Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 69 of 75
Found at i:22476269 original size:88 final size:88
Alignment explanation
Indices: 22475592--22476246 Score: 1022
Period size: 88 Copynumber: 7.4 Consensus size: 88
22475582 GTGAAGATAA
* ** *
22475592 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGATTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
22475657 GTAGCGGAGTAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
22475680 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
22475745 GCAGCGGAGCAGGTTAAAAAAAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * * *
22475768 CAGATCTTGCTTTTCTGCACCGACAGCGAAACAGATTGAAGACACCAGCCTTGCATCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
22475833 GCAGCGGAGCAGGTTAAAAATTG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
22475856 TAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
22475921 GTAGCGGAGCAGGCTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
22475944 CAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
22476009 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
22476032 CAGATCTTTCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
22476097 GCAGCGGAGTAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * *
22476120 CAGATATTACCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
22476185 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
22476208 CAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
22476247 TGACCCCAAC
Statistics
Matches: 513, Mismatches: 54, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 513 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:22476422 original size:44 final size:45
Alignment explanation
Indices: 22476257--22476422 Score: 248
Period size: 44 Copynumber: 3.8 Consensus size: 45
22476247 TGACCCCAAC
* *
22476257 CCTATCCCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGT-GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAGAAT
*
22476301 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTG-AGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAGAAT
* * * *
22476345 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAGAAT
22476389 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
22476423 TCCTATCTCC
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 107 0.98
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (45 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAGAAT
Found at i:22476900 original size:44 final size:44
Alignment explanation
Indices: 22476804--22476911 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 44
22476794 GTAGATGGCA
* *
22476804 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCTAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAC
* * *
22476848 AATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAC
* *
22476891 AGATTTTATCTCTCTGAAGTT
1 A-ATCTTATCTCCCTGAAGTT
22476912 ACAGAAAACA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 2 0.04
44 53 0.96
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAC
Found at i:22476975 original size:37 final size:37
Alignment explanation
Indices: 22476931--22477003 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
22476921 AGATCGTATA
* * *
22476931 TAGTCTTATTTTCCTGAAGTTGCAGTGGAGCAGACTC
1 TAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTC
22476968 TAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACT
1 TAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACT
22477004 GAGAAAGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (37 bp):
TAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTC
Found at i:22477058 original size:44 final size:44
Alignment explanation
Indices: 22476971--22477079 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
22476961 CAGACTCTAG
*
22476971 TCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAGAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAGAAAGCAAA
* * **
22477015 TCTTATCCCCCTGAAGTTGCACG-GG-GCAGATTAAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCA-GAGGAGCAGACT-AAGAAAGCAAA
* * *
22477059 TCCTATCTCCATAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
22477080 ATGGAGCGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.11
44 47 0.87
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAGAAAGCAAA
Found at i:22477565 original size:12 final size:12
Alignment explanation
Indices: 22477548--22477573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22477538 AGGATATGTA
22477548 ATCTTAGATATG
1 ATCTTAGATATG
22477560 ATCTTAGATATG
1 ATCTTAGATATG
22477572 AT
1 AT
22477574 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:22477612 original size:24 final size:25
Alignment explanation
Indices: 22477565--22477612 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22477555 ATATGATCTT
22477565 AGATATGATATATGCAATCTTAGAA
1 AGATATGATATATGCAATCTTAGAA
* *
22477590 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
22477613 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (25 bp):
AGATATGATATATGCAATCTTAGAA
Found at i:22477938 original size:3 final size:3
Alignment explanation
Indices: 22477930--22477968 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
22477920 TGTTATTAAG
* *
22477930 TTA TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22477969 CTATATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22478126 original size:17 final size:17
Alignment explanation
Indices: 22478104--22478136 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22478094 ATAGACATAT
*
22478104 TATACATTTACATTTTA
1 TATACATATACATTTTA
22478121 TATACATATACATTTT
1 TATACATATACATTTT
22478137 TTATTTCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATACATATACATTTTA
Found at i:22481700 original size:26 final size:26
Alignment explanation
Indices: 22481671--22481724 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
22481661 TTTTTATGTA
22481671 TTCAATAAAAATATGTCACATCATAT
1 TTCAATAAAAATATGTCACATCATAT
22481697 TTCAATAAAAATATGTCACATCATAT
1 TTCAATAAAAATATGTCACATCATAT
22481723 TT
1 TT
22481725 TTAAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (26 bp):
TTCAATAAAAATATGTCACATCATAT
Found at i:22483243 original size:2 final size:2
Alignment explanation
Indices: 22483236--22483260 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22483226 TCATCATAAT
22483236 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22483261 GTTGACAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22484198 original size:15 final size:15
Alignment explanation
Indices: 22484178--22484208 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22484168 ATTAAGTTTC
22484178 TTTATGTCTTGATGT
1 TTTATGTCTTGATGT
*
22484193 TTTATGTCTTGTTGT
1 TTTATGTCTTGATGT
22484208 T
1 T
22484209 ATCCTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.06, G:0.19, T:0.65
Consensus pattern (15 bp):
TTTATGTCTTGATGT
Found at i:22489665 original size:5 final size:5
Alignment explanation
Indices: 22489655--22489708 Score: 72
Period size: 5 Copynumber: 10.8 Consensus size: 5
22489645 TGAAAGATAA
* * * *
22489655 TGATC TGATC TGATC TCATC TCATC TCATC TGATC TGATT TGATC TGATC
1 TGATC TGATC TGATC TGATC TGATC TGATC TGATC TGATC TGATC TGATC
22489705 TGAT
1 TGAT
22489709 ACCAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (5 bp):
TGATC
Found at i:22496724 original size:34 final size:32
Alignment explanation
Indices: 22496686--22496760 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 32
22496676 AAATATTTTA
*
22496686 ATTAATTATAAAATCGTTTTAAA-TTATTTATTAT
1 ATTAATTAT-AAAT-ATTTTAAATTTATTTATT-T
*
22496720 ATTAAATGATAAATATTTTAAATTTATTTATTT
1 ATT-AATTATAAATATTTTAAATTTATTTATTT
22496753 A-TAATTAT
1 ATTAATTAT
22496761 TTCAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 5 0.14
32 1 0.03
33 9 0.25
34 16 0.44
35 5 0.14
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (32 bp):
ATTAATTATAAATATTTTAAATTTATTTATTT
Found at i:22504628 original size:21 final size:21
Alignment explanation
Indices: 22504581--22504631 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22504571 CATTGTTTTT
*
22504581 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
22504602 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
22504623 ATTCTCACC
1 AATCTCACC
22504632 TCCACCGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.37, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:22506469 original size:39 final size:39
Alignment explanation
Indices: 22506425--22506501 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
22506415 TGGCCAAGTG
22506425 TTCATTTAGAGGCTCAAGTTCTGTTGCTGCCGAATCTGA
1 TTCATTTAGAGGCTCAAGTTCTGTTGCTGCCGAATCTGA
22506464 TTCATTTAGAGGCTCAAGTTCTGTTGCTGCCGAATCTG
1 TTCATTTAGAGGCTCAAGTTCTGTTGCTGCCGAATCTG
22506502 GGGAGAACCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (39 bp):
TTCATTTAGAGGCTCAAGTTCTGTTGCTGCCGAATCTGA
Found at i:22509906 original size:22 final size:22
Alignment explanation
Indices: 22509846--22509903 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
22509836 AATCTTCAGG
22509846 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
22509865 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
22509887 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
22509904 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:22513162 original size:21 final size:22
Alignment explanation
Indices: 22513136--22513180 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
22513126 TATGACATTT
22513136 TTATA-AAT-ATTTT-AATTAA
1 TTATATAATCATTTTAAATTAA
*
22513155 TTATATAATCATTTTAAATTAT
1 TTATATAATCATTTTAAATTAA
22513177 TTAT
1 TTAT
22513181 TATATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 5 0.23
22 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATAATCATTTTAAATTAA
Found at i:22514433 original size:42 final size:42
Alignment explanation
Indices: 22514374--22514532 Score: 194
Period size: 42 Copynumber: 3.7 Consensus size: 42
22514364 GCACTGGGTG
*
22514374 CACAAGATATTTTACATGGCTATGCGTCTATCTCCTTGATCC
1 CACAAGATATTTTACATGGCTATGAGTCTATCTCCTTGATCC
* *
22514416 CACAAGATATTTTACATGGCTGTGAGCCTATCTCCTTGATCC
1 CACAAGATATTTTACATGGCTATGAGTCTATCTCCTTGATCC
* * * * *
22514458 CACAAGATATTTTTCATGGC-AGCGTGTACATCTCCTCCTTGGTCC
1 CACAAGATATTTTACATGGCTA-TGAGT-C-TAT-CTCCTTGATCC
*
22514503 CACAAGATATTTTACATGGCTGTGAGTCTA
1 CACAAGATATTTTACATGGCTATGAGTCTA
22514533 GATCTCACGA
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
42 60 0.62
43 2 0.02
44 3 0.03
45 32 0.33
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (42 bp):
CACAAGATATTTTACATGGCTATGAGTCTATCTCCTTGATCC
Found at i:22514511 original size:45 final size:43
Alignment explanation
Indices: 22514404--22514602 Score: 166
Period size: 45 Copynumber: 4.7 Consensus size: 43
22514394 TATGCGTCTA
* * * *
22514404 TCTCCTTGATCCCACAAGATATTTTACATGGC-TGTG-AGCCTA
1 TCTCCTTGATCCCACAAGATATTTTTCATGGCGCGTGTA-CATC
22514446 TCTCCTTGATCCCACAAGATATTTTTCATGGCAGCGTGTACATC
1 TCTCCTTGATCCCACAAGATATTTTTCATGGC-GCGTGTACATC
* * *
22514490 TCCTCCTTGGTCCCACAAGATATTTTACAT-G-GC-TGT-GA--
1 T-CTCCTTGATCCCACAAGATATTTTTCATGGCGCGTGTACATC
* * * *
22514528 -GT-CTAGATCTCACGAGATATTTTTCATGGCAGCGTGTACATC
1 TCTCCTTGATCCCACAAGATATTTTTCATGGC-GCGTGTACATC
* *
22514570 TCCTCCTTGGTCCCCCAAGATATTTTTCATGGC
1 T-CTCCTTGATCCCACAAGATATTTTTCATGGC
22514603 TCCTGGATCC
Statistics
Matches: 123, Mismatches: 20, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
35 20 0.16
36 2 0.02
38 2 0.02
39 3 0.02
40 2 0.02
41 3 0.02
42 33 0.27
44 8 0.07
45 50 0.41
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34
Consensus pattern (43 bp):
TCTCCTTGATCCCACAAGATATTTTTCATGGCGCGTGTACATC
Found at i:22514557 original size:80 final size:80
Alignment explanation
Indices: 22514453--22514603 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
22514443 CTATCTCCTT
22514453 GATCCCACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTCCCACAAGATATTTTAC
1 GATCCCACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTCCCACAAGATATTTTAC
22514518 ATGGCTGTGAGTCTA
66 ATGGCTGTGAGTCTA
* * * *
22514533 GATCTCACGAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTCCCCCAAGATATTTTTC
1 GATCCCACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTCCCACAAGATATTTTAC
22514598 ATGGCT
66 ATGGCT
22514604 CCTGGATCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (80 bp):
GATCCCACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTCCCACAAGATATTTTAC
ATGGCTGTGAGTCTA
Found at i:22517305 original size:31 final size:30
Alignment explanation
Indices: 22517270--22517364 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
22517260 TGTTTTAATG
*
22517270 AATTTAATATTTATCCAGATAGTATTTTATT
1 AATTTAATATTTAT-CAAATAGTATTTTATT
* * *
22517301 AATTTAATATTAAT-ATA-AGATATTTAATTT
1 AATTTAATATTTATCAAATAG-TATTTTA-TT
22517331 AATTTAATATTTATCTAAATA-TGATTTTATT
1 AATTTAATATTTATC-AAATAGT-ATTTTATT
22517362 AAT
1 AAT
22517365 ATGATAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.04
29 8 0.15
30 15 0.29
31 19 0.37
32 7 0.13
33 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (30 bp):
AATTTAATATTTATCAAATAGTATTTTATT
Found at i:22530748 original size:25 final size:25
Alignment explanation
Indices: 22530675--22530748 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
22530665 TACGAGCTAT
* * *
22530675 GAATTGGTATGCTCTCACAAGCTGT
1 GAATCGGTAAGCTCTCACAAGCTGA
22530700 GAATCGGTAAGCTCAT-ACAAGCTGA
1 GAATCGGTAAGCTC-TCACAAGCTGA
*
22530725 GAATCGGTAAGCTCTCACGAGCTG
1 GAATCGGTAAGCTCTCACAAGCTG
22530749 CAAATCGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (25 bp):
GAATCGGTAAGCTCTCACAAGCTGA
Found at i:22530754 original size:25 final size:24
Alignment explanation
Indices: 22530680--22530763 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
22530670 GCTATGAATT
* *
22530680 GGTATGCTCTCACAAGCTGTGAATC
1 GGTAAGCTCTCACAAGCTG-AAATC
22530705 GGTAAGCTCAT-ACAAGCTGAGAATC
1 GGTAAGCTC-TCACAAGCTGA-AATC
*
22530730 GGTAAGCTCTCACGAGCTGCAAATC
1 GGTAAGCTCTCACAAGCTG-AAATC
22530755 GAG-AAGCTC
1 G-GTAAGCTC
22530764 ATAATGCTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
24 1 0.02
25 47 0.92
26 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (24 bp):
GGTAAGCTCTCACAAGCTGAAATC
Found at i:22531825 original size:14 final size:14
Alignment explanation
Indices: 22531806--22531845 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22531796 TTGATTGCCA
22531806 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
22531820 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
22531834 GGAAAATGTTTT
1 GTAAAATGTTTT
22531846 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:22531852 original size:34 final size:35
Alignment explanation
Indices: 22531814--22531880 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22531804 CAGTAAAATG
*
22531814 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
22531848 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
22531881 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:22531854 original size:20 final size:20
Alignment explanation
Indices: 22531829--22531868 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22531819 CGTAAAATGA
*
22531829 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
22531849 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
22531869 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:22531884 original size:14 final size:15
Alignment explanation
Indices: 22531808--22531884 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
22531798 GATTGCCAGT
* *
22531808 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
22531822 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
22531836 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
22531856 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
22531871 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
22531885 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:22535244 original size:43 final size:43
Alignment explanation
Indices: 22534995--22535242 Score: 336
Period size: 43 Copynumber: 5.8 Consensus size: 43
22534985 AGAAACAAAT
* *
22534995 ACCTTTAGCGGCGC-TTTCCCACAAGCGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22535037 ACCTTTAGCGGCGATTTTCCCACAAACGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22535080 ACCTTTAGCGGCGCTTTTTTCACAAACGCTGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22535123 ACCTTTAGCGGCGTTTTTATCACAAACGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* * * *
22535166 ACCTTTATCGGCGCTTTTATCACAAATGCCGCTAAAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
** * * *
22535209 ATATTTAGCGGCGCTTCTCGCAAAAACGCCGCTA
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
22535243 AAAACATAAC
Statistics
Matches: 184, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
42 13 0.07
43 171 0.93
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
Found at i:22536763 original size:43 final size:43
Alignment explanation
Indices: 22536514--22536761 Score: 336
Period size: 43 Copynumber: 5.8 Consensus size: 43
22536504 AGAAACAAAT
* *
22536514 ACCTTTAGCGGCGC-TTTCCCACAAGCGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22536556 ACCTTTAGCGGCGATTTTCCCACAAACGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22536599 ACCTTTAGCGGCGCTTTTTTCACAAACGCTGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* *
22536642 ACCTTTAGCGGCGTTTTTATCACAAACGCCGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
* * * *
22536685 ACCTTTATCGGCGCTTTTATCACAAATGCCGCTAAAGACCATG
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
** * * *
22536728 ATATTTAGCGGCGCTTCTCGCAAAAACGCCGCTA
1 ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTA
22536762 AAAACATAAC
Statistics
Matches: 184, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
42 13 0.07
43 171 0.93
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCATG
Found at i:22537961 original size:22 final size:22
Alignment explanation
Indices: 22537936--22537984 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
22537926 GAAAACACAT
22537936 ACCTAGTTATTAAAATGGATTA
1 ACCTAGTTATTAAAATGGATTA
22537958 ACCTAGTTATTAAAATGGATTA
1 ACCTAGTTATTAAAATGGATTA
22537980 ACCTA
1 ACCTA
22537985 TTTGTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
ACCTAGTTATTAAAATGGATTA
Found at i:22539215 original size:8 final size:8
Alignment explanation
Indices: 22539204--22539269 Score: 71
Period size: 8 Copynumber: 8.4 Consensus size: 8
22539194 TTCCCCTATT
*
22539204 TTTAATTC
1 TTTAATTA
22539212 TTT-ATTA
1 TTTAATTA
* *
22539219 TTTTATCA
1 TTTAATTA
22539227 TTTAATTA
1 TTTAATTA
22539235 TTTAATTA
1 TTTAATTA
*
22539243 TTTTATTA
1 TTTAATTA
*
22539251 TTTTATTA
1 TTTAATTA
*
22539259 TTTTATTA
1 TTTAATTA
22539267 TTT
1 TTT
22539270 TATTGTTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
7 6 0.12
8 46 0.88
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTAATTA
Found at i:22539270 original size:8 final size:8
Alignment explanation
Indices: 22539212--22539273 Score: 97
Period size: 8 Copynumber: 7.8 Consensus size: 8
22539202 TTTTTAATTC
22539212 TTTATTAT
1 TTTATTAT
*
22539220 TTTATCAT
1 TTTATTAT
*
22539228 TTAATTAT
1 TTTATTAT
*
22539236 TTAATTAT
1 TTTATTAT
22539244 TTTATTAT
1 TTTATTAT
22539252 TTTATTAT
1 TTTATTAT
22539260 TTTATTAT
1 TTTATTAT
22539268 TTTATT
1 TTTATT
22539274 GTTTAGTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 50 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:22539273 original size:24 final size:24
Alignment explanation
Indices: 22539200--22539278 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
22539190 CTATTTCCCC
*
22539200 TATT-TTTAATT-CTTTATTATTT
1 TATTATTTAATTATTTTATTATTT
* *
22539222 TATCATTTAATTATTTAATTATTT
1 TATTATTTAATTATTTTATTATTT
*
22539246 TATTATTTTATTATTTTATTATTT
1 TATTATTTAATTATTTTATTATTT
*
22539270 TATTGTTTA
1 TATTATTTA
22539279 GTATATATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 3 0.06
23 7 0.15
24 37 0.79
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (24 bp):
TATTATTTAATTATTTTATTATTT
Found at i:22540967 original size:57 final size:59
Alignment explanation
Indices: 22540855--22541002 Score: 194
Period size: 57 Copynumber: 2.5 Consensus size: 59
22540845 AATTGACGGT
22540855 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
22540918 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* * * *
22540974 AAAATGGATTTAGCCCGGATGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
22541003 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 5 0.06
57 45 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 21 0.27
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:22542952 original size:107 final size:108
Alignment explanation
Indices: 22542841--22543039 Score: 305
Period size: 107 Copynumber: 1.9 Consensus size: 108
22542831 GCAAATAATT
* * *
22542841 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATTC-TAAAATTTTTTTTATTTTGTTTTTTT-A
1 TTTCACTTTGAACAAAATGACGCCGTTTTGCTATGCATAAAA--TTTTTTATTTTATTTTTTTAA
22542904 TAAATTGATTTA-TTTTTGCGGCGTTTTTTATAAAAACGCCGCCA
64 TAAATTGATTTATTTTTTGCGGCGTTTTTTATAAAAACGCCGCCA
* * *
22542948 TTTCACTTTGAACAAAATGATGCCGTTTTGTTATGCATGAAATTTTTTATTTTATTTTTTTAATA
1 TTTCACTTTGAACAAAATGACGCCGTTTTGCTATGCATAAAATTTTTTATTTTATTTTTTTAATA
22543013 AATTGATTTATTTTTTGCGGCGTTTTT
66 AATTGATTTATTTTTTGCGGCGTTTTT
22543040 CTATTTCTCA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
106 18 0.22
107 45 0.54
108 20 0.24
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.52
Consensus pattern (108 bp):
TTTCACTTTGAACAAAATGACGCCGTTTTGCTATGCATAAAATTTTTTATTTTATTTTTTTAATA
AATTGATTTATTTTTTGCGGCGTTTTTTATAAAAACGCCGCCA
Found at i:22543187 original size:85 final size:88
Alignment explanation
Indices: 22543089--22543259 Score: 285
Period size: 85 Copynumber: 2.0 Consensus size: 88
22543079 GCAAAATTTT
* *
22543089 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTT-A-TTTTTTATA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTTTATA
22543152 AATTGATTTA-TTTTTGCGGCTA
66 AATTGATTTATTTTTTGCGGCTA
* *
22543174 TTTCATTTTGAACAAAATGACGCCGTTTTGCTGTGCTAAAAATTTTTTATTTTAATTTTTTTATA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTTTATA
22543239 AATTGATTTATTTTTTGCGGC
66 AATTGATTTATTTTTTGCGGC
22543260 GCTTTTATAA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
85 49 0.62
86 1 0.01
87 19 0.24
88 10 0.13
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (88 bp):
TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTTTATA
AATTGATTTATTTTTTGCGGCTA
Found at i:22543440 original size:148 final size:147
Alignment explanation
Indices: 22543170--22543569 Score: 583
Period size: 147 Copynumber: 2.7 Consensus size: 147
22543160 TATTTTTGCG
*
22543170 GCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTGTGCTAAAAATTTTTTATTTTAA-TTTTT
1 GCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTT
22543234 TTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAAGTGCCGCTATTGCTTACCTTTAGCGGC
66 TTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAAGTGCCGCTATTGCTTACCTTTAGCGGC
**
22543299 GTTTTTTTGAAAAACGCC
131 G-TTTTTCAAAAAACGCC
*
22543317 GCTATTTCATTTTGAACAAAATGGCGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTT
1 GCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTT
22543382 TTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAAGTGCCGCTATTGCTTACCTTTAGCGGC
66 TTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAAGTGCCGCTATTGCTTACCTTTAGCGGC
22543447 GTTTTTCAAAAAACGCC
131 GTTTTTCAAAAAACGCC
* * * *
22543464 GCAAAATTTTTTCCATTTTGAACAAAATGACGCCGTTTTGCTATTCT-AAAATTTTTT-TTAT-C
1 GC-----TATTT-CATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAA
** * * * *
22543526 TGCTTTTTATATATTGGTTTATTTTTTGCAGCGTTTTTATAAAA
60 TTTTTTTTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAA
22543570 AACGCCGCTA
Statistics
Matches: 231, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
147 73 0.32
148 71 0.31
150 38 0.16
151 3 0.01
152 14 0.06
153 32 0.14
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (147 bp):
GCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAATTTTTT
TTATAAATTGATTTATTTTTTGCGGCGCTTTTATAAAAGTGCCGCTATTGCTTACCTTTAGCGGC
GTTTTTCAAAAAACGCC
Found at i:22543601 original size:106 final size:106
Alignment explanation
Indices: 22543478--22543669 Score: 305
Period size: 106 Copynumber: 1.8 Consensus size: 106
22543468 AATTTTTTCC
* *
22543478 ATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTT-TTATCTGCTTTTTATATATTG
1 ATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAATTTTTTATTATAT-CTTTTTATATATTG
*
22543542 GTTTATTTTTTGCAGCGTTTTTATAAAAAACGCCGCTATTTT
65 ATTTATTTTTTGCAGCGTTTTTATAAAAAACGCCGCTATTTT
* * *
22543584 ATTTTGAACAAATTGACGCCGTTTTGCTATGCTAAAATTTTTTATTTTATTTTTTTATATATTGA
1 ATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAATTTTTTATTATATCTTTTTATATATTGA
*
22543649 TTTATTTTTTGCGGCGTTTTT
66 TTTATTTTTTGCAGCGTTTTT
22543670 CATTTTGAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 74 0.95
107 4 0.05
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.52
Consensus pattern (106 bp):
ATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAATTTTTTATTATATCTTTTTATATATTGA
TTTATTTTTTGCAGCGTTTTTATAAAAAACGCCGCTATTTT
Found at i:22544097 original size:21 final size:21
Alignment explanation
Indices: 22544047--22544103 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
22544037 ACCCCTGAAT
22544047 CCCTAAACCTTAA-ATCCCTAA
1 CCCTAAACCTTAACAT-CCTAA
* *
22544068 CTCTTAACCTTAACAT-CTAA
1 CCCTAAACCTTAACATCCTAA
22544088 CCCCTAAACCTCTAAC
1 -CCCTAAACCT-TAAC
22544104 CCCAAAACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (21 bp):
CCCTAAACCTTAACATCCTAA
Found at i:22544103 original size:15 final size:15
Alignment explanation
Indices: 22544083--22544113 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22544073 AACCTTAACA
*
22544083 TCTAACCCCTAAACC
1 TCTAACCCCAAAACC
22544098 TCTAACCCCAAAACC
1 TCTAACCCCAAAACC
22544113 T
1 T
22544114 TACATCCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TCTAACCCCAAAACC
Found at i:22544142 original size:15 final size:14
Alignment explanation
Indices: 22544128--22544176 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
22544118 TCCCAACCCT
22544128 TAAACCATAATCCC
1 TAAACCATAATCCC
**
22544142 TAATTCATAATCCC
1 TAAACCATAATCCC
*
22544156 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
22544171 TAAACC
1 TAAACC
22544177 TTAAATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:22544437 original size:15 final size:15
Alignment explanation
Indices: 22544413--22544443 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22544403 AACCCCTAAT
22544413 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
22544428 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
22544443 C
1 C
22544444 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:22544947 original size:113 final size:113
Alignment explanation
Indices: 22544697--22545115 Score: 669
Period size: 114 Copynumber: 3.7 Consensus size: 113
22544687 TTTTTAGCGC
*
22544697 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGG
* * * * *
22544762 ACTGAGGTGATTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGA
66 GCTTAGGT-TTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
* *
22544811 GCATTAGCTGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGG
22544876 GCTTAGGTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
66 GCTTAGGTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
* * *
22544924 GCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGTTCACAAAACGGCATCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGG
22544989 GCTTAGGTTTTTTTGCGGCGCTTCCTCC-AAAACGCCGCTAAAGCCCTGA
66 GCTTAGG-TTTTTTGCGGCGCTTCC-CCAAAAACGCCGCTAAAGCCCTGA
* ** *
22545038 GCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGG
22545103 GCTTAGGTTTTTT
66 GCTTAGGTTTTTT
22545116 CAGCTGCGAT
Statistics
Matches: 286, Mismatches: 17, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
113 110 0.38
114 174 0.61
115 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (113 bp):
GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGG
GCTTAGGTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
Found at i:22545093 original size:227 final size:227
Alignment explanation
Indices: 22544697--22545115 Score: 678
Period size: 227 Copynumber: 1.8 Consensus size: 227
22544687 TTTTTAGCGC
* *
22544697 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGG
*
22544762 ACTGAGGTGATTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCTGCGCTTT
66 ACTGAGGTGATTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
** * *
22544827 CATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCG
131 CATAAAAACGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCG
22544892 GCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
196 GCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
* *
22544924 GCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGTTCACAAAACGGCATCGTTGG
1 GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGG
* * ** * *
22544989 GCTTAGGTTTTTTTGCGGCGC-TTCCTCCAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
66 ACTGAGGTGATTTAGCGGCGCTTTCC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
*
22545053 TCTTAAAAACGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTT
130 TCATAAAAACGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTT
22545116 CAGCTGCGAT
Statistics
Matches: 175, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
226 4 0.02
227 171 0.98
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (227 bp):
GCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGG
ACTGAGGTGATTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
CATAAAAACGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCG
GCGCTTCCCCAAAAACGCCGCTAAAGCCCTGA
Found at i:22548018 original size:28 final size:31
Alignment explanation
Indices: 22547985--22548045 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
22547975 TCTTTTTCAT
*
22547985 TTTTTA-ATAAATGGCCCAATAT-TTT-TAC
1 TTTTTACATAAATGACCCAATATGTTTATAC
*
22548013 TTTTTACGTAAATGACCCAATATGTTTATAC
1 TTTTTACATAAATGACCCAATATGTTTATAC
22548044 TT
1 TT
22548046 CTTCTCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 14 0.50
30 3 0.11
31 5 0.18
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (31 bp):
TTTTTACATAAATGACCCAATATGTTTATAC
Found at i:22554724 original size:23 final size:24
Alignment explanation
Indices: 22554683--22554733 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
22554673 ACAATAAAAA
*
22554683 AATATGTTTTTTTTCTATATATAT
1 AATATGTTTCTTTTCTATATATAT
* *
22554707 AATATG-TTCTTTTGTATATTTAT
1 AATATGTTTCTTTTCTATATATAT
22554730 AATA
1 AATA
22554734 ACGATAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
AATATGTTTCTTTTCTATATATAT
Found at i:22555832 original size:170 final size:171
Alignment explanation
Indices: 22555550--22555890 Score: 675
Period size: 170 Copynumber: 2.0 Consensus size: 171
22555540 TTTAAATAAA
22555550 ATTCAAGCAATACACTAGTTTCTAATGTTACATGCTATCCATGTGATTTTTAAGCATTTAATTTT
1 ATTCAAGCAATACACTAGTTTCTAATGTTACATGCTATCCATGTGATTTTTAAGCATTTAATTTT
22555615 TTAATTAGTTTTTAAACCATGTATTTCTAATTATTGTAATTAATTTATTATTCAATTTGTTAAAT
66 TTAATTAGTTTTTAAACCATGTATTTCTAATTATTGTAATTAATTTATTATTCAATTTGTTAAAT
22555680 ATAATTAATTTTTTTATTCAAATATAAT-AAAATATATTTT
131 ATAATTAATTTTTTTATTCAAATATAATAAAAATATATTTT
22555720 ATTCAAGCAATACACTAGTTTCTAATGTTACATGCTATCCATGTGATTTTTAAGCATTTAATTTT
1 ATTCAAGCAATACACTAGTTTCTAATGTTACATGCTATCCATGTGATTTTTAAGCATTTAATTTT
22555785 TTAATTAGTTTTTAAACCATGTATTTCTAATTATTGTAATTAATTTATTATTCAATTTGTTAAAT
66 TTAATTAGTTTTTAAACCATGTATTTCTAATTATTGTAATTAATTTATTATTCAATTTGTTAAAT
22555850 ATAATTAATTTTTTTATTCAAATATAATAAAAATATATTTT
131 ATAATTAATTTTTTTATTCAAATATAATAAAAATATATTTT
22555891 TAAATAACAT
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 158 0.93
171 12 0.07
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.49
Consensus pattern (171 bp):
ATTCAAGCAATACACTAGTTTCTAATGTTACATGCTATCCATGTGATTTTTAAGCATTTAATTTT
TTAATTAGTTTTTAAACCATGTATTTCTAATTATTGTAATTAATTTATTATTCAATTTGTTAAAT
ATAATTAATTTTTTTATTCAAATATAATAAAAATATATTTT
Found at i:22556790 original size:63 final size:63
Alignment explanation
Indices: 22556719--22556842 Score: 239
Period size: 63 Copynumber: 2.0 Consensus size: 63
22556709 CTTCCCGAAC
*
22556719 TTTTAACTTAAATACTTTATAATTTGATTCAATCTAATATTTATTTTTCTATTTTTCAAAACT
1 TTTTAACTTAAATACTTTATAATTTGATTCAACCTAATATTTATTTTTCTATTTTTCAAAACT
22556782 TTTTAACTTAAATACTTTATAATTTGATTCAACCTAATATTTATTTTTCTATTTTTCAAAA
1 TTTTAACTTAAATACTTTATAATTTGATTCAACCTAATATTTATTTTTCTATTTTTCAAAA
22556843 TAAACTTCAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (63 bp):
TTTTAACTTAAATACTTTATAATTTGATTCAACCTAATATTTATTTTTCTATTTTTCAAAACT
Found at i:22559938 original size:30 final size:30
Alignment explanation
Indices: 22559896--22559961 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
22559886 CACTAACTGA
*
22559896 ACTTAAA-AAAAAACTT-AATAGCGTAATG
1 ACTTAAATAAAAAAATTCAATAGCGTAATG
** *
22559924 ACTTAAATAAAAAAATTCAATAGTTTAGTG
1 ACTTAAATAAAAAAATTCAATAGCGTAATG
22559954 ACTTAAAT
1 ACTTAAAT
22559962 GACAACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 17 0.53
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (30 bp):
ACTTAAATAAAAAAATTCAATAGCGTAATG
Found at i:22564800 original size:28 final size:28
Alignment explanation
Indices: 22564739--22564800 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22564729 TGTTAAGATG
*
22564739 ACTATATAAAAATATTCAATAAATAAAA
1 ACTATATAAAAATATTAAATAAATAAAA
* * *
22564767 AATATATAAAATTATTAAAT-ATTAAAA
1 ACTATATAAAAATATTAAATAAATAAAA
22564794 TACTATA
1 -ACTATA
22564801 ACATAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
ACTATATAAAAATATTAAATAAATAAAA
Found at i:22573000 original size:93 final size:94
Alignment explanation
Indices: 22572841--22573024 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 94
22572831 TCAGTGGTGT
22572841 TTCAACTATGTTCCCTGGTATTGCTGACCGAATGAGCAACGGGATCACTGCCCTTGCTCCTAGCG
1 TTCAACTATGTTCCCTGGTATTGCTGACCGAATGAGCAACGGGATCACTGCCCTTGCTCCTAGCG
22572906 GCATGAAGATTAAGG-CGTTGCACCATGG
66 GCATGAAGATTAAGGTCGTTGCACCATGG
22572934 TTCAACTATGTTCCCTGGTATTGCTGACCGAATGAGCAACGGGATCACTGCCCTTGCTCCTAGCG
1 TTCAACTATGTTCCCTGGTATTGCTGACCGAATGAGCAACGGGATCACTGCCCTTGCTCCTAGCG
22572999 GCATGAAGATTAAGGTCGTTGCACCA
66 GCATGAAGATTAAGGTCGTTGCACCA
22573025 CCAGAGAGAA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 80 0.89
94 10 0.11
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (94 bp):
TTCAACTATGTTCCCTGGTATTGCTGACCGAATGAGCAACGGGATCACTGCCCTTGCTCCTAGCG
GCATGAAGATTAAGGTCGTTGCACCATGG
Found at i:22583759 original size:10 final size:11
Alignment explanation
Indices: 22583721--22583753 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
22583711 GCGTTTTGTC
22583721 GACCAAAAACA
1 GACCAAAAACA
22583732 GACCAAAAACA
1 GACCAAAAACA
22583743 GACCAAAAACA
1 GACCAAAAACA
22583754 ATCAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.27, G:0.09, T:0.00
Consensus pattern (11 bp):
GACCAAAAACA
Found at i:22591322 original size:19 final size:20
Alignment explanation
Indices: 22591300--22591345 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
22591290 GTGCTTTTGA
22591300 TAAATTTCAAATTTTTT-TT
1 TAAATTTCAAATTTTTTCTT
* *
22591319 TAAATTTGAGATTTTTTCTT
1 TAAATTTCAAATTTTTTCTT
*
22591339 TTAATTT
1 TAAATTT
22591346 ATATTACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TAAATTTCAAATTTTTTCTT
Found at i:22596827 original size:6 final size:7
Alignment explanation
Indices: 22596814--22596840 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22596804 TCATCTTAAT
22596814 ATTAAAA
1 ATTAAAA
22596821 ATTAAAA
1 ATTAAAA
22596828 ATTAAAA
1 ATTAAAA
22596835 ATTAAA
1 ATTAAA
22596841 CATTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:22600326 original size:41 final size:41
Alignment explanation
Indices: 22600001--22600325 Score: 305
Period size: 41 Copynumber: 7.9 Consensus size: 41
22599991 TTTTGACCTT
* * * *
22600001 TCGGGGATTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGG
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* * * *
22600042 TAGGGGCTCTAGCGGCGTTTTTAGAAAAGCACCGCTAAAT-C
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCT-AATGC
* * * * * *
22600083 TCAGGTCCTTAACAGCGTTTTTAAAAAAGCGTCGCTAAAT-C
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCT-AATGC
*
22600124 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* *
22600165 TCGGGTCTTTAGCGGCGTTTTTAAAAATGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* * *
22600206 TCGGGGCTTTAGCAGCGTTTTTAAAGAATCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* * * ** * **
22600247 TTGGGGATTTAGCAGTATTTTTGAAAAAGCATCGCTAAAT-C
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCT-AATGC
* ** * *
22600288 TTGGGGCTTTAGCGGCGGATTTGAAGAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
22600326 AAACATTAAT
Statistics
Matches: 234, Mismatches: 47, Indels: 7
0.81 0.16 0.02
Matches are distributed among these distances:
40 5 0.02
41 223 0.95
42 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
Found at i:22601236 original size:3 final size:3
Alignment explanation
Indices: 22601228--22601254 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22601218 ATGATTTTTC
22601228 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
22601255 AAAAAATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22603806 original size:18 final size:18
Alignment explanation
Indices: 22603783--22603842 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
22603773 ATGTAATTCT
22603783 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
22603801 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
22603818 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
22603836 AATGTAA
1 AATGTAA
22603843 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:22604106 original size:43 final size:43
Alignment explanation
Indices: 22604041--22604354 Score: 412
Period size: 43 Copynumber: 7.3 Consensus size: 43
22604031 AAGTCATGTT
* * *
22604041 TTTAGGGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* ** * * *
22604084 TTTAGTGGCGTTTGTGAAAAAAGTGCCGCTAAAGTTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
22604127 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** *
22604170 TTTAGCGGAGTTTGTGGAAAAAGTACCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
22604213 TTTAGCAGCGTTTGTGGGAAAAGCACCGCTAAATGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** **
22604256 TTTAGCGGCGTTTGTGAGAAAAACGCTACTAAAGGTCTTACTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
22604299 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
22604342 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
22604355 TTTCTAAAAA
Statistics
Matches: 230, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 230 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:22610031 original size:38 final size:38
Alignment explanation
Indices: 22609965--22610039 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
22609955 TTCTTAACTA
* * *
22609965 AAATGAGAAGAAATAATAAATTTGCTTGTTTAAAAAAC
1 AAATGAGAAAAAACAATAAATTTACTTGTTTAAAAAAC
*
22610003 AAATGAGAAAAAACAATACATTTACTTGTTTAAAAAA
1 AAATGAGAAAAAACAATAAATTTACTTGTTTAAAAAA
22610040 TGTAAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.28
Consensus pattern (38 bp):
AAATGAGAAAAAACAATAAATTTACTTGTTTAAAAAAC
Found at i:22610277 original size:30 final size:30
Alignment explanation
Indices: 22610243--22610306 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
22610233 AAAAAAGCCC
22610243 TTTTTTTTAA-TAATTA-CGGAAATGGGCCA
1 TTTTTTTTAATTAATTACCGG-AATGGGCCA
* *
22610272 GTTTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTTTAATTAATTACCGGAATGGGCCA
22610302 TTTTT
1 TTTTT
22610307 CGCGAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 18 0.60
31 3 0.10
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (30 bp):
TTTTTTTTAATTAATTACCGGAATGGGCCA
Found at i:22610305 original size:29 final size:29
Alignment explanation
Indices: 22610244--22610306 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
22610234 AAAAAGCCCT
22610244 TTTTTTTAATAATTACGGAAATGGGCCAG
1 TTTTTTTAATAATTACGGAAATGGGCCAG
*
22610273 TTTTTTTAATTATTTACCGG-AATGGGCCA-
1 TTTTTTTAA-TAATTA-CGGAAATGGGCCAG
22610302 TTTTT
1 TTTTT
22610307 CGCGAAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.45
30 14 0.45
31 3 0.10
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (29 bp):
TTTTTTTAATAATTACGGAAATGGGCCAG
Found at i:22610794 original size:126 final size:123
Alignment explanation
Indices: 22610608--22610863 Score: 327
Period size: 126 Copynumber: 2.1 Consensus size: 123
22610598 AAATAGTGGG
** * * * *
22610608 AAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTAGACGCGATT
*
22610673 TCGCTATAG-TGGTCATGTAAGAAATAAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTTGGTCATGTAAGAAAT-AA-TTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
22610733 AAATCGCTGATACAAGGATGCTATATT-AGGCAGAAATTGTTAAATCGCGCCCTCGTAGACGCGA
1 AAATCGCTGATACAAGGATGCTAT-TTGA-GAAGAAATTGTGAAATCGCGCCCTCGTAGACGCGA
* ** * *
22610797 TTTCGCTACAGTTTGTCATGTTGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTGTC
64 TTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
22610857 AAATCGC
1 AAATCGC
22610864 GCCCTCGTGG
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
124 24 0.21
125 33 0.29
126 44 0.39
127 13 0.11
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (123 bp):
AAATCGCTGATACAAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTAGACGCGATT
TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:22614029 original size:27 final size:27
Alignment explanation
Indices: 22613991--22614050 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
22613981 AGTTGAATGT
*
22613991 AATTATAGAAAAAGCTACCTTTTATTC
1 AATTATAGAAAAAGCTACATTTTATTC
22614018 AATTATAGAAAAAGCTACATTTTATTC
1 AATTATAGAAAAAGCTACATTTTATTC
22614045 AATTAT
1 AATTAT
22614051 TAATTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (27 bp):
AATTATAGAAAAAGCTACATTTTATTC
Found at i:22614258 original size:23 final size:23
Alignment explanation
Indices: 22614228--22614361 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 23
22614218 TATTAGCTTA
*
22614228 AGGTTAGGGTTTTACATTAAGTT
1 AGGTTAGGGTTTTAAATTAAGTT
**
22614251 AGGTTAGGG-TTTAGGGTTAAGTT
1 AGGTTAGGGTTTTA-AATTAAGTT
22614274 AGGTTAGGGTTTTAAATTAAGTT
1 AGGTTAGGGTTTTAAATTAAGTT
*** *
22614297 AGGTTTTTAATTTTAATTAAATTAGGTT
1 AGG---TTAGGGTT--TTAAATTAAGTT
*
22614325 AGGTTAGGGTTTTTAATTCAA-TT
1 AGGTTAGGGTTTTAAATT-AAGTT
*
22614348 AAGTTAGGGTTTTA
1 AGGTTAGGGTTTTA
22614362 GGGTTTTTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.05
23 55 0.62
24 5 0.06
25 5 0.06
26 5 0.06
28 14 0.16
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (23 bp):
AGGTTAGGGTTTTAAATTAAGTT
Found at i:22614288 original size:18 final size:18
Alignment explanation
Indices: 22614244--22614306 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
22614234 GGGTTTTACA
22614244 TTAAGTTAGGTTAGGGTTT
1 TTAAGTTAGGTTAGGG-TT
22614263 AGGGTTAAGTTAGGTTAGGGTT
1 ----TTAAGTTAGGTTAGGGTT
* * *
22614285 TTAAATTAAGTTAGGTTT
1 TTAAGTTAGGTTAGGGTT
22614303 TTAA
1 TTAA
22614307 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 19 0.51
22 2 0.05
23 16 0.43
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (18 bp):
TTAAGTTAGGTTAGGGTT
Found at i:22614297 original size:28 final size:28
Alignment explanation
Indices: 22614267--22614605 Score: 320
Period size: 28 Copynumber: 12.0 Consensus size: 28
22614257 GGGTTTAGGG
* *
22614267 TTAAGTTAGGTTAGGGTTTTAAATTAAG
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
* * *
22614295 TTAGGTT--TTTA--AT-TTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
* *
22614318 TTAGGTTAGGTTAGGGTTTTTAATTCAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
22614346 TTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTA-GG--TTAGGGTTTTTAATTAAA
* *
22614377 TTATGTTAGGTTAGGGTTTATAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
*
22614405 TTAGGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTA-GG--TTAGGGTTTTTAATTAAA
22614436 TTAAGTTAGGTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
22614464 TTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTA-GG--TTAGGGTTTTTAATTAAA
**** *
22614495 TTAAGTTAGGGTTTTAGGGTTTAGGGTTCAA
1 TTAAGTTA-GG--TTAGGGTTTTTAATTAAA
*
22614526 TTAGGTTA-G----GGTTTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
* *
22614549 TTAGGTTAGGTTAGGGTTTTTAATTCAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
* *
22614577 TTAGGTTAGGTTAGGGTTTTTAATCAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTAAA
22614605 T
1 T
22614606 AATGTCAAAC
Statistics
Matches: 263, Mismatches: 29, Indels: 38
0.80 0.09 0.12
Matches are distributed among these distances:
23 32 0.12
24 2 0.01
25 3 0.01
26 3 0.01
27 1 0.00
28 112 0.43
29 7 0.03
30 4 0.02
31 99 0.38
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (28 bp):
TTAAGTTAGGTTAGGGTTTTTAATTAAA
Found at i:22614388 original size:59 final size:59
Alignment explanation
Indices: 22614267--22614605 Score: 383
Period size: 59 Copynumber: 6.0 Consensus size: 59
22614257 GGGTTTAGGG
* *
22614267 TTAAGTTAGGTTAGGG-TTTT-A---AATTAAGTTAGGTTTTTA---ATTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
*
22614318 TTAGGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
* * * *
22614377 TTATGTTAGGTTAGGGTTTATAATTAAATTAGGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
*
22614436 TTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
****
22614495 TTAAGTTAGGGTTTTAGGGTTTAGGGTTC----AA-TTA-GG--TTAGGGTTTTTAATTAAA
1 TTAAGTTA-GG--TTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
* * *
22614549 TTAGGTTAGGTTAGGGTTTTTAATTCAATTAGGTTA-GG--TTAGGGTTTTTAATCAAA
1 TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
22614605 T
1 T
22614606 AATGTCAAAC
Statistics
Matches: 250, Mismatches: 22, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
51 27 0.11
52 4 0.02
53 3 0.01
54 25 0.10
55 1 0.00
56 42 0.17
57 3 0.01
58 2 0.01
59 130 0.52
60 2 0.01
62 11 0.04
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (59 bp):
TTAAGTTAGGTTAGGGTTTTTAATTCAATTAAGTTAGGGTTTTAGGGTTTTTAATTAAA
Found at i:22617549 original size:22 final size:23
Alignment explanation
Indices: 22617521--22617568 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
22617511 TGAAAATTTT
*
22617521 AAAAATTTTAAAATTAT-TTAAA
1 AAAAATTGTAAAATTATCTTAAA
* *
22617543 AAAAATTGTATAATTTTCTTAAA
1 AAAAATTGTAAAATTATCTTAAA
22617566 AAA
1 AAA
22617569 TGAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAAATTGTAAAATTATCTTAAA
Found at i:22617641 original size:22 final size:22
Alignment explanation
Indices: 22617611--22617652 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22617601 ATTTGGAGAT
*
22617611 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
22617633 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
22617653 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:22617660 original size:30 final size:30
Alignment explanation
Indices: 22617624--22617682 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22617614 TTGAAGGAAA
* *
22617624 TTGAGAGGATTTTGGAAGG-AATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGCAA-TTGAGAGT
22617654 TTGAGAGAATTTTGAAAGGCAATTGAGAG
1 TTGAGAGAATTTTGAAAGGCAATTGAGAG
22617683 AATTTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGCAATTGAGAGT
Found at i:22617720 original size:21 final size:22
Alignment explanation
Indices: 22617654--22617730 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
22617644 ATTTGAGAGT
*
22617654 TTGAGAGAA-TTTTGAAAGGCAA
1 TTGAGAGAATTTTTG-AAGGAAA
*
22617676 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
22617698 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAATTTTTGAAGGAAA
22617719 TTGAGAGAATTT
1 TTGAGAGAATTT
22617731 GTTTGTGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
21 15 0.29
22 32 0.62
23 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:22617970 original size:29 final size:29
Alignment explanation
Indices: 22617915--22617969 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
22617905 CGCGAAAAAT
22617915 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
*
22617944 GGCCCATTTCC-GT-AATTATTAAAAAA
1 GGCCCA-TTCCGGTAAATAATTAAAAAA
22617970 ATGTGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 8 0.33
30 4 0.17
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:22620793 original size:4 final size:4
Alignment explanation
Indices: 22620784--22620809 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22620774 TGTTATTCCA
22620784 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
22620810 GCTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:22629332 original size:26 final size:26
Alignment explanation
Indices: 22629284--22629342 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
22629274 TTTAAAATCT
* *
22629284 ATATTATTAATATTAATATTAAATAA
1 ATATAATTAATATTAATACTAAATAA
**
22629310 ATATAATT-ATATTAATTACTAAATTG
1 ATATAATTAATATTAA-TACTAAATAA
22629336 ATATAAT
1 ATATAAT
22629343 ATGTTAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATAATTAATATTAATACTAAATAA
Found at i:22631225 original size:16 final size:16
Alignment explanation
Indices: 22631204--22631240 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
22631194 TATAGGATAT
22631204 AATAAAATATTAAAAA
1 AATAAAATATTAAAAA
22631220 AAT-AAATATTAAAAA
1 AATAAAATATTAAAAA
22631235 AA-AAAA
1 AATAAAA
22631241 GATATATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAAATATTAAAAA
Found at i:22632670 original size:20 final size:20
Alignment explanation
Indices: 22632645--22632684 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22632635 AATATTTTTC
*
22632645 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
22632665 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
22632685 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:22632686 original size:34 final size:35
Alignment explanation
Indices: 22632633--22632699 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
22632623 CAAACACCAG
* *
22632633 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
22632668 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22632700 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22638503 original size:27 final size:29
Alignment explanation
Indices: 22638464--22638529 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
22638454 AACAAAGATG
* *
22638464 AATATATATAAATTTTAAATA-A-ATAAA
1 AATATATAAAAATATTAAATATAGATAAA
22638491 AATATATAAAAATATTAAATATTAGATAAA
1 AATATATAAAAATATTAAATA-TAGATAAA
22638521 AATAATATA
1 AAT-ATATA
22638530 TATTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 19 0.58
29 1 0.03
30 8 0.24
31 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AATATATAAAAATATTAAATATAGATAAA
Found at i:22638519 original size:20 final size:20
Alignment explanation
Indices: 22638496--22638534 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22638486 ATAAAAATAT
*
22638496 ATAAAAATATTAAATATTAG
1 ATAAAAATAATAAATATTAG
*
22638516 ATAAAAATAATATATATTA
1 ATAAAAATAATAAATATTA
22638535 AAAAATTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAAAATAATAAATATTAG
Found at i:22652829 original size:640 final size:640
Alignment explanation
Indices: 22651609--22652880 Score: 2544
Period size: 640 Copynumber: 2.0 Consensus size: 640
22651599 TATATATAGA
22651609 CGTAGAAAAATAGGGAAGGGGAAGGCACTGAGCTTAGCGATTAAGTCATTGACTTGACCAAAATC
1 CGTAGAAAAATAGGGAAGGGGAAGGCACTGAGCTTAGCGATTAAGTCATTGACTTGACCAAAATC
22651674 AGTTAAGTTGAATTTTTAAAATGTAGATTACCCATTATTTTATTAAAATATAAAAAATAAAAATA
66 AGTTAAGTTGAATTTTTAAAATGTAGATTACCCATTATTTTATTAAAATATAAAAAATAAAAATA
22651739 TTCTCGTATTAATATTTTCTGCTTTATAAAAAAATAATGTCAACCAAGGTTGAGTTTGGATGGGC
131 TTCTCGTATTAATATTTTCTGCTTTATAAAAAAATAATGTCAACCAAGGTTGAGTTTGGATGGGC
22651804 GGTGCGTTTATCTACGGTTAGTGTAAAAATAGTAGTGGCAGAGAGATTAAATACTGTAACAATGT
196 GGTGCGTTTATCTACGGTTAGTGTAAAAATAGTAGTGGCAGAGAGATTAAATACTGTAACAATGT
22651869 TGTAGCATGAGACCAAAAAATAAGCTAAACGCATTGCACCACCTATCCAAACCCACCTTAAGTTG
261 TGTAGCATGAGACCAAAAAATAAGCTAAACGCATTGCACCACCTATCCAAACCCACCTTAAGTTG
22651934 ATTTTGGTTGACACATGATACAACTCAATCAAATGCTTAATATATGACAAGTGTTAGTGCAATAG
326 ATTTTGGTTGACACATGATACAACTCAATCAAATGCTTAATATATGACAAGTGTTAGTGCAATAG
22651999 TAAAACACATTATATTTTTAATAAGAGAACCTAAATTTAAACTTTGAGGTGGCTTTGTTAATAGG
391 TAAAACACATTATATTTTTAATAAGAGAACCTAAATTTAAACTTTGAGGTGGCTTTGTTAATAGG
22652064 GATAACTATAAACAGTACCGAACAAGAAAAACTGAAAAACAATTTAAATTGAGGTATTTGGACTG
456 GATAACTATAAACAGTACCGAACAAGAAAAACTGAAAAACAATTTAAATTGAGGTATTTGGACTG
22652129 TTTATGAAATGCAAATTTAAAAACCTTAATTACTCGAAACCAAATCAAATTTAATTTTTTTAATT
521 TTTATGAAATGCAAATTTAAAAACCTTAATTACTCGAAACCAAATCAAATTTAATTTTTTTAATT
22652194 TTTTATAACATAAAAATAAATGTTTTATATTTAAAATAGTAAAAAAAAAGATCTT
586 TTTTATAACATAAAAATAAATGTTTTATATTTAAAATAGTAAAAAAAAAGATCTT
22652249 CGTAGAAAAATAGGGAAGGGGAAGGCACTGAGCTTAGCGATTAAGTCATTGACTTGACCAAAATC
1 CGTAGAAAAATAGGGAAGGGGAAGGCACTGAGCTTAGCGATTAAGTCATTGACTTGACCAAAATC
22652314 AGTTAAGTTGAATTTTTAAAATGTAGATTACCCATTATTTTATTAAAATATAAAAAATAAAAATA
66 AGTTAAGTTGAATTTTTAAAATGTAGATTACCCATTATTTTATTAAAATATAAAAAATAAAAATA
22652379 TTCTCGTATTAATATTTTCTGCTTTATAAAAAAATAATGTCAACCAAGGTTGAGTTTGGATGGGC
131 TTCTCGTATTAATATTTTCTGCTTTATAAAAAAATAATGTCAACCAAGGTTGAGTTTGGATGGGC
22652444 GGTGCGTTTATCTACGGTTAGTGTAAAAATAGTAGTGGCAGAGAGATTAAATACTGTAACAATGT
196 GGTGCGTTTATCTACGGTTAGTGTAAAAATAGTAGTGGCAGAGAGATTAAATACTGTAACAATGT
22652509 TGTAGCATGAGACCAAAAAATAAGCTAAACGCATTGCACCACCTATCCAAACCCACCTTAAGTTG
261 TGTAGCATGAGACCAAAAAATAAGCTAAACGCATTGCACCACCTATCCAAACCCACCTTAAGTTG
22652574 ATTTTGGTTGACACATGATACAACTCAATCAAATGCTTAATATATGACAAGTGTTAGTGCAATAG
326 ATTTTGGTTGACACATGATACAACTCAATCAAATGCTTAATATATGACAAGTGTTAGTGCAATAG
22652639 TAAAACACATTATATTTTTAATAAGAGAACCTAAATTTAAACTTTGAGGTGGCTTTGTTAATAGG
391 TAAAACACATTATATTTTTAATAAGAGAACCTAAATTTAAACTTTGAGGTGGCTTTGTTAATAGG
22652704 GATAACTATAAACAGTACCGAACAAGAAAAACTGAAAAACAATTTAAATTGAGGTATTTGGACTG
456 GATAACTATAAACAGTACCGAACAAGAAAAACTGAAAAACAATTTAAATTGAGGTATTTGGACTG
22652769 TTTATGAAATGCAAATTTAAAAACCTTAATTACTCGAAACCAAATCAAATTTAATTTTTTTAATT
521 TTTATGAAATGCAAATTTAAAAACCTTAATTACTCGAAACCAAATCAAATTTAATTTTTTTAATT
22652834 TTTTATAACATAAAAATAAATGTTTTATATTTAAAATAGTAAAAAAA
586 TTTTATAACATAAAAATAAATGTTTTATATTTAAAATAGTAAAAAAA
22652881 TTAAAAGATC
Statistics
Matches: 632, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
640 632 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (640 bp):
CGTAGAAAAATAGGGAAGGGGAAGGCACTGAGCTTAGCGATTAAGTCATTGACTTGACCAAAATC
AGTTAAGTTGAATTTTTAAAATGTAGATTACCCATTATTTTATTAAAATATAAAAAATAAAAATA
TTCTCGTATTAATATTTTCTGCTTTATAAAAAAATAATGTCAACCAAGGTTGAGTTTGGATGGGC
GGTGCGTTTATCTACGGTTAGTGTAAAAATAGTAGTGGCAGAGAGATTAAATACTGTAACAATGT
TGTAGCATGAGACCAAAAAATAAGCTAAACGCATTGCACCACCTATCCAAACCCACCTTAAGTTG
ATTTTGGTTGACACATGATACAACTCAATCAAATGCTTAATATATGACAAGTGTTAGTGCAATAG
TAAAACACATTATATTTTTAATAAGAGAACCTAAATTTAAACTTTGAGGTGGCTTTGTTAATAGG
GATAACTATAAACAGTACCGAACAAGAAAAACTGAAAAACAATTTAAATTGAGGTATTTGGACTG
TTTATGAAATGCAAATTTAAAAACCTTAATTACTCGAAACCAAATCAAATTTAATTTTTTTAATT
TTTTATAACATAAAAATAAATGTTTTATATTTAAAATAGTAAAAAAAAAGATCTT
Found at i:22654266 original size:3 final size:3
Alignment explanation
Indices: 22654258--22654285 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22654248 ATGTTTAACA
22654258 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22654286 GAGCAAACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:22663686 original size:21 final size:22
Alignment explanation
Indices: 22663660--22663712 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
22663650 TTGTTTACTA
22663660 CTATTTTGTTGTCG-TTTGTTGG
1 CTATTTTGTTGTCGTTTTGTT-G
* *
22663682 C-ATTTTGATGTTGTTTTGTTG
1 CTATTTTGTTGTCGTTTTGTTG
22663703 CTATTTTGTT
1 CTATTTTGTT
22663713 ATTATATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.08, C:0.08, G:0.23, T:0.62
Consensus pattern (22 bp):
CTATTTTGTTGTCGTTTTGTTG
Found at i:22674774 original size:9 final size:9
Alignment explanation
Indices: 22674760--22674802 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
22674750 GAATCAGATC
22674760 ATGACGACG
1 ATGACGACG
22674769 ATGACGACG
1 ATGACGACG
* *
22674778 AAGACGAAG
1 ATGACGACG
* *
22674787 ACGATGACG
1 ATGACGACG
22674796 ATGACGA
1 ATGACGA
22674803 TGACTGCAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.33, T:0.09
Consensus pattern (9 bp):
ATGACGACG
Found at i:22674777 original size:12 final size:12
Alignment explanation
Indices: 22674762--22674806 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
22674752 ATCAGATCAT
22674762 GACGACGATGAC
1 GACGACGATGAC
22674774 GACGA--A-GAC
1 GACGACGATGAC
*
22674783 GAAGACGATGAC
1 GACGACGATGAC
*
22674795 GATGACGATGAC
1 GACGACGATGAC
22674807 TGCAGTAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 7 0.25
10 1 0.04
11 1 0.04
12 19 0.68
ACGTcount: A:0.38, C:0.20, G:0.33, T:0.09
Consensus pattern (12 bp):
GACGACGATGAC
Found at i:22682781 original size:17 final size:17
Alignment explanation
Indices: 22682759--22682791 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22682749 CACTACAAAA
*
22682759 AACCCAGGCCCAATTAT
1 AACCCAAGCCCAATTAT
22682776 AACCCAAGCCCAATTA
1 AACCCAAGCCCAATTA
22682792 CAATAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.15
Consensus pattern (17 bp):
AACCCAAGCCCAATTAT
Found at i:22685828 original size:22 final size:23
Alignment explanation
Indices: 22685780--22685834 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
22685770 CGTTTTTCAT
* *
22685780 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
22685803 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
22685825 TTAAAATTAA
1 TTAAAATTAA
22685835 TTGTTATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:22685829 original size:16 final size:16
Alignment explanation
Indices: 22685808--22685864 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
22685798 TTTTATTAAA
*
22685808 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
22685824 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
22685840 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
22685856 ATTAAAATT
1 ATTAAAATT
22685865 GTGTCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:22685941 original size:19 final size:18
Alignment explanation
Indices: 22685917--22685990 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 18
22685907 TCTAACATTT
22685917 TTGTTAGTAAAATTATTAA
1 TTGTTA-TAAAATTATTAA
**
22685936 TTGTTA-ATTA-TATTAA
1 TTGTTATAAAATTATTAA
*
22685952 TTGTTACTAAAATTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
22685972 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
22685989 TT
1 TT
22685991 ATTAATTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
16 12 0.28
17 6 0.14
18 10 0.23
19 11 0.26
20 4 0.09
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (18 bp):
TTGTTATAAAATTATTAA
Found at i:22686894 original size:22 final size:22
Alignment explanation
Indices: 22686862--22686921 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
22686852 GCCCTGCCCG
* *
22686862 TTTTAATTAAAATTAAAATTATT
1 TTTTAA-TAAAATTAAAACTAAT
22686885 TTTTAATAAAATTAAAACTAAT
1 TTTTAATAAAATTAAAACTAAT
* *
22686907 TGTTATTAAAATTAA
1 TTTTAATAAAATTAA
22686922 TTGTTAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTTAATAAAATTAAAACTAAT
Found at i:22686934 original size:16 final size:16
Alignment explanation
Indices: 22686897--22686936 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
22686887 TTAATAAAAT
* *
22686897 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
22686913 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
22686929 TAAAATTA
1 TAAAATTA
22686937 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:22687021 original size:9 final size:9
Alignment explanation
Indices: 22687009--22687041 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
22686999 ATTATCAAAT
22687009 TATTAATTG
1 TATTAATTG
22687018 TATTAATTG
1 TATTAATTG
22687027 TATTAATTG
1 TATTAATTG
22687036 TATTAA
1 TATTAA
22687042 ATGTTTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (9 bp):
TATTAATTG
Found at i:22690351 original size:12 final size:12
Alignment explanation
Indices: 22690320--22690357 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
22690310 ATTTTTTAAA
22690320 TTTTAAAATAC-
1 TTTTAAAATACT
22690331 TTTTAAAATACT
1 TTTTAAAATACT
*
22690343 TTTTTAAATA-T
1 TTTTAAAATACT
22690354 TTTT
1 TTTT
22690358 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:22690704 original size:9 final size:9
Alignment explanation
Indices: 22690690--22690717 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22690680 NNNNNNNNNA
22690690 ACAATTAAT
1 ACAATTAAT
22690699 ACAATTAAT
1 ACAATTAAT
22690708 ACAATTAAT
1 ACAATTAAT
22690717 A
1 A
22690718 ATTTGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:22690811 original size:16 final size:16
Alignment explanation
Indices: 22690790--22690831 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22690780 AATAATTTGA
*
22690790 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
22690806 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22690822 TAGTTTTAAT
1 TAATTTTAAT
22690832 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22690815 original size:22 final size:22
Alignment explanation
Indices: 22690805--22690864 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
22690795 TTACTAACAA
* * *
22690805 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
22690827 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
22690849 TTAATTTTAATTAAAA
1 TTAATTTTAATAAAAA
22690865 CGGGCCGGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:22692046 original size:30 final size:30
Alignment explanation
Indices: 22692012--22692075 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
22692002 AAATATTTTA
* *
22692012 ATTATATCAAATCATATCAAAT-TCTAATAT
1 ATTATATCAAATAATAT-AAATATATAATAT
*
22692042 ATTATATCAAATAATATTAATATATAATAT
1 ATTATATCAAATAATATAAATATATAATAT
22692072 ATTA
1 ATTA
22692076 AACTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTATATCAAATAATATAAATATATAATAT
Found at i:22692066 original size:25 final size:27
Alignment explanation
Indices: 22692038--22692088 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
22692028 TCAAATTCTA
*
22692038 ATATATTATATCAAA-TA-ATATTAAT
1 ATATAATATATCAAACTATATATTAAT
*
22692063 ATATAATATATTAAACTATATATTAA
1 ATATAATATATCAAACTATATATTAA
22692089 AAATATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 2 0.09
27 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATAATATATCAAACTATATATTAAT
Found at i:22693155 original size:17 final size:16
Alignment explanation
Indices: 22693133--22693175 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
22693123 AATTATGATG
*
22693133 TTATTATATATTTTAAT
1 TTATTATATATTAT-AT
*
22693150 TTATTAAATATTATAT
1 TTATTATATATTATAT
*
22693166 TTATTGTATA
1 TTATTATATA
22693176 AGCAAATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATTATATATTATAT
Found at i:22700288 original size:20 final size:21
Alignment explanation
Indices: 22700265--22700303 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22700255 TTTGGCTTAA
*
22700265 AGTATCGATA-CATTTAACCT
1 AGTATAGATACCATTTAACCT
22700285 AGTATAGATACCATTTAAC
1 AGTATAGATACCATTTAAC
22700304 GATTTCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (21 bp):
AGTATAGATACCATTTAACCT
Found at i:22705684 original size:18 final size:16
Alignment explanation
Indices: 22705650--22705703 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 16
22705640 TTGTAAAATA
* *
22705650 TTATAA-AAGTATTTT
1 TTATAATAATTATATT
22705665 TTATAATAATTTAATATT
1 TTATAATAA-TT-ATATT
*
22705683 TTAAAATAATTATATT
1 TTATAATAATTATATT
22705699 TTATA
1 TTATA
22705704 TAGACTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 6 0.19
16 11 0.34
17 3 0.09
18 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATAATAATTATATT
Found at i:22711495 original size:19 final size:19
Alignment explanation
Indices: 22711465--22711535 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
22711455 AGTATTACTT
22711465 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
22711483 AATAGAGTTATTAAATGAG
1 AATAGATTTATTAAATTAA
22711502 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
22711520 AATAGATTTATTAAAT
1 AATAGATTTATTAAAT
22711536 GAGAATATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 20 0.44
19 25 0.56
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:22711507 original size:37 final size:37
Alignment explanation
Indices: 22711465--22711542 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
22711455 AGTATTACTT
22711465 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
*
22711502 AATAGTTTATTAAATTAAAATAGATTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
22711539 AATA
1 AATA
22711543 TGCTTCAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:22717241 original size:34 final size:34
Alignment explanation
Indices: 22717171--22717247 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
22717161 TATTAATCCA
* *
22717171 TTATAAGCATATTATTTGCTACCATATGGAACTG
1 TTATAAGCATATCAATTGCTACCATATGGAACTG
* *
22717205 TTATGAGCATATCAATTGCTACCATATTGATA-TG
1 TTATAAGCATATCAATTGCTACCATATGGA-ACTG
22717239 TTATAAGCA
1 TTATAAGCA
22717248 CGCCATATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (34 bp):
TTATAAGCATATCAATTGCTACCATATGGAACTG
Found at i:22717453 original size:43 final size:43
Alignment explanation
Indices: 22717401--22717507 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
22717391 TTATTAAGTG
* **
22717401 CAAATATGTTGTGCATCTACAACCCATTGAAATTTATTATC-TC
1 CAAACATGTTGTGCATCTACAACCCATTGAAAGCTATTA-CATC
22717444 CAAACATGTTGTGCATCTACAACCCATTGAAAGCTATTACATC
1 CAAACATGTTGTGCATCTACAACCCATTGAAAGCTATTACATC
22717487 CAAACATGTTGTGCATCTACA
1 CAAACATGTTGTGCATCTACA
22717508 GCCAGTGGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (43 bp):
CAAACATGTTGTGCATCTACAACCCATTGAAAGCTATTACATC
Found at i:22722705 original size:35 final size:35
Alignment explanation
Indices: 22722661--22722729 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
22722651 TTTGTTTAAT
* *
22722661 AATTAATGATATTTAAA-TATAATTTATATTATATG
1 AATTAATGATAATTAAATTATAA-TGATATTATATG
*
22722696 AATTTATGATAATTAAATTATAATGATATTATAT
1 AATTAATGATAATTAAATTATAATGATATTATAT
22722730 TATTAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (35 bp):
AATTAATGATAATTAAATTATAATGATATTATATG
Found at i:22722721 original size:25 final size:23
Alignment explanation
Indices: 22722677--22722737 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
22722667 TGATATTTAA
*
22722677 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
22722701 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
22722726 ATATTATTAAAT
1 ATATAATTAAAT
22722738 GAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:22724279 original size:45 final size:44
Alignment explanation
Indices: 22724214--22724318 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 44
22724204 TGTGCCGAAC
* *
22724214 TACTGTTACTGTTACCGATTCGGCACTTTGTGTG-TCGAATAACAG
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGCT-GAAT-ACAG
*
22724259 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGCTGAATACTG
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGCTGAATACAG
22724303 TCACTGTTACTGTTAC
1 T-ACTGTTACTGTTAC
22724319 TGCTACCGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 4 0.07
45 50 0.91
46 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (44 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGCTGAATACAG
Found at i:22724314 original size:6 final size:6
Alignment explanation
Indices: 22724298--22724346 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
22724288 GTGTGCTGAA
* * *
22724298 TACTGT CACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT ATACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT -TACTG
22724347 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (6 bp):
TACTGT
Found at i:22736122 original size:68 final size:69
Alignment explanation
Indices: 22736047--22736181 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 69
22736037 TTTGTTTCTG
* * * *
22736047 TACGGAAATTATTTTTCTCA-TTTTTCGGTGTTTAATTGTGTAAAATATAATAGATCAATGTAAA
1 TACGGAAAATATTTTTCTCATTTTTTCGGTATTTAATTGTGTAAAATATAATAAATCAATGGAAA
22736111 ATTT
66 ATTT
* ** * *
22736115 TACGGAAAATATTTTTTTCATTTTTTTTGTATTTGATTGTGTAAAATATACTAAATCAATGGAAA
1 TACGGAAAATATTTTTCTCATTTTTTCGGTATTTAATTGTGTAAAATATAATAAATCAATGGAAA
22736180 AT
66 AT
22736182 GCTTTGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 18 0.32
69 39 0.68
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.46
Consensus pattern (69 bp):
TACGGAAAATATTTTTCTCATTTTTTCGGTATTTAATTGTGTAAAATATAATAAATCAATGGAAA
ATTT
Found at i:22737283 original size:18 final size:18
Alignment explanation
Indices: 22737256--22737300 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22737246 CAAAAAAAAT
* *
22737256 TAAAAATATAATTTTTTA
1 TAAAATTATAAATTTTTA
22737274 TAAAATTATAAATTTTTA
1 TAAAATTATAAATTTTTA
22737292 -AAACATTAT
1 TAAA-ATTAT
22737301 TTTCAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATTATAAATTTTTA
Found at i:22737336 original size:29 final size:28
Alignment explanation
Indices: 22737277--22737337 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
22737267 TTTTTTATAA
* *
22737277 AATTATAAATTTTTAAAACATTATTTTC
1 AATTATAAATTTTTAAAAAATTATTTAC
*
22737305 AATTATATATATTTTAAATAAATT-TTTAC
1 AATTATAAAT-TTTTAAA-AAATTATTTAC
22737334 AATT
1 AATT
22737338 TTAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.32
29 15 0.54
30 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (28 bp):
AATTATAAATTTTTAAAAAATTATTTAC
Found at i:22737358 original size:19 final size:19
Alignment explanation
Indices: 22737312--22737360 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
22737302 TTCAATTATA
* *
22737312 TATATTTTAAATAAATTTT
1 TATATTTTTAATAAAATTT
* *
22737331 TACAATTTTAATAAAATTT
1 TATATTTTTAATAAAATTT
22737350 TATATTTTTAA
1 TATATTTTTAA
22737361 CTTTTTTTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTTTAATAAAATTT
Found at i:22743832 original size:23 final size:23
Alignment explanation
Indices: 22743783--22743833 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
22743773 ATTGTTTGTG
* * * *
22743783 AACATTTTCATTTAACGTTTACG
1 AACATGTTCATTTAACATTCACA
*
22743806 AACATGTTCATTTAACATTCGCA
1 AACATGTTCATTTAACATTCACA
22743829 AACAT
1 AACAT
22743834 ATAAATGGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
AACATGTTCATTTAACATTCACA
Found at i:22750944 original size:10 final size:10
Alignment explanation
Indices: 22750919--22750984 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
22750909 GTATTTTCAA
22750919 TAAAAATA-T
1 TAAAAATATT
22750928 TAGAAAATATT
1 TA-AAAATATT
22750939 TAAAAA-ATT
1 TAAAAATATT
*
22750948 GTGAAAA-A-T
1 -TAAAAATATT
* *
22750957 TAAAACTCTT
1 TAAAAATATT
*
22750967 TAAAAATTTT
1 TAAAAATATT
22750977 TAAAAATA
1 TAAAAATA
22750985 AAAATAACGT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
8 4 0.09
9 6 0.13
10 32 0.71
11 3 0.07
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (10 bp):
TAAAAATATT
Found at i:22766955 original size:54 final size:54
Alignment explanation
Indices: 22766855--22766961 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
22766845 ATTGAAAACT
* *
22766855 TTATTCCAGAAAACACCATTGTTCAAGGGGAAGTTATTGTTCAGGGGAAGACTG
1 TTATTCCAGAAAACACCATTGTTCAAGGGGAAGCTACTGTTCAGGGGAAGACTG
* *
22766909 TTATTCCGGAAAACACCATTGTTCGAA-GGGAAGCTACTGCTT-AGGGGGAGACT
1 TTATTCCAGAAAACACCATTGTTC-AAGGGGAAGCTACTG-TTCAGGGGAAGACT
22766962 ACTGTTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 43 0.91
55 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (54 bp):
TTATTCCAGAAAACACCATTGTTCAAGGGGAAGCTACTGTTCAGGGGAAGACTG
Found at i:22770748 original size:26 final size:26
Alignment explanation
Indices: 22770711--22770765 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
22770701 GAAACACTAA
22770711 TAACCACAAAAAAACCGGTTAGAAAT
1 TAACCACAAAAAAACCGGTTAGAAAT
*
22770737 TAACCACCAAAAAACCGGTTAGAAAT
1 TAACCACAAAAAAACCGGTTAGAAAT
22770763 TAA
1 TAA
22770766 TCATTGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.53, C:0.20, G:0.11, T:0.16
Consensus pattern (26 bp):
TAACCACAAAAAAACCGGTTAGAAAT
Found at i:22777144 original size:18 final size:20
Alignment explanation
Indices: 22777114--22777151 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
22777104 CTATTCTAAA
22777114 AAAATATTATTTA-TTAATT
1 AAAATATTATTTATTTAATT
22777133 AAAATA-TATTTATTTAATT
1 AAAATATTATTTATTTAATT
22777152 TCTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATATTATTTATTTAATT
Found at i:22777450 original size:43 final size:43
Alignment explanation
Indices: 22777398--22777605 Score: 256
Period size: 43 Copynumber: 4.8 Consensus size: 43
22777388 TTTTGGAAAT
22777398 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * ** *
22777441 AAACGCCGCTATAGACCACGACCTTTAGCGGAACTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
** * *
22777484 AAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * *
22777527 AAATGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTT-CCAC
* * * *
22777571 AAACGCCGCTATAGAACA-AACCTTTAGCGACGCTT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT
22777606 CTCGCAAAAA
Statistics
Matches: 140, Mismatches: 24, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
43 122 0.87
44 18 0.13
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:22777686 original size:22 final size:23
Alignment explanation
Indices: 22777658--22777700 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22777648 TTTTAATCAA
*
22777658 ATAAATAATAT-TTATTTTTTTG
1 ATAAATAATATATTATGTTTTTG
*
22777680 ATAAATATTATATTATGTTTT
1 ATAAATAATATATTATGTTTT
22777701 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
ATAAATAATATATTATGTTTTTG
Done.