Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 110 of 120
Found at i:32553272 original size:2 final size:2
Alignment explanation
Indices: 32553265--32553294 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32553255 ATAACAATGG
32553265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32553295 TCCTTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32554567 original size:36 final size:36
Alignment explanation
Indices: 32554527--32554598 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
32554517 GCAAATCACA
*
32554527 GCCCCCTCTACACTACTAACAGGCAATTCCTGCGAT
1 GCCCCCTCTACACTACTAACAGGCAATTCCTACGAT
* * *
32554563 GCCCCCTCTACACTAGTAACATGCTATTCCTACGAT
1 GCCCCCTCTACACTACTAACAGGCAATTCCTACGAT
32554599 TTGATACTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (36 bp):
GCCCCCTCTACACTACTAACAGGCAATTCCTACGAT
Found at i:32559293 original size:31 final size:31
Alignment explanation
Indices: 32559241--32559330 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
32559231 CTTAACAGTC
* * * **
32559241 CAATGACTTAAATAAAAACTTTCAAATGGTT
1 CAATTACTCAAATGAAAACTTTCAAATAATT
*
32559272 CAATTACT-AGAATGAAAACTTTCGAATAATT
1 CAATTACTCA-AATGAAAACTTTCAAATAATT
* * *
32559303 CGATTACTCAAATGAAAATTTTTAAATA
1 CAATTACTCAAATGAAAACTTTCAAATA
32559331 GTTTTTTTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
30 1 0.02
31 46 0.96
32 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (31 bp):
CAATTACTCAAATGAAAACTTTCAAATAATT
Found at i:32561566 original size:23 final size:23
Alignment explanation
Indices: 32561535--32561638 Score: 136
Period size: 23 Copynumber: 4.4 Consensus size: 23
32561525 AGCAAATCTC
32561535 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTGTGT
*
32561560 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
* *
32561583 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
* * *
32561606 GTACTCTCTGTTTAGCATTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
32561629 GTGCTCTCTG
1 GTGCTCTCTG
32561639 TTGTCTAGCA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
23 61 0.86
25 10 0.14
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGTGT
Found at i:32561639 original size:23 final size:23
Alignment explanation
Indices: 32561535--32561674 Score: 133
Period size: 23 Copynumber: 6.0 Consensus size: 23
32561525 AGCAAATCTC
*
32561535 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG-T-TTAGCACTTTGT
*
32561560 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGTTTAGCACTTTGT
* *
32561583 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGTTTAGCACTTTGT
*
32561606 GTACTCTCTGTTTAGCA-TTGTGT
1 GTGCTCTCTGTTTAGCACTT-TGT
*
32561629 GTGCTCTCTGTTGTCTAGCAC-TTAT
1 GTGCTCTCTG-T-T-TAGCACTTTGT
* *
32561654 ATGCTCTCTG-TTAGTACTTTG
1 GTGCTCTCTGTTTAGCACTTTG
32561675 GTACTCTATG
Statistics
Matches: 98, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.05
22 5 0.05
23 59 0.60
24 1 0.01
25 22 0.22
26 6 0.06
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (23 bp):
GTGCTCTCTGTTTAGCACTTTGT
Found at i:32561679 original size:69 final size:69
Alignment explanation
Indices: 32561538--32561686 Score: 187
Period size: 69 Copynumber: 2.1 Consensus size: 69
32561528 AAATCTCGTG
* *
32561538 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTT
1 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATATGCTCTCTGATTAGTACTT
32561603 TGTGTA
64 TGTGTA
* *
32561609 CTCTCTGTTTAGCATTGTGTGTGCTCTCTGTTGTCTAGCAC-TTATATGCTCTCTG-TTAGTACT
1 CTCTCTGTTTAGCACTGTGTGTGCTCTCTG--AT-TAGCACTTTATATGCTCTCTGATTAGTACT
32561672 TTG-GTA
63 TTGTGTA
*
32561678 CTCTATGTT
1 CTCTCTGTT
32561687 CGTTCCATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
69 32 0.46
70 12 0.17
71 20 0.29
72 6 0.09
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.46
Consensus pattern (69 bp):
CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATATGCTCTCTGATTAGTACTTTG
TGTA
Found at i:32564021 original size:15 final size:14
Alignment explanation
Indices: 32563988--32564032 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
32563978 TTTAAAAAAC
32563988 TTTTTATATAATTT
1 TTTTTATATAATTT
*
32564002 TTTTTAAATAATTT
1 TTTTTATATAATTT
*
32564016 TATTTTTTATAATTT
1 T-TTTTATATAATTT
32564031 TT
1 TT
32564033 ATATAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTATATAATTT
Found at i:32575370 original size:60 final size:60
Alignment explanation
Indices: 32575304--32575422 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 60
32575294 CATTATGTTT
*
32575304 TCAATTATTATACA-TTTTTAATAATTAAAGGAGTTATCATAATTTCAAACTGAAATGCTA
1 TCAATTATTATACATTTTTTAATAATTAAAGAAGTTATCATAATTT-AAACTGAAATGCTA
* *
32575364 TCAATTATTATACATTTTTTAATAATTAAAGAAGTTATCATAATTTTAACTTAAATGCT
1 TCAATTATTATACATTTTTTAATAATTAAAGAAGTTATCATAATTTAAACTGAAATGCT
32575423 TAATAATATT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 25 0.45
61 30 0.55
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (60 bp):
TCAATTATTATACATTTTTTAATAATTAAAGAAGTTATCATAATTTAAACTGAAATGCTA
Found at i:32579202 original size:24 final size:22
Alignment explanation
Indices: 32579159--32579206 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
32579149 TTGAACAAAC
* *
32579159 TTTTTATTTTTTTAATATTTTAT
1 TTTTTATTTTTTAAAGA-TTTAT
32579182 TTTTGTATTTTTTAAAGATTTAT
1 TTTT-TATTTTTTAAAGATTTAT
32579205 TT
1 TT
32579207 AACAGAACCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTATTTTTTAAAGATTTAT
Found at i:32580220 original size:22 final size:22
Alignment explanation
Indices: 32580180--32580222 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32580170 ATTATAGTTT
*
32580180 AATTTTAAATGTAATAAAAATA
1 AATTTTAAATGTAAAAAAAATA
32580202 AATTTTAAA-GATAAAAAAAAT
1 AATTTTAAATG-TAAAAAAAAT
32580223 TAAAAGTTAA
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:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AATTTTAAATGTAAAAAAAATA
Found at i:32582554 original size:30 final size:30
Alignment explanation
Indices: 32582520--32582584 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
32582510 CAACTTAACA
*
32582520 AACAAATATCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
* *
32582550 AACAAATGCCTCTAAAATAATAATAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
32582580 AACAA
1 AACAA
32582585 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:32586362 original size:42 final size:42
Alignment explanation
Indices: 32586315--32586450 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 42
32586305 CACTGGATTC
32586315 TTTTAAATGCACAAGTACATGTAATTCAGCTAGGGAAAACAA
1 TTTTAAATGCACAAGTACATGTAATTCAGCTAGGGAAAACAA
* * * * * * ** * **
32586357 TTTTAAATGTGAATAAATACATATATTTATAGAC-ACTGTATTC--
1 TTTTAAA--TGCACAAGTACATGTAATT-CAG-CTAGGGAAAACAA
*
32586400 TTTTAAATGCACAAGTACATGCAATTCAGCTAGGGAAAACAA
1 TTTTAAATGCACAAGTACATGTAATTCAGCTAGGGAAAACAA
32586442 TTTTAAATG
1 TTTTAAATG
32586451 TGAATATGTA
Statistics
Matches: 64, Mismatches: 23, Indels: 14
0.63 0.23 0.14
Matches are distributed among these distances:
39 1 0.02
40 6 0.09
41 13 0.20
42 16 0.25
43 7 0.11
44 14 0.22
45 6 0.09
46 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (42 bp):
TTTTAAATGCACAAGTACATGTAATTCAGCTAGGGAAAACAA
Found at i:32586444 original size:85 final size:85
Alignment explanation
Indices: 32586301--32586456 Score: 294
Period size: 85 Copynumber: 1.8 Consensus size: 85
32586291 TTTACAGCTG
*
32586301 TAGACACTGGATTCTTTTAAATGCACAAGTACATGTAATTCAGCTAGGGAAAACAATTTTAAATG
1 TAGACACTGGATTCTTTTAAATGCACAAGTACATGCAATTCAGCTAGGGAAAACAATTTTAAATG
32586366 TGAATAAATACATATATTTA
66 TGAATAAATACATATATTTA
*
32586386 TAGACACTGTATTCTTTTAAATGCACAAGTACATGCAATTCAGCTAGGGAAAACAATTTTAAATG
1 TAGACACTGGATTCTTTTAAATGCACAAGTACATGCAATTCAGCTAGGGAAAACAATTTTAAATG
32586451 TGAATA
66 TGAATA
32586457 TGTATATACA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (85 bp):
TAGACACTGGATTCTTTTAAATGCACAAGTACATGCAATTCAGCTAGGGAAAACAATTTTAAATG
TGAATAAATACATATATTTA
Found at i:32587409 original size:30 final size:29
Alignment explanation
Indices: 32587369--32587456 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 29
32587359 TATGGATCAA
* *
32587369 AGGGACAAACCACGAAGAAGCACCGATACC
1 AGGGAGAAACCAAGAA-AAGCACCGATACC
32587399 AGGGAGAAACCAAGGAAAAGCACCGATACC
1 AGGGAGAAACCAA-GAAAAGCACCGATACC
* *
32587429 AGGGAGAAACCGAGAAAAAGCACTGATA
1 AGGGAGAAACCAAG-AAAAGCACCGATA
32587457 GACCCCCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 48 0.92
31 3 0.06
ACGTcount: A:0.47, C:0.23, G:0.26, T:0.05
Consensus pattern (29 bp):
AGGGAGAAACCAAGAAAAGCACCGATACC
Found at i:32589805 original size:21 final size:22
Alignment explanation
Indices: 32589780--32589826 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
32589770 ACATTTATTT
*
32589780 ATAATTAATA-TAAAAATAATA
1 ATAATTAAAATTAAAAATAATA
*
32589801 ATAA-TAAAATTAAAAATTATA
1 ATAATTAAAATTAAAAATAATA
32589822 ATAAT
1 ATAAT
32589827 ATTATAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAATTAAAATTAAAAATAATA
Found at i:32600539 original size:19 final size:22
Alignment explanation
Indices: 32600503--32600546 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
32600493 TTAATAATAA
*
32600503 TTAAATAAATAATCTAAA-ATT
1 TTAAATAAATAATATAAACATT
32600524 TTAAA-AAAT-ATATAAACATT
1 TTAAATAAATAATATAAACATT
32600544 TTA
1 TTA
32600547 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAATAAATAATATAAACATT
Found at i:32600796 original size:31 final size:31
Alignment explanation
Indices: 32600732--32600799 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
32600722 TTTGACAGAA
* * *
32600732 ACCAAATTCAAAAACTAAAATAGATATAGTT
1 ACCAAATTCAAAAACCAAAATAAATATAATT
*
32600763 ACCAGATTCAAAAACCAAAATAAACT-TAATT
1 ACCAAATTCAAAAACCAAAATAAA-TATAATT
32600794 ACCAAA
1 ACCAAA
32600800 GTTTAGGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (31 bp):
ACCAAATTCAAAAACCAAAATAAATATAATT
Found at i:32605322 original size:57 final size:59
Alignment explanation
Indices: 32605211--32605374 Score: 206
Period size: 58 Copynumber: 2.8 Consensus size: 59
32605201 GAAGCCAATT
* * *
32605211 TTAGGTACCAAATTGAACCTTAAAGTCAAATTTAGGTACCTAATCGGAC-AAAAAAAA-C
1 TTAGGTACCAAATTGAACCTT-AAGCCAAGTTTAGGTACCTAATTGGACAAAAAAAAAGC
* * *
32605269 TTAGGTACTAAATTGAACCTTGAGCCAAGTTTCGGTACCTAATTGGACAAAAAAAAAGGC
1 TTAGGTACCAAATTGAACCTTAAGCCAAGTTTAGGTACCTAATTGGACAAAAAAAAA-GC
* * *
32605329 TTAGGCACCAAATTGAACATTAAGGCCAAGTTTAGGTACCAAATTG
1 TTAGGTACCAAATTGAACCTTAA-GCCAAGTTTAGGTACCTAATTG
32605375 AACTATAAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 22 0.24
58 28 0.31
60 20 0.22
61 20 0.22
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (59 bp):
TTAGGTACCAAATTGAACCTTAAGCCAAGTTTAGGTACCTAATTGGACAAAAAAAAAGC
Found at i:32605390 original size:31 final size:30
Alignment explanation
Indices: 32605210--32605402 Score: 115
Period size: 31 Copynumber: 6.4 Consensus size: 30
32605200 TGAAGCCAAT
* * *
32605210 TTTAGGTACCAAATTGAACCTTAAAGTCAAA
1 TTTAGGTACCAAATTGAA-CATAAAGACAAG
* * * *
32605241 TTTAGGTACCTAATCGGACA-AAA-A-AAA
1 TTTAGGTACCAAATTGAACATAAAGACAAG
* * * ** *
32605268 CTTAGGTACTAAATTGAACCTTGAGCCAAG
1 TTTAGGTACCAAATTGAACATAAAGACAAG
* * * * *
32605298 TTTCGGTACCTAATTGGACA-AAAAAAAAGG
1 TTTAGGTACCAAATTGAACATAAAGACAA-G
* * * *
32605328 CTTAGGCACCAAATTGAACATTAAGGCCAAG
1 TTTAGGTACCAAATTGAACA-TAAAGACAAG
32605359 TTTAGGTACCAAATTGAACTATAAAGACAAG
1 TTTAGGTACCAAATTGAAC-ATAAAGACAAG
*
32605390 TTGAGGTACCAAA
1 TTTAGGTACCAAA
32605403 AATATATACC
Statistics
Matches: 115, Mismatches: 40, Indels: 14
0.68 0.24 0.08
Matches are distributed among these distances:
27 17 0.15
28 1 0.01
29 6 0.05
30 33 0.29
31 53 0.46
32 5 0.04
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (30 bp):
TTTAGGTACCAAATTGAACATAAAGACAAG
Found at i:32606207 original size:67 final size:66
Alignment explanation
Indices: 32606091--32606224 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 66
32606081 GTTAAGAATC
* * *
32606091 ACCTTTGAATCTAATCGGTAAAATTATACCTCGTTTATTACTTTATTTTCTTTTAAGAAATTATT
1 ACCTTTGAATCTAATCAGTAAAATTATACCTCGTTTATTACATCATTTTC-TTTAAGAAATTATT
32606156 AA
65 AA
* * * *
32606158 ACCTTTGAATCTAATTAGTAAAATTATACGTCGTTTATTTCATCCTTTTCTTTAAGAAATTATTA
1 ACCTTTGAATCTAATCAGTAAAATTATACCTCGTTTATTACATCATTTTCTTTAAGAAATTATTA
32606223 A
66 A
32606224 A
1 A
32606225 ATATTTTTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
66 17 0.28
67 43 0.72
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (66 bp):
ACCTTTGAATCTAATCAGTAAAATTATACCTCGTTTATTACATCATTTTCTTTAAGAAATTATTA
A
Found at i:32613399 original size:20 final size:20
Alignment explanation
Indices: 32613361--32613403 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
32613351 ATTCAGATTT
32613361 AAAAAATATTTAATTTCATCA
1 AAAAAATATTTAA-TTCATCA
32613382 AAAAAATTATTTAA-TCATCA
1 AAAAAA-TATTTAATTCATCA
32613402 AA
1 AA
32613404 GTTATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATATTTAATTCATCA
Found at i:32614792 original size:6 final size:6
Alignment explanation
Indices: 32614781--32614813 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
32614771 TTTAAATGAC
32614781 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCC
1 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCC
32614814 TCATTGCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCCA
Found at i:32624348 original size:59 final size:57
Alignment explanation
Indices: 32624223--32624396 Score: 181
Period size: 59 Copynumber: 2.9 Consensus size: 57
32624213 AAATTGAATT
* * * *
32624223 TTAAAAAAAATTTAGGTA-CTAAATTAGGAAAAAATTACAAGTTTAAGTACAAAATTGGA
1 TTAAAAAAAATTTAGGTATC-AAATTAAGAAAAAAGT-CAAGTTCAAGTTC-AAATTGGA
* *
32624282 TTTAAAAAAATTTAGGTATCAAATTAAGAAAAAAGCGTCAAGTTCAAGTGTCAAATTTGA
1 TTAAAAAAAATTTAGGTATCAAATTAAGAAAAAA--GTCAAGTTCAAGT-TCAAATTGGA
* *
32624342 -TAAAAAAAAGTTGAGGTATCAAATTAAAAAAAAATGTCAAGTTCAAGTATCAAAT
1 TTAAAAAAAA-TTTAGGTATCAAATTAAGAAAAAA-GTCAAGTTCAAGT-TCAAAT
32624397 ATTATATTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
59 57 0.58
60 40 0.40
61 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (57 bp):
TTAAAAAAAATTTAGGTATCAAATTAAGAAAAAAGTCAAGTTCAAGTTCAAATTGGA
Found at i:32624392 original size:31 final size:30
Alignment explanation
Indices: 32624297--32624396 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 30
32624287 AAAAATTTAG
*
32624297 GTATCAAATTAAGAAAAAAGCGTCAAGTTCAA
1 GTATCAAATTAA-AAAAAA-AGTCAAGTTCAA
* * * * *
32624329 GTGTCAAATTTGATAAAAAA---AAGTTGAG
1 GTATCAAA-TTAAAAAAAAAGTCAAGTTCAA
32624357 GTATCAAATTAAAAAAAAATGTCAAGTTCAA
1 GTATCAAATTAAAAAAAAA-GTCAAGTTCAA
32624388 GTATCAAAT
1 GTATCAAAT
32624397 ATTATATTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
27 9 0.17
28 13 0.25
31 15 0.29
32 12 0.23
33 3 0.06
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (30 bp):
GTATCAAATTAAAAAAAAAGTCAAGTTCAA
Found at i:32630156 original size:137 final size:135
Alignment explanation
Indices: 32629922--32630206 Score: 376
Period size: 137 Copynumber: 2.1 Consensus size: 135
32629912 TTGGCGAGTT
* * *
32629922 TTTATTGTATTTTACTGTTTTGTTTTCTCAGTTGCTTTTATTTTTTTAAACTGCTACTCAAGATT
1 TTTATTGCATTTTACTGTTTTGTTTTCTAAGTTGCTTTTATTTTTTTAAACTGCTAATCAAGATT
* ** * *
32629987 TGTTTAATTAATTGTTTATTTGAATTGAACTTAGTTCATCAGTTAACAGTGTAATACTTAGTCGA
66 TATTTAATTAATTGTTTATTCCAATTGAACTTAGGTCATCAGATAACAGTGTAATACTTAGTCGA
*
32630052 TGTGA
131 TATGA
* * * *
32630057 TTGTATTGCATTTTACT-TTTTTTTTTCTAATTTGCTTTTGATTGTTTTT-CACTGCTAATCCAG
1 TT-TATTGCATTTTACTGTTTTGTTTTCTAAGTTGCTTTT-ATT-TTTTTAAACTGCTAAT-CAA
* * *
32630120 GATTTATTTGATTAGTTGTTTATTCCAGTTGAACTTAGGTCATCAGATAACAGTGTAATACTTAG
62 GATTTATTTAATTAATTGTTTATTCCAATTGAACTTAGGTCATCAGATAACAGTGTAATACTTAG
32630185 TCGATATGA
127 TCGATATGA
32630194 TTTATTGCATTTT
1 TTTATTGCATTTT
32630207 GATTTTGATT
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
135 21 0.16
136 35 0.27
137 74 0.57
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (135 bp):
TTTATTGCATTTTACTGTTTTGTTTTCTAAGTTGCTTTTATTTTTTTAAACTGCTAATCAAGATT
TATTTAATTAATTGTTTATTCCAATTGAACTTAGGTCATCAGATAACAGTGTAATACTTAGTCGA
TATGA
Found at i:32630222 original size:117 final size:118
Alignment explanation
Indices: 32630087--32630324 Score: 313
Period size: 117 Copynumber: 2.0 Consensus size: 118
32630077 TTTTTTCTAA
* * * * *
32630087 TTTGCTTTTGATTGTTTTTCA-CTGCTAATCCAGGATTTATTTGATTAGTTGTTTATTCCAGTTG
1 TTTGATTTTGATTGTTTTTCATCTGCTAAT-CAAGATTTATTTAATTAGTTGTTTATTCAAATTG
* * *
32630151 AACTTAGGTCAT-CAGATAACAGTGTAATACTTAGTCGA-TATGATT-TATTGCAT
65 AACATAGGTCATCCA-AAAACAGTGTAATACTTAGTCGACGA-GATTGTATTGCAT
* * *
32630204 TTTGATTTTGATTTTTTTTGATCTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGA
1 TTTGATTTTGATTGTTTTTCATCTGCTAATCAAGATTTATTTAATTAGTTGTTTATTCAAATTGA
*
32630269 ACATAGTTCATCCAAAAACAGTGTAATACTTAGTCGACGAGATTGTATTGCAT
66 ACATAGGTCATCCAAAAACAGTGTAATACTTAGTCGACGAGATTGTATTGCAT
32630322 TTT
1 TTT
32630325 ACTGGTTTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
117 83 0.79
118 22 0.21
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (118 bp):
TTTGATTTTGATTGTTTTTCATCTGCTAATCAAGATTTATTTAATTAGTTGTTTATTCAAATTGA
ACATAGGTCATCCAAAAACAGTGTAATACTTAGTCGACGAGATTGTATTGCAT
Found at i:32630486 original size:254 final size:251
Alignment explanation
Indices: 32629971--32630682 Score: 876
Period size: 254 Copynumber: 2.8 Consensus size: 251
32629961 ATTTTTTTAA
* * * ** * **
32629971 ACTGCTACTCAAGATTTGTTTAATTAATTGTTTATTTGAATTGAACTTAGTTCAT-CAGTTAACA
1 ACTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGAACATAGTTCATCCA-AAAACA
* * ** * *** *
32630035 GTGTAATACTTAGTCGATGTGATTGTATTGCATTTTACTTTTTTTTTTCTAATTTGCTTTTGATT
65 GTGTAATACTTAGTCGACGAGATTGTATTGCATTTTAC--TGGTTTCTCTCCGTTGCTTTTGA-A
* * * * * * *
32630100 GTTTTTCACTGCTAATCCAGGATTTATTTGATTAGTTGTTTATTCCAGTTGAACTTAGGTCATCA
127 GTTTTTTACTGCTAAT-CAAGATTTCTTTAATTAATTGTTTATTCCAATTGAACTTAGGTCAACA
* * *
32630165 GATAACAGTGTAATACTTAGTCGATATGATTTATTGCATTTTGATTTTGATTTTTTTTGAT
191 GAAAACAGTGTAATACTTAGTCGATATGATTAATTGCATTTTGATTTTGATTCTTTTTGAT
32630226 -CTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGAACATAGTTCATCCAAAAACAG
1 ACTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGAACATAGTTCATCCAAAAACAG
32630290 TGTAATACTTAGTCGACGAGATTGTATTGCATTTTACTGGTTTCTCTCCGTTGCTTTTGAAGTTC
66 TGTAATACTTAGTCGACGAGATTGTATTGCATTTTACTGGTTTCTCTCCGTTGCTTTTGAAGTT-
* * * * *
32630355 TTTTACTGCTAATCGAGATTTCTTCAATTACTTGTTTATTCCAATTGACCTTAGTTCAACAGAAA
130 TTTTACTGCTAATCAAGATTTCTTTAATTAATTGTTTATTCCAATTGAACTTAGGTCAACAGAAA
* *
32630420 ACAGTGTAATACTTAGTC-ATATGTGATTAATTGCATTTTGCTTTTGATTCTTTTTGTT
195 ACAGTGTAATACTTAGTCGATA--TGATTAATTGCATTTTGATTTTGATTCTTTTTGAT
* * *
32630478 CACTGCTAATCAAGATTTCTTTAATTAGTTATTTATTCAAGTTGAGCATAGTTCATCCAAAAACA
1 -ACTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGAACATAGTTCATCCAAAAACA
* *
32630543 GTGTAATACTTAGTTGACGAGATTGTATTGCATTTTACTGGTTTCTCTCCGTTGCTTTTAAAGTT
65 GTGTAATACTTAGTCGACGAGATTGTATTGCATTTTACTGGTTTCTCTCCGTTGCTTTTGAAG--
* * *
32630608 TTTTTTTCACTGCTCATCAAGATTTCTTTAATTAATTGTTTATTCCAATTAAACAT-GGTTCATA
128 -TTTTTT-ACTGCTAATCAAGATTTCTTTAATTAATTGTTTATTCCAATTGAACTTAGG-TCA-A
32630672 C-GAAAACAGTG
189 CAGAAAACAGTG
32630683 CAAACTAAGA
Statistics
Matches: 399, Mismatches: 46, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
250 3 0.01
251 62 0.16
252 60 0.15
254 209 0.52
255 2 0.01
256 5 0.01
257 56 0.14
258 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (251 bp):
ACTGCTAATCAAGATTTCTTTAATTAGTTGTTTATTCAAATTGAACATAGTTCATCCAAAAACAG
TGTAATACTTAGTCGACGAGATTGTATTGCATTTTACTGGTTTCTCTCCGTTGCTTTTGAAGTTT
TTTACTGCTAATCAAGATTTCTTTAATTAATTGTTTATTCCAATTGAACTTAGGTCAACAGAAAA
CAGTGTAATACTTAGTCGATATGATTAATTGCATTTTGATTTTGATTCTTTTTGAT
Found at i:32630573 original size:120 final size:119
Alignment explanation
Indices: 32630359--32630578 Score: 284
Period size: 120 Copynumber: 1.8 Consensus size: 119
32630349 AAGTTCTTTT
* * *
32630359 ACTGCTAATCGAGATTTCTTCAATTACTTGTTTATTCCAATTGACCTTAGTTCAACAGAAAACAG
1 ACTGCTAATCAAGATTTCTTCAATTACTTATTTATTCCAATTGACCATAGTTCAACAGAAAACAG
* *
32630424 TGTAATACTTAGTCATATGTGATTAATTGCATTTTGCTTTTGATTCTTTTTGTTC
66 TGTAATACTTAGT-ATACGAGATTAATTGCATTTTGCTTTTGATTCTTTTTGTTC
* * * *
32630479 ACTGCTAATCAAGATTTCTTTAATTAGTTATTTATT-CAAGTTGAGCATAGTTCATCCA-AAAAC
1 ACTGCTAATCAAGATTTCTTCAATTACTTATTTATTCCAA-TTGACCATAGTTCA-ACAGAAAAC
*
32630542 AGTGTAATACTTAGT-TGACGAGATTGTATTGCATTTT
64 AGTGTAATACTTAGTAT-ACGAGATT-AATTGCATTTT
32630579 ACTGGTTTCT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
118 1 0.01
119 9 0.10
120 74 0.86
121 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (119 bp):
ACTGCTAATCAAGATTTCTTCAATTACTTATTTATTCCAATTGACCATAGTTCAACAGAAAACAG
TGTAATACTTAGTATACGAGATTAATTGCATTTTGCTTTTGATTCTTTTTGTTC
Found at i:32641360 original size:24 final size:23
Alignment explanation
Indices: 32641311--32641360 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
32641301 TAAAATAGGT
* *
32641311 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
32641334 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
32641358 TAT
1 TAT
32641361 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:32641424 original size:59 final size:60
Alignment explanation
Indices: 32641334--32641499 Score: 207
Period size: 59 Copynumber: 2.8 Consensus size: 60
32641324 TCTAATATTA
* * *
32641334 TATATTATGATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATATTTTAATAATAATTATATTAAAAATATAATTAAAT
* * *
32641395 TATATATTA-TTTTATTAAATTGTATTTTAATAATAATCATGTT-AAAATATAATTAAAT
1 TATATATTATTTTTATTAAATTATATTTTAATAATAATTATATTAAAAATATAATTAAAT
*
32641453 TATTTATTATTTTTATTAAATTATA-TTTAATAATAATCT-TATTAAAA
1 TATATATTATTTTTATTAAATTATATTTTAATAATAAT-TATATTAAAA
32641500 TTTAATAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
58 37 0.41
59 42 0.46
60 8 0.09
61 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (60 bp):
TATATATTATTTTTATTAAATTATATTTTAATAATAATTATATTAAAAATATAATTAAAT
Found at i:32641500 original size:58 final size:59
Alignment explanation
Indices: 32641338--32641505 Score: 209
Period size: 58 Copynumber: 2.9 Consensus size: 59
32641328 ATATTATATA
* * *
32641338 TTATGATTTTTACT-AATTCATATTTTAATAATAAT-TATATTAAAAATATTATTAAATTAT
1 TTATTATTTTTATTAAATT-ATATTTTAATAATAATCT-TATT-AAAATATAATTAAATTAT
* * * *
32641398 ATATTA-TTTTATTAAATTGTATTTTAATAATAATCATGTTAAAATATAATTAAATTAT
1 TTATTATTTTTATTAAATTATATTTTAATAATAATCTTATTAAAATATAATTAAATTAT
*
32641456 TTATTATTTTTATTAAATTATA-TTTAATAATAATCTTATTAAAATTTAAT
1 TTATTATTTTTATTAAATTATATTTTAATAATAATCTTATTAAAATATAAT
32641506 AACAATAATC
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
58 47 0.51
59 38 0.41
60 8 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
TTATTATTTTTATTAAATTATATTTTAATAATAATCTTATTAAAATATAATTAAATTAT
Found at i:32641681 original size:16 final size:16
Alignment explanation
Indices: 32641660--32641699 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
32641650 TGAATTACTG
32641660 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
*
32641676 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
32641692 ATTACAGC
1 ATTACAGC
32641700 GAACCAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:32642807 original size:14 final size:14
Alignment explanation
Indices: 32642773--32642820 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
32642763 GAATTATTAT
*
32642773 TTTTG-AAAAGTGC
1 TTTTGAAAAAGTGA
32642786 TTTT-AAAAAGT-A
1 TTTTGAAAAAGTGA
*
32642798 TTTTGAAAAATTGA
1 TTTTGAAAAAGTGA
32642812 TTTTGAAAA
1 TTTTGAAAA
32642821 TTACTTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 4 0.13
13 16 0.53
14 10 0.33
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (14 bp):
TTTTGAAAAAGTGA
Found at i:32642821 original size:13 final size:12
Alignment explanation
Indices: 32642773--32642833 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
32642763 GAATTATTAT
*
32642773 TTTTGAAAAGTGC
1 TTTTGAAAAGT-A
*
32642786 TTTTAAAAAGTA
1 TTTTGAAAAGTA
*
32642798 TTTTGAAAAATTGA
1 TTTTG-AAAAGT-A
*
32642812 TTTTGAAAATTA
1 TTTTGAAAAGTA
32642824 CTTTTGAAAA
1 -TTTTGAAAA
32642834 ACTTGATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.12
13 30 0.73
14 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (12 bp):
TTTTGAAAAGTA
Found at i:32642834 original size:14 final size:13
Alignment explanation
Indices: 32642786--32642834 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
32642776 TGAAAAGTGC
*
32642786 TTTT-AAAAAGTA
1 TTTTGAAAAATTA
32642798 TTTTGAAAAATTGA
1 TTTTGAAAAATT-A
32642812 TTTTG-AAAATTA
1 TTTTGAAAAATTA
32642824 CTTTTGAAAAA
1 -TTTTGAAAAA
32642835 CTTGATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.16
13 17 0.53
14 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAATTA
Found at i:32646235 original size:10 final size:10
Alignment explanation
Indices: 32646215--32646305 Score: 69
Period size: 10 Copynumber: 9.3 Consensus size: 10
32646205 GAATTATTAC
*
32646215 AAAATAATAA
1 AAAATTATAA
*
32646225 AAAATTGTAA
1 AAAATTATAA
32646235 AAAATTAT-A
1 AAAATTATAA
* *
32646244 AAAATAATTA
1 AAAATTATAA
* *
32646254 AAAA-CATTA
1 AAAATTATAA
* *
32646263 AAACTTATAT
1 AAAATTATAA
* *
32646273 AAACTGATAA
1 AAAATTATAA
32646283 AAAATTATAA
1 AAAATTATAA
*
32646293 AAAATCATAA
1 AAAATTATAA
32646303 AAA
1 AAA
32646306 CTTCAATTGG
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
9 15 0.23
10 50 0.77
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:32649014 original size:270 final size:265
Alignment explanation
Indices: 32648389--32649978 Score: 1265
Period size: 266 Copynumber: 6.0 Consensus size: 265
32648379 CTTGATGGCT
* * *
32648389 ATGGAGGAGAGTTCAATCCTCTTGGTAAGTTTTAGTGAACTATTGATTGTGTTTCCTCTGTTTCT
1 ATGGAGGGGAGTTCAATCCTCTTGGTGAG-TTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCT
* * * * * * * *
32648454 TAGCAAGCTATATGTGAAATA-TTTTGTATGGACTCTGCATGTGTAAGTAATACTTCATATAAGA
65 TCGCTAGCTGTATGTGAAATACTTGTGT-T-GACTCTGCATATGTAAGTAGTAC-CCATATAGGA
* * *
32648518 TTAACCCATTGGTGTGATTGACTTGTTTGAGCAAAGCAA-AACCTTAATAGACTAGGACCAGCT-
127 TTAA--CATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAA--TTAGTAGACTA-GA-CA-CTA
* * * * * * **
32648581 GGTGCTTGAGTTTTACTTCTTCTTGAAAGGTGTCAATGG-CGCCTTTAAGAGGTTTTAATTATTA
185 GGTGCTTGAATTTGACTTCTTGTTGAACGGTGTCAATGGAC-CTTTTAAGGGGTTTTAATTATCG
*** *
32648645 GTTAGCACAATGTGTTA
249 GTTAGCATTGTGTGTCA
* * * *
32648662 ATGGAGGGGAGTTCAGTCCTCTTGGTGAGTTCAGTGAATTATTAATCGTGTTTCCTCTGTTTCTT
1 ATGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCTT
* ** * * *
32648727 CACTAGCTGCGTGTGAAATACTTG-GTGTGACTCTGTATATGTAAGCAGTAACCCATATAGTATT
66 CGCTAGCTGTATGTGAAATACTTGTGT-TGACTCTGCATATGTAAGTAGT-ACCCATATAGGATT
* * *
32648791 AACCCATTGATGTGATTGACCAGTTTGAGCAAAGGAAAAACTTAGTAGACTAGGACCACTAGGTG
129 AA--CATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAA-TTAGTAGACTA-GA-CACTAGGTG
* *
32648856 CTTGAATTTGACTTATTCTTGAACGGTG-C-ATGGTACCTTTTAAGGGGTTTTAATTATCGGTTA
189 CTTGAATTTGACTTCTTGTTGAACGGTGTCAATGG-ACCTTTTAAGGGGTTTTAATTATCGGTTA
*
32648919 GCATTTTGTGTCA
253 GCATTGTGTGTCA
* *
32648932 ATGGAGGGTAGTTCAATCCTCTTGGTGTGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTC-T
1 ATGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCTT
* * * *
32648996 CTGCTAGTTGTGTGTGAAATAC-TGTGTTGACTCTGCATGTCTAAGTAGT--CCATATAGGA-TA
66 C-GCTAGCTGTATGTGAAATACTTGTGTTGACTCTGCATATGTAAGTAGTACCCATATAGGATTA
* * * *
32649057 ATTTGGCATTTTGGTGTGAGTGACTAGTTTGAGCAATGGAAGAATT--T-GACCTTATAGACTAG
130 A-----CA--TTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAATTAGTAGA-C-TAGACACTAG
* * * * * *
32649119 GTGCTCGAATTTGACTTCTTGTTGAGCGGTGTCAATGGGGCTTTTTAAGGGTTTTTGATTAT-GG
186 GTGCTTGAATTTGACTTCTTGTTGAACGGTGTCAAT-GGACCTTTTAAGGGGTTTTAATTATCGG
* *
32649183 CTTTGCGTTGTGTGTCA
250 -TTAGCATTGTGTGTCA
* * *
32649200 ATGGAGGGGAGTTAAATCATCTTGGTGAGTTTAGTGAACTGTTAATTGTGTTTCCTCTGTTTCTT
1 ATGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCTT
* * * * * * * * **
32649265 CCCTAACTGAATGGGAAATACGTTCTGTTGGCTTTGCATATGGT-AGTAGCTGCTTATATAGGA-
66 CGCTAGCTGTATGTGAAATAC-TTGTGTTGACTCTGCATAT-GTAAGTAG-TACCCATATAGGAT
* * * * *
32649328 T-ACTTTGATGAGATTGACTAGTTTGAGAAAAGGAAGAATTAACTCA-A-TAG--ACT-GGATGC
128 TAACATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAATT-AGT-AGACTAGACACTAGG-TGC
* * * * * ** *
32649387 TTAAATTTGACTTATTGTTGAGCAGTGTCAAAGGAGCCTTTTAAGGGGGTTTTTGTTATCAGTTA
190 TTGAATTTGACTTCTTGTTGAACGGTGTCAATGGA-CCTTTTAA-GGGGTTTTAATTATCGGTTA
32649452 GCATTGTGTGTCA
253 GCATTGTGTGTCA
* * *
32649465 ATTGGAGGAGAGTTCAATCCTCTTGGTGAGTTTTGTGAACT-TGTAATTGTGTTTCCTTTGTTTC
1 A-TGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTAT-TAATTGTGTTTCCTCTGTTTC
* * * * * *
32649529 TTTGCTAACTATATGTGAAATACTTTGTGTTGACTCTGCATATTTAAGTTGTACCCCATGTAGGA
64 TTCGCTAGCTGTATGTGAAATAC-TTGTGTTGACTCTGCATATGTAAGTAGTA-CCCATATAGGA
* *** * *
32649594 -TAACATTGGTGAGATTGACTAGTTTGAGCAAAGGAAGAATT-G-ACTTTAGAGACTAGTTGCTT
127 TTAACATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAATTAGTAGACTAGACACTAGGTGCTT
*
32649656 GAATTTGACTTCTTGTTCAACGGTGTCAATGGAGCCTTTTAAGGGG-TTTAAGTTATCGGTTAGC
192 GAATTTGACTTCTTGTTGAACGGTGTCAATGGA-CCTTTTAAGGGGTTTTAA-TTATCGGTTAGC
* *
32649720 GTCGTGTGTCA
255 ATTGTGTGTCA
* * * * *
32649731 ATGGAGGGGAGTT-AAACCTCTTGGTGAATTTAGTTAACTATTGATTGTTTTTCCTCTGTTTCTT
1 ATGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCTT
* * * *
32649795 ---T-GC--T-TGTGAAATAC-TGTGTTGGCTCTGCATATGTAACTAGTAGCCATAT-GGA-CAA
66 CGCTAGCTGTATGTGAAATACTTGTGTTGACTCTGCATATGTAAGTAGTACCCATATAGGATTAA
* * * * * * * * **
32649850 CATCGGTGAGATTGACTGGTTTGA-CGATGGAAGAATTTACTTGA-TAG--ACTAGGTGCGTGTG
131 CATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAA-TTAGTAGACTAGACACTAGGTGCTTGAA
** * * * *
32649911 TTTGACTTCTTCCTGAATGGTGTCAATGGGGCCTTTTAAGGGGCTTTAGTTATCGGTTAGC--TG
195 TTTGACTTCTTGTTGAACGGTGTCAAT-GGACCTTTTAAGGGGTTTTAATTATCGGTTAGCATTG
32649974 TGTGT
259 TGTGT
32649979 AGTGAGGCTA
Statistics
Matches: 1082, Mismatches: 183, Indels: 127
0.78 0.13 0.09
Matches are distributed among these distances:
250 6 0.01
252 66 0.06
253 35 0.03
254 8 0.01
255 24 0.02
257 10 0.01
258 1 0.00
260 1 0.00
261 1 0.00
263 5 0.00
264 82 0.08
265 81 0.07
266 173 0.16
267 87 0.08
268 112 0.10
269 33 0.03
270 159 0.15
271 107 0.10
272 54 0.05
273 37 0.03
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (265 bp):
ATGGAGGGGAGTTCAATCCTCTTGGTGAGTTTAGTGAACTATTAATTGTGTTTCCTCTGTTTCTT
CGCTAGCTGTATGTGAAATACTTGTGTTGACTCTGCATATGTAAGTAGTACCCATATAGGATTAA
CATTGGTGTGATTGACTAGTTTGAGCAAAGGAAGAATTAGTAGACTAGACACTAGGTGCTTGAAT
TTGACTTCTTGTTGAACGGTGTCAATGGACCTTTTAAGGGGTTTTAATTATCGGTTAGCATTGTG
TGTCA
Found at i:32667469 original size:19 final size:19
Alignment explanation
Indices: 32667435--32667471 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32667425 TATTATCAAA
**
32667435 TTATATTATTGCTTTTAAC
1 TTATATTATTAATTTTAAC
32667454 TTATATTATTAATTTTAA
1 TTATATTATTAATTTTAA
32667472 GCTTGATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATATTATTAATTTTAAC
Found at i:32671241 original size:32 final size:31
Alignment explanation
Indices: 32671144--32671241 Score: 160
Period size: 31 Copynumber: 3.1 Consensus size: 31
32671134 TTACAAAATG
*
32671144 GTCACTAAACTATTCAAAAGCTTTCATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
*
32671175 GTCACTAAATTATTCAAAAGTTTTCATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
*
32671206 GTCACTAAACTATTCAAAAGTTTTTTATTTAA
1 GTCACTAAACTATTCAAAAG-TTTTCATTTAA
32671238 GTCA
1 GTCA
32671242 ATGGATTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 48 0.77
32 14 0.23
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:32671663 original size:3 final size:3
Alignment explanation
Indices: 32671655--32671684 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
32671645 TAATTTACCT
32671655 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32671685 AGTTTACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:32679006 original size:9 final size:10
Alignment explanation
Indices: 32678938--32679004 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
32678928 TTCTAAAAAC
*
32678938 TTTTATGAAC
1 TTTTATGAAA
*
32678948 TTTTTTGAAA
1 TTTTATGAAA
32678958 TTTGT-TGAAA
1 TTT-TATGAAA
**
32678968 TTTTA--ATT
1 TTTTATGAAA
*
32678976 TTTTATTAAA
1 TTTTATGAAA
*
32678986 TTTTTTGAAA
1 TTTTATGAAA
32678996 TTTTATGAA
1 TTTTATGAA
32679005 TTATACATGG
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 6 0.14
9 1 0.02
10 36 0.82
11 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (10 bp):
TTTTATGAAA
Found at i:32688287 original size:15 final size:15
Alignment explanation
Indices: 32688267--32688297 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32688257 TTATCTTCAA
32688267 ACACTGATGTAGTTG
1 ACACTGATGTAGTTG
*
32688282 ACACTGATGTATTTG
1 ACACTGATGTAGTTG
32688297 A
1 A
32688298 GTCAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (15 bp):
ACACTGATGTAGTTG
Found at i:32697720 original size:96 final size:96
Alignment explanation
Indices: 32697571--32697765 Score: 390
Period size: 96 Copynumber: 2.0 Consensus size: 96
32697561 ATGTGTGGGT
32697571 TTCGAATGTAGTCTTTATATTCTAATTTGATAATTTTAGTTTTTATATTTTTTTAATTTTGAATC
1 TTCGAATGTAGTCTTTATATTCTAATTTGATAATTTTAGTTTTTATATTTTTTTAATTTTGAATC
32697636 TTCAATTTTAACCTAAATGATAGTTGTTAAA
66 TTCAATTTTAACCTAAATGATAGTTGTTAAA
32697667 TTCGAATGTAGTCTTTATATTCTAATTTGATAATTTTAGTTTTTATATTTTTTTAATTTTGAATC
1 TTCGAATGTAGTCTTTATATTCTAATTTGATAATTTTAGTTTTTATATTTTTTTAATTTTGAATC
32697732 TTCAATTTTAACCTAAATGATAGTTGTTAAA
66 TTCAATTTTAACCTAAATGATAGTTGTTAAA
32697763 TTC
1 TTC
32697766 ATTAGATTAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (96 bp):
TTCGAATGTAGTCTTTATATTCTAATTTGATAATTTTAGTTTTTATATTTTTTTAATTTTGAATC
TTCAATTTTAACCTAAATGATAGTTGTTAAA
Found at i:32698561 original size:30 final size:30
Alignment explanation
Indices: 32698525--32698588 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
32698515 ACATTAGTGA
*
32698525 TTTTAA-TAACCTAATGACTAAAATGATAAC
1 TTTTAATTAACCTAATGACCAAAATG-TAAC
** *
32698555 TTTTAATTAATTTAATGACCAAATTGTAAC
1 TTTTAATTAACCTAATGACCAAAATGTAAC
32698585 TTTT
1 TTTT
32698589 TTAATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (30 bp):
TTTTAATTAACCTAATGACCAAAATGTAAC
Found at i:32699383 original size:6 final size:6
Alignment explanation
Indices: 32699372--32699397 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32699362 ACTTTATTCA
32699372 ACAGTT ACAGTT ACAGTT ACAGTT AC
1 ACAGTT ACAGTT ACAGTT ACAGTT AC
32699398 TAATAAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (6 bp):
ACAGTT
Found at i:32699605 original size:21 final size:21
Alignment explanation
Indices: 32699566--32699607 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32699556 CCCTTCTTTA
**
32699566 TCTTCTTCTTCTTCTTTTGAT
1 TCTTCTTCTTCTTAATTTGAT
*
32699587 TCTTCTTCTTGTTAATTTGAT
1 TCTTCTTCTTCTTAATTTGAT
32699608 AGTTTTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.19, G:0.07, T:0.64
Consensus pattern (21 bp):
TCTTCTTCTTCTTAATTTGAT
Found at i:32699661 original size:39 final size:39
Alignment explanation
Indices: 32699607--32699685 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
32699597 GTTAATTTGA
32699607 TAGTTTTTGATTGTTGGGTAATTGTTGAAATGATAGGTG
1 TAGTTTTTGATTGTTGGGTAATTGTTGAAATGATAGGTG
32699646 TAGTTTTTGATTGTTGGGTAATTGTTGAAATGATAGGTG
1 TAGTTTTTGATTGTTGGGTAATTGTTGAAATGATAGGTG
32699685 T
1 T
32699686 TTCAACTTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (39 bp):
TAGTTTTTGATTGTTGGGTAATTGTTGAAATGATAGGTG
Found at i:32700115 original size:130 final size:129
Alignment explanation
Indices: 32699899--32700211 Score: 425
Period size: 130 Copynumber: 2.4 Consensus size: 129
32699889 TTCTTATTGA
* ** * * * *
32699899 TTGATTTAGCTGTTCTTAATTCTTT--AAACTACAGTCTTTGCTTTCGTATTCTTTCAGTTCAAT
1 TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGATCAAT
*
32699962 TGAATTGGGTTTGTCTGTTTTTACTTTTTCTGTACTGTTTGATTCTTATTGATTGCCCCTTTTG
66 TGAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTGTTTGATTCTTATTGATTGCCCCTTTTG
32700026 TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGATCAAA
1 TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGATC-AA
* * *
32700091 TTTAAATGGGTTTGTCTGTTTTTACTTTTTTTGTACTGTTTGATTCTTATTGATTGCTCCTTTTG
65 TTGAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTGTTTGATTCTTATTGATTGCCCCTTTTG
* * * *
32700156 TTGATTTTACTGTTCTTAGCTATTGGCAAACTGCACAG-CATTTGCTTTTTGTGTTC
1 TTGATTTTGCTGTTCTTAGCTCTTTGCAAA-T-TACAGTC-TTTGC-TTTTGTGTTC
32700212 AAGTTAAATT
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
127 22 0.13
129 31 0.19
130 90 0.55
131 2 0.01
132 9 0.05
133 10 0.06
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.53
Consensus pattern (129 bp):
TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGATCAAT
TGAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTGTTTGATTCTTATTGATTGCCCCTTTTG
Found at i:32706517 original size:29 final size:29
Alignment explanation
Indices: 32706463--32706519 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
32706453 GTTTTCTCAT
**
32706463 TTTAATAATAATAAAAGTGATTATTTAAA
1 TTTAATAATAATAAAAGTGACAATTTAAA
*
32706492 TTTAATAATAA-AAAATTGACCAATTTAA
1 TTTAATAATAATAAAAGTGA-CAATTTAA
32706520 TAATAATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTAATAATAATAAAAGTGACAATTTAAA
Found at i:32711679 original size:103 final size:106
Alignment explanation
Indices: 32711477--32711683 Score: 269
Period size: 103 Copynumber: 2.0 Consensus size: 106
32711467 ATTTGGTATC
* ** *
32711477 AATTAGTTCTATTGTTAATTACTTGATCTTTGATTTTAGACATGGCTAGTTAGCTAGTTTAAGTC
1 AATTAGTTCTATTGTTAATTACTTGATCTATGATTTTAGACATGGC-AGTTAGCTAAATCAAGTC
* *
32711542 TATCTTTAACTGTGTGGGGTACCTACTAGATTAATATGTCTA
65 TATCTTTAACTGTGAGGAGTACCTACTAGATTAATATGTCTA
* *
32711584 AATTAGTTCTATTGTTGATTACTTGATCTATGA-TTTCGCACAT-G-A-TTAGCTAAATCAAGTC
1 AATTAGTTCTATTGTTAATTACTTGATCTATGATTTTAG-ACATGGCAGTTAGCTAAATCAAGTC
* * *
32711645 TATGTTTAACTGTGAGGATTTCCTACTAGATTAATATGT
65 TATCTTTAACTGTGAGGAGTACCTACTAGATTAATATGT
32711684 TGTATTTATG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
103 47 0.53
104 1 0.01
106 5 0.06
107 35 0.40
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (106 bp):
AATTAGTTCTATTGTTAATTACTTGATCTATGATTTTAGACATGGCAGTTAGCTAAATCAAGTCT
ATCTTTAACTGTGAGGAGTACCTACTAGATTAATATGTCTA
Found at i:32715109 original size:12 final size:12
Alignment explanation
Indices: 32715092--32715126 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32715082 ATAAAGTAAG
32715092 TGATTCTGATTA
1 TGATTCTGATTA
*
32715104 TGATTCTGATGA
1 TGATTCTGATTA
*
32715116 TGATTTTGATT
1 TGATTCTGATT
32715127 TCAGCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (12 bp):
TGATTCTGATTA
Found at i:32715738 original size:43 final size:43
Alignment explanation
Indices: 32715691--32715777 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
32715681 CTCTTTGAAT
*
32715691 TGTCATTTTCATTAAAGTCCTTGATGGACTTGTTAAGTGTTGA
1 TGTCATTTTCATCAAAGTCCTTGATGGACTTGTTAAGTGTTGA
32715734 TGTCATTTTCATCAAAGTCCTTGATGGACTTGTTAAGTGTTGA
1 TGTCATTTTCATCAAAGTCCTTGATGGACTTGTTAAGTGTTGA
32715777 T
1 T
32715778 ACGGTGGTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (43 bp):
TGTCATTTTCATCAAAGTCCTTGATGGACTTGTTAAGTGTTGA
Found at i:32715898 original size:33 final size:34
Alignment explanation
Indices: 32715852--32715932 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
32715842 GTTTATTTGG
*
32715852 TTTTTAATCATTTTACGAGAGTT-TAATTGA-TTT
1 TTTTTAATTATTTTACGAGAGTTGT-ATTGATTTT
* *
32715885 TTTTTAATTATTTTAGGAGGGTTGTATTGATTTT
1 TTTTTAATTATTTTACGAGAGTTGTATTGATTTT
32715919 TTTTTAAATTATTT
1 TTTTT-AATTATTT
32715933 AAGGATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 25 0.60
34 9 0.21
35 8 0.19
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (34 bp):
TTTTTAATTATTTTACGAGAGTTGTATTGATTTT
Found at i:32718992 original size:23 final size:25
Alignment explanation
Indices: 32718962--32719027 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
32718952 TTTAATAATT
*
32718962 TTATATTTAAAAAATAATTT-TAAA
1 TTATATTTAAAAAATAATTTAAAAA
*
32718986 TTA-ATTT-TAAAAT-ATTTAAAAAA
1 TTATATTTAAAAAATAATTT-AAAAA
32719009 TTATATTTAAAAAATAATT
1 TTATATTTAAAAAATAATT
32719028 ATTTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 10 0.29
24 7 0.21
25 5 0.15
26 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTATATTTAAAAAATAATTTAAAAA
Found at i:32719030 original size:15 final size:14
Alignment explanation
Indices: 32718996--32719031 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
32718986 TTAATTTTAA
32718996 AATATTTAAAAAAT
1 AATATTTAAAAAAT
*
32719010 TATATTTAAAAAAT
1 AATATTTAAAAAAT
32719024 AATTATTT
1 AA-TATTT
32719032 TTTTATTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTTAAAAAAT
Found at i:32720238 original size:24 final size:24
Alignment explanation
Indices: 32720196--32720257 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
32720186 AAAATGGTGT
*
32720196 CTAATTAAAA-TTTTTATGTGAGA
1 CTAATGAAAATTTTTTATGTGAGA
32720219 CTAATGAAAATTTTTTATGTGAGA
1 CTAATGAAAATTTTTTATGTGAGA
*
32720243 CTAATGAGAATTTTT
1 CTAATGAAAATTTTT
32720258 AAAAATTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 9 0.25
24 27 0.75
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (24 bp):
CTAATGAAAATTTTTTATGTGAGA
Found at i:32724034 original size:18 final size:18
Alignment explanation
Indices: 32724011--32724070 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
32724001 CAATAATATT
32724011 AAAATATATAAAATCATC
1 AAAATATATAAAATCATC
** *
32724029 AAAATATGCAATAAT-ATT
1 AAAATATATAA-AATCATC
* *
32724047 AAAAGATATAAAAACATC
1 AAAATATATAAAATCATC
32724065 AAAATA
1 AAAATA
32724071 AAGTTTTGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 3 0.10
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATATATAAAATCATC
Found at i:32724039 original size:36 final size:36
Alignment explanation
Indices: 32723999--32724070 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
32723989 AAATAATTTG
* *
32723999 TGCAATAATATTAAAATATATAAAATCATCAAAATA
1 TGCAATAATATTAAAAGATATAAAAACATCAAAATA
32724035 TGCAATAATATTAAAAGATATAAAAACATCAAAATA
1 TGCAATAATATTAAAAGATATAAAAACATCAAAATA
32724071 AAGTTTTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (36 bp):
TGCAATAATATTAAAAGATATAAAAACATCAAAATA
Found at i:32725688 original size:22 final size:21
Alignment explanation
Indices: 32725658--32725711 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
32725648 ATAGTTCTTG
*
32725658 TTAATAAATAATTTAAAAATT
1 TTAAAAAATAATTTAAAAATT
*
32725679 ATTAAAAAAT--TCATAAAAATT
1 -TTAAAAAATAAT-TTAAAAATT
32725700 TTAAAAAA-AATT
1 TTAAAAAATAATT
32725712 AGTATTGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAAATAATTTAAAAATT
Found at i:32725837 original size:25 final size:24
Alignment explanation
Indices: 32725809--32725872 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
32725799 CAACTCTTTT
* *
32725809 TAAAAAGTTAAAAATTAAATTTAAC
1 TAAAAAGATAAAAACTAAA-TTAAC
*
32725834 TAAAAAAAATAAAAACTAAATTAAC
1 T-AAAAAGATAAAAACTAAATTAAC
*
32725859 -AAAAAGATATAAAC
1 TAAAAAGATAAAAAC
32725873 ATTAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 12 0.36
25 6 0.18
26 15 0.45
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.23
Consensus pattern (24 bp):
TAAAAAGATAAAAACTAAATTAAC
Found at i:32726526 original size:2 final size:2
Alignment explanation
Indices: 32726519--32726546 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32726509 GTTGCAATAA
32726519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32726547 TATCGCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32729860 original size:14 final size:13
Alignment explanation
Indices: 32729824--32729850 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32729814 TTATGTTTTA
32729824 TATTTTTTAAAAT
1 TATTTTTTAAAAT
32729837 TATTTTTTAAAAT
1 TATTTTTTAAAAT
32729850 T
1 T
32729851 TTGATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTTTAAAAT
Found at i:32730434 original size:31 final size:31
Alignment explanation
Indices: 32730364--32730424 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
32730354 AAATAATTAT
32730364 TAAACTATTTAAAAGTTTTTAGTTAAGTCAC
1 TAAACTATTTAAAAGTTTTTAGTTAAGTCAC
*
32730395 TAAACTATTTGAAAA-TTTTTATTTAAGTCA
1 TAAACTATTT-AAAAGTTTTTAGTTAAGTCA
32730425 TTAGGCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (31 bp):
TAAACTATTTAAAAGTTTTTAGTTAAGTCAC
Found at i:32731966 original size:134 final size:134
Alignment explanation
Indices: 32731721--32731991 Score: 488
Period size: 134 Copynumber: 2.0 Consensus size: 134
32731711 AGGTATTGGT
*
32731721 TAAGAGAAAGGTTAAATCAATTAAAGCGGGAATCAATATAGACAGGTTGAGAAGGCTTTTCAATT
1 TAAGAGAAAGGTTAAATCAATTAAAGCGGGAATCAATATAGACAGGTTGAGAAGGCTTTTAAATT
* *
32731786 TTTTTTTCAAATTTTTAATAATTTTTTAATCGAACCGATTTGACTAACAATCTAGTGACTTGACT
66 TTTTTTTCAAATTTTTAATAATTTTTTAATCGAACCGATTTAACTAACAATCCAGTGACTTGACT
32731851 AGTC
131 AGTC
*
32731855 TAAGAGAAAGGTTAAATCAATTAAAGCGGGAATCAATATAGACGGGTTGAGAAGGCTTTTAAATT
1 TAAGAGAAAGGTTAAATCAATTAAAGCGGGAATCAATATAGACAGGTTGAGAAGGCTTTTAAATT
* *
32731920 TTTTTTTCAGATTTTTAATAATTTTTTAATCGAACCGATTTAACTAACAATCCAGTGATTTGACT
66 TTTTTTTCAAATTTTTAATAATTTTTTAATCGAACCGATTTAACTAACAATCCAGTGACTTGACT
32731985 AGTC
131 AGTC
32731989 TAA
1 TAA
32731992 TCACTGCTTC
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (134 bp):
TAAGAGAAAGGTTAAATCAATTAAAGCGGGAATCAATATAGACAGGTTGAGAAGGCTTTTAAATT
TTTTTTTCAAATTTTTAATAATTTTTTAATCGAACCGATTTAACTAACAATCCAGTGACTTGACT
AGTC
Found at i:32737364 original size:9 final size:9
Alignment explanation
Indices: 32737350--32737378 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32737340 TAAACTTTTA
32737350 AAAAATAAT
1 AAAAATAAT
32737359 AAAAATAAT
1 AAAAATAAT
32737368 AAAAAT-AT
1 AAAAATAAT
32737376 AAA
1 AAA
32737379 TTATTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:32738124 original size:17 final size:16
Alignment explanation
Indices: 32738084--32738115 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32738074 AAAAAGTCGT
*
32738084 TTAATTGATCAAATTA
1 TTAATTTATCAAATTA
32738100 TTAATTTATCAAATTA
1 TTAATTTATCAAATTA
32738116 ATTAGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
TTAATTTATCAAATTA
Found at i:32738306 original size:17 final size:18
Alignment explanation
Indices: 32738279--32738330 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
32738269 ATTTGTTCTC
32738279 ATTTA-ATAAAATATAAT
1 ATTTATATAAAATATAAT
*
32738296 -TTTATATAAAATGTAAT
1 ATTTATATAAAATATAAT
*
32738313 ATTT-TATTAAA-ATAAT
1 ATTTATATAAAATATAAT
32738329 AT
1 AT
32738331 CTTAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.33
17 17 0.57
18 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTTATATAAAATATAAT
Found at i:32738330 original size:16 final size:16
Alignment explanation
Indices: 32738280--32738342 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 16
32738270 TTTGTTCTCA
*
32738280 TTTAATAAAAT-ATAAT
1 TTTATTAAAATAAT-AT
32738296 TTTATATAAAATGTAATAT
1 TTTAT-TAAAA--TAATAT
32738315 TTTATTAAAATAATAT
1 TTTATTAAAATAATAT
*
32738331 CTTAATTAAAAT
1 -TTTATTAAAAT
32738343 TTATTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 10 0.25
17 15 0.38
18 5 0.12
19 8 0.20
20 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTATTAAAATAATAT
Found at i:32746064 original size:163 final size:161
Alignment explanation
Indices: 32745725--32746324 Score: 698
Period size: 163 Copynumber: 3.8 Consensus size: 161
32745715 CTCTTACTCC
** * * *
32745725 TCCTTTTCCTTTATCCCGTTCTCCTCATGAATGA-ATCTTACAGCTTTAACCGTCTTGAA-TGTA
1 TCCTTTTCCTTTATCCTTTTCTCCTCATGAATGATTTCTTACAGCTTTAACCATCATGAACTGT-
* * * *
32745788 AAAAATAAAACAATTATGTGATGCAAGCGGAAGTGATTGAATTGAACCAAGTTG-CTCTGAAGAC
65 AAAAATGAAACAATTATATGATACAAGCGGAAGTGATTGAATCGAACCAAGTTGACTCTGAAGAC
* *
32745852 GGTTAAAGTGTATCATGTTTTACATCTTTCTTT
130 GGTTAAAGTGTATCATGTCTT-CTTCTTTCTTT
*
32745885 TCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGATTTCTTACAGCTTTAACTATCATGAACTGT
1 TCCTTTTCCTTTATCC-TTTTCTCCTCATGAATGATTTCTTACAGCTTTAACCATCATGAACTGT
* * *
32745950 AAAAATGAAACAATTATATAATGCAAGCGGAAGTGATTGAATCAAACCAAGTTGAACTCTGAAGA
65 AAAAATGAAACAATTATATGATACAAGCGGAAGTGATTGAATCGAACCAAGTTG-ACTCTGAAGA
32746015 CGGTTAAA-TGTATCATGTCTTGCTTCTTTCTTT
129 CGGTTAAAGTGTATCATGTCTT-CTTCTTTCTTT
*
32746048 TCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCATGAACTGT
1 TCCTTTTCCTTTATCC-TTTTCTCCTCATGAATGATTTCTTACAGCTTTAACCATCATGAACTGT
* * * ** *
32746113 AAAAATG--A-AA-TATACGGTACAAGCGTACTTGATTGAACCGAACCAAGTTGA-TGCTGAAGA
65 AAAAATGAAACAATTATATGATACAAGCGGAAGTGATTGAATCGAACCAAGTTGACT-CTGAAGA
* *
32746173 CAGTTAAAGCGTATCA--TC-TCTTAC--T-TTT
129 CGGTTAAAGTGTATCATGTCTTCTT-CTTTCTTT
* *
32746201 T-CTTTTCCTTTATCCTTTTCTCCTCATGAATG-TATTCTTACAGCTTTTACCATCTTGAACTGT
1 TCCTTTTCCTTTATCCTTTTCTCCTCATGAATGAT-TTCTTACAGCTTTAACCATCATGAACTGT
* * * * * *
32746264 AAGAATGGAACAATTGTATGATACAAGCGGAAGAGATTGAA-C-CACCAAGTCGACTCTGAAG
65 AAAAATGAAACAATTATATGATACAAGCGGAAGTGATTGAATCGAACCAAGTTGACTCTGAAG
32746325 GCACGTCAAC
Statistics
Matches: 386, Mismatches: 40, Indels: 35
0.84 0.09 0.08
Matches are distributed among these distances:
151 50 0.13
152 14 0.04
153 20 0.05
154 5 0.01
155 23 0.06
156 2 0.01
157 3 0.01
158 15 0.04
159 37 0.10
160 18 0.05
161 17 0.04
162 70 0.18
163 95 0.25
164 17 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (161 bp):
TCCTTTTCCTTTATCCTTTTCTCCTCATGAATGATTTCTTACAGCTTTAACCATCATGAACTGTA
AAAATGAAACAATTATATGATACAAGCGGAAGTGATTGAATCGAACCAAGTTGACTCTGAAGACG
GTTAAAGTGTATCATGTCTTCTTCTTTCTTT
Found at i:32746293 original size:314 final size:316
Alignment explanation
Indices: 32745725--32746324 Score: 761
Period size: 314 Copynumber: 1.9 Consensus size: 316
32745715 CTCTTACTCC
* *
32745725 TCCTTTTCCTTTATCCCGTTCTCCTCATGAATGAATCTTACAGCTTTAACCGTCTTGAATGTAAA
1 TCCTTTTCCTTTATCCCGTTCTCCTCATGAATGAATCTTACAGCTTTAACCATCATGAATGTAAA
* * ** * *
32745790 AAATAAAACAATTATGTGATGCAAGCGGAAGTGATTGAATTGAACCAAGTTGCTCTGAAGACGGT
66 AAATAAAACAATTACGTGATACAAGCGGAAGTGATTGAACCGAACCAAGTTGATCTGAAGACAGT
* *
32745855 TAAAGTGTATCATGTTTTACATCTTTCTTTTCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGA
131 TAAAGCGTATCA----TTACATCTTACTTTTCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGA
* * *
32745920 TTTCTTACAGCTTTAACTATCATGAACTGTAAAAATGAAACAATTATATAATGCAAGCGGAAGTG
192 TTTCTTACAGCTTTAACCATCATGAACTGTAAAAATGAAACAATTATATAATACAAGCGGAAGAG
*
32745985 ATTGAATCAAACCAAGTTGAACTCTGAAGACGGTTAAATGTATCATGTCTTGCTTCTTTCTTT
257 ATTGAA-C-AACCAAGTCG-ACTCTGAAGACGGTTAAATGTATCATGTCTTGCTTCTTTCTTT
**
32746048 TCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCATGAACTGT
1 TCCTTTTCCTTTATCC-CGTTCTCCTCATGAATGAA-TCTTACAGCTTTAACCATCATGAA-TGT
* * * **
32746113 -AAAAATGAAA-TA-TACG-G-TACAAGCGTACTTGATTGAACCGAACCAAGTTGATGCTGAAGA
63 AAAAAATAAAACAATTACGTGATACAAGCGGAAGTGATTGAACCGAACCAAGTTGAT-CTGAAGA
*
32746173 CAGTTAAAGCGTATCA-T-C-TCTTACTTTTTCTTTTCCTTTATCC-TTTTCTCCTCATGAATG-
127 CAGTTAAAGCGTATCATTACATCTTACTTTTCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGA
* * * * * *
32746233 TATTCTTACAGCTTTTACCATCTTGAACTGTAAGAATGGAACAATTGTATGATACAAGCGGAAGA
192 T-TTCTTACAGCTTTAACCATCATGAACTGTAAAAATGAAACAATTATATAATACAAGCGGAAGA
*
32746298 GATTGAACCACCAAGTCGACTCTGAAG
256 GATTGAACAACCAAGTCGACTCTGAAG
32746325 GCACGTCAAC
Statistics
Matches: 243, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
311 9 0.04
312 8 0.03
313 2 0.01
314 78 0.32
315 23 0.09
316 1 0.00
317 1 0.00
321 28 0.12
322 22 0.09
323 19 0.08
324 18 0.07
325 31 0.13
326 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (316 bp):
TCCTTTTCCTTTATCCCGTTCTCCTCATGAATGAATCTTACAGCTTTAACCATCATGAATGTAAA
AAATAAAACAATTACGTGATACAAGCGGAAGTGATTGAACCGAACCAAGTTGATCTGAAGACAGT
TAAAGCGTATCATTACATCTTACTTTTCCTTTTCCTTTATCCTTTTTCTCCTCATGAATGATTTC
TTACAGCTTTAACCATCATGAACTGTAAAAATGAAACAATTATATAATACAAGCGGAAGAGATTG
AACAACCAAGTCGACTCTGAAGACGGTTAAATGTATCATGTCTTGCTTCTTTCTTT
Found at i:32748578 original size:61 final size:61
Alignment explanation
Indices: 32748507--32748627 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
32748497 AAAAAAAATT
* *
32748507 GTAACTCAGAACTAGAATTCAAAATAGAAGGTTAATATTAGAAATTTTTTAATAAATCATA
1 GTAACTCAGAACTAGAATTCAAAATAGAAGGTTAATACTAGAAAATTTTTAATAAATCATA
32748568 GTAACTCAGAACTAGAATTCAAAATAGAAGGTTAATACTAGAAAATTTTTAATAAATCAT
1 GTAACTCAGAACTAGAATTCAAAATAGAAGGTTAATACTAGAAAATTTTTAATAAATCAT
32748628 TGATTCATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (61 bp):
GTAACTCAGAACTAGAATTCAAAATAGAAGGTTAATACTAGAAAATTTTTAATAAATCATA
Found at i:32749956 original size:15 final size:17
Alignment explanation
Indices: 32749924--32749958 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32749914 GTTATATTAA
32749924 TTTAAAATTATGTATTT
1 TTTAAAATTATGTATTT
32749941 TTTAAAATT-T-TATTT
1 TTTAAAATTATGTATTT
32749956 TTT
1 TTT
32749959 TCTTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 1 0.06
17 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTAAAATTATGTATTT
Found at i:32750295 original size:23 final size:23
Alignment explanation
Indices: 32750251--32750295 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32750241 TTTTAAAAAT
* *
32750251 ATATTTATATTATTTTTAATTTA
1 ATATTTATATAATTTATAATTTA
32750274 ATATTTA-ATAATTTATATATTT
1 ATATTTATATAATTTATA-ATTT
32750296 TTATGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTTATATAATTTATAATTTA
Found at i:32754135 original size:2 final size:2
Alignment explanation
Indices: 32754128--32754154 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32754118 CTACATAACC
32754128 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32754155 TCACGCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32754926 original size:22 final size:21
Alignment explanation
Indices: 32754901--32754944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
32754891 TACCTTCTAA
*
32754901 CCTCGAACCTTAAACTCCAAAC
1 CCTCAAACCTTAAACT-CAAAC
*
32754923 CCTCAAACCTTGAACTCAAAC
1 CCTCAAACCTTAAACTCAAAC
32754944 C
1 C
32754945 ATGAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (21 bp):
CCTCAAACCTTAAACTCAAAC
Found at i:32754942 original size:13 final size:13
Alignment explanation
Indices: 32754924--32754953 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32754914 ACTCCAAACC
*
32754924 CTCAAACCTTGAA
1 CTCAAACCATGAA
32754937 CTCAAACCATGAA
1 CTCAAACCATGAA
32754950 CTCA
1 CTCA
32754954 TATCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (13 bp):
CTCAAACCATGAA
Found at i:32759883 original size:26 final size:26
Alignment explanation
Indices: 32759850--32759906 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
32759840 TCTCTAAATA
* *
32759850 TTTTTAAAAATAGCACAAAATCCTAT
1 TTTTTAAAAACAGCACAAAAACCTAT
*
32759876 TTTTTAAAAACGGCACAAAAACCTAT
1 TTTTTAAAAACAGCACAAAAACCTAT
32759902 TTTTT
1 TTTTT
32759907 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (26 bp):
TTTTTAAAAACAGCACAAAAACCTAT
Found at i:32760308 original size:19 final size:17
Alignment explanation
Indices: 32760262--32760311 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
32760252 AGTTAAAATA
*
32760262 TATTTTAATTATCATTT
1 TATTTTAATTATAATTT
32760279 TA-TTT-ATTATAATACTT
1 TATTTTAATTATAAT--TT
32760296 TATTTTAATTATAATT
1 TATTTTAATTATAATT
32760312 ATATGAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 7 0.25
18 3 0.11
19 8 0.29
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTAATTATAATTT
Found at i:32760353 original size:66 final size:66
Alignment explanation
Indices: 32760277--32760402 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
32760267 TAATTATCAT
* ** *
32760277 TTTATTTATTATAATACTT-TATTTTAATTATAATTATATGAATGTATTAATTATAATTATAATC
1 TTTATATATTATAATACTTAT-TTTTAATTATAATTATACAAATGTATTAACTATAATTATAATC
32760341 CG
65 CG
** * **
32760343 TTTATATATTATCTTTCTTATTTTTTGTTATAATTATACAAATGTATTAACTATAATTAT
1 TTTATATATTATAATACTTATTTTTAATTATAATTATACAAATGTATTAACTATAATTAT
32760403 GATTATGATG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (66 bp):
TTTATATATTATAATACTTATTTTTAATTATAATTATACAAATGTATTAACTATAATTATAATCC
G
Found at i:32761870 original size:11 final size:11
Alignment explanation
Indices: 32761854--32761885 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
32761844 AATTTTTTTA
32761854 AATTATTTAAT
1 AATTATTTAAT
32761865 AATTATTTAAT
1 AATTATTTAAT
*
32761876 AATTTTTTAA
1 AATTATTTAA
32761886 AAAAAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTATTTAAT
Found at i:32763720 original size:18 final size:18
Alignment explanation
Indices: 32763693--32763727 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32763683 ATAATTTTCA
32763693 TTTTTAGTTATTATATTG
1 TTTTTAGTTATTATATTG
*
32763711 TTTTTGGTTATTATATT
1 TTTTTAGTTATTATATT
32763728 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTTAGTTATTATATTG
Found at i:32766072 original size:18 final size:19
Alignment explanation
Indices: 32766051--32766089 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32766041 TCTAAAAATT
*
32766051 AATTTAGTACATATT-TAA
1 AATTTAGTAAATATTATAA
*
32766069 AATTTATTAAATATTATAA
1 AATTTAGTAAATATTATAA
32766088 AA
1 AA
32766090 ATCATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
AATTTAGTAAATATTATAA
Found at i:32767250 original size:30 final size:30
Alignment explanation
Indices: 32767193--32767251 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
32767183 AAAAATAATT
* *
32767193 AATAATTGATAAATTATGACATCTAATCAC
1 AATAAATGATAAATTATGACAGCTAATCAC
* * *
32767223 AATAAATGATCAATTATGATAGGTAATCA
1 AATAAATGATAAATTATGACAGCTAATCA
32767252 AATTTCGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (30 bp):
AATAAATGATAAATTATGACAGCTAATCAC
Found at i:32772416 original size:42 final size:43
Alignment explanation
Indices: 32772341--32772427 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 43
32772331 ATACGAATAG
*
32772341 TAAGGTTTAGCAACAACCCGGTCTATGTATGTTTTCCGCCTAA
1 TAAGGTTTAGCAACAACCCGGTCTATGTATGTTTTCCACCTAA
*
32772384 TAAGGTTTATCAACAA-CCGGTCTATGTATGTTTTCCACCTAA
1 TAAGGTTTAGCAACAACCCGGTCTATGTATGTTTTCCACCTAA
32772426 TA
1 TA
32772428 GCTTATAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (43 bp):
TAAGGTTTAGCAACAACCCGGTCTATGTATGTTTTCCACCTAA
Found at i:32772695 original size:26 final size:27
Alignment explanation
Indices: 32772645--32772697 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
32772635 CATAATTATG
32772645 ATATTTTTATAAATTTTCTACTTTTTA
1 ATATTTTTATAAATTTTCTACTTTTTA
*
32772672 ATATTTTATATATATTTT-TA-TTTTTA
1 ATATTTT-TATAAATTTTCTACTTTTTA
32772698 TAAATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 9 0.38
28 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (27 bp):
ATATTTTTATAAATTTTCTACTTTTTA
Found at i:32772696 original size:27 final size:28
Alignment explanation
Indices: 32772640--32772704 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
32772630 GCTGGCATAA
*
32772640 TTATGATATTTTTATAAATTTTCTACTT
1 TTATAATATTTTTATAAATTTTCTACTT
* *
32772668 TT-TAATATTTTATATATATTTT-TATTT
1 TTATAATATTTT-TATAAATTTTCTACTT
32772695 TTATAA-ATTT
1 TTATAATATTT
32772705 CAAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TTATAATATTTTTATAAATTTTCTACTT
Found at i:32774702 original size:2 final size:2
Alignment explanation
Indices: 32774695--32774729 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
32774685 GTTTACAGTA
* *
32774695 AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32774730 AGATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:32781802 original size:11 final size:10
Alignment explanation
Indices: 32781781--32781806 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32781771 TTCAACTTTC
32781781 TTTTTTATTT
1 TTTTTTATTT
32781791 TTTTTTATTT
1 TTTTTTATTT
32781801 TTTTTT
1 TTTTTT
32781807 GCGCTTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:32787633 original size:25 final size:24
Alignment explanation
Indices: 32787592--32787642 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
32787582 GCATTAAAAA
*
32787592 TACTAAAAACATTAAAATAAATATT
1 TACTAAAAACATTAAAAAAAAT-TT
*
32787617 TACTAACAA-ATTGAAAAAAAATTT
1 TACTAAAAACATT-AAAAAAAATTT
32787641 TA
1 TA
32787643 AAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
TACTAAAAACATTAAAAAAAATTT
Found at i:32788709 original size:6 final size:6
Alignment explanation
Indices: 32788698--32788723 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32788688 AATCAAAAGG
32788698 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
32788724 AGAGAGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:32788806 original size:19 final size:17
Alignment explanation
Indices: 32788782--32788819 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
32788772 GGTTTAAAAG
32788782 TTTTAATTAATTAAATTTA
1 TTTTAATTAA--AAATTTA
32788801 TTTTAATTAAAAATTTA
1 TTTTAATTAAAAATTTA
32788818 TT
1 TT
32788820 CTCATTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAATTAAAAATTTA
Found at i:32789237 original size:12 final size:12
Alignment explanation
Indices: 32789220--32789246 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32789210 TTTTTTAATA
32789220 AAATTTCAGATT
1 AAATTTCAGATT
32789232 AAATTTCAGATT
1 AAATTTCAGATT
32789244 AAA
1 AAA
32789247 CATTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTTCAGATT
Found at i:32789384 original size:19 final size:20
Alignment explanation
Indices: 32789340--32789382 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
32789330 ATATTATATC
*
32789340 AAAATTAATTTAAAAATTAT
1 AAAATTAATTTAAAAATAAT
32789360 AAAATT-ATTTAAAAATAAAT
1 AAAATTAATTTAAAAAT-AAT
32789380 AAA
1 AAA
32789383 TTCAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTAATTTAAAAATAAT
Found at i:32796580 original size:21 final size:21
Alignment explanation
Indices: 32796540--32796581 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32796530 ATCCGTGCAT
* *
32796540 ATCCGGATTCGACATTTTCAC
1 ATCCGGATTCAACATCTTCAC
*
32796561 ATCCGGATTCAATATCTTCAC
1 ATCCGGATTCAACATCTTCAC
32796582 CTACAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCCGGATTCAACATCTTCAC
Found at i:32797219 original size:57 final size:55
Alignment explanation
Indices: 32797121--32797305 Score: 210
Period size: 58 Copynumber: 3.2 Consensus size: 55
32797111 CATTAGTAGT
* * *
32797121 CACCCAACTATGAATTTTTTCTTTTTTGTTCACCAACTATGAAAAGTTACAAAATGAT
1 CACCCAACTAT-TATATTTT-TTTTTTG-TCACCAACTATGAAAAGTTACAAAATGAC
*
32797179 CACCCAACTATTAGTATTTTTTTTTTGTCACACAACTATGAAAAGTTACAAAATAAC
1 CACCCAACTATTA-TATTTTTTTTTTGTCAC-CAACTATGAAAAGTTACAAAATGAC
* * *
32797236 CACTCAACTATTCA-ATTCTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAAGGAC
1 CACCCAACTATT-ATATT-T-TTTTTTTGTCA-CCAACTATGAAAAGTTACAAAATGAC
*
32797294 CACTCAACTATT
1 CACCCAACTATT
32797306 CAATTTTCTC
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
56 7 0.06
57 43 0.38
58 62 0.55
59 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.35
Consensus pattern (55 bp):
CACCCAACTATTATATTTTTTTTTTGTCACCAACTATGAAAAGTTACAAAATGAC
Found at i:32797288 original size:58 final size:58
Alignment explanation
Indices: 32797140--32797335 Score: 249
Period size: 58 Copynumber: 3.4 Consensus size: 58
32797130 ATGAATTTTT
* * *
32797140 TCTTTTTTGTTCA-CCAACTATGAAAAGTTACAAAATGATCACCCAACTATT-AGTATT-
1 TCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGACCACTCAACTATTCA--ATTC
* * *
32797197 T-TTTTTTTGTCACACAACTATGAAAAGTTACAAAATAACCACTCAACTATTCAATTC
1 TCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGACCACTCAACTATTCAATTC
*
32797254 TCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAAGGACCACTCAACTATTCAATTTTC
1 TCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGACCACTCAACTATTCAA--TTC
32797314 TCTTTTTTGGAT-ACCCAACTAT
1 TCTTTTTTGG-TCACCCAACTAT
32797336 CTTGGATTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
56 12 0.10
57 36 0.30
58 50 0.41
60 23 0.19
61 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (58 bp):
TCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGACCACTCAACTATTCAATTC
Found at i:32801786 original size:61 final size:60
Alignment explanation
Indices: 32801687--32801857 Score: 173
Period size: 60 Copynumber: 2.9 Consensus size: 60
32801677 ATGAAAAAAA
* * * * * * * * *
32801687 TATA-TTAAAAAAACTCTTAAACTATAATCACTTGTTTAAGTAAGTCTTTTTAGTATTCTT
1 TATACTTAAATAAGCTCTTAAACTATAATGATTTATTTAAATAAGCCCTTATAGTATT-TT
* * * * * *
32801747 TTTATTTAAATAAGTTCTTAAACTACAATGATTTATTTAAATAAACCCTTATATTATTTT
1 TATACTTAAATAAGCTCTTAAACTATAATGATTTATTTAAATAAGCCCTTATAGTATTTT
* *
32801807 TATACTTAAATAAGCCCTTAAATTATAATGATTTATTTAAATAAGCCCTTA
1 TATACTTAAATAAGCTCTTAAACTATAATGATTTATTTAAATAAGCCCTTA
32801858 AATCTAGTTG
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
60 49 0.55
61 40 0.45
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (60 bp):
TATACTTAAATAAGCTCTTAAACTATAATGATTTATTTAAATAAGCCCTTATAGTATTTT
Found at i:32801850 original size:31 final size:31
Alignment explanation
Indices: 32801747--32801860 Score: 128
Period size: 31 Copynumber: 3.7 Consensus size: 31
32801737 TAGTATTCTT
** * *
32801747 TTTATTTAAATAAGTTCTTAAACTACAATGA
1 TTTATTTAAATAAGCCCTTAAATTATAATGA
* *
32801778 TTTATTTAAATAAACCCTTATATTAT--T--
1 TTTATTTAAATAAGCCCTTAAATTATAATGA
32801805 TTTATACTTAAATAAGCCCTTAAATTATAATGA
1 TTTAT--TTAAATAAGCCCTTAAATTATAATGA
32801838 TTTATTTAAATAAGCCCTTAAAT
1 TTTATTTAAATAAGCCCTTAAAT
32801861 CTAGTTGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
27 5 0.07
29 20 0.29
31 39 0.57
33 5 0.07
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (31 bp):
TTTATTTAAATAAGCCCTTAAATTATAATGA
Found at i:32801872 original size:60 final size:60
Alignment explanation
Indices: 32801752--32801873 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
32801742 TTCTTTTTAT
** * * *
32801752 TTAAATAAGTTCTTAAACTACAATGATTTATTTAAATAAACCCTTATATTATTTTTATAC
1 TTAAATAAGCCCTTAAACTACAATGATTTATTTAAATAAACCCTTAAATTATGTTGATAC
* * *
32801812 TTAAATAAGCCCTTAAATTATAATGATTTATTTAAATAAGCCCTTAAATCTA-GTTGATAC
1 TTAAATAAGCCCTTAAACTACAATGATTTATTTAAATAAACCCTTAAAT-TATGTTGATAC
32801872 TT
1 TT
32801874 CTATAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (60 bp):
TTAAATAAGCCCTTAAACTACAATGATTTATTTAAATAAACCCTTAAATTATGTTGATAC
Found at i:32820079 original size:43 final size:43
Alignment explanation
Indices: 32819949--32820199 Score: 239
Period size: 43 Copynumber: 5.9 Consensus size: 43
32819939 CCCTTAAAAT
* * * *
32819949 ATAATCTCATGCTCATCCCGAGTCACAAGTCTT-CATTTA-AT
1 ATAATCTCATGCTCATTCCGAGACATAAGTCTTCCATTTATAC
* * * * *
32819990 ATAATCCCATACTCACAT-CGAGACATGAGTCTTCC--TTAAAC
1 ATAATCTCATGCTCA-TTCCGAGACATAAGTCTTCCATTTATAC
* *
32820031 ATAATCTCATGCTCATTCCGAGTCACAAGTCTTCCATTTATAC
1 ATAATCTCATGCTCATTCCGAGACATAAGTCTTCCATTTATAC
*
32820074 ATAATCTCACGCTCA-TCTCGAGACATGAA-TCTTCCATTTATAC
1 ATAATCTCATGCTCATTC-CGAGACAT-AAGTCTTCCATTTATAC
* * * *
32820117 ATAATCTCATGCTCATCCCAAGACATGAGTATTCCATTTATAC
1 ATAATCTCATGCTCATTCCGAGACATAAGTCTTCCATTTATAC
** *
32820160 ATAATCTCACACTCA-TCCTGATACATAAGTCTTCCATTTA
1 ATAATCTCATGCTCATTCC-GAGACATAAGTCTTCCATTTA
32820200 CGTCAAGTGA
Statistics
Matches: 169, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
40 4 0.02
41 53 0.31
42 6 0.04
43 103 0.61
44 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (43 bp):
ATAATCTCATGCTCATTCCGAGACATAAGTCTTCCATTTATAC
Found at i:32820152 original size:86 final size:86
Alignment explanation
Indices: 32819949--32820199 Score: 309
Period size: 86 Copynumber: 3.0 Consensus size: 86
32819939 CCCTTAAAAT
* * *
32819949 ATAATCTCATGCTCATCCCGAGTCACAAGTCTT-CATTTA-ATATAATCCCATACTCA-CATCGA
1 ATAATCTCATGCTCATCCCGAGTCACAAGTCTTCCATTTATACATAATCTCACACTCATC-TCGA
*
32820011 GACATGAGTCTTCC--TTAAAC
65 GACATGAATCTTCCATTTAAAC
* *
32820031 ATAATCTCATGCTCATTCCGAGTCACAAGTCTTCCATTTATACATAATCTCACGCTCATCTCGAG
1 ATAATCTCATGCTCATCCCGAGTCACAAGTCTTCCATTTATACATAATCTCACACTCATCTCGAG
*
32820096 ACATGAATCTTCCATTTATAC
66 ACATGAATCTTCCATTTAAAC
* * ** *
32820117 ATAATCTCATGCTCATCCCAAGACATGAGTATTCCATTTATACATAATCTCACACTCATC-CTGA
1 ATAATCTCATGCTCATCCCGAGTCACAAGTCTTCCATTTATACATAATCTCACACTCATCTC-GA
*
32820181 TACAT-AAGTCTTCCATTTA
65 GACATGAA-TCTTCCATTTA
32820200 CGTCAAGTGA
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
82 32 0.22
83 6 0.04
84 30 0.20
85 4 0.03
86 75 0.51
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (86 bp):
ATAATCTCATGCTCATCCCGAGTCACAAGTCTTCCATTTATACATAATCTCACACTCATCTCGAG
ACATGAATCTTCCATTTAAAC
Found at i:32823805 original size:191 final size:191
Alignment explanation
Indices: 32823481--32823867 Score: 774
Period size: 191 Copynumber: 2.0 Consensus size: 191
32823471 CACTCACACT
32823481 CCATTTTCACCAAATCCAATCCCAATTTCAAGTTCGATTGAAACCCAGATTTTTAATACCCCATA
1 CCATTTTCACCAAATCCAATCCCAATTTCAAGTTCGATTGAAACCCAGATTTTTAATACCCCATA
32823546 TTTATTCATGGGCGGTAAGTTTAACTCTTTTTTTCGTTTCTCAAATTCGTAGCTTTTTATTTTTT
66 TTTATTCATGGGCGGTAAGTTTAACTCTTTTTTTCGTTTCTCAAATTCGTAGCTTTTTATTTTTT
32823611 TACCCATTATTATCGTTAATATTTATGTGTGTTGATTATAGAGTTTAAGGTAACTAAATTC
131 TACCCATTATTATCGTTAATATTTATGTGTGTTGATTATAGAGTTTAAGGTAACTAAATTC
32823672 CCATTTTCACCAAATCCAATCCCAATTTCAAGTTCGATTGAAACCCAGATTTTTAATACCCCATA
1 CCATTTTCACCAAATCCAATCCCAATTTCAAGTTCGATTGAAACCCAGATTTTTAATACCCCATA
32823737 TTTATTCATGGGCGGTAAGTTTAACTCTTTTTTTCGTTTCTCAAATTCGTAGCTTTTTATTTTTT
66 TTTATTCATGGGCGGTAAGTTTAACTCTTTTTTTCGTTTCTCAAATTCGTAGCTTTTTATTTTTT
32823802 TACCCATTATTATCGTTAATATTTATGTGTGTTGATTATAGAGTTTAAGGTAACTAAATTC
131 TACCCATTATTATCGTTAATATTTATGTGTGTTGATTATAGAGTTTAAGGTAACTAAATTC
32823863 CCATT
1 CCATT
32823868 GTTCTGGAAA
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 196 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (191 bp):
CCATTTTCACCAAATCCAATCCCAATTTCAAGTTCGATTGAAACCCAGATTTTTAATACCCCATA
TTTATTCATGGGCGGTAAGTTTAACTCTTTTTTTCGTTTCTCAAATTCGTAGCTTTTTATTTTTT
TACCCATTATTATCGTTAATATTTATGTGTGTTGATTATAGAGTTTAAGGTAACTAAATTC
Found at i:32824989 original size:2 final size:2
Alignment explanation
Indices: 32824982--32825007 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32824972 GTCATGCGAC
32824982 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
32825008 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32825012 original size:2 final size:2
Alignment explanation
Indices: 32825007--32825059 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
32824997 TCTCTCTCTC
32825007 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
32825049 TA TG TA TA TA T
1 TA TA TA TA TA T
32825060 TTGGTAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32853689 original size:151 final size:156
Alignment explanation
Indices: 32853507--32853790 Score: 386
Period size: 160 Copynumber: 1.8 Consensus size: 156
32853497 TTTCAAAAAG
32853507 AAAAAAGATTCAGAAAAGCAAATGCAAATCCAAACT-AACTC-A-A-AC-T-AT-AGGAAGCCAT
1 AAAAAAGATTCAGAAAAGCAAATGCAAATCCAAACTGAACTCAAGACACTTAATCAGGAAGCCAT
*
32853565 AAATGAAATAAAGAAAAAGCAAATCCAATAATTTACAGAAA-TAGACACCTTCAAAACAACAAGC
66 --ATGAAATAAAGAAAAAGCAAATCCAATAACTTACAGAAAGT-GACACCTTCAAAACAACAAGC
32853629 AACTCCGTAAAGTAACACTCTCCAATTTC
128 AACTCCGTAAAGTAACACTCTCCAATTTC
* *
32853658 AAAAAAGATTCAGAAAAGCAGATGCAAATCCAAACTGAAGTCAAATGACACTTAAAATCAGGAAG
1 AAAAAAGATTCAGAAAAGCAAATGCAAATCCAAACTGAACTC-AA-GACACTT--AATCAGGAAG
** * *
32853723 CCATATGAAATAACTAAAAAGCAAATCCAATAACTTACTGAAAGTGACACCTTCAAGACAACAAG
62 CCATATGAAATAAAGAAAAAGCAAATCCAATAACTTACAGAAAGTGACACCTTCAAAACAACAAG
32853788 CAA
127 CAA
32853791 ACCAGTAAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
151 35 0.31
152 4 0.04
154 1 0.01
156 1 0.01
157 2 0.02
158 1 0.01
160 57 0.50
161 3 0.03
162 10 0.09
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (156 bp):
AAAAAAGATTCAGAAAAGCAAATGCAAATCCAAACTGAACTCAAGACACTTAATCAGGAAGCCAT
ATGAAATAAAGAAAAAGCAAATCCAATAACTTACAGAAAGTGACACCTTCAAAACAACAAGCAAC
TCCGTAAAGTAACACTCTCCAATTTC
Found at i:32855167 original size:12 final size:12
Alignment explanation
Indices: 32855150--32855181 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32855140 TATTCACGAA
32855150 CGTTTATTAACT
1 CGTTTATTAACT
*
32855162 CGTTTATAAACT
1 CGTTTATTAACT
32855174 CGTTTATT
1 CGTTTATT
32855182 TATTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (12 bp):
CGTTTATTAACT
Found at i:32856436 original size:24 final size:24
Alignment explanation
Indices: 32856409--32856466 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
32856399 ACATGTATGT
** *
32856409 GAACATGTTTATGAACGTATAAAC
1 GAACATGTTTACAAACATATAAAC
**
32856433 GAACATGTTCGCAAACATATAAAC
1 GAACATGTTTACAAACATATAAAC
32856457 GAACATGTTT
1 GAACATGTTT
32856467 GCGAGCGCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (24 bp):
GAACATGTTTACAAACATATAAAC
Found at i:32858832 original size:18 final size:18
Alignment explanation
Indices: 32858791--32858833 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32858781 TGAACAATTA
32858791 ATTTTTCTTATGTTTTTT
1 ATTTTTCTTATGTTTTTT
* *
32858809 AATTTTCTT-TTTTTCTTT
1 ATTTTTCTTATGTTT-TTT
32858827 ATTTTTC
1 ATTTTTC
32858834 ATTCAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTTCTTATGTTTTTT
Found at i:32859184 original size:23 final size:21
Alignment explanation
Indices: 32859143--32859189 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
32859133 AAAGAGAATG
32859143 AAAAAAAGTAAAAAAAAAATT
1 AAAAAAAGTAAAAAAAAAATT
32859164 AAAAAACA-TAAAAAGAGAAAATT
1 AAAAAA-AGTAAAAA-A-AAAATT
32859187 AAA
1 AAA
32859190 TTGCTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.52
22 2 0.09
23 9 0.39
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (21 bp):
AAAAAAAGTAAAAAAAAAATT
Found at i:32872327 original size:32 final size:32
Alignment explanation
Indices: 32872254--32872327 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
32872244 GTCGAAAAAG
* * *
32872254 ATATATAATATATGTATATAAAAAAATTATTA
1 ATATAAAATAAATGTATATAAAAAAATTATGA
*
32872286 ATATCAAATAAATG-ATATTAAATAAAATT-TGA
1 ATATAAAATAAATGTATA-TAAA-AAAATTATGA
32872318 ATATAAAATA
1 ATATAAAATA
32872328 TTTATGTACC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 3 0.09
32 26 0.74
33 6 0.17
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (32 bp):
ATATAAAATAAATGTATATAAAAAAATTATGA
Found at i:32874141 original size:22 final size:22
Alignment explanation
Indices: 32874116--32874157 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
32874106 GTAATGATGA
32874116 AAATTACT-TTATTTTAAAAAGT
1 AAATTA-TATTATTTTAAAAAGT
32874138 AAATTATATTATTTTAAAAA
1 AAATTATATTATTTTAAAAA
32874158 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATTATATTATTTTAAAAAGT
Found at i:32874169 original size:22 final size:24
Alignment explanation
Indices: 32874144--32874193 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
32874134 AAGTAAATTA
32874144 TATTATTT-TAAAAATATT-TTTT
1 TATTATTTATAAAAATATTATTTT
32874166 TATT-TTTATAAAAATATTATTTT
1 TATTATTTATAAAAATATTATTTT
32874189 TATTA
1 TATTA
32874194 CAATTTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTTATAAAAATATTATTTT
Found at i:32877241 original size:15 final size:15
Alignment explanation
Indices: 32877194--32877233 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
32877184 GTGTTTGTAG
32877194 TTTTTAAATTTTTTA
1 TTTTTAAATTTTTTA
*
32877209 TTTTTAGATTTTTTTA
1 TTTTTA-AATTTTTTA
32877225 TTTTTAAAT
1 TTTTTAAAT
32877234 ATATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTAAATTTTTTA
Found at i:32877416 original size:22 final size:23
Alignment explanation
Indices: 32877388--32877430 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
32877378 TTAAATTTTA
32877388 AAATTTT-AAAAATAAAAATATT
1 AAATTTTAAAAAATAAAAATATT
32877410 AAATTTTAAAAAATAAAAATA
1 AAATTTTAAAAAATAAAAATA
32877431 AATACACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATTTTAAAAAATAAAAATATT
Found at i:32877441 original size:29 final size:30
Alignment explanation
Indices: 32877379--32877448 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
32877369 CAGTTGAATT
** * *
32877379 TAAATTTTAAAATTTTAAAAATAAAAATAT
1 TAAATTTTAAAATAATAAAAATAAAAACAC
*
32877409 TAAATTTTAAAA-AATAAAAATAAATACAC
1 TAAATTTTAAAATAATAAAAATAAAAACAC
32877438 TAAATTTTAAA
1 TAAATTTTAAA
32877449 TTTTCGAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
TAAATTTTAAAATAATAAAAATAAAAACAC
Found at i:32881189 original size:21 final size:20
Alignment explanation
Indices: 32881165--32881218 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
32881155 GAATGAAAAT
*
32881165 TATTTAATTATTTTAAATAAA
1 TATTTAATTATTTAAAAT-AA
*
32881186 TATTTTATT-TTTAAAATAA
1 TATTTAATTATTTAAAATAA
* *
32881205 TATATATTTATTTA
1 TATTTAATTATTTA
32881219 TATAAACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 8 0.30
20 11 0.41
21 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTAATTATTTAAAATAA
Found at i:32881199 original size:19 final size:22
Alignment explanation
Indices: 32881165--32881217 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
32881155 GAATGAAAAT
*
32881165 TATTTAATTATTTTAAATAA-ATA
1 TATTT-ATT-TTTAAAATAATATA
32881188 T-TTTATTTTTAAAATAATATA
1 TATTTATTTTTAAAATAATATA
32881209 TATTTATTT
1 TATTTATTT
32881218 ATATAAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.33
21 7 0.26
22 10 0.37
23 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTATTTTTAAAATAATATA
Found at i:32881229 original size:23 final size:21
Alignment explanation
Indices: 32881185--32881229 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
32881175 TTTTAAATAA
* *
32881185 ATATTTTATTTTTAAAATAAT
1 ATATTTTATTTATAAAACAAT
32881206 ATATATTTATTTATATAAACAAT
1 ATAT-TTTATTTATA-AAACAAT
32881229 A
1 A
32881230 ATCAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 7 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTATTTATAAAACAAT
Found at i:32891452 original size:47 final size:49
Alignment explanation
Indices: 32891383--32891484 Score: 163
Period size: 47 Copynumber: 2.1 Consensus size: 49
32891373 TATAACAAAG
* *
32891383 TAATACCCCGCATTCGATACTTTAAAAGAA-TT-AAAAAAAAAACTCTA
1 TAATAACCCACATTCGATACTTTAAAAGAATTTAAAAAAAAAAACTCTA
*
32891430 TAATAACCCACATTTGATACTTTAAAAGAATTTAAAAAAAAAAACTCTA
1 TAATAACCCACATTCGATACTTTAAAAGAATTTAAAAAAAAAAACTCTA
32891479 TAATAA
1 TAATAA
32891485 GGATTTACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
47 27 0.54
48 2 0.04
49 21 0.42
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (49 bp):
TAATAACCCACATTCGATACTTTAAAAGAATTTAAAAAAAAAAACTCTA
Found at i:32892763 original size:28 final size:27
Alignment explanation
Indices: 32892720--32892781 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
32892710 ATTTTTATAA
*
32892720 ATTTTAAAAAATTAAATTAAAATTTTATT
1 ATTTT-AAAAATTAAAGTAAAATTTTA-T
* **
32892749 ATTTTAAGAATTAAAGTATTATTTTAT
1 ATTTTAAAAATTAAAGTAAAATTTTAT
32892776 ATTTTA
1 ATTTTA
32892782 CTAATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 17 0.59
29 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTTAAAAATTAAAGTAAAATTTTAT
Done.