Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 130 of 199
Found at i:37668529 original size:45 final size:46
Alignment explanation
Indices: 37668418--37668536 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 46
37668408 CATCAGGTCT
* * * * * *
37668418 TATCTCCCTGAAGTTGCAGCGGAGTAGACCGAAGAATAGTAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGAATAGAAAATCC
* *** *
37668464 TATCTCCCTAAGCAAG-AGTGGAGTAGATCGAAG-ATGGAAAATCC
1 TATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGAATAGAAAATCC
*
37668508 TATCTCCCTGAGGTTGCAGTGGAGCAGAT
1 TATCTCCCTGAGGTTGCAGTGGAGTAGAT
37668537 TGATGCCAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 19 0.34
45 26 0.46
46 11 0.20
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
TATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGAATAGAAAATCC
Found at i:37668824 original size:44 final size:44
Alignment explanation
Indices: 37668720--37668831 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 44
37668710 GAAGATGGCA
* ** **
37668720 AATCTTATCT-TCCTGAGGTTGCAGTGGAGCAAATTGAAGCCGCT
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAAATTGAAAACAAT
*
37668764 AATC-TATCTCTCTGAAGTTGCAGTGGAGCGAATT-AAAACAAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAAACAAT
37668806 AGATCTTATCTCTCTGAAGTTGCAGT
1 A-ATCTTATCTCTCTGAAGTTGCAGT
37668832 AGAGTAGATC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 5 0.08
43 29 0.49
44 25 0.42
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAAACAAT
Found at i:37669219 original size:44 final size:44
Alignment explanation
Indices: 37669152--37669275 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
37669142 TCGAAGATGG
* * * * **
37669152 CAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCG
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* * *
37669196 CTAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* *
37669240 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
37669276 CGCATCAATT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
Found at i:37669314 original size:218 final size:217
Alignment explanation
Indices: 37668403--37670017 Score: 2057
Period size: 218 Copynumber: 7.4 Consensus size: 217
37668393 ACAGATCGTT
* * * * *
37668403 GATCACATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACCGAAGAATAG-TAGATCTTAT
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTG-AGAA-AGCAAG-TCTTAT
* ** * * ** * *
37668467 CTCCCT-AAG-CAAGAGTGGAGTAGA-TCGAAGATGGAAAATCCTATCTCCCTGAGGTTGCAGTG
63 CCCCCTGAAGTTGA-AGTGGGGCAGACT-GAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTG
* * * * * * * * *
37668529 GAGCAGATTGATGCCAATAATCCTATCTTCCTGAAGTTGTAGTGGAGCGGCTTGAAATAACAGAT
126 GAGTAGATTAAAGCC-GTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGAT
*
37668594 CTTATCTCTCTGAAGTTACAGTAGAGTA
190 CTTATCTCTCTGAAGTTGCAGTAGAGTA
* * * *
37668622 GATCGCATCAGGTCTTATCTCCCTGAAGTTACAGCGGAGTAGACCGA-AGAAGC-AGATCTTATC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGA-AAGCAAG-TCTTATC
* * * * * ** * *
37668685 TCCCT-AAGTAGTAGTAGAGCAGA-TCGAAGATGGCAAATCTTATCTTCCTGAGGTTGCAGTGGA
64 CCCCTGAAGTTGAAGTGGGGCAGACT-GAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGA
* * * * * * *
37668748 GCAAATTGAAGCCGCTAAT-CTATCTCTCTGAAGTTGCAGTGGAGCGAATTAAAACAATAGATCT
128 GTAGATTAAAGCCG-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCT
37668812 TATCTCTCTGAAGTTGCAGTAGAGTA
192 TATCTCTCTGAAGTTGCAGTAGAGTA
37668838 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * * *
37668903 CCTAAAGTTGAAGTGGGGCAGACTAAAGATGGTGAATCTTATCTTCATGAGTTTGCAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTA
* * *
37668968 GATTAAAGTCAGTAATCC-ATCTCCCTGAAGTTGCAGTAGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAG-CCGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTAT
*
37669032 CTCTCTGAAGTTGCAGTAGAGTG
195 CTCTCTGAAGTTGCAGTAGAGTA
* *
37669055 GATCGCATCAGGTCTTATCTCCCTGAGCTTGCAGCGGAGCAGACTGAGAAAGTAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * ** ** * *
37669120 CTTGAATTTGAAGTGGAACAGA-TCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGC
66 CCTGAAGTTGAAGTGGGGCAGACT-GAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGT
* * * * * *
37669184 AGATTGAAGCCGCTAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACAACAAATCTTA
130 AGATTAAAGCCG-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTA
37669249 TCTCTCTGAAGTTGCAGTAGAGTA
194 TCTCTCTGAAGTTGCAGTAGAGTA
** * *
37669273 GATCGCATCAATTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * *
37669338 CTTGAAGTTAAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTA
* * *
37669403 GATTAAAGCCAGTAATCCAATCTCCCTAAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAGCC-GTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTAT
37669468 CTCTCTGAAGTTGCAGTAGAGTA
195 CTCTCTGAAGTTGCAGTAGAGTA
* * *
37669491 GATCGCATCAGGTCTTATTTCCCTGAGGTTGCAACGGAGCAGACTAAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* *
37669556 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCTCTGAGTTTACAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTA
** *
37669621 GATTAAAGCCAGTAATCCCGTCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAGCC-GTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTAT
* *
37669686 CTCTCTGAAGTTGCAATAGAGTG
195 CTCTCTGAAGTTGCAGTAGAGTA
* * *
37669709 GACCGCATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACTGAGAAAGTAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
*
37669774 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTA
* * *
37669839 GATTAAAGCCAATAATCCCATTTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTAT
131 GATTAAAGCC-GTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTAT
* * *
37669904 CTCTATGAAGTCGCAGTAGAGTG
195 CTCTCTGAAGTTGCAGTAGAGTA
* * * * *
37669927 GATCGCATCAGTTCTTATTTCCCTGAGGTTGCAACAGAGCAGACTAAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
*
37669992 CCTAAAGTTGCAA-TGGGGCAGACTGA
66 CCTGAAGTTG-AAGTGGGGCAGACTGA
37670018 GAATAGCAAA
Statistics
Matches: 1247, Mismatches: 133, Indels: 33
0.88 0.09 0.02
Matches are distributed among these distances:
216 123 0.10
217 333 0.27
218 743 0.60
219 48 0.04
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (217 bp):
GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGTA
GATTAAAGCCGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATC
TCTCTGAAGTTGCAGTAGAGTA
Found at i:37669834 original size:45 final size:42
Alignment explanation
Indices: 37669720--37669836 Score: 101
Period size: 44 Copynumber: 2.6 Consensus size: 42
37669710 ACCGCATCAG
*
37669720 GTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACTGAGAAAGTAA
1 GTCTTATCTCC-TGA-GTTGCAGTGGAGCAGACTGAGAAAGTAA
* * * **
37669764 GTCTTATCCCCCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAA
1 GTCTTAT-CTCCTG-AGTTGCAGTGGAGCAGACTG-AGAAAGT-AA
37669810 -TCTTATCTCTCTGAGTTTGCAGTGGAG
1 GTCTTATCTC-CTGAG-TTGCAGTGGAG
37669837 TAGATTAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
44 29 0.50
45 27 0.47
46 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (42 bp):
GTCTTATCTCCTGAGTTGCAGTGGAGCAGACTGAGAAAGTAA
Found at i:37675645 original size:4 final size:5
Alignment explanation
Indices: 37675619--37675647 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
37675609 AATTAATTCA
37675619 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
37675648 TAATTTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:37675648 original size:15 final size:16
Alignment explanation
Indices: 37675618--37675654 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
37675608 CAATTAATTC
37675618 AATTTTATTTTATTTT
1 AATTTTATTTTATTTT
37675634 -ATTTTA-TTTATTTTT
1 AATTTTATTTTA-TTTT
37675649 AATTTT
1 AATTTT
37675655 GCATTATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 10 0.53
16 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
AATTTTATTTTATTTT
Found at i:37676502 original size:19 final size:21
Alignment explanation
Indices: 37676480--37676525 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
37676470 TTAAAAATAT
*
37676480 TAAAAATATT-T-AATTTTTA
1 TAAAAATATTGTAAAATTTTA
37676499 TAAAAA-ATTGTAAAATTTTA
1 TAAAAATATTGTAAAATTTTA
37676519 TAAAAAT
1 TAAAAAT
37676526 CGTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAAATATTGTAAAATTTTA
Found at i:37676530 original size:19 final size:20
Alignment explanation
Indices: 37676494--37676532 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37676484 AATATTTAAT
*
37676494 TTTTATAAAAAATTGTAAAA
1 TTTTATAAAAAATCGTAAAA
37676514 TTTTAT-AAAAATCGTAAAA
1 TTTTATAAAAAATCGTAAAA
37676533 AAATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTTATAAAAAATCGTAAAA
Found at i:37676533 original size:20 final size:20
Alignment explanation
Indices: 37676494--37676544 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
37676484 AATATTTAAT
*
37676494 TTTTATAAAAAATTGT-AAAA
1 TTTTAT-AAAAATCGTAAAAA
37676514 TTTTATAAAAATCGTAAAAAA
1 TTTTATAAAAATCGT-AAAAA
*
37676535 ATTTATAAAA
1 TTTTATAAAA
37676545 TATAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 6 0.22
21 13 0.48
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TTTTATAAAAATCGTAAAAA
Found at i:37676544 original size:31 final size:30
Alignment explanation
Indices: 37676500--37676602 Score: 95
Period size: 29 Copynumber: 3.5 Consensus size: 30
37676490 TAATTTTTAT
* *
37676500 AAAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAAATTATAAAATTTTATAAAAGTCGTA
* *
37676530 AAAAAATTTATAAAA-TATAGAAAAGT-GTA
1 AAAAAA-TTATAAAATTTTATAAAAGTCGTA
* * *
37676559 GAAATATATATATAATTTTAT-AAAGTCGTA
1 AAAAAAT-TATAAAATTTTATAAAAGTCGTA
*
37676589 AGAAAATTATAAAA
1 AAAAAATTATAAAA
37676603 AATGTAAAGA
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
28 1 0.02
29 24 0.43
30 24 0.43
31 7 0.12
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (30 bp):
AAAAAATTATAAAATTTTATAAAAGTCGTA
Found at i:37676553 original size:21 final size:21
Alignment explanation
Indices: 37676510--37676553 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37676500 AAAAAATTGT
* *
37676510 AAAATTTTATAAAAATCGTAA
1 AAAAATTTATAAAAATAGTAA
37676531 AAAAATTTATAAAATATAG-AA
1 AAAAATTTATAAAA-ATAGTAA
37676552 AA
1 AA
37676554 GTGTAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAATTTATAAAAATAGTAA
Found at i:37676599 original size:29 final size:29
Alignment explanation
Indices: 37676502--37676599 Score: 67
Period size: 30 Copynumber: 3.3 Consensus size: 29
37676492 ATTTTTATAA
* * * *
37676502 AAAATTGTAAAATTTTATAAAAATCGTAAA
1 AAAATTATATAATTTTAT-AAAGTCGTAAG
* * *
37676532 AAAATT-TATAAAATATAGAAAAGT-GT-AG
1 AAAATTATAT-AATTTTA-TAAAGTCGTAAG
37676560 AAATATATATATAATTTTATAAAGTCGTAAG
1 AAA-AT-TATATAATTTTATAAAGTCGTAAG
37676591 AAAATTATA
1 AAAATTATA
37676600 AAAAATGTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
28 4 0.08
29 15 0.29
30 25 0.48
31 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (29 bp):
AAAATTATATAATTTTATAAAGTCGTAAG
Found at i:37676615 original size:20 final size:20
Alignment explanation
Indices: 37676584--37676642 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
37676574 TTTTATAAAG
37676584 TCGTAAGAAAATTATAAAAAA
1 TCGTAA-AAAATTATAAAAAA
*
37676605 T-GTAAAGAAA-TATAAAAAT
1 TCGTAAA-AAATTATAAAAAA
37676624 TCGTAAAAGAATTATAAAA
1 TCGTAAAA-AATTATAAAA
37676643 CTTATCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 11 0.33
20 14 0.42
21 8 0.24
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.25
Consensus pattern (20 bp):
TCGTAAAAAATTATAAAAAA
Found at i:37678645 original size:29 final size:29
Alignment explanation
Indices: 37678613--37678683 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
37678603 TTTTTTATGC
37678613 ATTTTATAATTTTTTCTA-ATTTTTAGTAA
1 ATTTTATAATTTTTT-TATATTTTTAGTAA
*
37678642 ATTTTA-AATATTTTTTATATTTTTATTAA
1 ATTTTATAAT-TTTTTTATATTTTTAGTAA
*
37678671 AGTTTAATAATTT
1 A-TTTTATAATTT
37678684 CTATAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 5 0.14
29 22 0.61
30 6 0.17
31 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTTTATATTTTTAGTAA
Found at i:37678688 original size:28 final size:29
Alignment explanation
Indices: 37678625--37678688 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
37678615 TTTATAATTT
* *
37678625 TTTCTA-ATTTTTAGTAAATTTTAAATAT
1 TTTCTATATTTTTAGTAAAGTTTAAATAA
* *
37678653 TTTTTATATTTTTATTAAAGTTT-AATAA
1 TTTCTATATTTTTAGTAAAGTTTAAATAA
37678681 TTTCTATA
1 TTTCTATA
37678689 ACTTTAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTCTATATTTTTAGTAAAGTTTAAATAA
Found at i:37678955 original size:88 final size:87
Alignment explanation
Indices: 37678860--37679043 Score: 217
Period size: 88 Copynumber: 2.1 Consensus size: 87
37678850 TGCAAAAAAA
* *** ** * *
37678860 CAAAAAAAAGCAATGGCTTAATTG-TTTTTTTTTTAATTTTTTAAGGTCTTTTTTATGCATTTTG
1 CAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGT-TTTTTGATGCATTTTG
**
37678924 GCAGTTCAAGTACCCAATTGAGTG
65 AAAGTTCAAGTACCCAA-TGAGTG
* * *
37678948 GAAAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTTTTTTGATGCATTTTGA
1 CAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGTTTTTTGATGCATTTTGA
*
37679013 AAGTTCAAGTATCCAATGAGTG
66 AAGTTCAAGTACCCAATGAGTG
37679035 CAAAAAAAA
1 CAAAAAAAA
37679044 AAAGAAGCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
87 14 0.17
88 50 0.62
89 16 0.20
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (87 bp):
CAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGTTTTTTGATGCATTTTGA
AAGTTCAAGTACCCAATGAGTG
Found at i:37683804 original size:18 final size:18
Alignment explanation
Indices: 37683781--37683822 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
37683771 ACCACTGCCC
*
37683781 CTTCTTCCTCACCTACAT
1 CTTCTTCCTCACCGACAT
37683799 CTTCTTCCTCACCGACAT
1 CTTCTTCCTCACCGACAT
37683817 CTTCTT
1 CTTCTT
37683823 TTTCAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.43, G:0.02, T:0.40
Consensus pattern (18 bp):
CTTCTTCCTCACCGACAT
Found at i:37686910 original size:12 final size:12
Alignment explanation
Indices: 37686893--37686917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37686883 TTAACTTTTT
37686893 TATTTAATTTAA
1 TATTTAATTTAA
37686905 TATTTAATTTAA
1 TATTTAATTTAA
37686917 T
1 T
37686918 GGCACGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTAATTTAA
Found at i:37688439 original size:17 final size:17
Alignment explanation
Indices: 37688417--37688450 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37688407 TATGCAAAAC
*
37688417 AATTTAAAGTAAATAAT
1 AATTTAAAATAAATAAT
37688434 AATTTAAAATAAATAAT
1 AATTTAAAATAAATAAT
37688451 TTACAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATAAT
Found at i:37688687 original size:26 final size:25
Alignment explanation
Indices: 37688657--37688739 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
37688647 AAAAAGCATG
* * * *
37688657 TAAAACAGTTTACAATAAATGATAAA
1 TAAAAAAGTTTAAAACAAATAAT-AA
*
37688683 TAAAAAATTTTAAAACAAATAATAA
1 TAAAAAAGTTTAAAACAAATAATAA
* *
37688708 TAAAAGAGTTTTTAAATAAAAATAATAA
1 TAAAAAAG--TTTAAA-ACAAATAATAA
37688736 TAAA
1 TAAA
37688740 TTAAATGGAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 8 0.17
26 18 0.39
27 6 0.13
28 14 0.30
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.29
Consensus pattern (25 bp):
TAAAAAAGTTTAAAACAAATAATAA
Found at i:37688731 original size:25 final size:25
Alignment explanation
Indices: 37688681--37688739 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
37688671 ATAAATGATA
37688681 AATAAAAAATTTTAAAACAAATAAT
1 AATAAAAAATTTTAAAACAAATAAT
* *
37688706 AATAAAAGAGTTTTTAAATAAAAATAAT
1 AATAAAA-A-ATTTTAAA-ACAAATAAT
37688734 AATAAA
1 AATAAA
37688740 TTAAATGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 1 0.03
27 7 0.24
28 14 0.48
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (25 bp):
AATAAAAAATTTTAAAACAAATAAT
Found at i:37690302 original size:40 final size:41
Alignment explanation
Indices: 37690252--37690446 Score: 155
Period size: 40 Copynumber: 4.6 Consensus size: 41
37690242 CTTTTTTCTG
*
37690252 CTCCACTACTGCTTAAGGAGATAAGACTT-GATGCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGATCTA
* *** **
37690292 CTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGATCTA
** * * * *
37690335 CTCCACTACAACTTCAGGGAGATATGA-TTGGTTTTTCTTCTG-TCTG
1 CTCCACTACTGCTT-AGGGAGATAAGACTTGG-----ATGC-GATCTA
37690381 CTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGATCTA
*
37690421 CTCCATTACTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
37690447 TCTGTGGTTT
Statistics
Matches: 122, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.01
40 55 0.45
41 5 0.04
42 2 0.02
43 17 0.14
44 11 0.09
45 12 0.10
46 19 0.16
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGATCTA
Found at i:37690339 original size:128 final size:129
Alignment explanation
Indices: 37690187--37690462 Score: 432
Period size: 129 Copynumber: 2.1 Consensus size: 129
37690177 CATGGGGATG
* * * * *
37690187 AGATTTGTGGTTTTAGTCTGCTCCACTGCAACTTCAAGGTGATAAGACTTGGTTTCTT-TT-T-T
1 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGA-TTGGTTT-TTCTTCTGT
37690249 CTGCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGAT
64 CTGCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGAT
37690314 A
129 A
* *
37690315 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATATGATTGGTTTTTCTTCTGTCT
1 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGATTGGTTTTTCTTCTGTCT
* *
37690380 GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCATTACTGCTTAGGGAGATA
66 GCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATA
37690444 AGATCTGTGGTTTTAATCC
1 AGATCTGTGGTTTTAATCC
37690463 TTTTAATTGT
Statistics
Matches: 136, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
126 2 0.01
127 9 0.07
128 41 0.30
129 84 0.62
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (129 bp):
AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGATTGGTTTTTCTTCTGTCT
GCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATA
Found at i:37690584 original size:50 final size:50
Alignment explanation
Indices: 37690530--37691401 Score: 454
Period size: 50 Copynumber: 17.6 Consensus size: 50
37690520 ACACCACCAA
* * * *
37690530 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * ** * * **
37690580 GGAAGCAAGATTCGCCG-CGTAGCTTTAATCTGCTCCACTGC-ATCACCAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * * *
37690629 GGAAGTAAGATTCGCCGTTGCGGTTTCAATCTTTTTAATTGTAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * ** * * *
37690679 GGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGC-ATCGCCAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * *
37690729 GGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTC-G
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
** * * * ** * * * *
37690778 AGGAAGCAAGATTCATCGTCGTAGCTTTAATCTGCTCCACTGC-ATCGCCAA
1 -GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * *
37690829 GGAAGTAAGATTCACCATTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * * * * *
37690879 GGAAGCAAGATTCGCCGTCGTAGTTTTAATCTACTCCAA-TG-TATCGCCAA
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCT-TTTCAATTGCAAT-GTCAG
* * * * *
37690929 GGAAGTAAGATTCGTCGTTGAGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * ** * * * *
37690979 GGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTG-AATCGCCAT
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * *
37691029 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * * *
37691079 GGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGC-ATCGCCAC
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * *
37691128 GGAAGTAAGATTCGCCGTTGCGGCTTCAATC---T---TTGCAATGTTAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * ** * * **
37691172 GGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCCACTGCACCG-CTAG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTC-AG
* * *
37691222 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTT-AATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * ** * * * *
37691271 GGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC-ATCGCCAT
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* ** * * *
37691320 GGAAGTAAGATAT-GTTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCTG
1 GGAAGCAAGAT-TCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * *
37691370 GGAAGCAAGATTCGCCATTGTAGCTTTAATCT
1 GGAAGCAAGATTCGCCGTTGTGGCTTCAATCT
37691402 GCTCCACAGC
Statistics
Matches: 577, Mismatches: 213, Indels: 64
0.68 0.25 0.07
Matches are distributed among these distances:
44 30 0.05
45 2 0.00
47 2 0.00
48 32 0.06
49 103 0.18
50 391 0.68
51 17 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
Found at i:37690734 original size:100 final size:100
Alignment explanation
Indices: 37690458--37691424 Score: 1258
Period size: 100 Copynumber: 9.8 Consensus size: 100
37690448 CTGTGGTTTT
* * * * * * * * * *
37690458 AATCCTTTTAATTGTAATGTCGAGGAA-CACGATTCGCCATTGTAGCTTCAATCAGTTCCACTAC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* * *
37690522 ACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
*
37690557 AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCG-CGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* *
37690621 ATCACCAGGGAAGTAAGATTCGCCGTTGCGGTTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * *
37690656 AATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
*
37690721 ATCGCCAGGGAAGTAAGATTCGCCATTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* **
37690756 AATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCATCGTCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* * *
37690821 ATCGCCAAGGAAGTAAGATTCACCATTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * * *
37690856 AATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGTTTTAATCTACTCCAATGT
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* * *
37690921 ATCGCCAAGGAAGTAAGATTCGTCGTTGAGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * *
37690956 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGA
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
*
37691021 ATCGCCATGGAAGTAAGATTCGCCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * * *
37691056 AATCTTTTTAATTGCAATGTCAGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
*
37691120 ATCGCCACGGAAGTAAGATTCGCCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
** *
37691155 AATC----T--TTGCAATGTTAGGGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* * * *
37691214 ACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * *
37691249 AATC-TTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
* **
37691312 ATCGCCATGGAAGTAAGATAT-GTTGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGAT-TCGCCGTTGCGGCTTC
* * * * *
37691347 AATCTTTTAAATTGCAATGTCTGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGCTCCACAGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
37691412 A-CTGCCAGGGAAG
66 ATC-GCCAGGGAAG
37691425 GTAACTTCAT
Statistics
Matches: 771, Mismatches: 85, Indels: 23
0.88 0.10 0.03
Matches are distributed among these distances:
93 15 0.02
94 66 0.09
95 1 0.00
97 1 0.00
98 62 0.08
99 218 0.28
100 408 0.53
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
Found at i:37697411 original size:40 final size:39
Alignment explanation
Indices: 37697327--37697591 Score: 318
Period size: 40 Copynumber: 6.6 Consensus size: 39
37697317 TTGAATGATG
* * * * *
37697327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
37697367 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
37697407 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
37697446 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCC-GAAGGCATTTGTGCGAGTTACTAAA
37697486 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
37697526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
37697567 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGT-CCGAAGGCATTTG
37697592 AACAAGTAGC
Statistics
Matches: 203, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
39 36 0.18
40 155 0.76
41 12 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37697529 original size:80 final size:79
Alignment explanation
Indices: 37697327--37697591 Score: 365
Period size: 80 Copynumber: 3.3 Consensus size: 79
37697317 TTGAATGATG
* * * **
37697327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATT
* *
37697391 TGTGCGAGATACTAAT
64 TGTGCGAGTTACTAAA
*
37697407 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACTAAATCCGGGTTAAGTCCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCC-GAAGGCATTT
37697471 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* *
37697486 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
37697551 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
*
37697567 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37697592 AACAAGTAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
78 3 0.02
79 58 0.35
80 103 0.61
81 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:37704951 original size:28 final size:28
Alignment explanation
Indices: 37704911--37704966 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37704901 TCGGTCAGAG
37704911 GCAAGCATATTGATGCTTTTGTCTTGGC
1 GCAAGCATATTGATGCTTTTGTCTTGGC
37704939 GCAAGCATATTGATGCTTTTGTCTTGGC
1 GCAAGCATATTGATGCTTTTGTCTTGGC
37704967 TTAGAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (28 bp):
GCAAGCATATTGATGCTTTTGTCTTGGC
Found at i:37705652 original size:40 final size:40
Alignment explanation
Indices: 37705414--37705638 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
37705404 TTGAATGATG
* * * *
37705414 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
37705454 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
37705494 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37705533 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37705573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37705614 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37705639 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37705660 original size:119 final size:119
Alignment explanation
Indices: 37705414--37705671 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
37705404 TTGAATGATG
* *
37705414 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
37705479 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
37705533 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
37705596 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
37705653 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37705672 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:37707983 original size:17 final size:17
Alignment explanation
Indices: 37707961--37707994 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37707951 TATGCAAAAC
*
37707961 AATTTAAAGTAAATAAT
1 AATTTAAAATAAATAAT
37707978 AATTTAAAATAAATAAT
1 AATTTAAAATAAATAAT
37707995 TTACAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATAAT
Found at i:37708234 original size:26 final size:25
Alignment explanation
Indices: 37708204--37708282 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 25
37708194 AAAAAGCATG
* * * *
37708204 TAAAACAGTTTACAATAAATGATAAA
1 TAAAAAAGTTTAAAACAAATAAT-AA
*
37708230 TAAAAAATTTTAAAACAAATAATAA
1 TAAAAAAGTTTAAAACAAATAATAA
* * *
37708255 TAAAAGAGTTTTTAAA-TAATAATAA
1 TAAAAAAG-TTTAAAACAAATAATAA
37708280 TAA
1 TAA
37708283 TAAATTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
25 19 0.44
26 24 0.56
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
TAAAAAAGTTTAAAACAAATAATAA
Found at i:37711841 original size:102 final size:102
Alignment explanation
Indices: 37711667--37711852 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 102
37711657 AGTAATGTAT
* *
37711667 CAAATAATTTTTCTATTTTTTAAATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACT
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
*
37711732 TTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
66 CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
* * *
37711769 CAAATAA-TTTTCTATTTTTAAAATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAA
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAA
*
37711833 CTCT-CTTGTGGTGTCTAAAA
64 CTCTGCTTGTGGAGTCTAAAA
37711853 ACTCCACTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 29 0.39
102 38 0.51
103 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (102 bp):
CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
Found at i:37711881 original size:101 final size:100
Alignment explanation
Indices: 37711587--37711881 Score: 274
Period size: 102 Copynumber: 2.9 Consensus size: 100
37711577 ATATTTTTTT
** * * * * * * * * * *
37711587 ATATTTTACTATAGCTTTATAGGATACTTGTCAACCCTTAATTTTACTTATGCAATCTAAAATCT
1 ATATTTTACTATA-CCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACT
*
37711652 CCACTAGTAATGTATCAAATAATTTTTCTATTTTTTAA
65 CCACTAGTAATGTA-CAAATAA-TTTTCTATTTTTAAA
* * * *
37711690 ATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACTTTGCTTGTGGAGTCTAAAACCTT
1 ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
* *
37711755 CAC-CG-ACCATGTGCCAAATAATTTTCTATTTTTAAA
66 CACTAGTA--ATGT-ACAAATAATTTTCTATTTTTAAA
* * * *
37711791 ATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAACTCT-CTTGTGGTGTCTAAAAAC
1 ATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAACTCTGCTTGTGGAGTCTAAAAAC
37711855 TCCACTAGTAATGTACAAA-ATATTTTC
64 TCCACTAGTAATGTACAAATA-ATTTTC
37711882 CCTTAATTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
100 2 0.01
101 40 0.25
102 95 0.59
103 22 0.14
104 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (100 bp):
ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
CACTAGTAATGTACAAATAATTTTCTATTTTTAAA
Found at i:37717871 original size:29 final size:29
Alignment explanation
Indices: 37717822--37717878 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
37717812 CAATGGTGCC
* *
37717822 TTCGAACCAATAACTCAGATATCACTTGG
1 TTCGAACCAACAACTCAGATACCACTTGG
* *
37717851 TTCGAACCAACAGCTCGGATACCACTTG
1 TTCGAACCAACAACTCAGATACCACTTG
37717879 TCACGGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (29 bp):
TTCGAACCAACAACTCAGATACCACTTGG
Found at i:37719183 original size:39 final size:39
Alignment explanation
Indices: 37719051--37719183 Score: 130
Period size: 39 Copynumber: 3.4 Consensus size: 39
37719041 CCGAATTTAA
* * * *
37719051 ACATACTTAAAA--CATGTATTAAAGATGTCCTAAACTATG
1 ACATAATTAAAACTCATG-ATTAATGATGTTC-AAATTATG
* * *
37719090 ACATAATTAAAAC-CCTGATTAATGTTGTTCAGATTATG
1 ACATAATTAAAACTCATGATTAATGATGTTCAAATTATG
*
37719128 ACATAATTAAAAACTCAT-ATTTATGATGTTCAAATTATG
1 ACATAATT-AAAACTCATGATTAATGATGTTCAAATTATG
37719167 ACATAATTAAAGACTCA
1 ACATAATTAAA-ACTCA
37719184 AACTAAATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 17 0.22
39 57 0.72
40 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (39 bp):
ACATAATTAAAACTCATGATTAATGATGTTCAAATTATG
Found at i:37723099 original size:20 final size:21
Alignment explanation
Indices: 37723074--37723112 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37723064 TTTAGTTACA
37723074 AATAATTA-AATATAAATATT
1 AATAATTATAATATAAATATT
*
37723094 AATAATTATATTATAAATA
1 AATAATTATAATATAAATA
37723113 AAATAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATAATATAAATATT
Found at i:37723117 original size:20 final size:20
Alignment explanation
Indices: 37723073--37723118 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
37723063 TTTTAGTTAC
37723073 AAATAATTAAATATAAATAT
1 AAATAATTAAATATAAATAT
* *
37723093 TAATAATTATATTATAAATA-
1 AAATAATTA-AATATAAATAT
37723113 AAATAA
1 AAATAA
37723119 ATACTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATATAAATAT
Found at i:37730802 original size:19 final size:19
Alignment explanation
Indices: 37730762--37730802 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37730752 CTTCATTCCT
* **
37730762 TTGGAATCTTTTACCCTTG
1 TTGGAATCTTCTACCCAAG
37730781 TTGGAATCTTCTACCCAAG
1 TTGGAATCTTCTACCCAAG
37730800 TTG
1 TTG
37730803 CAAACATGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGGAATCTTCTACCCAAG
Found at i:37733035 original size:117 final size:117
Alignment explanation
Indices: 37732826--37733037 Score: 268
Period size: 117 Copynumber: 1.8 Consensus size: 117
37732816 AGTCGGGCAA
* * * **
37732826 CTAAATTGGAAGGTGAAGCTTTTGATGGCCTTTCGATCCATTAGAAATAGGGGTTCTCCTCAAAT
1 CTAAATTAGAAGGTAAAGCTTTTGATGGCCTTCCGATCCATTAGAAATAGGGGCACTCCTCAAAT
* *
37732891 GACCTGCCATTGTGTCACATGTCCCAAGTTAGGGAACTATCTGGTCGAGTAG
66 GACCTACCATTGTGCCACATGTCCCAAGTTAGGGAACTATCTGGTCGAGTAG
* * * *
37732943 CTAAATTAGAAGGTAAAGCTTTTGGTGGCCTTCCTATCC-TTACG-AATAAGGGGCACTCTTGAA
1 CTAAATTAGAAGGTAAAGCTTTTGATGGCCTTCCGATCCATTA-GAAAT-AGGGGCACTCCTCAA
*
37733006 ATTACCTACCA-TGCTGCCACATGTCCCAAGTT
64 ATGACCTACCATTG-TGCCACATGTCCCAAGTT
37733038 GGGGGAGGCA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
116 8 0.10
117 72 0.90
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (117 bp):
CTAAATTAGAAGGTAAAGCTTTTGATGGCCTTCCGATCCATTAGAAATAGGGGCACTCCTCAAAT
GACCTACCATTGTGCCACATGTCCCAAGTTAGGGAACTATCTGGTCGAGTAG
Found at i:37737066 original size:36 final size:36
Alignment explanation
Indices: 37736981--37737154 Score: 183
Period size: 36 Copynumber: 4.8 Consensus size: 36
37736971 TGATCTAGCG
* *
37736981 TGTT-TCGGTTGGATTAGCTCTTATGAGCAATTGGCA
1 TGTTATCGG-TGGATTAGCTCTTATGAGCGATTGACA
*
37737017 TGTTATCGGGTGGATTAACTCTTATGAGC-ATTGACA
1 TGTTATC-GGTGGATTAGCTCTTATGAGCGATTGACA
* * **
37737053 TATTATCAGGTGGATTAGCTCTTATGAGCGACTGATG
1 TGTTATC-GGTGGATTAGCTCTTATGAGCGATTGACA
* * *
37737090 TGTT-TTGGTTGGATTAGTTCTTATGAGCGATTGGCA
1 TGTTATCGG-TGGATTAGCTCTTATGAGCGATTGACA
*
37737126 TGTTATCGAGTGGATTAACTCTTATGAGC
1 TGTTATCG-GTGGATTAGCTCTTATGAGC
37737155 AACTGGCGTT
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
35 2 0.02
36 63 0.55
37 46 0.40
38 3 0.03
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.39
Consensus pattern (36 bp):
TGTTATCGGTGGATTAGCTCTTATGAGCGATTGACA
Found at i:37737132 original size:73 final size:72
Alignment explanation
Indices: 37736990--37737177 Score: 204
Period size: 73 Copynumber: 2.6 Consensus size: 72
37736980 GTGTTTCGGT
* * * *
37736990 TGGATTAGCTCTTATGAGCAATTGGCATGT-TATCGGGTGGATTAACTCTTATGAGCATTGACAT
1 TGGATTAGCTCTTATGAGCAACT-G-ATGTGTTTTGGTTGGATTAACTCTTATGAGCATTGACAT
37737054 ATTATC-AGG
64 ATTATCGA-G
* ** * *
37737063 TGGATTAGCTCTTATGAGCGACTGATGTGTTTTGGTTGGATTAGTTCTTATGAGCGATTGGCATG
1 TGGATTAGCTCTTATGAGCAACTGATGTGTTTTGGTTGGATTAACTCTTATGAGC-ATTGACATA
37737128 TTATCGAG
65 TTATCGAG
* *
37737136 TGGATTAACTCTTATGAGCAACTG--GCGTTTTCGGTTGGATTA
1 TGGATTAGCTCTTATGAGCAACTGATGTGTTTT-GGTTGGATTA
37737178 CTTGTGTACT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
71 10 0.10
72 32 0.32
73 56 0.57
74 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (72 bp):
TGGATTAGCTCTTATGAGCAACTGATGTGTTTTGGTTGGATTAACTCTTATGAGCATTGACATAT
TATCGAG
Found at i:37739393 original size:56 final size:58
Alignment explanation
Indices: 37739277--37739396 Score: 154
Period size: 56 Copynumber: 2.1 Consensus size: 58
37739267 TAGAAATGGA
* * *
37739277 GAAAATGGGGAAATGGGAATTAATTGAAAATGATTATGGTTTTCTCCAAAATAAAAAT
1 GAAAATGGAGAAATGGGAATCAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
* * * * *
37739335 GAAAATGGAGAAAT-GGAATCATTTGGAAATGAATGTGG-TTTCTCCAAGATGAAAAT
1 GAAAATGGAGAAATGGGAATCAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
37739391 GAAAAT
1 GAAAAT
37739397 AAAAATGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 22 0.41
57 19 0.35
58 13 0.24
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.28
Consensus pattern (58 bp):
GAAAATGGAGAAATGGGAATCAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
Found at i:37740887 original size:12 final size:14
Alignment explanation
Indices: 37740857--37740888 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
37740847 TTTTAGGTGA
37740857 ATTTTGTAATTTAT
1 ATTTTGTAATTTAT
37740871 ATTTTGTAATTTAT
1 ATTTTGTAATTTAT
37740885 -TTTT
1 ATTTT
37740889 CTAGGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
ATTTTGTAATTTAT
Found at i:37742812 original size:79 final size:78
Alignment explanation
Indices: 37742712--37742928 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 78
37742702 GCTCCTCGTT
*
37742712 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
37742777 -ATTTAATAACTCGCA
64 AATTT-ATAACTCGCA
* * * *
37742792 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAACTCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
* *
37742856 ATTTGTATCTCGCA
65 ATTTATAACTCGCA
* * * * *
37742870 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
37742929 GCCCGGACAG
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 30 0.26
79 60 0.51
80 27 0.23
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAA
TTTATAACTCGCA
Found at i:37742840 original size:39 final size:40
Alignment explanation
Indices: 37742712--37742935 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
37742702 GCTCCTCGTT
* *
37742712 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * * *
37742752 CAAATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
37742792 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
37742831 CAAATGCCTTCGGG-CTTAACTCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
37742870 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
37742911 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37742936 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 67 0.42
40 74 0.47
41 16 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:37745935 original size:12 final size:12
Alignment explanation
Indices: 37745909--37745947 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37745899 CGCTTCTTCT
* *
37745909 TTACTTACTTTC
1 TTACTTGCTTAC
*
37745921 TTACTTGTTTAC
1 TTACTTGCTTAC
37745933 TTACTTGCTTAC
1 TTACTTGCTTAC
37745945 TTA
1 TTA
37745948 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:37746207 original size:50 final size:50
Alignment explanation
Indices: 37746148--37746391 Score: 263
Period size: 50 Copynumber: 4.8 Consensus size: 50
37746138 TGATAGTAAC
* * * **
37746148 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGTAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * **
37746198 ATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * ** *
37746248 ATGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * *
37746298 GTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGAACCTCTCATAACCTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TCG
37746351 ATAAAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AT---GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37746392 TCTCATTCCC
Statistics
Matches: 164, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 128 0.78
53 3 0.02
56 33 0.20
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:37760951 original size:50 final size:50
Alignment explanation
Indices: 37760877--37761165 Score: 307
Period size: 50 Copynumber: 5.8 Consensus size: 50
37760867 ATTTGAGTAA
** *
37760877 AGAGATCCCATGTAAGACCATGTCTAAGACATGGCGTTGGCACCGAGATA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
37760927 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
37760977 AGAGATCCCATGTAAGACCATTTCTGGGACATGGCGTTGACATCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
37761027 AGAGGTCCC--GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * ** * *
37761075 AGA-ACTCTCATGTAAGACCATATATGGGATATGGCATTGGCA-ATACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
37761124 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
37761166 TGTTATATTC
Statistics
Matches: 202, Mismatches: 33, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
48 38 0.19
49 36 0.18
50 128 0.63
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:37761094 original size:98 final size:99
Alignment explanation
Indices: 37760877--37761109 Score: 308
Period size: 98 Copynumber: 2.4 Consensus size: 99
37760867 ATTTGAGTAA
* ** *
37760877 AGAGATCCCATGTAAGACCATGTCTAAGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
1 AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCA-GTAA
* *
37760942 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
65 GACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
37760977 AGAGATCCCATGTAAGACCATTTCTGGGACATGGCGTTGACATCGAGATGAGAGGTCCC-GTAAG
1 AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCAGTAAG
* *
37761041 ACCATGTCTGGGACATGGCATGGGCACCTATATG
66 ACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
37761075 AGA-ACTCTCATGTAAGACCATATATGGGATATGGC
1 AGAGA-TCCCATGTAAGACCATATCTGGGACATGGC
37761110 ATTGGCAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
97 1 0.01
98 64 0.54
100 53 0.45
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (99 bp):
AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCAGTAAG
ACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:37766134 original size:16 final size:16
Alignment explanation
Indices: 37766113--37766157 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
37766103 TTAGCCTCTC
37766113 CATTTTTTTACTTTTT
1 CATTTTTTTACTTTTT
*
37766129 CATTTTTTCA-TTTTT
1 CATTTTTTTACTTTTT
37766144 CATTTTTTTCACTT
1 CATTTTTTT-ACTT
37766158 AGTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.52
16 10 0.40
17 2 0.08
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
CATTTTTTTACTTTTT
Found at i:37766135 original size:8 final size:8
Alignment explanation
Indices: 37766113--37766151 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
37766103 TTAGCCTCTC
37766113 CATTTTTT
1 CATTTTTT
* *
37766121 TACTTTTT
1 CATTTTTT
37766129 CATTTTTT
1 CATTTTTT
37766137 CA-TTTTT
1 CATTTTTT
37766144 CATTTTTT
1 CATTTTTT
37766152 TCACTTAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
CATTTTTT
Found at i:37766189 original size:6 final size:6
Alignment explanation
Indices: 37766181--37766214 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
37766171 TTTTCTTCTT
* *
37766181 TTTTGT TTTTGA TTTTGA TTTTAA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
37766215 TTTGATTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:37783260 original size:27 final size:27
Alignment explanation
Indices: 37783198--37783260 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
37783188 TGACAAGTGG
* *
37783198 TATCCAAGCCAAGTTTTAAGCCAAATGG
1 TATCCGAG-CAAGTTTTAAGCCAAATGA
*
37783226 TATCCGAGCAAGTTTTGAA-CCAAGTGA
1 TATCCGAGCAAGTTTT-AAGCCAAATGA
*
37783253 TATTCGAG
1 TATCCGAG
37783261 TTGGTTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
TATCCGAGCAAGTTTTAAGCCAAATGA
Found at i:37787365 original size:41 final size:41
Alignment explanation
Indices: 37787304--37787559 Score: 390
Period size: 41 Copynumber: 6.3 Consensus size: 41
37787294 TTTTCAGTTT
* *
37787304 TCGGGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
37787345 TCGGGTCTTTAGCGGTGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
37787386 TCTGGTCTTTAGCGACGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
37787427 TCGGGTCTTTAGCGGCGTTTTTAAAGAGGCACCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* * *
37787468 TTGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCAAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
37787509 TCGGGCCTTTAGCGGC-TTTTTGAAA-AAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGC
37787549 TCGGGTCTTTA
1 TCGGGTCTTTA
37787560 ACGGTGAAGC
Statistics
Matches: 196, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
40 29 0.15
41 167 0.85
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
Found at i:37792972 original size:43 final size:43
Alignment explanation
Indices: 37792766--37792960 Score: 241
Period size: 43 Copynumber: 4.5 Consensus size: 43
37792756 AGATTATGTT
* ** *
37792766 TTTAGCGGCGTTTTTGTTAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTCTTGGTC
* * *
37792809 TATAGCGGCGTTTGT-GATAAAAGCGCCTCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGA-AGAAGCGCCGCTAAAGGTCTTGGTC
* * *
37792852 TTTAGCGGTGTTTGTAGGAA-AAGCGCTGCTAAAGGGCTTGGTC
1 TTTAGCGGCGTTTGT-GGAAGAAGCGCCGCTAAAGGTCTTGGTC
* *
37792895 TTTAGCGGCGTTTGTGGGAGAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTCTTGGTC
*
37792938 TTTAGCGGCATTTGTGGAAGAAG
1 TTTAGCGGCGTTTGTGGAAGAAG
37792961 AACCGATAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.02
43 123 0.95
44 1 0.01
45 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAGAAGCGCCGCTAAAGGTCTTGGTC
Found at i:37792987 original size:86 final size:86
Alignment explanation
Indices: 37792805--37792993 Score: 209
Period size: 86 Copynumber: 2.2 Consensus size: 86
37792795 TAAAGGTCAT
* * * **
37792805 GGTCTATAGCGGCGTTTGTGATAAAAGCGCCTCTAAAGGTCTTGGTCTTTAGCGGTGTTTGTAGG
1 GGTCTCTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGG
** * * * **
37792870 AAAAGCGCTGCTAAAGGGCTT
66 AAAAGAACCGATAAAGGACGC
* * * *
37792891 GGTCTTTAGCGGCGTTTGTGGGAGAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGT-GG
1 GGTCTCTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGG
37792955 AAGAAGAACCGATAAAGGACGC
66 AA-AAGAACCGATAAAGGACGC
*
37792977 GTTCTCTAGCGGCGTTT
1 GGTCTCTAGCGGCGTTT
37792994 TTTTTGCGCT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 4 0.05
86 81 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (86 bp):
GGTCTCTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGG
AAAAGAACCGATAAAGGACGC
Found at i:37795672 original size:18 final size:17
Alignment explanation
Indices: 37795651--37795692 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
37795641 AAAAATCATT
37795651 AAAATATTA-AAATATAAA
1 AAAATA-TAGAAAT-TAAA
37795669 AAAATATAGAAATTAAA
1 AAAATATAGAAATTAAA
37795686 AAGAATA
1 AA-AATA
37795693 AAAGAGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATATAGAAATTAAA
Found at i:37798830 original size:24 final size:24
Alignment explanation
Indices: 37798798--37798856 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
37798788 CTACACGAAT
**
37798798 CAGAGTTTAAGTGGGAAACTAAAA
1 CAGAGTTTAACCGGGAAACTAAAA
37798822 CAGAGTTTAACCGGGAAACTAAAA
1 CAGAGTTTAACCGGGAAACTAAAA
37798846 CAGAGTTTAAC
1 CAGAGTTTAAC
37798857 TGAGAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (24 bp):
CAGAGTTTAACCGGGAAACTAAAA
Found at i:37798892 original size:29 final size:29
Alignment explanation
Indices: 37798859--37798917 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37798849 AGTTTAACTG
37798859 AGAGAAGAAAGTTGAAAAAATTGCATAAT
1 AGAGAAGAAAGTTGAAAAAATTGCATAAT
37798888 AGAGAAGAAAGTTGAAAAAATTGCATAAT
1 AGAGAAGAAAGTTGAAAAAATTGCATAAT
37798917 A
1 A
37798918 CATCGCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.03, G:0.20, T:0.20
Consensus pattern (29 bp):
AGAGAAGAAAGTTGAAAAAATTGCATAAT
Found at i:37801196 original size:19 final size:20
Alignment explanation
Indices: 37801172--37801209 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37801162 ACATCCAAAA
37801172 TCATCACC-ATGTACCATAT
1 TCATCACCTATGTACCATAT
37801191 TCATCACCTATGTACCATA
1 TCATCACCTATGTACCATA
37801210 CAAGGTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
TCATCACCTATGTACCATAT
Found at i:37803260 original size:103 final size:104
Alignment explanation
Indices: 37803028--37803293 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
37803018 GTTGTACATA
** * *
37803028 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCGACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
37803093 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
37803132 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
37803196 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37803235 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
37803294 AATAACGGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37810696 original size:103 final size:104
Alignment explanation
Indices: 37810515--37810779 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
37810505 GTTGTACATA
** *
37810515 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATAT-CACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
37810579 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
37810618 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
37810683 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37810721 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
37810780 AATAACGGTT
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
103 132 0.89
104 16 0.11
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37816051 original size:24 final size:25
Alignment explanation
Indices: 37816024--37816071 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
37816014 TTAAGTTGAT
*
37816024 AAGAATT-CTCTTTGAGTTT-TTTTC
1 AAGAATTACT-TTTAAGTTTCTTTTC
37816048 AAGAATTACTTTTAAGTTTCTTTT
1 AAGAATTACTTTTAAGTTTCTTTT
37816072 AGAGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
AAGAATTACTTTTAAGTTTCTTTTC
Found at i:37818015 original size:94 final size:95
Alignment explanation
Indices: 37817835--37818021 Score: 279
Period size: 94 Copynumber: 2.0 Consensus size: 95
37817825 GGAGGAATAG
* * *
37817835 GATTGAGCTATCACATTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTCCAATG
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTCCAATG
*
37817900 TCCAATTAAAATCTAAATAGAG-AGAAAAC
66 TCCAATTAAAATCCAAATAGAGAAGAAAAC
* * *
37817929 GATTGAGCTATCACCTTTTATGAAATGTTATTAGTGTAGTTCACAAGAT-ATAAGGTTTCCAATG
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTCCAATG
*
37817993 TCCAATTAAATATCCAACTAGAGAAGAAA
66 TCCAATTAAA-ATCCAAATAGAGAAGAAA
37818022 GTAAGTATGA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
93 24 0.29
94 54 0.65
95 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (95 bp):
GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTCCAATG
TCCAATTAAAATCCAAATAGAGAAGAAAAC
Found at i:37830036 original size:103 final size:104
Alignment explanation
Indices: 37829805--37830070 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
37829795 GTTGTACATA
** *
37829805 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
37829870 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37829909 GAGGGGTTGCTAAGTGATGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
37829974 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37830012 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
37830071 AACAACGGTT
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37837530 original size:103 final size:104
Alignment explanation
Indices: 37837299--37837564 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
37837289 GTTGTACATA
** *
37837299 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
37837364 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37837403 GAGGGGTTGCTAAGTGATGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
37837468 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37837506 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
37837565 AACAACGGTT
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37842808 original size:24 final size:25
Alignment explanation
Indices: 37842781--37842828 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
37842771 TTAAGTTGAT
*
37842781 AAGAATT-CTCTTTGAGTTT-TTTTC
1 AAGAATTACT-TTTAAGTTTCTTTTC
37842805 AAGAATTACTTTTAAGTTTCTTTT
1 AAGAATTACTTTTAAGTTTCTTTT
37842829 AGAGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
AAGAATTACTTTTAAGTTTCTTTTC
Found at i:37844776 original size:95 final size:97
Alignment explanation
Indices: 37844613--37844802 Score: 303
Period size: 95 Copynumber: 2.0 Consensus size: 97
37844603 GGAGGAATAG
* * *
37844613 GATTGAGCTATCACATTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
37844678 GTCCAATTAAA-ATCTAAATAGAG-AGAAAAC
66 GTCCAATTAAATATCCAAATAGAGAAGAAAAC
* *
37844708 GATTGAGCTATCACCTTTTATGAAATGTTATTAGTGTAGTTCACAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
37844773 GTCCAATTAAATATCCAACTAGAGAAGAAA
66 GTCCAATTAAATATCCAAATAGAGAAGAAA
37844803 GTAAGTATGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 71 0.83
96 10 0.12
97 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (97 bp):
GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAAGAAAAC
Found at i:37851799 original size:43 final size:43
Alignment explanation
Indices: 37851719--37851800 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
37851709 AAATATTGGG
*
37851719 GCACACATAGTGCACCATCAGATAAGCTGTAGAAATTATACTT
1 GCACACATAGTGCACCATCAGATAAGCTGAAGAAATTATACTT
* * *
37851762 GCACACATAGTGCATCATCGGATTAA-CTGAAGTAATTAT
1 GCACACATAGTGCACCATCAGA-TAAGCTGAAGAAATTAT
37851801 GTTGGCACGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (43 bp):
GCACACATAGTGCACCATCAGATAAGCTGAAGAAATTATACTT
Found at i:37851849 original size:42 final size:42
Alignment explanation
Indices: 37851803--37851907 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
37851793 GTAATTATGT
* *
37851803 TGGCACGTAAGTGCATCATTGGACGTACCGAAGAAAATATAC
1 TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
* * * * *
37851845 TGGCATGTAAGTGCATCATCAGATATACCGAAGAAATTATTC
1 TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
**
37851887 TGGCACACACAGTGCATCATT
1 TGGCACGTA-AGTGCATCATT
37851908 TATTAAACCG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 41 0.80
43 10 0.20
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
Found at i:37853481 original size:24 final size:24
Alignment explanation
Indices: 37853454--37853511 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
37853444 AGGATTAGTC
*
37853454 ATGAGGTAATTATATAATGCTTGT
1 ATGAGGTAATTATATAATGCGTGT
*
37853478 ATGAGGTAAGTATATAATGCGTGT
1 ATGAGGTAATTATATAATGCGTGT
*
37853502 ATGAGTTAAT
1 ATGAGGTAAT
37853512 ATGAGATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (24 bp):
ATGAGGTAATTATATAATGCGTGT
Found at i:37855302 original size:22 final size:23
Alignment explanation
Indices: 37855277--37855320 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
37855267 AGTCCAAATA
*
37855277 ATTAACATCTTTAA-CTATTTTG
1 ATTAAAATCTTTAATCTATTTTG
*
37855299 ATTAAAATTTTTAATCTATTTT
1 ATTAAAATCTTTAATCTATTTT
37855321 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTAAAATCTTTAATCTATTTTG
Found at i:37856537 original size:34 final size:35
Alignment explanation
Indices: 37856499--37856565 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
37856489 CAGTAAAATA
37856499 TTTTCTATAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCTATAAAATGATTTACTGGAAAATATTTTAC
*
37856533 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTATAAAATGATTTACTGGAAAATATTTT
37856566 CTGGTATTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCTATAAAATGATTTACTGGAAAATATTTTAC
Found at i:37857394 original size:27 final size:27
Alignment explanation
Indices: 37857363--37857415 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
37857353 TGATTTGTTT
37857363 AAATATTTTTTT-TACACTTTTTAAAAA
1 AAATATTTTTTTATACA-TTTTTAAAAA
*
37857390 AAATATTTTTTTATATATTTTTAAAA
1 AAATATTTTTTTATACATTTTTAAAA
37857416 TTTTATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATATTTTTTTATACATTTTTAAAAA
Found at i:37862093 original size:40 final size:40
Alignment explanation
Indices: 37862049--37862310 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
37862039 GCTCCTCGTT
* *
37862049 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
37862089 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37862129 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
37862168 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37862207 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
37862246 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
37862287 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37862311 CATCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 125 0.62
40 63 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:37870096 original size:39 final size:39
Alignment explanation
Indices: 37869975--37870236 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
37869965 GCTCCTTGTT
* *
37869975 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
37870015 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
37870055 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
37870094 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
37870133 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
37870172 CAAATGCCTTTGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
37870213 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
37870237 CATCATTCAA
Statistics
Matches: 200, Mismatches: 15, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
39 128 0.64
40 61 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:37878985 original size:13 final size:13
Alignment explanation
Indices: 37878930--37878976 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
37878920 AAAAATGGTA
*
37878930 ATATGAAATGTTT
1 ATATGAAATGATT
37878943 ATATGGAAATAGA-T
1 ATAT-GAAAT-GATT
37878957 ATATGAAATGATT
1 ATATGAAATGATT
37878970 ATATGAA
1 ATATGAA
37878977 GTGTTTATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.07
13 17 0.57
14 10 0.33
15 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (13 bp):
ATATGAAATGATT
Found at i:37886717 original size:5 final size:5
Alignment explanation
Indices: 37886707--37886731 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37886697 GCATTGAAAC
37886707 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
37886732 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:37889313 original size:25 final size:25
Alignment explanation
Indices: 37889239--37889324 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
37889229 ACACGGGTTT
37889239 GTGTAGGCCGTGTGGCCCACACGAGC
1 GTGTAGGCCGTGTGG-CCACACGAGC
* *
37889265 GTGTAGGACATGTGGGCCACACGAGC
1 GTGTAGGCCGTGT-GGCCACACGAGC
* *
37889291 GTGTGGGCCGTGTGGCCACACGAGT
1 GTGTAGGCCGTGTGGCCACACGAGC
*
37889316 GTGTGGGCC
1 GTGTAGGCC
37889325 CATTTTTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 20 0.38
26 31 0.58
27 2 0.04
ACGTcount: A:0.15, C:0.26, G:0.42, T:0.17
Consensus pattern (25 bp):
GTGTAGGCCGTGTGGCCACACGAGC
Found at i:37900960 original size:27 final size:27
Alignment explanation
Indices: 37900922--37900974 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
37900912 GAATAGACTA
* *
37900922 AGTCTGCCAGGATAATAAACATGGGTT
1 AGTCTGCCAGGACAATAAACACGGGTT
* *
37900949 AGTCTGCTAGGACAGTAAACACGGGT
1 AGTCTGCCAGGACAATAAACACGGGT
37900975 AAGTTTGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (27 bp):
AGTCTGCCAGGACAATAAACACGGGTT
Found at i:37907204 original size:47 final size:47
Alignment explanation
Indices: 37907054--37907573 Score: 826
Period size: 47 Copynumber: 11.1 Consensus size: 47
37907044 CCCTTCGGGA
* * * * * * *
37907054 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37907101 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37907147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37907194 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37907241 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37907288 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37907335 CTTATCACACATATACAATTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37907382 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37907429 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37907476 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37907523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37907570 CTTA
1 CTTA
37907574 CTATCATTTC
Statistics
Matches: 445, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 40 0.09
47 405 0.91
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37914010 original size:16 final size:16
Alignment explanation
Indices: 37913989--37914021 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37913979 TCAAAATAAT
37913989 ATATAAAAATTCAAAA
1 ATATAAAAATTCAAAA
*
37914005 ATATAAAAATTGAAAA
1 ATATAAAAATTCAAAA
37914021 A
1 A
37914022 AAAAGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
ATATAAAAATTCAAAA
Found at i:37923566 original size:2 final size:2
Alignment explanation
Indices: 37923559--37923589 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37923549 ACGCAAGTGT
37923559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37923590 CCTTTTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37923708 original size:23 final size:24
Alignment explanation
Indices: 37923658--37923708 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
37923648 TAATCTCTCT
**
37923658 ATTTTTATTTTCAAGAATTTAATT
1 ATTTTTATTTTCAAGAATTTAAAA
37923682 ATTTTTACTTTTC-A-AATTTAAAA
1 ATTTTTA-TTTTCAAGAATTTAAAA
37923705 ATTT
1 ATTT
37923709 AGGTCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 8 0.33
25 5 0.21
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTTCAAGAATTTAAAA
Found at i:37924602 original size:24 final size:24
Alignment explanation
Indices: 37924559--37924604 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
37924549 TTTATGGCCT
*
37924559 AAAATTTCATGGAAAGATTTTGTG
1 AAAATTTCATCGAAAGATTTTGTG
37924583 AAAATTTCATTCGAAA-ATTTTG
1 AAAATTTCA-TCGAAAGATTTTG
37924605 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (24 bp):
AAAATTTCATCGAAAGATTTTGTG
Found at i:37925819 original size:41 final size:41
Alignment explanation
Indices: 37925670--37925820 Score: 216
Period size: 41 Copynumber: 3.7 Consensus size: 41
37925660 CATTGAATGT
*
37925670 AAGGGGTTGCTAAGTGCAAATTCCCC-AAA-TAACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACT--CTGATCAAA
* * *
37925711 AAGGTGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
**
37925752 AAGGGGTTGCTAAGTATAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
37925793 AAGGGGTTGCTAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
37925821 GGGGTTGCTA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
41 95 0.98
42 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
Found at i:37925830 original size:26 final size:26
Alignment explanation
Indices: 37925794--37925843 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
37925784 CTGATCAAAA
37925794 AGGGGTTGCTAAGTGCAGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
*
37925820 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTGCAGATTCCC
37925844 TGAATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:37925963 original size:41 final size:41
Alignment explanation
Indices: 37925820--37925971 Score: 114
Period size: 43 Copynumber: 3.6 Consensus size: 41
37925810 AGATTCCCCG
* ** *
37925820 AGGGGTTGCTAAGTGCTGATTCC-CTGAATTATT-AATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCAC-GTATCCTTGAA-TATAA
* * * *
37925861 AGGTGTTTTGCTAAGTGCTGATTTCACCGTATCCTTGATTGTGAA
1 AGG-G-GTTGCTAAGTGCTGATTCCA-CGTATCCTTGAATAT-AA
* *
37925906 AGGGGTTGTTATGTGCTGATTCCACGTATCAC-TGAATAT-A
1 AGGGGTTGCTAAGTGCTGATTCCACGTATC-CTTGAATATAA
37925946 AGGTGGTTGCTAAGTGCTGATTCCAC
1 AGG-GGTTGCTAAGTGCTGATTCCAC
37925972 CGAGTAACGG
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
40 4 0.05
41 23 0.26
42 12 0.14
43 34 0.39
44 8 0.09
45 7 0.08
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCACGTATCCTTGAATATAA
Found at i:37941218 original size:29 final size:27
Alignment explanation
Indices: 37941185--37941239 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
37941175 GTGATTAAAT
37941185 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
37941214 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
37941240 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:37942333 original size:14 final size:16
Alignment explanation
Indices: 37942323--37942385 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 16
37942313 TTAATATAAT
37942323 TATTTTTATATTAAAA
1 TATTTTTATATTAAAA
37942339 TATTTTTAT-TTAAAA
1 TATTTTTATATTAAAA
*
37942354 TTATATTTTGAAATT-AAA
1 -TAT-TTTT-ATATTAAAA
37942372 TA-TTTTATATTAAA
1 TATTTTTATATTAAA
37942386 TTATATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 4 0.10
15 12 0.30
16 12 0.30
17 6 0.15
18 4 0.10
19 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTTTTATATTAAAA
Found at i:37942378 original size:32 final size:33
Alignment explanation
Indices: 37942307--37942392 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
37942297 TAATTTAATT
*
37942307 ATATTTTTA-A-TATAATTAT-TTTTATATTAAA
1 ATATTTTTATATTA-AATTATATTTTAAATTAAA
37942338 ATATTTTTAT-TTAAAATTATATTTTGAAATT-AA
1 ATATTTTTATATT-AAATTATATTTT-AAATTAAA
37942371 ATA-TTTTATATTAAATTATATT
1 ATATTTTTATATTAAATTATATT
37942393 AAAATATTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
31 9 0.19
32 23 0.48
33 12 0.25
34 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
ATATTTTTATATTAAATTATATTTTAAATTAAA
Found at i:37944228 original size:41 final size:42
Alignment explanation
Indices: 37944178--37944256 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
37944168 ATGTTAATGC
* *
37944178 ATATCGATGCCACTATCCGAAACA-GGATCTTATACGAATCAT
1 ATATCGATGCCAATATCCCAAACATGG-TCTTATACGAATCAT
* *
37944220 ATAT-GATGCCAATGTCCCAGACATGGTCTTATACGAA
1 ATATCGATGCCAATATCCCAAACATGGTCTTATACGAA
37944257 ATCACACCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 26 0.81
42 6 0.19
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (42 bp):
ATATCGATGCCAATATCCCAAACATGGTCTTATACGAATCAT
Found at i:37944434 original size:40 final size:39
Alignment explanation
Indices: 37944377--37944475 Score: 118
Period size: 34 Copynumber: 2.6 Consensus size: 39
37944367 ATCCAATGCT
* *
37944377 CAAATCAATTCGGCAATATATATATATATGTATACATATA
1 CAAATCAATTCGACAAT-TATATATATATGTATACACATA
*
37944417 CAAATCAATTCG----TCA-ATATATATGTATACACATA
1 CAAATCAATTCGACAATTATATATATATGTATACACATA
37944451 CAAATCAATTCGACAATGTATATAT
1 CAAATCAATTCGACAAT-TATATAT
37944476 CTATATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
34 30 0.60
35 1 0.02
36 1 0.02
38 1 0.02
39 1 0.02
40 16 0.32
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (39 bp):
CAAATCAATTCGACAATTATATATATATGTATACACATA
Found at i:37944441 original size:34 final size:34
Alignment explanation
Indices: 37944398--37944502 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
37944388 GGCAATATAT
*
37944398 ATATATATGTATACATATACAAATCAATTCGTCA
1 ATATATATGTATACATATACAAATCAATTCGACA
*
37944432 ATATATATGTATACACATACAAATCAATTCGACA
1 ATATATATGTATACATATACAAATCAATTCGACA
* ** *
37944466 ATGTATA--TAT-CTATATTTAAATCAATTCGGCA
1 ATATATATGTATAC-ATATACAAATCAATTCGACA
37944498 ATATA
1 ATATA
37944503 AAAAACATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.02
32 23 0.37
34 38 0.61
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (34 bp):
ATATATATGTATACATATACAAATCAATTCGACA
Found at i:37951290 original size:41 final size:42
Alignment explanation
Indices: 37951239--37951317 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
37951229 ATGTTAATGC
* *
37951239 ATATCGATGCCACTATCCCAGACAGGGTCTTATACGAATCAT
1 ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAATCAT
* *
37951281 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAA
37951318 ATCACACCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 29 0.88
42 4 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAATCAT
Found at i:37951483 original size:36 final size:36
Alignment explanation
Indices: 37951439--37951562 Score: 152
Period size: 34 Copynumber: 3.6 Consensus size: 36
37951429 ATCCAATGCT
37951439 CAAATCAATTCGACAATATATATATGTATACATATA
1 CAAATCAATTCGACAATATATATATGTATACATATA
*
37951475 CAAATCAATTCGTC-A-ATATATATGTATACATATA
1 CAAATCAATTCGACAATATATATATGTATACATATA
* * *
37951509 CAAATCAATTCGGCAATGTATATATCTAT--AT-T-
1 CAAATCAATTCGACAATATATATATGTATACATATA
* *
37951541 TAAATCAATTCGAAAATATATA
1 CAAATCAATTCGACAATATATA
37951563 AAACATATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
32 18 0.23
33 1 0.01
34 34 0.44
35 2 0.03
36 23 0.29
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (36 bp):
CAAATCAATTCGACAATATATATATGTATACATATA
Found at i:37953917 original size:41 final size:41
Alignment explanation
Indices: 37953861--37954099 Score: 271
Period size: 41 Copynumber: 5.8 Consensus size: 41
37953851 ACAACACATT
* * * *
37953861 GGCATGAAGACTGCTAGGCTCAAAGCCTGATATAACACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * * * *
37953902 AGCGCGAAGCTTGCTAAGCACAAAGCCTAATATAATACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * **
37953943 GACACAAAGCCTGCTAGGCACAAAGTTTGATATAATACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * *
37953984 GGAACGAAGCCTGCTAGGCACAAAGCCTCATATAATACACT
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * * * *
37954025 GGCATGAAGCTTACTAGGCACAAAGCTTGATATAATACAAC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* *
37954066 GGTAGGAAGCCTGCTAGGCACAAAGCCTGATATA
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATA
37954100 TTATCTCAAG
Statistics
Matches: 160, Mismatches: 38, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
Found at i:37968582 original size:45 final size:44
Alignment explanation
Indices: 37968531--37968690 Score: 180
Period size: 45 Copynumber: 3.6 Consensus size: 44
37968521 CTACACGCCT
*
37968531 AAATGACTAAAACCATAGTTGAAAGATGTTTTGCCATCATGATGA
1 AAATGACTAAGACCATAGTTGAAAGATGTTTTGCCATCATGA-GA
*
37968576 AAATGACTAAGACCATAGTTGAAAGATGTTATT-CCATCATGACAA
1 AAATGACTAAGACCATAGTTGAAAGATGTT-TTGCCATCATGA-GA
* * * ** *
37968621 AAATGAGTAAGACCATAGCTGAAAGACGTCATGGCATCAT-AGTA
1 AAATGACTAAGACCATAGTTGAAAGATGTTTTGCCATCATGAG-A
*
37968665 AACAAGACTAAGACCATAGTTGAAAG
1 AA-ATGACTAAGACCATAGTTGAAAG
37968691 TCGCTATGGA
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
44 5 0.05
45 91 0.93
46 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (44 bp):
AAATGACTAAGACCATAGTTGAAAGATGTTTTGCCATCATGAGA
Found at i:37974482 original size:23 final size:23
Alignment explanation
Indices: 37974413--37974500 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
37974403 TTATTAACAT
* *
37974413 TGTTAGTGAACATGTTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
* * *
37974437 TGTTCATGAACATGTTTGTTTAA
1 TGTTAATGAACATGTTCGATTAA
**
37974460 TGTTCGTGAACATGTTCGATTAA
1 TGTTAATGAACATGTTCGATTAA
37974483 -GTTAAATGAACATGTTCG
1 TGTT-AATGAACATGTTCG
37974501 TGAACATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.62
24 17 0.32
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:37974510 original size:23 final size:23
Alignment explanation
Indices: 37974466--37974511 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37974456 TTAATGTTCG
* *
37974466 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
37974489 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
37974512 CAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:37976663 original size:43 final size:43
Alignment explanation
Indices: 37976602--37976857 Score: 287
Period size: 43 Copynumber: 5.9 Consensus size: 43
37976592 GACAACGTTA
* * *
37976602 CTAAAGACCGTGACCTTTAGAGGTGCTTTTATCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
* * *
37976645 CTAAATACCATGACCTTTAGCGGCGCTTTTAACACAAACACCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
* ** ** * * **
37976688 CTAACGGTCATGGGGTCTTTAGCGACGTTTTTATCACAAGTGCCG
1 CTAAAGACCAT--GACCTTTAGCGGCGCTTTTATCACAAACGCCG
* * *
37976733 CTAAAGACCATGACCTTTAGCGGCACTTTTGTCACAAACGCCA
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
* *
37976776 CTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
* * *
37976819 CAAAAGACCATGACCTTTAGCGACGCTTTTGTCACAAAC
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAAC
37976858 ACAGCTATTG
Statistics
Matches: 171, Mismatches: 40, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
43 139 0.81
45 32 0.19
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCG
Found at i:37977323 original size:43 final size:43
Alignment explanation
Indices: 37977261--37977351 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
37977251 CACATTGCAA
* *
37977261 GGTAATAAAAAATACAATACATTTTCTTAATCAAGTAAACCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAACCTT
* * *
37977304 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAACCTT
37977347 -GTAAT
1 GGTAAT
37977352 GGACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAACCTT
Found at i:37981597 original size:7 final size:7
Alignment explanation
Indices: 37981510--37981668 Score: 74
Period size: 7 Copynumber: 22.0 Consensus size: 7
37981500 ACCAATTAAT
37981510 CTAAACC
1 CTAAACC
37981517 CTAAATCC
1 CTAAA-CC
37981525 CT-AACC
1 CTAAACC
*
37981531 CTAATCTC
1 CTAAAC-C
37981539 CT-AACC
1 CTAAACC
*
37981545 CTAAATC
1 CTAAACC
* *
37981552 ATAAAAC
1 CTAAACC
*
37981559 ATAAACC
1 CTAAACC
*
37981566 TTAAACC
1 CTAAACC
37981573 C-ATAACC
1 CTA-AACC
*
37981580 CTAATCTC
1 CTAAAC-C
37981588 CTAAACC
1 CTAAACC
*
37981595 CTAAATC
1 CTAAACC
* *
37981602 ATAAAAC
1 CTAAACC
*
37981609 ATAAACC
1 CTAAACC
*
37981616 TTAAACCC
1 CTAAA-CC
*
37981624 CTAACCC
1 CTAAACC
37981631 CTAAACC
1 CTAAACC
37981638 TGCTTAAACC
1 --C-TAAACC
*
37981648 C-CAACC
1 CTAAACC
37981654 CTTAAACC
1 C-TAAACC
*
37981662 ATAAACC
1 CTAAACC
37981669 ATGATCCATA
Statistics
Matches: 118, Mismatches: 21, Indels: 26
0.72 0.13 0.16
Matches are distributed among these distances:
6 13 0.11
7 74 0.63
8 24 0.20
9 1 0.01
10 6 0.05
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:37981613 original size:50 final size:48
Alignment explanation
Indices: 37981511--37981630 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 48
37981501 CCAATTAATC
*
37981511 TAAACCCTAAATCCCTAACCCTAATCTCCTAACCCTAAATCATAAAACA
1 TAAACCTTAAA-CCCTAACCCTAATCTCCTAACCCTAAATCATAAAACA
37981560 TAAACCTTAAACCCATAACCCTAATCTCCTAAACCCTAAATCATAAAACA
1 TAAACCTTAAACCC-TAACCCTAATCTCCT-AACCCTAAATCATAAAACA
37981610 TAAACCTTAAACCCCTAACCC
1 TAAACCTTAAA-CCCTAACCC
37981631 CTAAACCTGC
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
48 3 0.04
49 25 0.37
50 36 0.54
51 3 0.04
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (48 bp):
TAAACCTTAAACCCTAACCCTAATCTCCTAACCCTAAATCATAAAACA
Found at i:37981659 original size:24 final size:25
Alignment explanation
Indices: 37981615--37981661 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
37981605 AAACATAAAC
37981615 CTTAAACCCCTAACCCCTAAACCTG
1 CTTAAACCCCTAACCCCTAAACCTG
*
37981640 CTTAAACCCC-AACCCTTAAACC
1 CTTAAACCCCTAACCCCTAAACC
37981662 ATAAACCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.19
Consensus pattern (25 bp):
CTTAAACCCCTAACCCCTAAACCTG
Found at i:37981695 original size:15 final size:15
Alignment explanation
Indices: 37981675--37981704 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37981665 AACCATGATC
37981675 CATAATCCCTAAACA
1 CATAATCCCTAAACA
37981690 CATAATCCCTAAACA
1 CATAATCCCTAAACA
37981705 TTAAAATAGT
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:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCCTAAACA
Found at i:37981847 original size:15 final size:15
Alignment explanation
Indices: 37981801--37981847 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
37981791 TCCCACCCCT
37981801 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
37981815 T-AATCCATAATCCT
1 TAAATCCATAATCCC
* *
37981829 TAAATTCATACTCCC
1 TAAATCCATAATCCC
37981844 TAAA
1 TAAA
37981848 CTTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.41
15 14 0.52
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:37982256 original size:41 final size:41
Alignment explanation
Indices: 37982196--37982395 Score: 276
Period size: 41 Copynumber: 4.9 Consensus size: 41
37982186 TAAAATGTTT
* * * *
37982196 TTAGCGGCTCTTTTGCAAAAACACCGCTAAATCCCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
*
37982237 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAA-ACCCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCT-AGCA
37982278 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
* ** * *
37982319 TTAGCGGCGTTTTTAGAAAAACGCCGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
* *
37982360 TTAGCGACGCTTTTGCAAAAACGCCGCTAAAGCCCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCC
37982396 GAAAGGTTAG
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
40 4 0.03
41 134 0.94
42 4 0.03
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
Found at i:37988343 original size:31 final size:27
Alignment explanation
Indices: 37988304--37988366 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 27
37988294 CTTTTTTAAT
37988304 TTTTTTTAATTTTAAAATCTTTTTAAAATA
1 TTTTTTTAATTTTAAAA---TTTTAAAATA
*
37988334 TATTTTTTAATTTTTAAATTTTAAAATA
1 T-TTTTTTAATTTTAAAATTTTAAAATA
37988362 TTTTT
1 TTTTT
37988367 AAAATACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 4 0.13
28 11 0.35
30 1 0.03
31 15 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTTTAATTTTAAAATTTTAAAATA
Found at i:37988382 original size:15 final size:14
Alignment explanation
Indices: 37988362--37988409 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
37988352 TTTTAAAATA
37988362 TTTTTAAAATACTTT
1 TTTTTAAAATA-TTT
** *
37988377 TTTTTAATTTTTTT
1 TTTTTAAAATATTT
37988391 ATTTTTAAAATATTT
1 -TTTTTAAAATATTT
37988406 TTTT
1 TTTT
37988410 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTAAAATATTT
Found at i:37988394 original size:30 final size:29
Alignment explanation
Indices: 37988359--37988432 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
37988349 AAATTTTAAA
37988359 ATATTTTTAAAATACTTTTTTTTAATTTTTT
1 ATATTTTTAAAATA--TTTTTTTAATTTTTT
37988390 -TATTTTTAAAATATTTTTTTAATTTTTT
1 ATATTTTTAAAATATTTTTTTAATTTTTT
*
37988418 AAAATTTTTAAAATA
1 -ATATTTTTAAAATA
37988433 AAAATGGGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 15 0.38
30 25 0.62
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
ATATTTTTAAAATATTTTTTTAATTTTTT
Found at i:37988405 original size:19 final size:21
Alignment explanation
Indices: 37988383--37988426 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
37988373 CTTTTTTTTA
37988383 ATTTTTTT-A-TTTTTAAAAT
1 ATTTTTTTAATTTTTTAAAAT
37988402 ATTTTTTTAATTTTTTAAAAT
1 ATTTTTTTAATTTTTTAAAAT
37988423 -TTTT
1 ATTTT
37988427 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 5 0.22
21 10 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTTAATTTTTTAAAAT
Found at i:37988417 original size:39 final size:40
Alignment explanation
Indices: 37988264--37988407 Score: 195
Period size: 39 Copynumber: 3.6 Consensus size: 40
37988254 AAATATATTT
* *
37988264 ATTTTTTTAATTTTAAAATATTTTT-ACATA-CTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTTA
* *
37988302 ATTTTTTTTAATTTTAAAATCTTTTTAAAATATATTTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTTA
*
37988343 A-TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTTA
*
37988383 ATTTTTTTATTTTTAAAATATTTTT
1 ATTTTTTTAATTTTAAAATATTTTT
37988408 TTAATTTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 50 0.54
40 13 0.14
41 29 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTTA
Found at i:37988424 original size:78 final size:78
Alignment explanation
Indices: 37988266--37988429 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
37988256 ATATATTTAT
* * *
37988266 TTTTTTAATTTTAAAATATTTTTACATACTTTTTTAATTTTTTTTAATTTTAAAATCTTTTTAAA
1 TTTTTAAATTTTAAAATATTTTTAAATACTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAA
**
37988331 ATATATTTTTTAA
66 ATATATTTTAAAA
*
37988344 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAA-TTTTTTTATTTTTAAAATATTTTT
1 TTTTTAAATTTTAAAATATTTTT-AAATAC--TTTTTTAATTTTTTTTAATTTTAAAATATTTTT
**
37988408 TTAAT-T-TTTTAAAA
63 AAAATATATTTTAAAA
37988422 TTTTTAAA
1 TTTTTAAA
37988430 ATAAAAATGG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.48
79 6 0.08
80 25 0.33
81 8 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (78 bp):
TTTTTAAATTTTAAAATATTTTTAAATACTTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAA
ATATATTTTAAAA
Found at i:37991989 original size:71 final size:71
Alignment explanation
Indices: 37991876--37992010 Score: 234
Period size: 71 Copynumber: 1.9 Consensus size: 71
37991866 TTAAAAAAGG
*
37991876 GGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
1 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
37991941 AAAAAA
66 AAAAAA
* **
37991947 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTCATTCCCGAGATGGTTTAAAACTTGAG
1 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAG
37992011 TTTGAAAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (71 bp):
GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
AAAAAA
Found at i:37992482 original size:28 final size:27
Alignment explanation
Indices: 37992449--37992545 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 27
37992439 AAAATATAAC
37992449 AAATATATAT-GTATATATAAATTATA
1 AAATATATATAGTATATATAAATTATA
* * **
37992475 AAATATATGTA-CATATATGTATTATA
1 AAATATATATAGTATATATAAATTATA
* * * *
37992501 AAATGTATATAAGTATATGTATATTTTA
1 AAATATATAT-AGTATATATAAATTATA
* *
37992529 AGAT-TATAAAGTATATA
1 AAATATATATAGTATATA
37992546 CAAAAAAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
26 36 0.65
27 5 0.09
28 14 0.25
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.42
Consensus pattern (27 bp):
AAATATATATAGTATATATAAATTATA
Found at i:37992517 original size:26 final size:26
Alignment explanation
Indices: 37992449--37992522 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
37992439 AAAATATAAC
** **
37992449 AAATATATATGTATATATAAATTATA
1 AAATATATATACATATATGTATTATA
*
37992475 AAATATATGTACATATATGTATTATA
1 AAATATATATACATATATGTATTATA
*
37992501 AAATGTATATA-AGTATATGTAT
1 AAATATATATACA-TATATGTAT
37992523 ATTTTAAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATATATATACATATATGTATTATA
Found at i:37992624 original size:58 final size:59
Alignment explanation
Indices: 37992562--37992672 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
37992552 AAAAGAATAT
* * *
37992562 ATGTATGTATAGATA-TAGGAGTTATAAAATGTAAAACACATATATAT-TATAAGAATGC
1 ATGTATATATAGATATTA-AAGTTATAAAATATAAAACACATATATATGTATAAGAATGC
* * *
37992620 ATGTATATATATATATTAAAGTTATAGAATATAAAACACATATGTATGTATAA
1 ATGTATATATAGATATTAAAGTTATAAAATATAAAACACATATATATGTATAA
37992673 ATATATAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 38 0.84
59 7 0.16
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.35
Consensus pattern (59 bp):
ATGTATATATAGATATTAAAGTTATAAAATATAAAACACATATATATGTATAAGAATGC
Done.