Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 106 of 226
Found at i:32998303 original size:35 final size:35
Alignment explanation
Indices: 32998211--32998347 Score: 114
Period size: 35 Copynumber: 3.9 Consensus size: 35
32998201 GAAAGACTTA
* * *
32998211 TATACCATTTACATGGTGTCAACCCGAAAGACCTA
1 TATACCATTTACATGGTGTCACCCCGAAGGACCTG
* ** * ** *
32998246 AATACTGTTTACACGGCATCGCCCCGAAGGACCTG
1 TATACCATTTACATGGTGTCACCCCGAAGGACCTG
* * *
32998281 TATACCATTTACATGGTGTC-GCCCTAGAGGACTTG
1 TATACCATTTACATGGTGTCACCCCGA-AGGACCTG
* * *
32998316 TATACCGTTTACGTGGTGTCACCTCGAAGGAC
1 TATACCATTTACATGGTGTCACCCCGAAGGAC
32998348 TAGTTGATAA
Statistics
Matches: 76, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
34 4 0.05
35 69 0.91
36 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (35 bp):
TATACCATTTACATGGTGTCACCCCGAAGGACCTG
Found at i:33001614 original size:65 final size:65
Alignment explanation
Indices: 33001509--33001654 Score: 197
Period size: 65 Copynumber: 2.2 Consensus size: 65
33001499 ATGGGACATG
* * *
33001509 TTTGGTGTGTTGGAGAGTGTTAACTTTGAGCTTTATTTTTGGGATATGTTCGAA-TCTATGAGTC
1 TTTGGTGTGTTAGAGAGTGTTAACTTTGAGCTTCACTTTTGGGATATGTTC-AACTCTATGAGTC
33001573 A
65 A
* *
33001574 TTTGGTGTGTTAGAGGGTGTTAGCTTT-ATGCTTCACTTTTGGGATATGTTCAACTCTATGAGTC
1 TTTGGTGTGTTAGAGAGTGTTAACTTTGA-GCTTCACTTTTGGGATATGTTCAACTCTATGAGTC
33001638 A
65 A
* *
33001639 TTTAGTGTGTTGGAGA
1 TTTGGTGTGTTAGAGA
33001655 TTCATGTATC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
64 3 0.04
65 68 0.96
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (65 bp):
TTTGGTGTGTTAGAGAGTGTTAACTTTGAGCTTCACTTTTGGGATATGTTCAACTCTATGAGTCA
Found at i:33004676 original size:24 final size:24
Alignment explanation
Indices: 33004649--33004697 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33004639 AATGGTTAAT
33004649 TTGTGTTTCTTACCTACCACAGAA
1 TTGTGTTTCTTACCTACCACAGAA
33004673 TTGTGTTTCTTACCTACCACAGAA
1 TTGTGTTTCTTACCTACCACAGAA
33004697 T
1 T
33004698 GGAAGGATTC
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:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTGTTTCTTACCTACCACAGAA
Found at i:33005611 original size:100 final size:100
Alignment explanation
Indices: 33005438--33005638 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
33005428 TTTAAACCAA
33005438 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
1 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
33005503 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
66 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
33005538 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
1 AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
33005603 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
66 GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
33005638 A
1 A
33005639 GTAATCAAAC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (100 bp):
AATAAATTGAATAAAAGTAAATTTCATATCAAGATATCGGTCGCTCCATTAATATTTTATCTTTG
GACAAAATAGTAACTTGTAAGTGATACATTGTTGT
Found at i:33006449 original size:9 final size:9
Alignment explanation
Indices: 33006437--33006486 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
33006427 TTAAAAATAT
33006437 TTTTTATAA
1 TTTTTATAA
*
33006446 TTTTTATACC
1 TTTTTATA-A
33006456 TTTTTAATAA
1 TTTTT-ATAA
33006466 --TTT-TAA
1 TTTTTATAA
33006472 TTTTTATAA
1 TTTTTATAA
33006481 TTTTTA
1 TTTTTA
33006487 AACTTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
6 3 0.09
8 6 0.18
9 17 0.50
10 5 0.15
11 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33012321 original size:16 final size:16
Alignment explanation
Indices: 33012300--33012346 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
33012290 GGATTGTTAT
33012300 TTTTTTTATTTTTT-A
1 TTTTTTTATTTTTTAA
* *
33012315 GTTTTTTATATTTTGAA
1 TTTTTTTAT-TTTTTAA
33012332 TTTTTTATATTTTTT
1 TTTTTT-TATTTTTT
33012347 TGGAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 10 0.40
18 3 0.12
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Found at i:33014633 original size:19 final size:20
Alignment explanation
Indices: 33014599--33014673 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 20
33014589 GTACATCGTT
* *
33014599 AACAGAAGCTCGTA-AGCTG
1 AACAGAAACTCATAGAGCTG
* *
33014618 AACAGAAACTCTTAAGAGTTG
1 AACAGAAACTCAT-AGAGCTG
33014639 AACAGAAACTCATAGGAGCTG
1 AACAGAAACTCATA-GAGCTG
*
33014660 AACGGAAACTCATA
1 AACAGAAACTCATA
33014674 AGAGTTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.23
20 2 0.04
21 34 0.72
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (20 bp):
AACAGAAACTCATAGAGCTG
Found at i:33014642 original size:21 final size:21
Alignment explanation
Indices: 33014616--33014709 Score: 98
Period size: 21 Copynumber: 4.5 Consensus size: 21
33014606 GCTCGTAAGC
*
33014616 TGAACAGAAACTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
33014637 TGAACAGAAACTCATAGGAGC
1 TGAACAGAAACTCATAAGAGT
*
33014658 TGAACGGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * * * *
33014679 TAAATATAAGCTCGTAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
33014700 TAAACAGAAA
1 TGAACAGAAA
33014710 GTAAAACACA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:33018152 original size:19 final size:17
Alignment explanation
Indices: 33018115--33018167 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
33018105 TTTATTTTTA
33018115 AAAATTA-AAAATAAT-T
1 AAAATTATAAAA-AATAT
33018131 AAAATTATTAAGAAAATAT
1 AAAATTA-TAA-AAAATAT
33018150 AAAATTATAAAAAATAT
1 AAAATTATAAAAAATAT
33018167 A
1 A
33018168 TTTTTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 7 0.21
17 8 0.24
18 8 0.24
19 10 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:33018753 original size:3 final size:3
Alignment explanation
Indices: 33018745--33018770 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33018735 GGAGGCCTAC
33018745 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
33018771 ATTTATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:33022383 original size:18 final size:16
Alignment explanation
Indices: 33022338--33022473 Score: 61
Period size: 18 Copynumber: 8.1 Consensus size: 16
33022328 AATTATTATT
33022338 AAATATAATTTAATAA
1 AAATATAATTTAATAA
33022354 AAATATACAATTTAATAA
1 AAATAT--AATTTAATAA
* *
33022372 CATATATGAATTTACT-A
1 -AAATAT-AATTTAATAA
*
33022389 AAATCATAATATACAATACTATA
1 AAAT-ATAAT-T----TAATA-A
33022412 AAATATAATTTAA-AA
1 AAATATAATTTAATAA
* *
33022427 TAAT-T-A-TT-AT-T
1 AAATATAATTTAATAA
33022438 AAATATAATTTAATAAA
1 AAATATAATTTAAT-AA
33022455 AATATATAATTTAATAA
1 AA-ATATAATTTAATAA
33022472 AA
1 AA
33022474 TTCTTAGTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 37
0.67 0.07 0.27
Matches are distributed among these distances:
11 4 0.04
12 3 0.03
13 2 0.02
14 3 0.03
15 6 0.07
16 13 0.14
17 12 0.13
18 29 0.32
19 5 0.05
21 5 0.05
22 5 0.05
23 5 0.05
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:33022517 original size:23 final size:21
Alignment explanation
Indices: 33022440--33022519 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 21
33022430 TTATTATTAA
*
33022440 ATATAATTTAATAAAA---AT
1 ATATAATTTAATAAAATTCTT
33022458 ATATAATTTAATAAAATTCTT
1 ATATAATTTAATAAAATTCTT
* *
33022479 AGTATTAA-ATATTAAATATTCTT
1 A-TA-TAATTTAATAAA-ATTCTT
*
33022502 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
33022520 CATAATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
18 16 0.33
21 3 0.06
22 14 0.29
23 16 0.33
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (21 bp):
ATATAATTTAATAAAATTCTT
Found at i:33022520 original size:127 final size:127
Alignment explanation
Indices: 33022374--33022618 Score: 456
Period size: 127 Copynumber: 1.9 Consensus size: 127
33022364 TTTAATAACA
33022374 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
*
33022439 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTT-AGTATTAAATATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAAG-ATTAAATATTAAATATTCT
*
33022501 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
33022566 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAAGATTAAATATT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAAGATTAAATATT
33022619 CTTATGATTG
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
127 113 0.98
128 2 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (127 bp):
TATATGAATTTACTAAAATCATAATATACAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAAGATTAAATATTAAATATTCT
Found at i:33029312 original size:98 final size:98
Alignment explanation
Indices: 33029139--33029327 Score: 288
Period size: 98 Copynumber: 1.9 Consensus size: 98
33029129 ATGCATGTTC
* * * * **
33029139 TAAATGCAACACCCCTTACCCAGTCCGGTCATCAGACTTGAGTAATGAGATGTTACGAACAATTA
1 TAAATGCAACACCCCTTACACAATCCGATCACCAGACCCGAGTAATGAGATGTTACGAACAATTA
*
33029204 CCAAACAATTGCATACAATTTATTAAATATCTA
66 CCAAAAAATTGCATACAATTTATTAAATATCTA
* * *
33029237 TAAATGTAACACCCCTTACACAATCTGATCACCAGACCCGAGTAATGAGATTTTACGAACAATTA
1 TAAATGCAACACCCCTTACACAATCCGATCACCAGACCCGAGTAATGAGATGTTACGAACAATTA
33029302 CCAAAAAATTGCATACAATTTATTAA
66 CCAAAAAATTGCATACAATTTATTAA
33029328 TGAAAATCTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (98 bp):
TAAATGCAACACCCCTTACACAATCCGATCACCAGACCCGAGTAATGAGATGTTACGAACAATTA
CCAAAAAATTGCATACAATTTATTAAATATCTA
Found at i:33030620 original size:21 final size:21
Alignment explanation
Indices: 33030591--33030630 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33030581 TGTTCTTGAT
33030591 AATAATAAATAATATTAATTA
1 AATAATAAATAATATTAATTA
*
33030612 AATAGTAAATAATATTAAT
1 AATAATAAATAATATTAAT
33030631 ATTATAAATG
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:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AATAATAAATAATATTAATTA
Found at i:33034422 original size:32 final size:32
Alignment explanation
Indices: 33034386--33034449 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
33034376 TGTATGGCCA
33034386 TACGTATTGAGGGTTAAGTAGATACATCATGG
1 TACGTATTGAGGGTTAAGTAGATACATCATGG
33034418 TACGTATTGAGGGTTAAGTAGATACATCATGG
1 TACGTATTGAGGGTTAAGTAGATACATCATGG
33034450 CAGAGGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (32 bp):
TACGTATTGAGGGTTAAGTAGATACATCATGG
Found at i:33039711 original size:43 final size:43
Alignment explanation
Indices: 33039644--33039912 Score: 313
Period size: 43 Copynumber: 6.3 Consensus size: 43
33039634 TTATAGAAAT
* *
33039644 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
33039687 AAATGCCGCTAAAGGCCATATTCTTTAGCGGCGCTTTTCCAGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
** ** * * *
33039730 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTTCTGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
33039773 AAACGCCACTAAAGACCATGTTCTTTAGCAGCGCTTTTCCCGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
33039816 AAATGCCACTAAAGGCCATGTTCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
33039859 AAACGCCGTTAAAAGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
33039902 AAACGCCGCTA
1 AAACGCCGCTA
33039913 TTGTTTGGTG
Statistics
Matches: 188, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 188 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:33040469 original size:25 final size:26
Alignment explanation
Indices: 33040418--33040479 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
33040408 TTTTACAATG
* *
33040418 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
33040444 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
33040469 ATTAAGTTATG
1 ATTAAGTTATG
33040480 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:33040483 original size:17 final size:17
Alignment explanation
Indices: 33040418--33040489 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
33040408 TTTTACAATG
* *
33040418 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
33040435 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
33040452 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
33040469 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
33040486 ATTA
1 ATTA
33040490 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:33040631 original size:25 final size:26
Alignment explanation
Indices: 33040588--33040637 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
33040578 TTTAAAATTA
33040588 TTAAGTTATGTAAGTTATGCAAGTTG
1 TTAAGTTATGTAAGTTATGCAAGTTG
*
33040614 TTAAGTTAT-TAAGTTATGTAAGTT
1 TTAAGTTATGTAAGTTATGCAAGTT
33040638 ATTATGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (26 bp):
TTAAGTTATGTAAGTTATGCAAGTTG
Found at i:33040635 original size:17 final size:17
Alignment explanation
Indices: 33040585--33040641 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
33040575 TATTTTAAAA
33040585 TTATTAAGTTATGTAAG
1 TTATTAAGTTATGTAAG
* *
33040602 TTATGCAAGTTGT-TAAG
1 TTAT-TAAGTTATGTAAG
33040619 TTATTAAGTTATGTAAG
1 TTATTAAGTTATGTAAG
33040636 TTATTA
1 TTATTA
33040642 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.18
17 22 0.65
18 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (17 bp):
TTATTAAGTTATGTAAG
Found at i:33040658 original size:46 final size:46
Alignment explanation
Indices: 33040608--33040767 Score: 133
Period size: 46 Copynumber: 3.3 Consensus size: 46
33040598 TAAGTTATGC
*
33040608 AAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATAT
1 AAGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATAT
* * * *
33040654 AAGTTATTAAGTTATATGGTATGACATATATATATA-TGTATTATGTAAATTATGT
1 AAGTTATTAAG-T-TAT--TA--A-GT-TATGTA-AGT-TATTATGTGAATTATAT
* * * * *
33040709 GAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATATGAATTATAT
1 AAGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATAT
33040755 AAGTTATTAAGTT
1 AAGTTATTAAGTT
33040768 GGACATTTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
46 36 0.41
47 7 0.08
48 4 0.05
49 1 0.01
50 2 0.02
51 1 0.01
52 1 0.01
53 3 0.03
54 7 0.08
55 25 0.29
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (46 bp):
AAGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATAT
Found at i:33040660 original size:9 final size:8
Alignment explanation
Indices: 33040585--33040641 Score: 69
Period size: 9 Copynumber: 6.8 Consensus size: 8
33040575 TATTTTAAAA
33040585 TTATTAAG
1 TTATTAAG
33040593 TTATGTAAG
1 TTAT-TAAG
*
33040602 TTATGCAAG
1 TTAT-TAAG
*
33040611 TTGTTAAG
1 TTATTAAG
33040619 TTATTAAG
1 TTATTAAG
33040627 TTATGTAAG
1 TTAT-TAAG
33040636 TTATTA
1 TTATTA
33040642 TGTGAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 20 0.47
9 23 0.53
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:33040660 original size:55 final size:55
Alignment explanation
Indices: 33040593--33040768 Score: 149
Period size: 55 Copynumber: 3.4 Consensus size: 55
33040583 AATTATTAAG
* *
33040593 TTATGTAAGTTATGCAAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAA
1 TTATATAAGTTATGTAAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAA
* * * * *
33040648 TTATATAAGTTAT-TAAGTT-ATATGGTATGACA--TATAT-A--TA-TATGT--A
1 TTATATAAGTTATGTAAGTTGTTAAGTTATTA-AGTTATGTAAGTTATTATGTGAA
* * * * * *
33040694 TTATGTAAATTATGTGAGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATATGAA
1 TTATATAAGTTATGTAAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAA
33040749 TTATATAAGTTAT-TAAGTTG
1 TTATATAAGTTATGTAAGTTG
33040769 GACATTTTTT
Statistics
Matches: 89, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
46 12 0.13
47 6 0.07
48 10 0.11
49 6 0.07
50 1 0.01
51 1 0.01
52 6 0.07
53 11 0.12
54 12 0.13
55 24 0.27
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (55 bp):
TTATATAAGTTATGTAAGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAA
Found at i:33040670 original size:17 final size:17
Alignment explanation
Indices: 33040585--33040670 Score: 75
Period size: 17 Copynumber: 4.8 Consensus size: 17
33040575 TATTTTAAAA
*
33040585 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
* *
33040602 TTATGCAAGTTGT-TAAG
1 TTAT-TAAGTTATATAAG
*
33040619 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
*
33040636 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
33040657 TTATTAAGTTATAT
1 TTATTAAGTTATAT
33040671 GGTATGACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.11
17 29 0.52
18 6 0.11
21 15 0.27
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:33041403 original size:21 final size:21
Alignment explanation
Indices: 33041379--33041425 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
33041369 TTAACTGTTT
* *
33041379 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
33041400 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
33041421 AAATT
1 AAATT
33041426 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:33043161 original size:31 final size:31
Alignment explanation
Indices: 33043121--33043180 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
33043111 ACAGCTGCCC
*
33043121 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
33043152 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
33043181 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:33044878 original size:106 final size:102
Alignment explanation
Indices: 33044767--33044963 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 102
33044757 TTTTTTTATA
* *
33044767 AAAACGACGCCGTTTTGCTATTCTAAAAAGTTTTTATTTTGTTTTTTTATAAATTGATTTA-TTT
1 AAAACGACGCCGTTTTGCTATGCT--AAA--TTTT-TTTTATTTTTTTATAAATTGATTTATTTT
* *
33044831 TTGCGGCGTTTCTATAAAAAACGCCGCTATTTCATTTTGAAC
61 TTACGGCATTTCTATAAAAAACGCCGCTATTTCATTTTGAAC
33044873 AAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTTTTTACG
1 AAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTTTTTACG
* *
33044938 GCATTTTTATAGAAAACGCCGCTATT
66 GCATTTCTATAAAAAACGCCGCTATT
33044964 GCTTACCTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
101 24 0.29
102 34 0.40
104 3 0.04
106 23 0.27
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (102 bp):
AAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGATTTATTTTTTACG
GCATTTCTATAAAAAACGCCGCTATTTCATTTTGAAC
Found at i:33045172 original size:103 final size:104
Alignment explanation
Indices: 33044985--33045184 Score: 375
Period size: 103 Copynumber: 1.9 Consensus size: 104
33044975 TCGAAAGCGC
33044985 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTT
*
33045050 TTTTAAATTGATTTATTTTTTGCAGCGTTTTTGCTTATG
66 TTATAAATTGATTTATTTTTTGCAGCGTTTTTGCTTATG
33045089 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTTTTTATTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTT
*
33045153 TTATAAATTGATTTATTTTTTGCGGCGTTTTT
66 TTATAAATTGATTTATTTTTTGCAGCGTTTTT
33045185 ATAGAAAATG
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 47 0.50
104 47 0.50
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (104 bp):
CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTT
TTATAAATTGATTTATTTTTTGCAGCGTTTTTGCTTATG
Found at i:33045188 original size:239 final size:242
Alignment explanation
Indices: 33044860--33045331 Score: 745
Period size: 239 Copynumber: 1.9 Consensus size: 242
33044850 AACGCCGCTA
33044860 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGA
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGA
33044925 TTTATTTTTTACGGCATTTTTATAGAAAACGCCGCTATTGCTTACCTTT-A-TC-GAAAGCGCCG
66 TTTATTTTTTACGGCATTTTTATAGAAAACGCCGCTATTGCTTACCTTTGACTCTGAAAGCGCCG
*
33044987 CAAAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTT
131 CAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCT-AAATTTTTTTTATTTTTT
* *
33045051 TTTAAATTGATTTATTTTTTGCAGCGTTTTTGCTTATGCGCAAAATTT
195 TATAAATTGATTTATTTTTTACAGCGTTTTTGCTTATGCGCAAAATTT
*
33045099 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATAAATTGA
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGA
* * * * *
33045164 TTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGACGCTTCTTATA
66 TTTATTTTTTACGGCATTTTTATAGAAAACGCCGCTATTGCTTACCTTT---GA--C-TC-T-GA
33045229 AAGCGCCGCAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAATTTTTTTT
123 AAGCGCCGCAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAATTTTTTTT
*
33045294 ATTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTT
188 ATTTTTTTATAAATTGATTTATTTTTTACAGCGTTTTT
33045332 ATAGAAAATG
Statistics
Matches: 211, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
239 109 0.52
243 1 0.00
247 2 0.01
250 60 0.28
251 39 0.18
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (242 bp):
TTTCATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTATAAATTGA
TTTATTTTTTACGGCATTTTTATAGAAAACGCCGCTATTGCTTACCTTTGACTCTGAAAGCGCCG
CAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAATTTTTTTTATTTTTTT
ATAAATTGATTTATTTTTTACAGCGTTTTTGCTTATGCGCAAAATTT
Found at i:33045252 original size:147 final size:146
Alignment explanation
Indices: 33045089--33046187 Score: 1822
Period size: 147 Copynumber: 7.6 Consensus size: 146
33045079 TTTGCTTATG
33045089 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
*
33045154 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGAC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGC
33045219 GCTTCTTATAAAGCGC
131 GCTTCTTATAAAGCGC
*
33045235 CGCAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAATTTTTTTTATTTTT
1 CGCAAAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTT
* *
33045300 TTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGA
65 TTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGG
33045365 CGCTTCTTATAAAGCGC
130 CGCTTCTTATAAAGCGC
* *
33045382 CGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
** *
33045447 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGGC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGC
33045512 GCTTCTTATAAAGCGC
131 GCTTCTTATAAAGCGC
*
33045528 CGC-AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTTTT-TATTTT
* *
33045592 TTTATAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCG
64 TTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCG
33045657 GCGCTTCTTATAAAGCGC
129 GCGCTTCTTATAAAGCGC
33045675 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AA-----TTT-TTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
* *
33045733 TATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGAC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGC
33045798 GCTTCTTATAAAGCGC
131 GCTTCTTATAAAGCGC
* *
33045814 CGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
** *
33045879 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGGC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGC
33045944 GCTTCTTATAAAGCGC
131 GCTTCTTATAAAGCGC
*
33045960 CGC-AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTTTT-TATTTT
* *
33046024 TTTATAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCG
64 TTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCG
*
33046089 GCGCTTCTTATAAACCGC
129 GCGCTTCTTATAAAGCGC
* * * *
33046107 TGCAAAATTTTTTCATTTTGAACAAAACGACGCCATTTTACTATTCTAAA-ATTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTA-TTTTT
*
33046171 TTATAAGTTGATTTATT
65 TTATAAATTGATTTATT
33046188 ACCTTTAGCG
Statistics
Matches: 901, Mismatches: 37, Indels: 30
0.93 0.04 0.03
Matches are distributed among these distances:
139 129 0.14
140 3 0.00
141 2 0.00
145 88 0.10
146 274 0.30
147 321 0.36
148 84 0.09
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (146 bp):
CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGC
GCTTCTTATAAAGCGC
Found at i:33045622 original size:293 final size:293
Alignment explanation
Indices: 33045089--33046187 Score: 1862
Period size: 293 Copynumber: 3.8 Consensus size: 293
33045079 TTTGCTTATG
*
33045089 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
*
33045154 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGAC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGAC
33045219 GCTTCTTATAAAGCGCCGCAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTA
131 GCTTCTTATAAAGCGCCGCAAAA-TTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTA
* * *
33045284 AATTTTTTTTA-TTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTA
195 AAATTTTTTTATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTA
*
33045348 TTGCTTACCTTTAGCGACGCTTCTTATAAAGCGC
260 TTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
*
33045382 CGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
* * *
33045447 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGGC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGAC
*
33045512 GCTTCTTATAAAGCGCCGC-AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAA
131 GCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAA
*
33045576 AATTTTTTTATTTTTTTTTATAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCCGCTA
196 AATTTTTTTA-TTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTA
33045641 TTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
260 TTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
33045675 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT--AA----TTT-TTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
* *
33045733 TATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGAC
66 TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGAC
33045798 GCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAA
131 GCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAA
**
33045863 AATTTTTTTA-TTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACACCGCTAT
196 AATTTTTTTATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTAT
33045927 TGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
261 TGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
33045960 CGC-AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
1 CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTA--TTTT
*
33046024 TTTATAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCG
64 TTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCG
* * * * * *
33046089 GCGCTTCTTATAAACCGCTGCAAAATTTTTTCATTTTGAACAAAACGACGCCATTTTACTATTCT
129 ACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCT
*
33046154 AAAA-TTTTTTATTTTTTTTATAAGTTGATTTATT
194 AAAATTTTTTTATTTTTTTTATAAATTGATTTATT
33046188 ACCTTTAGCG
Statistics
Matches: 761, Mismatches: 32, Indels: 26
0.93 0.04 0.03
Matches are distributed among these distances:
284 43 0.06
285 87 0.11
286 87 0.11
287 57 0.07
290 3 0.00
291 52 0.07
292 10 0.01
293 422 0.55
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (293 bp):
CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTT
TATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGAC
GCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAA
AATTTTTTTATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCCGCTAT
TGCTTACCTTTAGCGGCGCTTCTTATAAAGCGC
Found at i:33045902 original size:432 final size:434
Alignment explanation
Indices: 33045093--33046187 Score: 1964
Period size: 432 Copynumber: 2.5 Consensus size: 434
33045083 CTTATGCGCA
*
33045093 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAATTTTTTT-TATTTTTTTA
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
* *
33045156 TAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGACGC
66 TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGCGC
*
33045221 TTCTTATAAAGCGCCGCAAAATTTTTTTCATTTTGAACAAAACGACACCGTTTTGCTATTCTAAA
131 TTCTTATAAAGCGCCGCAAAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AA
33045286 TTTTTTTTATTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTG
194 ----TTTTATTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTG
33045351 CTTACCTTTAGCGACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACC
255 CTTACCTTTAGCGACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACC
33045416 GTTTTGCTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATA
320 GTTTTGCTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATA
33045481 GAAAACACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC
385 GAAAACACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC
33045531 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
*
33045596 TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCCGCTATTGCTTACCTTTAGCGGCGC
66 TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGCGC
33045661 TTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAA-T
131 TTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAATT
33045725 TT-TTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACC
196 TTATTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACC
33045789 TTTAGCGACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTG
261 TTTAGCGACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTG
33045854 CTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAAC
326 CTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAAC
33045919 ACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC
391 ACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC
33045963 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
*
33046028 TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAACGCTGCTATTGCTTACCTTTAGCGGCGC
66 TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGCGC
* * * *
33046093 TTCTTATAAACCGCTGCAAAATTTTTTCATTTTGAACAAAACGACGCCATTTTACTATTCTAAAA
131 TTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT--AA
*
33046158 TTTTTTATTTTTTTTATAAGTTGATTTATT
194 --TTTTA-TTTTTTTATAAATTGATTTATT
33046188 ACCTTTAGCG
Statistics
Matches: 636, Mismatches: 12, Indels: 17
0.96 0.02 0.03
Matches are distributed among these distances:
432 421 0.66
433 3 0.00
434 2 0.00
437 3 0.00
438 45 0.07
439 70 0.11
440 92 0.14
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (434 bp):
AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTTA
TAAATTGATTTATTTTTTGTGGCGTTTTTATAGAAAATGCTGCTATTGCTTACCTTTAGCGGCGC
TTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAATT
TTATTTTTTTATAAATTGATTTATTTTTTACGGCGTTTTTATAGAAAATGCTGCTATTGCTTACC
TTTAGCGACGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACACCGTTTTG
CTATTCTAAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAAC
ACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC
Found at i:33046375 original size:15 final size:16
Alignment explanation
Indices: 33046349--33046383 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
33046339 CCTAACATCT
33046349 AACCACTAAACCCCTA
1 AACCACTAAACCCCTA
33046365 AACCACT-AACCCCTA
1 AACCACTAAACCCCTA
33046380 AACC
1 AACC
33046384 TTAAATCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.43, C:0.46, G:0.00, T:0.11
Consensus pattern (16 bp):
AACCACTAAACCCCTA
Found at i:33046841 original size:23 final size:25
Alignment explanation
Indices: 33046814--33046868 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
33046804 TAAATAATAA
*
33046814 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
33046837 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
33046863 TATTTT
1 TATTTT
33046869 TTCTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:33047307 original size:12 final size:13
Alignment explanation
Indices: 33047280--33047312 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
33047270 CCAATTCTTG
*
33047280 TTTTGTTTTATTT
1 TTTTGTTTTATAT
33047293 TTTTGTTTT-TAT
1 TTTTGTTTTATAT
33047305 TTTTGTTT
1 TTTTGTTT
33047313 GCGCATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (13 bp):
TTTTGTTTTATAT
Found at i:33047961 original size:3 final size:3
Alignment explanation
Indices: 33047947--33047983 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
33047937 ATTAATTAAT
* *
33047947 TTA TTG TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33047984 ATTTTTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:33052048 original size:17 final size:17
Alignment explanation
Indices: 33052019--33052075 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
33052009 AATCAACAAA
*
33052019 AAAAT-AAAA-AAAATT
1 AAAATCAAAATAAAAAT
33052034 AAAATCAAAATAAAAAT
1 AAAATCAAAATAAAAAT
*
33052051 CAAATCAAAATTGAAAAAT
1 AAAATCAAAA-T-AAAAAT
33052070 GAAAAT
1 -AAAAT
33052076 GATGAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 5 0.15
16 4 0.12
17 14 0.41
18 1 0.03
19 6 0.18
20 4 0.12
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATCAAAATAAAAAT
Found at i:33053026 original size:7 final size:7
Alignment explanation
Indices: 33053014--33053076 Score: 101
Period size: 7 Copynumber: 9.0 Consensus size: 7
33053004 GAGTCGTAAA
33053014 AAAAATG
1 AAAAATG
33053021 AAAAATG
1 AAAAATG
33053028 -AAAATG
1 AAAAATG
33053034 AAAAATG
1 AAAAATG
33053041 AAAAATG
1 AAAAATG
33053048 AAAAATG
1 AAAAATG
33053055 AAAAATG
1 AAAAATG
*
33053062 AAAAAATT
1 -AAAAATG
33053070 AAAAATG
1 AAAAATG
33053077 GAGAGGCTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.12
7 40 0.77
8 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:33054366 original size:88 final size:88
Alignment explanation
Indices: 33054209--33056214 Score: 2336
Period size: 88 Copynumber: 22.8 Consensus size: 88
33054199 CCATAAATCC
* * *
33054209 TATCTCCCTGAGCAGTAGTGGAGTTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
33054274 AAGTAGATCGAAGACTTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * * *
33054297 TATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAACA-ACTCTTGTGTTCTTGTATTGACAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TCTTGTCTTCCTGTATTGGCAGC
*
33054361 GAAGTAGATCGAAGA-TACCAGCCT
65 GAAGTAGATCGAAGACT-TCAGCCT
* * * *
33054385 TGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTGTCCTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33054450 AAGTAGATCGAAGACCTCAACCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * *
33054473 TATCACCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCATATCTTGTTTTCCTGTATTGGCAGGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33054538 AAGTAGATTGAAGA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * ** *
33054561 TGTCTCCCGGAGCAGTAGTGGAATAGGTAAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* **
33054626 AAGTAAATCGAAGACCTT-TTCCT
66 AAGTAGATCGAAGA-CTTCAGCCT
* * * * *
33054649 TATCTCCCTAAACAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTAGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33054714 AAGTAGATCGAAGA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * *
33054737 TGTCTCCCTGTGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33054802 AAATAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* *
33054825 TATCTCCCTGAGCAACAGTGGAGTAGGTT-AAAATA-CTAGATTTTGTCTTCCTGTATTGGCAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC-AGATCTTGTCTTCCTGTATTGGCAGC
* * *
33054888 GCAGTAGATTGAAGA-TACCAGCCT
65 GAAGTAGATCGAAGACT-TCAGCCT
* * * * * *
33054912 TGTCTCCCTGGGCAGCAGTGGAGTAGGTTTAAAATAGCAAATCTTATCTTCCTGTATTGGCCGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33054977 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
** * * * *
33055000 TATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAGTAGCAGATCTTGTCTTCCTGTACTGGAAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33055065 AAGTAGATCGAAGA-TACTGGCCT
66 AAGTAGATCGAAGACTTC-AGCCT
* * * * * * * *
33055088 TGTCTCCTTCAGCAACAGTGGAGTAGGATAAAAATAGCAGATCTTCTCTT-CTAGTATTGACAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCT-GTATTGGCAGC
* **
33055152 GAAGTAGATCGAACACCGCAGCCT
65 GAAGTAGATCGAAGACTTCAGCCT
* ** *
33055176 TATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTTGTGTATTAGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33055241 AAGTAGATCGAAGA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * * * *
33055264 TGTCACCCTGAGCAGCAGTCGAGTAAGTTAAAAATAACAGATCTTATCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33055329 AAGTAGATCGAAGACCTCAACCT
66 AAGTAGATCGAAGACTTCAGCCT
33055352 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33055417 AAGTAGATCGAAGA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * * *
33055440 TCTCTCCCTGAGCAGTAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCCTGAATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33055504 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * * * *
33055527 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33055592 AAGTAGATCGAATA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * * *
33055615 TGTCTCCCTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATTGGCAGTG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33055680 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * *
33055703 TATCTCCCTAAGCAGTAGTGTAGTAGGGTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33055768 AAGTAGTTCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
*
33055791 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33055856 AAGTAGATCGAAGA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * * *
33055879 TCTCTCCCTGAGCAACAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCCTGAATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * *
33055943 AAGTAGATCAAATACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * * * *
33055966 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
33056031 AAGTAGATCGAATA-TACCAGCCT
66 AAGTAGATCGAAGACT-TCAGCCT
* * * * * * **
33056054 TGTCTCCTTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATTGGCAATG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
33056119 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGACTTCAGCCT
* * * * * * * **
33056142 TATCTCCCTAAGCAGTAGTGTAGTAGGTTGAAAATAGTAGATCTTGTGTTCTTCTATTGATAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
33056207 AAGTAGAT
66 AAGTAGAT
33056215 ATTGTCTTAA
Statistics
Matches: 1611, Mismatches: 276, Indels: 62
0.83 0.14 0.03
Matches are distributed among these distances:
86 2 0.00
87 228 0.14
88 1376 0.85
89 4 0.00
90 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (88 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
AAGTAGATCGAAGACTTCAGCCT
Found at i:33054505 original size:176 final size:176
Alignment explanation
Indices: 33054211--33056214 Score: 2592
Period size: 176 Copynumber: 11.4 Consensus size: 176
33054201 ATAAATCCTA
* * * *
33054211 TCTCCCTGAGCAGTAGTGGAGTTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * *
33054276 GTAGATCGAAGACTTCAGCCTTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAACA-ACTC
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGA-TC
* * *
33054340 TTGTGTTCTTGTATTGACAGCGAAGTAGATCGAAGATACCAGCCTTG
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* *
33054387 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTGTCCTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * *
33054452 GTAGATCGAAGACCTCAACCTTATCACCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCATATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* * *
33054517 TGTTTTCCTGTATTGGCAGGGAAGTAGATTGAAGATACCAGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * *
33054563 TCTCCCGGAGCAGTAGTGGAATAGGTAAAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* *** * * *
33054628 GTAAATCGAAGACCTTTTCCTTATCTCCCTAAACAGTAGTGGAGTAGGTTGAAAATAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* *
33054693 TGTCTTCTTGTATTAGCAGCGAAGTAGATCGAAGATACCAGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* *
33054739 TCTCCCTGTGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * *
33054804 ATAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTT-AAAATA-CTAGATT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC-AGATC
* *
33054867 TTGTCTTCCTGTATTGGCAGCGCAGTAGATTGAAGATACCAGCCTTG
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * *
33054914 TCTCCCTGGGCAGCAGTGGAGTAGGTTTAAAATAGCAAATCTTATCTTCCTGTATTGGCCGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
** *
33054979 GTAGATCGAAGACCTCAGCCTTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAGTAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* * * **
33055044 TGTCTTCCTGTACTGGAAGCAAAGTAGATCGAAGATACTGGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * * *
33055090 TCTCCTTCAGCAACAGTGGAGTAGGATAAAAATAGCAGATCTTCTCTT-CTAGTATTGACAGCGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCT-GTATTGGCAGCGA
* * *
33055154 AGTAGATCGAACACCGCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCAGATC
65 AGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATC
** *
33055219 TTGTCTTTGTGTATTAGCAGCGAAGTAGATCGAAGATACCAGCCTTG
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * *
33055266 TCACCCTGAGCAGCAGTCGAGTAAGTTAAAAATAACAGATCTTATCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
*
33055331 GTAGATCGAAGACCTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
*
33055396 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTC
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * *
33055442 TCTCCCTGAGCAGTAGTGGAGTAGGTT-AAAATAGTAAATCTTATCTTCCTGAATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * * * *
33055506 GTAGATCGAAGACCTCAGCCTTATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* *
33055571 TGTCTTCCTGTATTGGCAGCTAAGTAGATCGAATATACCAGCCTTG
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
* * * * *
33055617 TCTCCCTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATCTTGTCTTCTTGTATTGGCAGTGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * *
33055682 GTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGTAGTGTAGTAGGGTGAAAATAGCAGATCT
66 GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
* * * *
33055747 TGTCTTCCTGTATTGGCAGCAAAGTAGTTCGAAGA-CCTCAGCCTTA
131 TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAC-CAGCCTTG
* *
33055793 TCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * * *
33055858 GTAGATCGAAGATAC-CAGCCTTCTCTCCCTGAGCAACAGTGGAGTAGGTT-AAAATAGTAAATC
66 GTAGATCGAAGA-CCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATC
* * *
33055921 TTATCTTCCTGAATTGGCAGCGAAGTAGATC-AA-ATACCTCAGCCTTA
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-C-CAGCCTTG
* * * * * * * *
33055968 TCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCTAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* * * * * * *
33056033 GTAGATCGAATATAC-CAGCCTTGTCTCCTTGAGCAACAGTGGAGTAGGTTTAAAATAACAGATC
66 GTAGATCGAAGA-CCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATC
* ** * *
33056097 TTGTCTTCTTGTATTGGCAATGAAGTAGATCGAAGA-CCTCAGCCTTA
130 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAC-CAGCCTTG
* * * * * * * * **
33056144 TCTCCCTAAGCAGTAGTGTAGTAGGTTGAAAATAGTAGATCTTGTGTTCTTCTATTGATAGCGAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
33056209 GTAGAT
66 GTAGAT
33056215 ATTGTCTTAA
Statistics
Matches: 1604, Mismatches: 210, Indels: 28
0.87 0.11 0.02
Matches are distributed among these distances:
173 1 0.00
174 3 0.00
175 472 0.29
176 1120 0.70
177 7 0.00
178 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (176 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCT
TGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTG
Found at i:33054741 original size:44 final size:45
Alignment explanation
Indices: 33054686--33055888 Score: 198
Period size: 44 Copynumber: 27.4 Consensus size: 45
33054676 TTGAAAATAG
* *
33054686 CAGATCTTGTCTTCTTGTATTAGCAGCGAAGTAGATCGAAGATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * * * ** * *
33054731 CAG-CCTTGTCTCCCTGT-GTAGCAGTGGAGTAGGTTAAAAATAG
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * *
33054774 CAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * ** * * * * * *
33054818 TCAG-CCTTATCTCCCTG-AGCAACAGTGGAGTAGGT-TAAAATAC
1 -CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* ** * * *
33054861 TAGATTTTGTCTTCCTGTATTGGCAGCGCAGTAGATTGAAGATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* *** * * * ** * *
33054906 CAG-CCTTGTCTCCCTG-GGCAGCAGTGGAGTAGGTTTAAAATAG
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * * * *
33054949 CAAATCTTATCTTCCTGTATTGGCCGCGAAGTAGATCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * ** * * * * *
33054993 TCAG-CCTTATC-T-CTTTGAGCAGCAGTGGAGTAGGTTGAA-AGTAG
1 -CAGACCTTGTCTTCCTGT-ATTAGCAGCGAAGTAGATCGAAGA-TAC
* * * * *
33055037 CAGATCTTGTCTTCCTGTACTGGAAGCAAAGTAGATCGAAGATA-
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * ** * * * * * *
33055081 CTGGCCTTGTC-TCCT-TCAGCAACAGTGGAGTAGGAT-AAAAATAG
1 CAGACCTTGTCTTCCTGT-ATTAGCAGCGAAGTA-GATCGAAGATAC
* * * *
33055125 CAGATCTTCTCTT-CTAGTATT-GACAGCGAAGTAGATCGAACA-CC
1 CAGACCTTGTCTTCCT-GTATTAG-CAGCGAAGTAGATCGAAGATAC
* * ** * * * * *
33055169 GCAG-CCTTATCTCCCTG-AGCAGCAGTGAAGTAGGTTGAAAATAG
1 -CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* **
33055213 CAGATCTTGTCTTTGTGTATTAGCAGCGAAGTAGATCGAAGATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
** ** ** * *
33055258 CAG-CCTTGTCACCCTG-AGCAGCAGTCG-AGTA-AGTTAAAAATAA
1 CAGACCTTGTCTTCCTGTATTAGCAG-CGAAGTAGA-TCGAAGATAC
* * * *
33055301 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * ** * * * * * *
33055345 TCA-ACCTTATCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAG
1 -CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* *
33055389 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * ** * * * * * * *
33055434 CAG-CCTTCTCTCCCTG-AGCAGTAGTGGAGTAGGT-TAAAATAG
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * * * * *
33055476 TAAATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* ** * * * * * *
33055520 TCAG-CCTTATC-TCCT-TCAGCAGTAGTGTAGTAGGTTGAA-AGTAG
1 -CAGACCTTGTCTTCCTGT-ATTAGCAGCGAAGTAGATCGAAGA-TAC
* * * * *
33055564 CAAATCTTGTCTTCCTGTATTGGCAGCTAAGTAGATCGAATATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* ** * * * * ** * *
33055609 CAG-CCTTGTCTCCCTG-AGCAACAGTGGAGTAGGTTTAAAATAA
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * * *
33055652 CAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* * * ** * * * * * *
33055696 TCAG-CCTTATCTCCCT-AAGCAGTAGTGTAGTAGGGT-GAAAATAG
1 -CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTA-GATCGAAGATAC
* * * * *
33055740 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGTTCGAAGA-CC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* ** * * * * * *
33055784 TCAG-CCTTATC-TCTCTG-AGCAGCAGTGGAGTAGGTTGAAAATAG
1 -CAGACCTTGTCTTC-CTGTATTAGCAGCGAAGTAGATCGAAGATAC
* *
33055828 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAC
1 CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
* *
33055873 CAG-CCTTCTCTCCCTG
1 CAGACCTTGTCTTCCTG
33055889 AGCAACAGTG
Statistics
Matches: 747, Mismatches: 345, Indels: 133
0.61 0.28 0.11
Matches are distributed among these distances:
42 18 0.02
43 246 0.33
44 258 0.35
45 217 0.29
46 8 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (45 bp):
CAGACCTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAC
Found at i:33055154 original size:439 final size:438
Alignment explanation
Indices: 33054209--33056214 Score: 2594
Period size: 439 Copynumber: 4.6 Consensus size: 438
33054199 CCATAAATCC
* * * *
33054209 TATCTCCCTGAGCAGTAGTGGAGTTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCA
1 TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * * *
33054274 AAGTAGATCGAAGACT-TCAGCCTTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAACA-A
66 AAGTAGATCGAAGA-TACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGA
* * * *
33054337 CTCTTGTGTTCTTGTATTGACAGCGAAGTAGATCGAAGATAC-CAGCCTTGTCTCCCTGAGCAGC
130 -TCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCCCTGAGCAGC
*
33054401 AGTGGAGTAGGTTAAAAATAACAGATCTTGTCCTCCTGTATTGGCAGCGAAGTAGATCGAAGACC
193 AGTGGAGTAGGTTAAAAAT-ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACC
* * * *
33054466 TCAACCTTATCACCCTGAGCAGCGGTGGAGTAGGTTGAAAATAGCATATCTTGTTTTCCTGTATT
257 TCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATT
* * * * * * *
33054531 GGCAGGGAAGTAGATTGAAGATACCAGCCTTGTCTCCCGGAGCAGTAGTGGAATAGGTAAAAAAT
322 GGCAGCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGT-TAAAAT
* * * * * * ***
33054596 AGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAAATCGAAGACCTTTTCCT
386 AGCAAATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGAACTCAGCCT
* * * * *
33054649 TATCTCCCTAAACAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTAGCAGCG
1 TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * * *
33054714 AAGTAGATCGAAGATACCAGCCTTGTCTCCCTGTGTAGCAGTGGAGTAGGTTAAAAATAGCAGAT
66 AAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
* * *
33054779 CTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAACAGT
131 CTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGT
* * * *
33054844 GGAGTAGGTT-AAAATACTAGATTTTGTCTTCCTGTATTGGCAGCGCAGTAGATTGAAGATAC-C
196 GGAGTAGGTTAAAAATAC-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCTC
* * * * * *
33054907 AGCCTTGTCTCCCTGGGCAGCAGTGGAGTAGGTTTAAAATAGCAAATCTTATCTTCCTGTATTGG
259 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * * ** *
33054972 CCGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCTTTGAGCAGCAGTGGAGTAGGTTGAAAGTA
324 CAGCGAAGTAGATCGAAGATAC-CAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTT-AAAATA
* * * * * * *
33055036 GCAGATCTTGTCTTCCTGTACTGGAAGCAAAGTAGATCGAAGATACT-GGCCT
387 GCAAATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGA-ACTCAGCCT
* ** * * * *
33055088 TGTCTCCTTCAGCAACAGTGGAGTAGGATAAAAATAGCAGATCTTCTCTT-CTAGTATTGACAGC
1 TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCT-GTATTGGCAGC
* * * * *
33055152 GAAGTAGATCGAACA-CCGCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCAG
65 GAAGTAGATCGAAGATAC-CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAG
* * * *
33055216 ATCTTGTCTT-TGTGTATTAGCAGCGAAGTAGATCGAAGATAC-CAGCCTTGTCACCCTGAGCAG
129 ATCTTGTCTTCT-TGTATTGGCAGCGAAGTAGATCGAAGA-CCTCAGCCTTATCTCCCTGAGCAG
* * *
33055279 CAGTCGAGTAAGTTAAAAATAACAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC
192 CAGTGGAGTAGGTTAAAAAT-ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC
33055344 CTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTAT
256 CTCAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTAT
*
33055409 TGGCAGCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAT
321 TGGCAGCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAT
* *
33055474 AGTAAATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGACCTCAGCCT
386 AGCAAATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGAACTCAGCCT
* * * *
33055527 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * *
33055592 AAGTAGATCGAATATACCAGCCTTGTCTCCCTGAGCAACAGTGGAGTAGGTTTAAAATAACAGAT
66 AAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
* * *
33055657 CTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGTAGT
131 CTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGT
* * * * *
33055722 GTAGTAGGGTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGTTCGAAGACCTCA
196 GGAGTAGGTTAAAAATA-CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCA
* *
33055787 GCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGC
260 ACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGC
* *
33055852 AGCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAACAGTGGAGTAGGTTAAAATAGTA
325 AGCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGCA
* * *
33055917 AATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCAAATACCTCAGCCT
390 AATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGAACTCAGCCT
* * * *
33055966 TATCTCCTTCAGCAGTAGTGTAGTAGGTTGAAAGTAGCAAATCTTGTCTTCCTGTATTGGCAGCT
1 TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * * *
33056031 AAGTAGATCGAATATACCAGCCTTGTCTCCTTGAGCAACAGTGGAGTAGGTTTAAAATAACAGAT
66 AAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
** * *
33056096 CTTGTCTTCTTGTATTGGCAATGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTAAGCAGTAGT
131 CTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGT
* * * * * * **
33056161 GTAGTAGGTTGAAAATAGTAGATCTTGTGTTCTTCTATTGATAGCGAAGTAGAT
196 GGAGTAGGTTAAAAATA-CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGAT
33056215 ATTGTCTTAA
Statistics
Matches: 1386, Mismatches: 158, Indels: 45
0.87 0.10 0.03
Matches are distributed among these distances:
438 9 0.01
439 1034 0.75
440 339 0.24
441 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (438 bp):
TATCTCCTTCAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
AAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGAT
CTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCTCAGCCTTATCTCCCTGAGCAGCAGT
GGAGTAGGTTAAAAATACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCTCAA
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCA
GCGAAGTAGATCGAAGATACCAGCCTTCTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAATAGCAA
ATCTTATCTTCCTGAATTGGCAGCGAAGTAGATCGAAGAACTCAGCCT
Found at i:33056315 original size:15 final size:15
Alignment explanation
Indices: 33056295--33056323 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33056285 TATTGATTTT
33056295 TTATTATTATTATCA
1 TTATTATTATTATCA
33056310 TTATTATTATTATC
1 TTATTATTATTATC
33056324 TTGGTGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:33065919 original size:14 final size:15
Alignment explanation
Indices: 33065888--33065933 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
33065878 TGTTATCATA
33065888 TTTTATCTTATTGCT
1 TTTTATCTTATTGCT
33065903 TTTTATCTTATTG-T
1 TTTTATCTTATTGCT
* **
33065917 TTTCAAGTTATTGCT
1 TTTTATCTTATTGCT
33065932 TT
1 TT
33065934 GACAACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (15 bp):
TTTTATCTTATTGCT
Found at i:33066315 original size:13 final size:13
Alignment explanation
Indices: 33066297--33066326 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33066287 AAGAACCCTG
33066297 ATGCAACACCAAA
1 ATGCAACACCAAA
*
33066310 ATGCAACATCAAA
1 ATGCAACACCAAA
33066323 ATGC
1 ATGC
33066327 TAATAACCTA
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:0.50, C:0.27, G:0.10, T:0.13
Consensus pattern (13 bp):
ATGCAACACCAAA
Found at i:33071215 original size:45 final size:45
Alignment explanation
Indices: 33071148--33071239 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
33071138 ACATGATTGA
*
33071148 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGATGGAT
1 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
*
33071193 GAAGGTTGTGAACCCTTTGAGGAAATATTGGTCTTCCAGACGGAT
1 GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
33071238 GA
1 GA
33071240 CGTTTTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (45 bp):
GAAGGTTGTGAACCCTTCGAGGAAATATTGGTCTTCCAGACGGAT
Found at i:33075867 original size:614 final size:612
Alignment explanation
Indices: 33074693--33075906 Score: 1962
Period size: 614 Copynumber: 2.0 Consensus size: 612
33074683 TAATTTGTCC
*
33074693 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATTGCATTTTACAACTAA
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATAGCATTTTACAACTAA
* * *
33074758 GTGAATCTTAACATATTTTTCCTTAATTTCGTCATGTTTTGGTACTGATGTCCCTGCATGAGTAT
66 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
** * ** * *
33074823 TTTTAGATTGCGCCCAGAATTGCCGTCGCACTTGATAGCTGTCCGGATAAGAACAAAAATGTGTG
131 TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
* * * * * ** *
33074888 AGCTGTCCAGTCTGGTATAACCAACTTGTACCTATAGAGGCTGCATGATTCTGATGAAATGACAA
196 AGCTATCCAATCTAGTATAACCAACTTGTACATATAGAAGAAGCATGATTCTGATGAAAGGACAA
* *
33074953 CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAATGGAGGGTTTTTGGGGT
261 CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAGGGAGGCTTTTTGGGGT
* **
33075018 ATTATCTTATTGAACCTATCTTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTATGGGTGA
326 ATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGTGA
*
33075083 ACCAACGTGAAAGGAATGCAGATTAGCTCTTGACAAGGAGTCTTGAGTGCAACACAAGAGGGAGT
391 ACCAACGTGAAAGGAATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAGT
* *
33075148 TGAGAGATTAAGTCGATATTTTCTAGGAATAGTACTCTCTACTTGTTTCTTTTATATTTCTTTTC
456 TGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTTTC
*
33075213 TAAACGCTAGTGATTAATTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGGGTTAAAT
521 TAAACGCTAGTGATTAATTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTAAAT
33075278 GTTATTTTATTCAATTTAGTTATCTTT
586 GTTATTTTATTCAATTTAGTTATCTTT
* * *
33075305 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCATTTTAGTAAATAGCATTTTATAACTCA
1 CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATAGCATTTTACAACTAA
33075370 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
66 GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
* * * * *
33075435 TTCCAGATTGCGCCCAAAATTGTCACCGTACTTGACAGTTGTCTAGATAAGAACAAAAATTTGTG
131 TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
*
33075500 AGCTATCCAATCTAGTATAACCAACTTGTACATATAGAAGAAGCATGATTTTGATGAAAGGAC-A
196 AGCTATCCAATCTAGTATAACCAACTTGTACATATAGAAGAAGCATGATTCTGATGAAAGGACAA
* * *
33075564 CTTGTGCTATTTGGAAGAATACAAATATTCATGTGAAAAAGAAAAAAAAAAGGGAGGCTTTTTGG
261 C-TGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAG--AAAAAAAAGGGAGGCTTTTTGG
33075629 GGTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGG
323 GGTATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGG
* * **
33075694 TGAACCAACGTGAAAGGGATGCATATTAGCTCTTGACAAGGAGTCCTGAGTGTGACACAAGAGGG
388 TGAACCAACGTGAAAGGAATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGG
*
33075759 AGTTGAGAGATTAAGTTGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTT
453 AGTTGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTT
* * *
33075824 TTCTAAATGCTAGTGATTACTTTCTATTTCATGTTTGTACGGAAGTATACATGATTTCTGAGTTA
518 TTCTAAACGCTAGTGATTAATTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTA
33075889 AATGTTATTTTATTCAAT
583 AATGTTATTTTATTCAAT
33075907 CTTATTTCTA
Statistics
Matches: 551, Mismatches: 48, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
611 2 0.00
612 266 0.48
614 283 0.51
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (612 bp):
CCATTTAGTTATCTTTAGCACATATTTTAGCATTTTCAGTTTAGTAAATAGCATTTTACAACTAA
GTGAATCTTAACATATTTTTCCTTAATTTCATCATGTTTTGGTACTGATATCACTGCATGAGTAT
TTCCAGATTGCGCCCAAAATTGCCACCGCACTTGACAGCTGTCCAGATAAGAACAAAAATGTGTG
AGCTATCCAATCTAGTATAACCAACTTGTACATATAGAAGAAGCATGATTCTGATGAAAGGACAA
CTGTGCTATTTGCAAGAATACAAATAGTCACGTGAAAAAGAAAAAAAAGGGAGGCTTTTTGGGGT
ATTATCTTATTGAACCTATATTTTGAAGCTTTTCGGCTATGGTGGCTTAAGCCTCTTACAGGTGA
ACCAACGTGAAAGGAATGCAGATTAGCTCTTGACAAGGAGTCCTGAGTGCAACACAAGAGGGAGT
TGAGAGATTAAGTCGAGATTTTCTAGGAATAGTACTCTCCACTTGTTTCTTTTATATTTCTTTTC
TAAACGCTAGTGATTAATTTCTATTTCATGTTTGTACGGAAGCATACATGATTTCTGAGTTAAAT
GTTATTTTATTCAATTTAGTTATCTTT
Found at i:33077123 original size:16 final size:15
Alignment explanation
Indices: 33077098--33077131 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33077088 AGAGTTTATA
*
33077098 ATAATTAATATACATT
1 ATAATGAATATA-ATT
33077114 ATAATGAATATAATT
1 ATAATGAATATAATT
33077129 ATA
1 ATA
33077132 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATGAATATAATT
Found at i:33089935 original size:15 final size:15
Alignment explanation
Indices: 33089915--33089944 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33089905 CTATGCATGC
*
33089915 AAAACATGAAAGACA
1 AAAACACGAAAGACA
33089930 AAAACACGAAAGACA
1 AAAACACGAAAGACA
33089945 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAACACGAAAGACA
Found at i:33095345 original size:39 final size:39
Alignment explanation
Indices: 33095141--33095363 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
33095131 TTGAATGCTG
* * * * * *
33095141 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
33095181 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
33095221 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
33095261 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
33095301 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
33095340 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33095364 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:33095383 original size:79 final size:80
Alignment explanation
Indices: 33095221--33095398 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
33095211 AGATACAAGT
* * * *
33095221 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
33095286 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
33095301 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
33095365 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33095380 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33095399 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:33103210 original size:40 final size:40
Alignment explanation
Indices: 33103075--33103298 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
33103065 TTGAATGCTG
* * *
33103075 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
33103115 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
33103154 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
33103194 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
33103234 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
33103273 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33103299 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 65 0.41
40 81 0.52
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:33103211 original size:79 final size:79
Alignment explanation
Indices: 33103128--33103298 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 79
33103118 GGACTAAGAT
* *
33103128 CCGAAGGCATTTGTGCGAGATA-CAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
* *
33103192 AATCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* * * * * *
33103207 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33103272 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
33103286 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33103299 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 58 0.73
80 21 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:33103316 original size:79 final size:80
Alignment explanation
Indices: 33103154--33103331 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
33103144 GAGATACAAT
* * * *
33103154 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
33103219 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
33103234 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
33103298 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33103313 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33103332 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:33110333 original size:18 final size:18
Alignment explanation
Indices: 33110310--33110344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33110300 TGCAGAAGAA
*
33110310 ATATTTGATCTTTTTAGG
1 ATATTTGAACTTTTTAGG
*
33110328 ATATTTTAACTTTTTAG
1 ATATTTGAACTTTTTAG
33110345 TCTTCTTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (18 bp):
ATATTTGAACTTTTTAGG
Found at i:33118796 original size:33 final size:33
Alignment explanation
Indices: 33118756--33118873 Score: 148
Period size: 33 Copynumber: 3.5 Consensus size: 33
33118746 TACACTTTGT
33118756 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* *
33118789 TTAGTGTGTTGGTTGGATTAGCTCTTATGACCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
** * *
33118822 TTGGTGTGTTGGAGGGATTGGCT-TGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCT-TATGAGCA
33118855 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
33118874 CTGACAATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 57 0.79
34 7 0.10
35 7 0.10
ACGTcount: A:0.14, C:0.08, G:0.36, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:33121348 original size:10 final size:10
Alignment explanation
Indices: 33121333--33121357 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33121323 TTTATAATAA
33121333 ATTTTGATTT
1 ATTTTGATTT
33121343 ATTTTGATTT
1 ATTTTGATTT
33121353 ATTTT
1 ATTTT
33121358 CGACAGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:33132878 original size:21 final size:22
Alignment explanation
Indices: 33132849--33132895 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
33132839 CAGAAGGAGT
*
33132849 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
33132871 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
33132892 GAGT
1 GAGT
33132896 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:33137085 original size:7 final size:7
Alignment explanation
Indices: 33137073--33137098 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33137063 ATGTAAAATC
33137073 ATATTAA
1 ATATTAA
33137080 ATATTAA
1 ATATTAA
33137087 ATATTAA
1 ATATTAA
33137094 ATATT
1 ATATT
33137099 GTTATGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATATTAA
Found at i:33146578 original size:132 final size:132
Alignment explanation
Indices: 33146331--33146909 Score: 752
Period size: 132 Copynumber: 4.4 Consensus size: 132
33146321 CAGATCAATG
* * * *
33146331 AAGACGGCGAATCTCATCTTCCCCATGAGTAAGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
1 AAGACGGCGAATCTTATCTTCCCAAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
* * *
33146396 CTGAGCAGCAGCGGAGCAGGTTGAAGATTACAGATCTTATCTCCCAAAGCAATAGTGGAGCAGAT
66 CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
33146461 CA
131 CA
*
33146463 AAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
1 AAGACGGCGAATCTTATCTTCCCAAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
* * * * * * *
33146528 TTGAGCAGTAGAGGAGCAGGTTAAAGATTACAAATATTATATCCTTAAGCAGTAGTGGAGCAGAT
66 CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
33146593 CA
131 CA
* * * * *
33146595 AAGACGACAAATATTATCATT-CCAAGATAGT-GGGAAGCAGATTTAAGCCACCGAGCCTTGTCT
1 AAGACGGCGAATCTTATC-TTCCCAAG-GAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCT
* ** * *
33146658 CCCTGAGCAGCAGCGGAGCAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
64 CCCTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAG
33146723 ATCA
129 ATCA
** * * * * *
33146727 AAGACGGTAAATCTTATCTTTCCAAGATAGT-GGGAAGCAAATTTAAGCCACCAAGCCTTGTCTC
1 AAGACGGCGAATCTTATCTTCCCAAG-GAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTC
* *
33146791 CCTGAGTAGCAGAGGAGCAGGTTGAAGA-TAGCAAATCTTATCTCCCTAATCAATAGTGGAGCAG
65 CCTGAGCAGCAGAGGAGCAGGTTGAAGATTA-CAAATCTTATCTCCCTAAGCAATAGTGGAGCAG
*
33146855 ATCG
129 ATCA
* * *
33146859 AAGACGGCGACTCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAATCCAC
1 AAGACGGCGAATCTTATCTTCCCAAGGAGTAGGGAAACAGATTTAAGCCAC
33146910 AAGTCTTATT
Statistics
Matches: 390, Mismatches: 52, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
131 6 0.02
132 379 0.97
133 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (132 bp):
AAGACGGCGAATCTTATCTTCCCAAGGAGTAGGGAAACAGATTTAAGCCACCGAGCCTTGTCTCC
CTGAGCAGCAGAGGAGCAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCAGAT
CA
Found at i:33146579 original size:44 final size:44
Alignment explanation
Indices: 33146525--33146611 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
33146515 GAGCCTTGTC
* * * **
33146525 TCCTTGAGCAGTAGAGGAGCAGGTTAAAGATTACAAATATTATA
1 TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTATA
*
33146569 TCCTTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATATTAT
1 TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTAT
33146612 CATTCCAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (44 bp):
TCCTTAAGCAGTAGAGGAGCAGATCAAAGACGACAAATATTATA
Found at i:33146961 original size:44 final size:44
Alignment explanation
Indices: 33146913--33147200 Score: 181
Period size: 44 Copynumber: 6.7 Consensus size: 44
33146903 AATCCACAAG
* *
33146913 TCTTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * * *** *
33146957 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAAGGA
* *** *
33146998 TCTTATCTCCCTGAGATTACAGT-G-G-A-A-TAGACCGAAGAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* ***
33147037 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-AAGGA
* ** *
33147081 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG-GA
* *
33147125 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * *
33147169 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
33147201 CGCATCAGAT
Statistics
Matches: 193, Mismatches: 34, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
37 3 0.02
38 3 0.02
39 23 0.12
40 2 0.01
41 22 0.11
42 5 0.03
43 9 0.05
44 119 0.62
45 5 0.03
46 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
Found at i:33147314 original size:50 final size:50
Alignment explanation
Indices: 33147251--33147610 Score: 246
Period size: 50 Copynumber: 7.2 Consensus size: 50
33147241 GCAGTGGAGC
*
33147251 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * ** * * * ** **
33147301 AGATTAAAACCACAACGGCAAATCTTACTTCTCTGACGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC-ATTGCAGTTAAAA
* * * * *
33147351 AGATTAAATCCACATCGGTGAATCTCGCATCCCCAACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * **** *
33147401 AGATTAAAGCTACAACAGTGAATCTTAC-TCCCTAGGCGA-TGCAACGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCC-CGAC-ATTGCAGTTAAAA
33147451 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *** * * *** *
33147501 AGATTAAAGCTACAACAACGAATCTTAC-TCCCCAGGCGA-TGCAGCGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCC-GAC-ATTGCAGTTAAAA
* *
33147551 AGATTAAAGCCACGA-CGGTGTATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
33147601 AGATTGAAGC
1 AGATTAAAGC
33147611 TACAAGCTAC
Statistics
Matches: 222, Mismatches: 77, Indels: 22
0.69 0.24 0.07
Matches are distributed among these distances:
49 12 0.05
50 198 0.89
51 12 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:33147345 original size:100 final size:100
Alignment explanation
Indices: 33147221--33147615 Score: 515
Period size: 100 Copynumber: 4.0 Consensus size: 100
33147211 TAAAGCCAGA
** * * *
33147221 AATCTTACCCCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * * *
33147286 ACATTGTAGTTAAAAAGATTAAAACCACAACGGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * * * * * *
33147321 AATCTTACTTCTCTGACGATGCAGTGGAGCAGATTAAATCCACATCGGTGAATCTCGCATCCCCA
1 AATCTTACTTCCCTGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
33147386 ACATTACAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
*
33147421 AATCTTAC-TCCCTAGGCGATGCAACGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCT-GGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
*
33147485 GACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * *
33147521 AATCTTACTCCCCAGGCGATGCAGCGGAACAGATTAAAGCCACGA-CGGTGTATCTTGCTTCCTC
1 AATCTTACTTCCCTGGCGATGCAGCGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
*
33147585 GACATTGCAGTTAAAAAGATTGAAGCTACAA
65 GACATTGCAGTTAAAAAGATTAAAGCTACAA
33147616 GCTACGAATC
Statistics
Matches: 258, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
99 4 0.02
100 250 0.97
101 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:33148603 original size:12 final size:12
Alignment explanation
Indices: 33148588--33148614 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33148578 AGAGTTTAGT
33148588 TTTTTTATTTTA
1 TTTTTTATTTTA
33148600 TTTTTTATTTTA
1 TTTTTTATTTTA
33148612 TTT
1 TTT
33148615 ATGCAAATAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:33148784 original size:15 final size:15
Alignment explanation
Indices: 33148764--33148793 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33148754 GTGTTTTGGC
33148764 CTCTGTTGGGAAATT
1 CTCTGTTGGGAAATT
33148779 CTCTGTTGGGAAATT
1 CTCTGTTGGGAAATT
33148794 TGCGTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
CTCTGTTGGGAAATT
Found at i:33151935 original size:25 final size:24
Alignment explanation
Indices: 33151907--33151972 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
33151897 ATAAAAACAG
33151907 GAAGCTCATGCGAGCCATGTAACGA
1 GAAGCTCATGCGAGCCAT-TAACGA
* *
33151932 GAAGCTTCA-GAGAGCCATTAACGG
1 GAAGC-TCATGCGAGCCATTAACGA
*
33151956 GAAGCTCATACGAGCCA
1 GAAGCTCATGCGAGCCA
33151973 ATAATGGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.09
24 16 0.46
25 13 0.37
26 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.15
Consensus pattern (24 bp):
GAAGCTCATGCGAGCCATTAACGA
Found at i:33151959 original size:24 final size:25
Alignment explanation
Indices: 33151917--33152007 Score: 87
Period size: 24 Copynumber: 3.7 Consensus size: 25
33151907 GAAGCTCATG
* * *
33151917 CGAGCCATGTAACGAGAAGCTTCAGA
1 CGAGCCA-ATAACGGGAAGCTTCAAA
* *
33151943 -GAGCCATTAACGGGAAGC-TCATA
1 CGAGCCAATAACGGGAAGCTTCAAA
* *
33151966 CGAGCCAATAATGGGAAGGTTCAAA
1 CGAGCCAATAACGGGAAGCTTCAAA
*
33151991 CGAGCCAATACCGGGAA
1 CGAGCCAATAACGGGAA
33152008 TCTTTGCAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
23 4 0.07
24 25 0.46
25 25 0.46
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.14
Consensus pattern (25 bp):
CGAGCCAATAACGGGAAGCTTCAAA
Found at i:33151996 original size:25 final size:24
Alignment explanation
Indices: 33151906--33152007 Score: 80
Period size: 25 Copynumber: 4.2 Consensus size: 24
33151896 GATAAAAACA
** *
33151906 GGAAGCTCATGCGAGCCATGTAACG
1 GGAAGCTCAAACGAGCCA-ATAACG
* * *
33151931 AGAAGCTTCAGA-GAGCCATTAACG
1 GGAAGC-TCAAACGAGCCAATAACG
* *
33151955 GGAAGCTCATACGAGCCAATAATG
1 GGAAGCTCAAACGAGCCAATAACG
* *
33151979 GGAAGGTTCAAACGAGCCAATACCG
1 GGAA-GCTCAAACGAGCCAATAACG
33152004 GGAA
1 GGAA
33152008 TCTTTGCAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 4 0.06
24 24 0.39
25 31 0.50
26 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (24 bp):
GGAAGCTCAAACGAGCCAATAACG
Found at i:33151996 original size:49 final size:49
Alignment explanation
Indices: 33151906--33152007 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
33151896 GATAAAAACA
* * * *
33151906 GGAAGCTCATGCGAGCCATGTAACGAGAAGCTTCAGAGAGCCATTAACG
1 GGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAAGAGCCAATAACG
* * * *
33151955 GGAAGCTCATACGAGCCA-ATAATGGGAAGGTTCAAACGAGCCAATACCG
1 GGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAA-GAGCCAATAACG
33152004 GGAA
1 GGAA
33152008 TCTTTGCAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 13 0.30
49 31 0.70
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (49 bp):
GGAAGCTCATACGAGCCATATAACGAGAAGCTTCAAAGAGCCAATAACG
Found at i:33152471 original size:115 final size:115
Alignment explanation
Indices: 33152269--33152502 Score: 450
Period size: 115 Copynumber: 2.0 Consensus size: 115
33152259 TGTCCACAAC
*
33152269 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTATTTATTCAAACGAGAC
1 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTAATTATTCAAACGAGAC
33152334 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
66 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
33152384 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTAATTATTCAAACGAGAC
1 AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTAATTATTCAAACGAGAC
*
33152449 TTAATACTTGTCGGTCATCGTCGGATATGTGATTAATTTCATATACATGG
66 TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
33152499 AAAT
1 AAAT
33152503 AATACAATCA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (115 bp):
AAATGCAGAACCACAACCAATTCGAGAACCCTGTATCTATCGAATTTTAATTATTCAAACGAGAC
TTAATACTTGTCAGTCATCGTCGGATATGTGATTAATTTCATATACATGG
Found at i:33154080 original size:258 final size:258
Alignment explanation
Indices: 33153574--33154173 Score: 981
Period size: 258 Copynumber: 2.3 Consensus size: 258
33153564 TTGTTACAAC
*
33153574 GGGGTTGAAAGCAAAATATTTGACTATGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* * *
33153639 ATCGAAAACTCGTTATGGTATCATATTAACATTGTGAACGAATAAAAAATTATATTTCATATGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATATGAA
*
33153704 TCACTATTGATATAAATATCTATTTTGAAAGGATGAAAAAAAGGAAGATTGAGTTATTGATTACT
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAGGAAGATTGAGTTATTGATTACT
*
33153769 CTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTTTCATCATCCCTATTAA
196 CTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTATCATCATCCCTATTAA
* * *
33153832 GGGGCTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGTAATAACATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
* * * *
33153897 ATCTAAAACTTGTTATGGTATCATATTGACATTGTGAATGAAGAAAAGATTA-ACTTCATATGAA
66 ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATATGAA
* * *
33153961 TCACTATTGTTATAAATATTTATTTTGAAAGGAGGAAAAAAAAGGGAGAATTGAGTTATTGATTA
131 TCACTATTGATATAAATATCTATTTTGAAAGGAGG-AAAAAAAGGAAG-ATTGAGTTATTGATTA
*
33154026 CTCTTGTTATTAAATTAAATTGATTGT-CACTATCTTTGTGATC-TTTTATCATCATCCCTATTA
194 CTCTTGTTATTAAATTAAATTGATTGTGC-CTATCTTTGTAATCTTTTTATCATCATCCCTATTA
33154089 A
258 A
* *
33154090 GGGGTTGAAAGCAAAATATTTAACTGTGAAAGATCTACTTATGAGCAATAAAATATGATAATTCT
1 GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
33154155 ATCTAAAACTCGTTATGGT
66 ATCTAAAACTCGTTATGGT
33154174 TGGATGCACC
Statistics
Matches: 317, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
257 43 0.14
258 218 0.69
259 56 0.18
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (258 bp):
GGGGTTGAAAGCAAAATATTTGACTGTGAAAGATCTACTTATGAGAAATAAAATATGATAATTCT
ATCTAAAACTCGTTATGGTATCATATTAACATTGTGAACGAAGAAAAAATTATACTTCATATGAA
TCACTATTGATATAAATATCTATTTTGAAAGGAGGAAAAAAAGGAAGATTGAGTTATTGATTACT
CTTGTTATTAAATTAAATTGATTGTGCCTATCTTTGTAATCTTTTTATCATCATCCCTATTAA
Found at i:33160722 original size:43 final size:42
Alignment explanation
Indices: 33160675--33160771 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
33160665 CTAAACGTGA
* * * *
33160675 TCTTACATGTAATCAAATATCAGTGCCACTGTCCCAGACAGGG
1 TCTTACACGTAATCAAATATCA-TGCCAATGCCCCAGACAAGG
* * *
33160718 TCTTACACGAAATCATATATGATGCCAATGCCCCAGACAAGG
1 TCTTACACGTAATCAAATATCATGCCAATGCCCCAGACAAGG
33160760 TCTTACACGTAA
1 TCTTACACGTAA
33160772 ATCTCAAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 28 0.61
43 18 0.39
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
TCTTACACGTAATCAAATATCATGCCAATGCCCCAGACAAGG
Found at i:33160806 original size:44 final size:42
Alignment explanation
Indices: 33160707--33160810 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 42
33160697 GTGCCACTGT
* * *
33160707 CCCAGACAGGGTCTTACACGAAATCATATATGATGCCAATGC
1 CCCAGACAAGGTCTTACACGAAATCATAAATGATGCCAACGC
* *
33160749 CCCAGACAAGGTCTTACACGTAAATC-TCAAATCGATGTCAACGT
1 CCCAGACAAGGTCTTACACG-AAATCAT-AAAT-GATGCCAACGC
* *
33160793 CTCAGACATGGTCTTACA
1 CCCAGACAAGGTCTTACA
33160811 GGATATCACA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 20 0.38
43 8 0.15
44 24 0.46
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
CCCAGACAAGGTCTTACACGAAATCATAAATGATGCCAACGC
Found at i:33177430 original size:96 final size:96
Alignment explanation
Indices: 33177316--33177514 Score: 389
Period size: 96 Copynumber: 2.1 Consensus size: 96
33177306 ACATTATACG
33177316 TAATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAG
1 TAATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAG
33177381 GAAAAATATTATTTTATTTTTTAATTTAATT
66 GAAAAATATTATTTTATTTTTTAATTTAATT
*
33177412 TTATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAG
1 TAATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAG
33177477 GAAAAATATTATTTTATTTTTTAATTTAATT
66 GAAAAATATTATTTTATTTTTTAATTTAATT
33177508 TAATTAT
1 TAATTAT
33177515 TTATAAATAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (96 bp):
TAATTATCTGATTATTTTATCTTTTACAGTAGTTTTTAATAATGGAGATAGATTAAATTTTTAAG
GAAAAATATTATTTTATTTTTTAATTTAATT
Found at i:33184060 original size:19 final size:20
Alignment explanation
Indices: 33184037--33184087 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
33184027 AATAAAAAAT
33184037 TAAATTATAAAAT-T-TATA
1 TAAATTATAAAATATATATA
* *
33184055 TAAAATCT-AAATATATATA
1 TAAATTATAAAATATATATA
*
33184074 TAAATTAAAAAATA
1 TAAATTATAAAATA
33184088 AATAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 4 0.16
18 7 0.28
19 9 0.36
20 5 0.20
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATTATAAAATATATATA
Found at i:33184098 original size:24 final size:23
Alignment explanation
Indices: 33184023--33184098 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
33184013 TATGCCATAT
33184023 TATAAATAAAAAATTAAATTATAAAA
1 TATAAATAAAAAA-TAAA-TA-AAAA
* * ** * *
33184049 TTTATATAAAATCTAAATATATA
1 TATAAATAAAAAATAAATAAAAA
33184072 TATAAATTAAAAAATAAATAAAAA
1 TATAAA-TAAAAAATAAATAAAAA
33184096 TAT
1 TAT
33184099 TAGAAACATA
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
23 6 0.16
24 18 0.49
25 4 0.11
26 9 0.24
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (23 bp):
TATAAATAAAAAATAAATAAAAA
Found at i:33189950 original size:27 final size:28
Alignment explanation
Indices: 33189920--33189987 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
33189910 ATATTAAATA
*
33189920 CAATATCCAACAAGGTT-AAAACATA-AT
1 CAATATCCAACAA-ATTCAAAACATATAT
* *
33189947 CAATATCTAACAAATTCAAGACATATAT
1 CAATATCCAACAAATTCAAAACATATAT
*
33189975 CAAAATCCAACAA
1 CAATATCCAACAA
33189988 TCTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 19 0.56
28 13 0.38
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (28 bp):
CAATATCCAACAAATTCAAAACATATAT
Found at i:33194731 original size:21 final size:20
Alignment explanation
Indices: 33194672--33194735 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
33194662 TGGATACGGA
*
33194672 GAAGAGGGAACCGAGGAAAT
1 GAAGAGGGAACCGAGGTAAT
** * * *
33194692 GAA-AGAAAACTGCGATAATT
1 GAAGAGGGAACCGAGGTAA-T
33194712 GAAGAGGGAACCGAGGTAAT
1 GAAGAGGGAACCGAGGTAAT
33194732 GAAG
1 GAAG
33194736 GAATGAAGGA
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
19 9 0.29
20 12 0.39
21 10 0.32
ACGTcount: A:0.45, C:0.09, G:0.34, T:0.11
Consensus pattern (20 bp):
GAAGAGGGAACCGAGGTAAT
Found at i:33196276 original size:16 final size:16
Alignment explanation
Indices: 33196252--33196303 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
33196242 TGGTTCACTT
33196252 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
* *
33196268 TAATTGAATAGAGCTC
1 TAATGGAATAGAGCTG
*
33196284 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
33196300 TAAT
1 TAAT
33196304 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:33201331 original size:47 final size:47
Alignment explanation
Indices: 33201280--33201375 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
33201270 TTTTGTAGTG
33201280 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
33201327 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
33201374 TT
1 TT
33201376 GAAGACCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:33207370 original size:29 final size:29
Alignment explanation
Indices: 33207298--33207372 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33207288 GTCATTAGGA
* * *
33207298 ATTAGTAGGCACTACGTGCCAGTGTTTAT
1 ATTATTAGGCACTATGTGCCAGTGTTCAT
* *
33207327 ATTATCAGGCACTATGTGTCAGTGTTCAT
1 ATTATTAGGCACTATGTGCCAGTGTTCAT
*
33207356 ATTATTAGGTACTATGT
1 ATTATTAGGCACTATGT
33207373 ACGAGTGACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (29 bp):
ATTATTAGGCACTATGTGCCAGTGTTCAT
Found at i:33207714 original size:51 final size:50
Alignment explanation
Indices: 33207634--33207729 Score: 183
Period size: 51 Copynumber: 1.9 Consensus size: 50
33207624 AAAAACAATA
33207634 TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
1 TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
33207684 TATGAGATATTATTCATGAAATGCATATGAATGTTATGTGTATATG
1 TATG-GATATTATTCATGAAATGCATATGAATGTTATGTGTATATG
33207730 CTATCTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (50 bp):
TATGGATATTATTCATGAAATGCATATGAATGTTATGTGTATATGAATGT
Found at i:33210896 original size:20 final size:20
Alignment explanation
Indices: 33210795--33210902 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
33210785 AATGCTATAT
* *
33210795 AGAGGCACCGTAGTGCAACC
1 AGAGGCACCGAAGTGCAAAC
* **
33210815 AGAGGCA-CAAATGTGCAATT
1 AGAGGCACCGAA-GTGCAAAC
* *
33210835 AGAGGC-CCGAAAGTGAAAAT
1 AGAGGCACCG-AAGTGCAAAC
* * * *
33210855 AGAGACACTGAAGTGTATAC
1 AGAGGCACCGAAGTGCAAAC
33210875 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
33210895 AGAGGCAC
1 AGAGGCAC
33210903 AAATGTGTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.03
20 62 0.91
21 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:33210911 original size:40 final size:40
Alignment explanation
Indices: 33210790--33210911 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 40
33210780 ATCGAAATGC
* *
33210790 TATATAGAGGCACCGTAGTGCAACCAGAGGCACAAATGTG
1 TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
* * * * *
33210830 CA-ATTAGAGGC-CCGAAAGTGAAAATAGAGACACTGAA-GTG
1 TATA-TAGAGGCACCG-AAGTGCAAACAGAGGCAC-AAATGTG
*
33210870 TATACAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
1 TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
33210910 TA
1 TA
33210912 ATCCCGTACA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
39 6 0.10
40 51 0.81
41 6 0.10
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (40 bp):
TATATAGAGGCACCGAAGTGCAAACAGAGGCACAAATGTG
Found at i:33212884 original size:40 final size:40
Alignment explanation
Indices: 33212821--33212996 Score: 142
Period size: 40 Copynumber: 4.3 Consensus size: 40
33212811 TATGTTTAGA
*
33212821 ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATTTATGGC
1 ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGC
* *
33212861 ACTTAGTGTGCGATT-GGGAATAGCTTCGGCTATATATGGT
1 ACTTAGTGTGCGATTCGAG-ATAGCTTCGGCTATATATGGC
* * * * * *
33212901 TCTTAGTGTGTGATACTGAGATAACATT-GGCTATGTAAGGC
1 ACTTAGTGTGCGATTC-GAGATAGC-TTCGGCTATATATGGC
* ** **
33212942 ACTTAGTGTGTAGGATTATA-ATAGCTTCGGCTATGCGATGGC
1 ACTTAGTGTG--CGATTCGAGATAGCTTCGGCTAT-ATATGGC
*
33212984 ATTTAGTGTGCGA
1 ACTTAGTGTGCGA
33212997 AACATTGAGT
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
39 2 0.02
40 50 0.47
41 33 0.31
42 18 0.17
43 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
ACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGC
Found at i:33217719 original size:29 final size:29
Alignment explanation
Indices: 33217682--33217747 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
33217672 ATTATTTAAG
*
33217682 ATTCAGAGGTCGAATATGTGTACCAAGAA
1 ATTCAGAGGTCGAATATGTGAACCAAGAA
**
33217711 ATTCAGAGGTCGAATATGTGAACTGAGAA
1 ATTCAGAGGTCGAATATGTGAACCAAGAA
33217740 ATTCAGAG
1 ATTCAGAG
33217748 TTAATTTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (29 bp):
ATTCAGAGGTCGAATATGTGAACCAAGAA
Found at i:33227223 original size:556 final size:556
Alignment explanation
Indices: 33226171--33227288 Score: 2101
Period size: 556 Copynumber: 2.0 Consensus size: 556
33226161 TACTGCATTC
*
33226171 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCGCTA
1 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTA
33226236 CCGCTCTGATCCTACTCATATTGTCCCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTA
66 CCGCTCTGATCCTACTCATATTGTCCCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTA
** * * *
33226301 ACACTTCTTACCCGTATTCGACACTAGAATAGGGTACGAGGCATTACTAGAACAAATATACTTGT
131 ACACCCCTTACCCATATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACAAATACACTTGT
*
33226366 AAACGTATTTAATCGAGTTATAAAACTTCATCTAAATTAAAACTTTCAAATTATTAACATGATTT
196 AAACATATTTAATCGAGTTATAAAACTTCATCTAAATTAAAACTTTCAAATTATTAACATGATTT
33226431 TAGAATTCTTCATAATATATCCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGA
261 TAGAATTCTTCATAATATATCCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGA
33226496 TACATATTCATGCAATTCACAAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCAC
326 TACATATTCATGCAATTCACAAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCAC
33226561 AAATTTCTCATGTTCACAATTCAAATCATTAAGTTCAATACTAATACGTATTTATCATTTAACTC
391 AAATTTCTCATGTTCACAATTCAAATCATTAAGTTCAATACTAATACGTATTTATCATTTAACTC
*
33226626 AATGTTTATTGATTATACCTTTCATTAACACATTTATGAAATTCTCAAGTTTGCAATGAAAATAT
456 AACGTTTATTGATTATACCTTTCATTAACACATTTATGAAATTCTCAAGTTTGCAATGAAAATAT
33226691 CACTTTAGCTTAAATAACAACATCAACTCAACTCAT
521 CACTTTAGCTTAAATAACAACATCAACTCAACTCAT
33226727 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTA
1 CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTA
* *
33226792 CCGCTCTGATCCTACTCATATTGTCCCTGTTGAAGAGATTGAGGTTAGGCCAGATTTGACCTGTA
66 CCGCTCTGATCCTACTCATATTGTCCCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTA
*
33226857 ACACCCCTTACCCATATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACACATACACTTGT
131 ACACCCCTTACCCATATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACAAATACACTTGT
*
33226922 AAATATATTTAATCGAGTTATAAAACTTCATCTAAATTAAAACTTTCAAATTATTAACATGATTT
196 AAACATATTTAATCGAGTTATAAAACTTCATCTAAATTAAAACTTTCAAATTATTAACATGATTT
*
33226987 TATAATTCTTCATAATATATCCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGA
261 TAGAATTCTTCATAATATATCCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGA
33227052 TACATATTCATGCAATTCACAAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCAC
326 TACATATTCATGCAATTCACAAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCAC
*
33227117 AAATTTCTCATGTTCACAATTCAAATCATTAAGTTCAATACTAATACTTATTTATCATTTAACTC
391 AAATTTCTCATGTTCACAATTCAAATCATTAAGTTCAATACTAATACGTATTTATCATTTAACTC
*
33227182 AACGTTTATTGATTATACCTTTCATTAACACATTTATGAAATTCTCAAGTTTGTAATGAAAATAT
456 AACGTTTATTGATTATACCTTTCATTAACACATTTATGAAATTCTCAAGTTTGCAATGAAAATAT
33227247 CACTTTAGCTTAAATAACAACATCAACTCAACTCAT
521 CACTTTAGCTTAAATAACAACATCAACTCAACTCAT
33227283 CATCCT
1 CATCCT
33227289 GGTATAAATT
Statistics
Matches: 547, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
556 547 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (556 bp):
CATCCTCAGACCGATGGTCAGTCTGAAAGGGTGATTCAGATACTAGAGGACATGTTGAGGCACTA
CCGCTCTGATCCTACTCATATTGTCCCTGTTAAAGAGATCGAGGTTAGGCCAGATTTGACCTGTA
ACACCCCTTACCCATATTCGACACCAGAATAGGGTACGAGGCATTACTAGAACAAATACACTTGT
AAACATATTTAATCGAGTTATAAAACTTCATCTAAATTAAAACTTTCAAATTATTAACATGATTT
TAGAATTCTTCATAATATATCCTCAAAATATTATATTCATAATAAATAGGATCTACGAGACCCGA
TACATATTCATGCAATTCACAAGTCTTAATAATTCAATGCTTCATTTCCATTTCATTCAATTCAC
AAATTTCTCATGTTCACAATTCAAATCATTAAGTTCAATACTAATACGTATTTATCATTTAACTC
AACGTTTATTGATTATACCTTTCATTAACACATTTATGAAATTCTCAAGTTTGCAATGAAAATAT
CACTTTAGCTTAAATAACAACATCAACTCAACTCAT
Found at i:33227560 original size:58 final size:58
Alignment explanation
Indices: 33227495--33227724 Score: 314
Period size: 58 Copynumber: 4.1 Consensus size: 58
33227485 ATCACATTTA
* *
33227495 TCACTTGTCACTTGTCCCTGATCA-AGTAAGGGTAGCTAAAGCTACCACTCATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGA-TAAGTGTAGCTAAAGCTACCACTCATCACTTG
*
33227553 TCACTTGTCAC-TG--A-T-A-C-GATAAGTGTAGCTAAAGCTACCACTCGTCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
* * *
33227604 TCACTTGTCACTTGTCACTGATCAGATAAGTGTATCTAAAGCTATCACTTATCACTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
* * *
33227662 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTG
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
33227720 TCACT
1 TCACT
33227725 GATCAGAAGT
Statistics
Matches: 153, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
51 41 0.27
52 4 0.03
53 1 0.01
54 2 0.01
55 1 0.01
56 1 0.01
57 3 0.02
58 100 0.65
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (58 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
Found at i:33227606 original size:7 final size:7
Alignment explanation
Indices: 33227591--33227622 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33227581 CTAAAGCTAC
*
33227591 CACTCGT
1 CACTTGT
33227598 CACTTGT
1 CACTTGT
33227605 CACTTGT
1 CACTTGT
33227612 CACTTGT
1 CACTTGT
33227619 CACT
1 CACT
33227623 GATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.34, G:0.12, T:0.38
Consensus pattern (7 bp):
CACTTGT
Found at i:33227667 original size:14 final size:14
Alignment explanation
Indices: 33227648--33227685 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
33227638 TCTAAAGCTA
33227648 TCACTTATCACTTG
1 TCACTTATCACTTG
*
33227662 TCACTTGTCACTTG
1 TCACTTATCACTTG
*
33227676 TCACTAATCA
1 TCACTTATCA
33227686 GATAAGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (14 bp):
TCACTTATCACTTG
Found at i:33242636 original size:152 final size:149
Alignment explanation
Indices: 33242363--33242664 Score: 577
Period size: 152 Copynumber: 2.0 Consensus size: 149
33242353 CTCTTCAAGA
33242363 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACACATCAACACAAGCAAATAGTTTTTCTC
1 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACACATCAACACAAGCAAATAGTTTTTCTC
33242428 TATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTAATG
66 TATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTAATG
33242493 AAGACAAAACATAGATCTT
131 AAGACAAAACATAGATCTT
33242512 CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACAACACATCAACACAAGCAAATAGTTTTT
1 CCTTTTGCTACAGGCTGCTGATAACAATTAAGG--A-AACACATCAACACAAGCAAATAGTTTTT
33242577 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
63 CTCTATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTA
33242642 ATGAAGACAAAACATAGATCTT
128 ATGAAGACAAAACATAGATCTT
33242664 C
1 C
33242665 AACAGTATAA
Statistics
Matches: 150, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
149 33 0.22
151 1 0.01
152 116 0.77
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (149 bp):
CCTTTTGCTACAGGCTGCTGATAACAATTAAGGAAACACATCAACACAAGCAAATAGTTTTTCTC
TATTATCAAATATATAACACAAATATCTAACAACTTACATATGTAACAAGTAATCTATGCTAATG
AAGACAAAACATAGATCTT
Found at i:33243998 original size:24 final size:24
Alignment explanation
Indices: 33243965--33244029 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
33243955 GGTTTCACAC
*
33243965 TGTTTGGGTACTATTCACGAGCAT
1 TGTTTAGGTACTATTCACGAGCAT
* * *
33243989 TGTTTAGGTACCATTTACGAGTAT
1 TGTTTAGGTACTATTCACGAGCAT
*
33244013 TG-TTAGGGTACTGTTCA
1 TGTTTA-GGTACTATTCA
33244030 ACACTGTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.40
Consensus pattern (24 bp):
TGTTTAGGTACTATTCACGAGCAT
Found at i:33244860 original size:31 final size:31
Alignment explanation
Indices: 33244822--33244882 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
33244812 AATAACATGG
33244822 ATATATTTTATGAAAAATCAGTCAGAGGTGA
1 ATATATTTTATGAAAAATCAGTCAGAGGTGA
33244853 ATATATTTTATGAAAAATCAGTCAGAGGTG
1 ATATATTTTATGAAAAATCAGTCAGAGGTG
33244883 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (31 bp):
ATATATTTTATGAAAAATCAGTCAGAGGTGA
Found at i:33249650 original size:30 final size:30
Alignment explanation
Indices: 33249614--33249683 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
33249604 GTCACCACTA
* *
33249614 ACCATTTTCCGTTACAGACGTAACGGATCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
** *
33249644 ACCATTTTTTGTTACAGACTTAACAGAGCT
1 ACCATTTTCCGTTACAGACGTAACAGAGCT
33249674 ACCATTTTCC
1 ACCATTTTCC
33249684 ATCCCCCTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (30 bp):
ACCATTTTCCGTTACAGACGTAACAGAGCT
Found at i:33250953 original size:30 final size:30
Alignment explanation
Indices: 33250919--33250985 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
33250909 ATAGGGGGAT
*
33250919 GGAAAATGGCAGCTCCGTTAAGTTTGTAAC
1 GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
* *
33250949 GGAAAATGGTAGCTCCGTTACGTCTGTAAC
1 GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
*
33250979 GAAAAAT
1 GGAAAAT
33250986 TGTTAGTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (30 bp):
GGAAAATGGCAGCTCCGTTAAGTCTGTAAC
Found at i:33252156 original size:125 final size:124
Alignment explanation
Indices: 33251753--33252146 Score: 657
Period size: 125 Copynumber: 3.2 Consensus size: 124
33251743 TTATTTTGAG
* **
33251753 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCA-GAGAAGAAATTG
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAGGATGCTAT-ATGAGAAGAAATTG
*
33251816 TGAAATCGTGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTT
33251877 TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATATGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATATGAGAAGAAATTGTG
33251942 AAATCGCGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTT
33252001 TTGACGTTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATATGAGAAGAAATTGT
* * * *
33252066 GAAATCGCGCCTTCGTGGACGCGATTTCGCTATAGTTGGTCATGTAGGAAATAATTATTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTT
*
33252127 TTGACGTTTCTGACCAAATA
1 TTGACGTTTCTGAGCAAATA
33252147 ATGTCAAATC
Statistics
Matches: 257, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
123 1 0.00
124 122 0.47
125 124 0.48
126 10 0.04
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATATGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:33255520 original size:34 final size:29
Alignment explanation
Indices: 33255355--33255571 Score: 312
Period size: 29 Copynumber: 7.6 Consensus size: 29
33255345 TAATTAAAAT
**
33255355 GGGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
33255384 GGGTTTTTAATTAAATTAAACTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
* ***
33255413 GGGTTTTTAATTAAAATGGGTTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
33255442 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
33255471 GGGTTTTTAATTAAATTAAATTAGGGTTG
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
33255500 GGGTTTTTAATTAAATTAAATTAGGATT-
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
**
33255528 GTATTTTTAATTAAATTAAATTA-GGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
*
33255556 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
33255572 AATATCAAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
27 3 0.02
28 34 0.20
29 130 0.78
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:33256745 original size:7 final size:7
Alignment explanation
Indices: 33256735--33256773 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
33256725 TTATATACAT
33256735 AATACTA
1 AATACTA
33256742 AATACTA
1 AATACTA
33256749 AATACTA
1 AATACTA
33256756 AATACTA
1 AATACTA
33256763 AATACTA
1 AATACTA
33256770 AATA
1 AATA
33256774 TCAATCCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33257748 original size:14 final size:15
Alignment explanation
Indices: 33257731--33257764 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33257721 AATAATTATC
33257731 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
33257745 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
33257760 TAAAA
1 TAAAA
33257765 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:33257893 original size:28 final size:28
Alignment explanation
Indices: 33257862--33257924 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
33257852 TTGAAAATAT
33257862 TAAAATTATTAAAATTATT-TTAAAAAAA
1 TAAAATTATTAAAATT-TTCTTAAAAAAA
*
33257890 TAAAATTTTTAAAATTTTCTTAAAAAAA
1 TAAAATTATTAAAATTTTCTTAAAAAAA
*
33257918 TGAAATT
1 TAAAATT
33257925 GAATGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAATTATTAAAATTTTCTTAAAAAAA
Found at i:33257980 original size:22 final size:21
Alignment explanation
Indices: 33257952--33258002 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
33257942 AAATATGGAT
*
33257952 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
33257974 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
33257996 TTGAGAG
1 TTGAGAG
33258003 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:33258034 original size:22 final size:22
Alignment explanation
Indices: 33258007--33258057 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
33257997 TGAGAGTTTA
33258007 AGAGAATTATGGAAGGAAATTG
1 AGAGAATTATGGAAGGAAATTG
33258029 AGAGAATTATGGAAGGAAATTG
1 AGAGAATTATGGAAGGAAATTG
33258051 AGAGAAT
1 AGAGAAT
33258058 ATTTGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (22 bp):
AGAGAATTATGGAAGGAAATTG
Found at i:33259645 original size:11 final size:11
Alignment explanation
Indices: 33259631--33259656 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33259621 TAAAAAATGA
33259631 AAAAAAAAACT
1 AAAAAAAAACT
33259642 AAAAAAAAACT
1 AAAAAAAAACT
33259653 AAAA
1 AAAA
33259657 CCATTATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAAACT
Found at i:33263125 original size:42 final size:42
Alignment explanation
Indices: 33263055--33263159 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
33263045 AGTTACATGG
* * * *
33263055 CCTAGACACAAGCCCATTTCCTTGCCCGTCTGGCTCACACGA
1 CCTAGGCACACGCCCATGTCCTTACCCGTCTGGCTCACACGA
* * *
33263097 CCTGGGCACACGCCCATGTCCTTACCCGTGTGGCTCACACGG
1 CCTAGGCACACGCCCATGTCCTTACCCGTCTGGCTCACACGA
*
33263139 CCTAGGCACACACCCATGTCC
1 CCTAGGCACACGCCCATGTCC
33263160 CTAGTCGTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.19, C:0.42, G:0.20, T:0.19
Consensus pattern (42 bp):
CCTAGGCACACGCCCATGTCCTTACCCGTCTGGCTCACACGA
Found at i:33263169 original size:42 final size:42
Alignment explanation
Indices: 33263079--33263172 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
33263069 CATTTCCTTG
* * * *
33263079 CCCGTCTGGCTCACACGACCTGGGCACACGCCCATGTCCTTA
1 CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
*
33263121 CCCGTGTGGCTCACACGGCCTAGGCACACACCCATGTCCCTA
1 CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
**
33263163 GTCGTGTGGC
1 CCCGTGTGGC
33263173 ATCGACAATC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.19
Consensus pattern (42 bp):
CCCGTGTGGCTCACACGACCTAGGCACACACCCATGTCCCTA
Found at i:33266148 original size:11 final size:11
Alignment explanation
Indices: 33266132--33266174 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
33266122 TCACTTTCAA
33266132 CTCTCTCAATT
1 CTCTCTCAATT
*
33266143 CTCTCTTAATT
1 CTCTCTCAATT
*
33266154 CTCACTCAA--
1 CTCTCTCAATT
33266163 CTCTCTCAATT
1 CTCTCTCAATT
33266174 C
1 C
33266175 AGTCTCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCTCAATT
Found at i:33269225 original size:13 final size:13
Alignment explanation
Indices: 33269207--33269231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33269197 TATTTTAATA
33269207 TTATTTTGTGTGT
1 TTATTTTGTGTGT
33269220 TTATTTTGTGTG
1 TTATTTTGTGTG
33269232 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:33270858 original size:41 final size:41
Alignment explanation
Indices: 33270813--33270914 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
33270803 GCTTAGCGCT
*
33270813 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
33270854 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
33270895 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
33270915 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:33272571 original size:38 final size:38
Alignment explanation
Indices: 33272528--33272604 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
33272518 CACAAGTCTG
*
33272528 ACTATTAAATGGGTCACAAAATCGTTCAAACAAAGAGA
1 ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
*
33272566 ACTATTAAATGGGTCACAAAACCGTTCAAACAAGGAGA
1 ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
33272604 A
1 A
33272605 TAGAAGCCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (38 bp):
ACTATTAAATGGGTCACAAAACCGTTCAAACAAAGAGA
Found at i:33274143 original size:45 final size:46
Alignment explanation
Indices: 33274087--33274176 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
33274077 TGCAATTTGG
*
33274087 TTTATATTTTATT-TTTTATTTAATTTCTAACTTTATTAATTAATTC
1 TTTATATTTTATTATTTTATTT-ATTTCTAACTTAATTAATTAATTC
33274133 TTTAT-TTTTATTATTTTATTTATTTCTAACTTAATTAATTAATT
1 TTTATATTTTATTATTTTATTTATTTCTAACTTAATTAATTAATT
33274177 ACTCTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
45 29 0.69
46 13 0.31
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (46 bp):
TTTATATTTTATTATTTTATTTATTTCTAACTTAATTAATTAATTC
Found at i:33274167 original size:41 final size:43
Alignment explanation
Indices: 33274087--33274191 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 43
33274077 TGCAATTTGG
33274087 TTTATATTTTATTTTTTATTTAATTTCTAACTTTATTAATTAATTC
1 TTTATATTTTATTTTTTATTTAATTTCTAAC--T-TTAATTAATTC
*
33274133 TTTAT-TTTTATTATTTTATTT-ATTTCTAAC-TTAATTAATTA
1 TTTATATTTTATT-TTTTATTTAATTTCTAACTTTAATTAATTC
* *
33274174 ATTACTCTTTTATTTTTT
1 TTTA-TATTTTATTTTTT
33274192 GTGATTTATT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
41 13 0.24
42 5 0.09
43 7 0.13
45 16 0.30
46 13 0.24
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (43 bp):
TTTATATTTTATTTTTTATTTAATTTCTAACTTTAATTAATTC
Found at i:33289186 original size:103 final size:105
Alignment explanation
Indices: 33289061--33289250 Score: 330
Period size: 104 Copynumber: 1.8 Consensus size: 105
33289051 TTGTTCCTAT
* *
33289061 TAATAGATGATAACTTAAGATATTA-AATTCAAGATCTAACTAGTTGAGAGTTATTAGTTGGAAA
1 TAATAGATGATAACTTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
33289125 CAAAAA-TTTAACAAAATACTTTAGTAAACAAACCAACAC
66 CAAAAATTTTAACAAAATACTTTAGTAAACAAACCAACAC
*
33289164 TAATAGATGATAACTTAAGATATTATCATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
1 TAATAGATGATAACTTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
*
33289229 CAAAAATTTTAGCAAAATACTT
66 CAAAAATTTTAACAAAATACTT
33289251 CAATAGACAA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 25 0.31
104 42 0.52
105 14 0.17
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (105 bp):
TAATAGATGATAACTTAAGATATTATAATTCAAGATCTAACTAGTTGACAATTATTAGTTGGAAA
CAAAAATTTTAACAAAATACTTTAGTAAACAAACCAACAC
Found at i:33299492 original size:27 final size:27
Alignment explanation
Indices: 33299461--33299583 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
33299451 GGTAAGTCTG
* *
33299461 CAAGGACTATCTTTTGCGGAAAGTACA
1 CAAGGACTATCTTATGCGGAAAGTCCA
* * *
33299488 CAAGGAATATCTAATG-TGAGAAGTCCA
1 CAAGGACTATCTTATGCGGA-AAGTCCA
* * *
33299515 CAAGGACTATCCTATGCGGTAAGTCCG
1 CAAGGACTATCTTATGCGGAAAGTCCA
* * * * *
33299542 CAGGGACTATCTTAAGTGGGAAGTTCA
1 CAAGGACTATCTTATGCGGAAAGTCCA
33299569 CAAGGACTATCTTAT
1 CAAGGACTATCTTAT
33299584 ATGAGAAGTC
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.03
27 71 0.96
28 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (27 bp):
CAAGGACTATCTTATGCGGAAAGTCCA
Found at i:33299533 original size:54 final size:54
Alignment explanation
Indices: 33299461--33299579 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
33299451 GGTAAGTCTG
* *
33299461 CAAGGACTATCTTTTGCGGAAAGTACACAAGGAATATC-TAATGTGAGAAGTCCA
1 CAAGGACTATCCTATGCGGAAAGTACACAAGGAATATCTTAA-GTGAGAAGTCCA
* * * * * * *
33299515 CAAGGACTATCCTATGCGGTAAGTCCGCAGGGACTATCTTAAGTGGGAAGTTCA
1 CAAGGACTATCCTATGCGGAAAGTACACAAGGAATATCTTAAGTGAGAAGTCCA
33299569 CAAGGACTATC
1 CAAGGACTATC
33299580 TTATATGAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 52 0.95
55 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (54 bp):
CAAGGACTATCCTATGCGGAAAGTACACAAGGAATATCTTAAGTGAGAAGTCCA
Found at i:33299591 original size:27 final size:27
Alignment explanation
Indices: 33299481--33299607 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
33299471 CTTTTGCGGA
* * * *
33299481 AAGTACACAAGGAATATCTAATGTGAG
1 AAGTCCACAAGGACTATCTTATATGAG
* **
33299508 AAGTCCACAAGGACTATCCTATGCG-G
1 AAGTCCACAAGGACTATCTTATATGAG
* * *
33299534 TAAGTCCGCAGGGACTATCTTA-AGTGGG
1 -AAGTCCACAAGGACTATCTTATA-TGAG
*
33299562 AAGTTCACAAGGACTATCTTATATGAG
1 AAGTCCACAAGGACTATCTTATATGAG
** *
33299589 AAGTCTGCAAGAACTATCT
1 AAGTCCACAAGGACTATCT
33299608 AATGGGGGAG
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 75 0.96
28 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (27 bp):
AAGTCCACAAGGACTATCTTATATGAG
Found at i:33299605 original size:81 final size:81
Alignment explanation
Indices: 33299451--33299606 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 81
33299441 CCGAAAATGT
* ** *
33299451 GGTAAGTCTGCAAGGACTATCTTTTGCGGAAAGTACACAAGGAATATCTAATGTGAGAAGTCCAC
1 GGTAAGTCCGCAAGGACTATCTTAAGCGGAAAGTACACAAGGAATATCTAATATGAGAAGTCCAC
*
33299516 AAGGACTATCCTATGC
66 AAGAACTATCCTATGC
* * * * * * **
33299532 GGTAAGTCCGCAGGGACTATCTTAAGTGGGAAGTTCACAAGGACTATCTTATATGAGAAGTCTGC
1 GGTAAGTCCGCAAGGACTATCTTAAGCGGAAAGTACACAAGGAATATCTAATATGAGAAGTCCAC
33299597 AAGAACTATC
66 AAGAACTATC
33299607 TAATGGGGGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (81 bp):
GGTAAGTCCGCAAGGACTATCTTAAGCGGAAAGTACACAAGGAATATCTAATATGAGAAGTCCAC
AAGAACTATCCTATGC
Found at i:33299622 original size:81 final size:81
Alignment explanation
Indices: 33299481--33299635 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 81
33299471 CTTTTGCGGA
* * *
33299481 AAGTACACAAGGAATATCTAATGTGAGAAGTCCACAAGGACTATCCTATGCGGTAAGTCCG-CAG
1 AAGTACACAAGGAATATCTAATATGAGAAGTCCACAAGAACTATCCTATGCGGGAAGTCCGTCA-
*
33299545 GGACTATCTTAAGTGGG
65 AGACTATCTTAAGTGGG
* * * ** * *
33299562 AAGTTCACAAGGACTATCTTATATGAGAAGTCTGCAAGAACTAT-CTAATGGGGGAGGTCCGTCA
1 AAGTACACAAGGAATATCTAATATGAGAAGTCCACAAGAACTATCCT-ATGCGGGAAGTCCGTCA
33299626 AGACTATCTT
65 AGACTATCTT
33299636 TAGTAGAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
80 2 0.03
81 57 0.93
82 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (81 bp):
AAGTACACAAGGAATATCTAATATGAGAAGTCCACAAGAACTATCCTATGCGGGAAGTCCGTCAA
GACTATCTTAAGTGGG
Found at i:33300942 original size:28 final size:28
Alignment explanation
Indices: 33300899--33301040 Score: 149
Period size: 28 Copynumber: 5.1 Consensus size: 28
33300889 ATTGACTTTT
*
33300899 GAGTCCGCATTGACTATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* * * *
33300927 GAGTCCGTATGAACTATTTTTCAAGCAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* * * *
33300955 GATTCTGAATGGACTATTTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* *
33300983 GAGTCCACATGGGCTATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
* * * *
33301011 AATTTCGCATGGACGATCTTTCAAGTAA
1 GAGTCCGCATGGACTATCTTTCAAGTAA
33301039 GA
1 GA
33301041 ATATACATGG
Statistics
Matches: 91, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (28 bp):
GAGTCCGCATGGACTATCTTTCAAGTAA
Done.