1 CTGATTCTGATTCTGTCACCGAATA
78672346 CTGATTCTGATT
1 CTGATTCTGATT
78672358 TTGATTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCGAATA
Found at i:78672356 original size:37 final size:37
Alignment explanation
Indices: 78672302--78672409 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 37
78672292 CATTCTGATT
* * *
78672302 CTGATTCTG-TTACCTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATT--CTGATTCTGATTTTGATTCTATCAC
*
78672340 C-GAATTCTGATTCTGATTTTGATTTTGATTCTATCAC
1 CTG-ATTCTGATTCTGATTCTGATTTTGATTCTATCAC
* *
78672377 CTGATTCTGATTCTAATTCTCATTTTGATTCTA
1 CTGATTCTGATTCTGATTCTGATTTTGATTCTA
78672410 GTTCAGATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
37 50 0.83
38 8 0.13
39 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTTTGATTCTATCAC
Found at i:78672387 original size:19 final size:19
Alignment explanation
Indices: 78672321--78672391 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
78672311 TTACCTGATA
*
78672321 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTATCAC
*
78672340 C-GAATTCTGATTCTGAT--T
1 CTG-ATTCTGATTCT-ATCAC
* *
78672358 TTGATTTTGATTCTATCAC
1 CTGATTCTGATTCTATCAC
78672377 CTGATTCTGATTCTA
1 CTGATTCTGATTCTA
78672392 ATTCTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
17 2 0.05
18 11 0.28
19 26 0.65
20 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTATCAC
Found at i:78672472 original size:34 final size:34
Alignment explanation
Indices: 78672434--78672499 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
78672424 TCTTATTCTG
78672434 TAATGGGCTAAGGCCCATCTGGTACTGTCTGTTA
1 TAATGGGCTAAGGCCCATCTGGTACTGTCTGTTA
78672468 TAATGGGCTAAGGCCCATCTGGTACTGTCTGT
1 TAATGGGCTAAGGCCCATCTGGTACTGTCTGT
78672500 GCTGGGGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (34 bp):
TAATGGGCTAAGGCCCATCTGGTACTGTCTGTTA
Found at i:78672522 original size:16 final size:16
Alignment explanation
Indices: 78672501--78672531 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78672491 ACTGTCTGTG
78672501 CTGGGGCCAGACTTTA
1 CTGGGGCCAGACTTTA
78672517 CTGGGGCCAGACTTT
1 CTGGGGCCAGACTTT
78672532 TAATTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (16 bp):
CTGGGGCCAGACTTTA
Found at i:78678536 original size:33 final size:33
Alignment explanation
Indices: 78678494--78678560 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
78678484 TCCCGCCTAG
* *
78678494 CAAGAATGCTAAGTTGAGGATTGAGATCACTGC
1 CAAGAATGCTAAGTTAAGGAATGAGATCACTGC
*
78678527 CAAGAATGCTGAGTTAAGGAATGAGATCACTGC
1 CAAGAATGCTAAGTTAAGGAATGAGATCACTGC
78678560 C
1 C
78678561 TTCCAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (33 bp):
CAAGAATGCTAAGTTAAGGAATGAGATCACTGC
Found at i:78689265 original size:42 final size:42
Alignment explanation
Indices: 78689217--78689312 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
78689207 ACGGCTTAGA
*
78689217 CACACGGGCGTGTCTAAGGCCGTGTGA-GACACACGGGCTGTT
1 CACACGGGCGTGTCTAAGGCCGTGTGATG-CACACGGCCTGTT
78689259 CACACGGGCGTGTCTAAGGCCGTGTGATGCACACGGCCTGTT
1 CACACGGGCGTGTCTAAGGCCGTGTGATGCACACGGCCTGTT
78689301 CACACGGG-GTGT
1 CACACGGGCGTGT
78689313 GACCTTTTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
41 4 0.08
42 47 0.90
43 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (42 bp):
CACACGGGCGTGTCTAAGGCCGTGTGATGCACACGGCCTGTT
Found at i:78694895 original size:40 final size:40
Alignment explanation
Indices: 78694841--78694994 Score: 247
Period size: 40 Copynumber: 3.9 Consensus size: 40
78694831 GATATAGCTT
*
78694841 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
78694881 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
78694921 CTCGCACAATTGCCTTCGAGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
78694961 CTCGCACAAATGCCTTCGGG-CTTAACCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
78694995 CCATCCGAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.11
40 94 0.89
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:78702971 original size:40 final size:40
Alignment explanation
Indices: 78702917--78703070 Score: 265
Period size: 40 Copynumber: 3.9 Consensus size: 40
78702907 GATATAGCTT
*
78702917 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
78702957 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
78702997 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
78703037 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
78703071 CCATCCGAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.12
40 96 0.88
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:78717371 original size:34 final size:31
Alignment explanation
Indices: 78717307--78717371 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
78717297 TATAAAATGT
* * *
78717307 GTCTTACTCGCACACATATATTGATGCCATG
1 GTCTTACTCGCACACACATATGGATCCCATG
78717338 GTCTTACTCGCACATCACATATCGGAATCCCATG
1 GTCTTACTCGCACA-CACATAT-GG-ATCCCATG
78717372 TCATGACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.50
32 6 0.21
33 1 0.04
34 7 0.25
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (31 bp):
GTCTTACTCGCACACACATATGGATCCCATG
Found at i:78722706 original size:22 final size:22
Alignment explanation
Indices: 78722657--78722699 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78722647 TAACATGTGT
*
78722657 CACATATA-TCATGAGCTCGGAC
1 CACATA-ACTCATGAGCTCAGAC
78722679 CACATAACTCATGAGCTCAGA
1 CACATAACTCATGAGCTCAGA
78722700 TCGCATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:78725300 original size:48 final size:48
Alignment explanation
Indices: 78725227--78725457 Score: 199
Period size: 48 Copynumber: 4.9 Consensus size: 48
78725217 CAAGGTAGGG
* * * *
78725227 TGCCAATGCCATATCCCAGATATGGTCTTATATGGGACCACATAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
*
78725275 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-CAT-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
* * * *** * *
78725321 T-CGAA-GTCGATAG-CCCA-ACTATGGTTTTACACAATG-TCTCATTATGA
1 TGCCAATG-CCAT-GTCCCAGAC-ATGGTCTTACA-TGGGATCACATAATGA
* * * *
78725368 TGCCAATGCCATGT-CCTGACATGGCCTTATATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
**
78725415 TGCCAAAACCATGTCCCAGACATGGTCTTACATGGGATCACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT
78725458 GTCACTACCG
Statistics
Matches: 141, Mismatches: 30, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
44 3 0.02
45 24 0.17
46 7 0.05
47 35 0.25
48 71 0.50
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
Found at i:78733740 original size:40 final size:40
Alignment explanation
Indices: 78733631--78733850 Score: 194
Period size: 40 Copynumber: 5.5 Consensus size: 40
78733621 TCCCAAGTAT
* * * * *
78733631 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATGC
* ** ** *
78733669 CATCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
78733709 CTTCAGAACTTAGCCTGGATATAATCGCTAGCACAAATGC
1 CTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATGC
** * *
78733749 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGAACTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * *
78733789 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATGC
*
78733829 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGAACTTAGCCCGGATAT
78733851 CATTCGAATA
Statistics
Matches: 143, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
38 10 0.07
39 17 0.12
40 115 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:78733764 original size:80 final size:79
Alignment explanation
Indices: 78733640--78733850 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 79
78733630 TCTTCGGGAT
* * * * * *
78733640 TTAGCCGGATATAACCACTCGCAC-AAGGCCATCGGGTCTTAGCCCGGATATGGTC-ACTAGCAT
1 TTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCAC
78733703 AAATGCCTTCAGAAC
65 AAATGCCTTCAGAAC
* * *
78733718 TTAGCCTGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1 TTAGCC-GGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
* *
78733783 AAATGCCTTCGGATC
65 AAATGCCTTCAGAAC
* * *
78733798 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
78733851 CATTCGAATA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
78 6 0.05
79 16 0.14
80 90 0.79
81 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
TTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACA
AATGCCTTCAGAAC
Found at i:78741216 original size:40 final size:40
Alignment explanation
Indices: 78741158--78741353 Score: 243
Period size: 40 Copynumber: 4.9 Consensus size: 40
78741148 CAGATATAAC
* * *
78741158 CACTCGCACAAGT-CCTTCGGGTCTTAGCCCGGATATGGT
1 CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* * *
78741197 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAAT
1 CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
78741237 CGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* * * *
78741276 CAATTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 C-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* * *
78741317 CACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
78741354 CATTCGAATA
Statistics
Matches: 132, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 11 0.08
40 120 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
Found at i:78741265 original size:80 final size:79
Alignment explanation
Indices: 78741134--78741353 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
78741124 ACCCAAGTAT
* * * * * *
78741134 CTTCGGGATTTAGCCAGATATAACCACTCGCACAAGT-CCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-C
*
78741198 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
*
78741212 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
* *
78741277 AATTCGCACAAATGC
65 AACTAGCACAAATGC
* * * *
78741292 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
78741354 CATTCGAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.10
79 23 0.19
80 87 0.71
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:78750614 original size:12 final size:12
Alignment explanation
Indices: 78750597--78750621 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78750587 ATGTAAGTGA
78750597 TCTTGATGATTT
1 TCTTGATGATTT
78750609 TCTTGATGATTT
1 TCTTGATGATTT
78750621 T
1 T
78750622 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:78751409 original size:47 final size:46
Alignment explanation
Indices: 78751336--78751655 Score: 222
Period size: 47 Copynumber: 6.8 Consensus size: 46
78751326 AATTACTTAT
* *
78751336 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
* * * *
78751382 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACGTAGA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATGATGA
* * *
78751430 GTGCCAGTGTAAGACATTTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA
* * ** *
78751477 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCCG-CTGA-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-A
* ** * * * *
78751521 GTGCTAGTGTAAGACATGTCTCCGACATGCATCAG-CATGTATAAAAGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--CAT-GATGA
* * * * *
78751569 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATGATGA
78751618 -TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
78751656 AACTTATCCC
Statistics
Matches: 216, Mismatches: 40, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 2 0.01
46 25 0.12
47 60 0.28
48 39 0.18
49 50 0.23
50 7 0.03
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
Found at i:78751503 original size:94 final size:93
Alignment explanation
Indices: 78751336--78751655 Score: 251
Period size: 94 Copynumber: 3.4 Consensus size: 93
78751326 AATTACTTAT
* **
78751336 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
78751401 TCTAGGACATGGCATCGACGTAGAGATGA
66 TCTAGGACAT-GCATCGACGTAGAGATGA
* * *
78751430 GTGCCAGTGTAAGACATTTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACCA
* *
78751493 TGTCTGGGACATGCATC--CGCT-GAGA-GTT
64 TGTCTAGGACATGCATCGACG-TAGAGATG-A
* ** * * ** * * *
78751521 GTGCTAGTGTAAGACATGTCTCCGACATGCATCAG-CATGTATAAAAGAGAGCTAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--CA-CGATGAGTGCCAGTGTAAGACC
* * * * * *
78751585 ATGTTTGGGACATGGCATTGGCCTCGATGATGA
63 ATGTCTAGGACAT-GCATCGACGTAGA-GATGA
78751618 -TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
78751656 AACTTATCCC
Statistics
Matches: 178, Mismatches: 29, Indels: 32
0.74 0.12 0.13
Matches are distributed among these distances:
90 2 0.01
91 37 0.21
92 15 0.08
93 17 0.10
94 53 0.30
95 18 0.10
96 4 0.02
97 13 0.07
98 13 0.07
99 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACATGCATCGACGTAGAGATGA
Found at i:78753483 original size:40 final size:40
Alignment explanation
Indices: 78753404--78753607 Score: 281
Period size: 40 Copynumber: 5.1 Consensus size: 40
78753394 CAGGATTTAA
* *
78753404 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
78753443 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78753483 CCGGATATAGTAACACGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78753523 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78753563 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
78753604 CCGG
1 CCGG
78753608 TTATCATCCA
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.11
40 104 0.69
41 24 0.16
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78759901 original size:13 final size:14
Alignment explanation
Indices: 78759869--78759902 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
78759859 ATTGGTTAAA
78759869 AATAATAATAAAATG
1 AATAA-AATAAAATG
78759884 AATAAAATAAAA-G
1 AATAAAATAAAATG
78759897 AATAAA
1 AATAAA
78759903 GGTGTCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 7 0.37
15 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AATAAAATAAAATG
Found at i:78760912 original size:28 final size:28
Alignment explanation
Indices: 78760851--78760915 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
78760841 TCAGTGTACG
* **
78760851 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGAA
* *
78760879 AGATATTGAGAATGACACTTAGTGTGAA
1 AAATATTGAGAATGACACTTAATGTGAA
78760907 AAATATTGA
1 AAATATTGA
78760916 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGAA
Found at i:78761031 original size:39 final size:39
Alignment explanation
Indices: 78760988--78761146 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
78760978 GGCTTTATAA
*
78760988 TGGTGTTATAACCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
78761027 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
78761066 TGGTGTTATATCCGGGCTAAGACCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
78761105 TGGTGTTATATCCGGGCTGAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
78761144 TGG
1 TGG
78761147 AATTGTATCC
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
39 102 0.91
40 10 0.09
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:78761156 original size:39 final size:38
Alignment explanation
Indices: 78760993--78761279 Score: 238
Period size: 39 Copynumber: 7.3 Consensus size: 38
78760983 TATAATGGTG
* * **
78760993 TTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGCAGGC-TTCGTGCTGGAA
* **
78761032 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGCAGGC-TTCGTGCTGGAA
* * * **
78761071 TTATATCCGGGCTAAGACCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGCAGGC-TTCGTGCTGGAA
*
78761110 TTATATCCGGGCTGAAGTCCCGCAGGCTTTGTGCTGGAA
1 TTATATCCGGGCT-AAGTCCCGCAGGCTTCGTGCTGGAA
* **
78761149 TTGTATCCGAACTTAAGGT-CCGCAGGCTTCGTGCTGGAA
1 TTATATCCGGGC-TAA-GTCCCGCAGGCTTCGTGCTGGAA
* * * * *
78761188 TTGTATCTGGACTTAAGGT-CTGCAAGCTTCGTGCTGGAA
1 TTATATCCGGGC-TAA-GTCCCGCAGGCTTCGTGCTGGAA
* * *
78761227 TTGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAA
1 TTATATCCGGGC-T-AAGTCCCGCAGGCT-TCGTGCTGGAA
78761267 TTATATCCGGGCT
1 TTATATCCGGGCT
78761280 TAAAGACCCG
Statistics
Matches: 218, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 176 0.81
40 41 0.19
41 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (38 bp):
TTATATCCGGGCTAAGTCCCGCAGGCTTCGTGCTGGAA
Found at i:78765199 original size:37 final size:37
Alignment explanation
Indices: 78765078--78765188 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
78765068 AGGTCAGACG
* * * *
78765078 AAATCTCCACACGAAGTTATCGGGTCTTATCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
78765115 AAATCTCCACACGTAGTCATCGGGTCTTCCCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78765152 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78765189 TAGTCACCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78765208 original size:37 final size:37
Alignment explanation
Indices: 78765078--78765216 Score: 136
Period size: 37 Copynumber: 3.8 Consensus size: 37
78765068 AGGTCAGACG
* * * *
78765078 AAATCTCCACACGA-AGTTATCGGGTCTTATCCGAACA
1 AAATCACCACAC-ATAGTCATCGGGTCTTACCCGGACA
* * *
78765115 AAATCTCCACACGTAGTCATCGGGTCTTCCCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* *
78765152 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* * * * *
78765189 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCACCACACATAGTCATCGGGTCTT
78765217 TAATCCCAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:78765208 original size:74 final size:74
Alignment explanation
Indices: 78765078--78765216 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
78765068 AGGTCAGACG
* * * *
78765078 AAATCTCCACACGAAGTTATCGGGTCTTATCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
78765143 CCCCGGACA
66 CCCCGGACA
* * * * * * *
78765152 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
78765217 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
CCCCGGACA
Found at i:78765424 original size:46 final size:46
Alignment explanation
Indices: 78765371--78765507 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
78765361 TATATATACA
* * * *
78765371 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
78765417 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
78765463 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
78765508 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:78765544 original size:47 final size:47
Alignment explanation
Indices: 78765481--78765816 Score: 447
Period size: 47 Copynumber: 7.1 Consensus size: 47
78765471 ACACATTTCG
* *
78765481 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * * *
78765528 CATTGGCCATTTGGCCTTCTCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
78765575 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
78765622 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* ** *
78765669 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
78765716 CATTGGCCATTCGGCCTTATCACGCATATATGTACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--CATATA--TACATGTTCACATTCATCA
** * **
78765767 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
78765814 CAT
1 CAT
78765817 AAAATCCTAA
Statistics
Matches: 261, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 216 0.83
49 11 0.04
51 34 0.13
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:78770906 original size:13 final size:14
Alignment explanation
Indices: 78770874--78770907 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
78770864 ATTGGTTAAA
78770874 AATAATAATAAAATG
1 AATAA-AATAAAATG
78770889 AATAAAATAAAA-G
1 AATAAAATAAAATG
78770902 AATAAA
1 AATAAA
78770908 GGTGTCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 7 0.37
15 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AATAAAATAAAATG
Found at i:78771917 original size:28 final size:28
Alignment explanation
Indices: 78771856--78771920 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
78771846 TCAGTGTACG
** **
78771856 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATAACACTTAATGTGAA
* *
78771884 AGATATTGAGAATAACACTTAGTGTGAA
1 AAATATTGAGAATAACACTTAATGTGAA
78771912 AAATATTGA
1 AAATATTGA
78771921 ATGATTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATAACACTTAATGTGAA
Found at i:78772036 original size:39 final size:39
Alignment explanation
Indices: 78771993--78772190 Score: 224
Period size: 39 Copynumber: 5.1 Consensus size: 39
78771983 GGCTTTATAA
*
78771993 TGGTGTTATAACCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
78772032 TGGTGTTATATCCAGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
78772071 TGGTGTTATATCCGGGCTAAG-CCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGC
*** * *
78772110 TACCGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
** * * *
78772149 TGGAATTGTATCCGGACTTAAGGT-CCGCAGGC-TTCGTGC
1 TGGTGTTATATCCGGGC-TAA-GTCCCGAAGGCATTCGTGC
78772188 TGG
1 TGG
78772191 AATTGTATCT
Statistics
Matches: 139, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 3 0.02
39 122 0.88
40 11 0.08
41 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.28
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:78772300 original size:40 final size:40
Alignment explanation
Indices: 78772118--78772301 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
78772108 GCTACCGTTA
* *
78772118 TATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* **
78772157 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * ** *
78772196 TATCTGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * *
78772235 TATCCGGGCTTAAAGACCCACAGGCTAT-ATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
*
78772275 TATCCGGGCTTAAAGACCCGTAGGCTT
1 TATCCGGGCTTAAAGACCCGCAGGCTT
78772302 TGTGTTGGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 80 0.63
40 45 0.36
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:78776161 original size:16 final size:16
Alignment explanation
Indices: 78776140--78776191 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
78776130 AAGGACTATG
*
78776140 TGAAGAAAATGTTAAA
1 TGAAGAAAATGCTAAA
**
78776156 TGAAGAATGTGCTAAA
1 TGAAGAAAATGCTAAA
**
78776172 TGAAGAATGTGCTAAA
1 TGAAGAAAATGCTAAA
78776188 TGAA
1 TGAA
78776192 ATAAAAGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (16 bp):
TGAAGAAAATGCTAAA
Found at i:78778755 original size:29 final size:29
Alignment explanation
Indices: 78778696--78778753 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
78778686 CAAATAGCCG
78778696 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
78778725 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
78778754 AAAACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:78779184 original size:39 final size:39
Alignment explanation
Indices: 78779130--78779209 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
78779120 ATTCTTCTAG
78779130 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
1 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
78779169 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
1 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
78779208 TA
1 TA
78779210 GTCCCTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.44
Consensus pattern (39 bp):
TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
Found at i:78782776 original size:11 final size:11
Alignment explanation
Indices: 78782760--78782784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78782750 TTATATATAC
78782760 TAATAAAATAA
1 TAATAAAATAA
78782771 TAATAAAATAA
1 TAATAAAATAA
78782782 TAA
1 TAA
78782785 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:78785179 original size:18 final size:19
Alignment explanation
Indices: 78785137--78785198 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
78785127 TAAAAATGAC
78785137 AATAATAACGAAAACGATA
1 AATAATAACGAAAACGATA
*
78785156 AA-AATAAC-AATACAGA-A
1 AATAATAACGAAAAC-GATA
78785173 AATAATAGTAC-AAAACGAT-
1 AATAATA--ACGAAAACGATA
78785192 AATAATA
1 AATAATA
78785199 CATATGGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 7 0.19
18 12 0.33
19 11 0.31
20 6 0.17
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.18
Consensus pattern (19 bp):
AATAATAACGAAAACGATA
Found at i:78795546 original size:20 final size:21
Alignment explanation
Indices: 78795518--78795556 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
78795508 TATAAATATA
*
78795518 AATATATATAATT-ATTATTT
1 AATACATATAATTAATTATTT
78795538 AATACATATAATTAATTAT
1 AATACATATAATTAATTAT
78795557 AATACTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATACATATAATTAATTATTT
Found at i:78795979 original size:28 final size:28
Alignment explanation
Indices: 78795947--78796002 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
78795937 TGTTAATTGG
78795947 ATAGTTAATTAAGGTAAAAGTGTATCAA
1 ATAGTTAATTAAGGTAAAAGTGTATCAA
78795975 ATAGTTAATTAAGGTAAAAGTGTATCAA
1 ATAGTTAATTAAGGTAAAAGTGTATCAA
78796003 CCCTAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (28 bp):
ATAGTTAATTAAGGTAAAAGTGTATCAA
Found at i:78796163 original size:24 final size:22
Alignment explanation
Indices: 78796136--78796189 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
78796126 AACTTTGTCG
**
78796136 AATTAATAATTAATTGTAATAAAA
1 AATTAATAA-TAAAAGTAAT-AAA
78796160 AATTAAATAATAAAAGTAATAAA
1 AATT-AATAATAAAAGTAATAAA
78796183 AATTAAT
1 AATTAAT
78796190 CGTTATAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 12 0.44
25 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTAATAATAAAAGTAATAAA
Found at i:78798637 original size:39 final size:39
Alignment explanation
Indices: 78798594--78798674 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
78798584 TTAGCTAATT
*
78798594 GTTAGGATGAATATAATTTTATATGATATTTAATTACAA
1 GTTAGGATGAATATAATTTAATATGATATTTAATTACAA
78798633 GTTAGGATGAATATAATTTAATATGATATTTAATTACAA
1 GTTAGGATGAATATAATTTAATATGATATTTAATTACAA
78798672 GTT
1 GTT
78798675 CATATATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (39 bp):
GTTAGGATGAATATAATTTAATATGATATTTAATTACAA
Found at i:78801560 original size:47 final size:47
Alignment explanation
Indices: 78801497--78802093 Score: 844
Period size: 47 Copynumber: 12.6 Consensus size: 47
78801487 ACCTTCGGGA
* * * *
78801497 CTTATCACATTTATACACTTCCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78801544 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78801591 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78801638 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78801685 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78801732 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
78801779 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
78801826 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78801875 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78801922 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
78801971 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
78802018 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78802065 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
78802094 TATTCAATAT
Statistics
Matches: 514, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 405 0.79
49 107 0.21
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:78803485 original size:85 final size:85
Alignment explanation
Indices: 78803364--78803534 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
78803354 TTCCCATACC
*
78803364 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
78803429 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
78803449 CTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
78803514 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
78803534 C
1 C
78803535 ATGGCCGGCC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
ACATCTTGTCCACCCATGCT
Found at i:78805592 original size:49 final size:49
Alignment explanation
Indices: 78805530--78805627 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
78805520 TTATGAATGC
78805530 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
1 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
*
78805579 TTGATGATTGCATTTGTTACTAGTATGAAATATTATAGAAATGCATATT
1 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
78805628 GATGATAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (49 bp):
TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
Found at i:78808299 original size:40 final size:40
Alignment explanation
Indices: 78808216--78808431 Score: 228
Period size: 40 Copynumber: 5.5 Consensus size: 40
78808206 CAACCAAGTA
** *
78808216 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
78808254 CCTTCGGGACTTAGCCCGGTTGTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78808294 CCTTCGGGACTTAGCCTGG-TATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78808333 CCTTCGGGACTTAGCTCGGATATAGTAGCTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * *
78808373 CCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
78808413 -CTCTCGGGACTTAGCCCGG
1 CCT-TCGGGACTTAGCCCGG
78808432 TTATCATCCG
Statistics
Matches: 151, Mismatches: 21, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 13 0.09
39 48 0.32
40 90 0.60
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78808346 original size:79 final size:80
Alignment explanation
Indices: 78808248--78808435 Score: 236
Period size: 79 Copynumber: 2.4 Consensus size: 80
78808238 AGCTACTGCT
* * *
78808248 CAAATGCCTTCGGGACTTAGCCCGGTTGTAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
78808313 TA-TAATAACTCGCA
66 AATTAACAACTAGCA
* * * *
78808327 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
78808392 AATTAGCCACTAGCT
66 AATTAACAACTAGCA
78808407 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
78808436 CATCCGAACA
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 61 0.66
80 31 0.34
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAACAACTAGCA
Found at i:78818926 original size:23 final size:23
Alignment explanation
Indices: 78818881--78818927 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78818871 TTAATTAATT
*
78818881 AAAAATTAAACAAGTATATAAAC
1 AAAAATTAAACAAATATATAAAC
*
78818904 AAAAATTAAAAGAAATATA-AAAC
1 AAAAATT-AAACAAATATATAAAC
78818927 A
1 A
78818928 TTTGTCCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAATTAAACAAATATATAAAC
Done.