Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 175 of 310
Found at i:57096475 original size:3 final size:3
Alignment explanation
Indices: 57096467--57096508 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
57096457 TAAAGTTGAC
* *
57096467 ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57096509 GCTTTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:57096880 original size:15 final size:16
Alignment explanation
Indices: 57096860--57096892 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57096850 CACCTATATA
57096860 TATATATA-CATATTT
1 TATATATAGCATATTT
57096875 TATATATATGCATATTT
1 TATATATA-GCATATTT
57096892 T
1 T
57096893 TCTTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATAGCATATTT
Found at i:57096880 original size:17 final size:17
Alignment explanation
Indices: 57096858--57096892 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57096848 TACACCTATA
57096858 TATATATATACATATTT
1 TATATATATACATATTT
*
57096875 TATATATATGCATATTT
1 TATATATATACATATTT
57096892 T
1 T
57096893 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:57098954 original size:19 final size:20
Alignment explanation
Indices: 57098914--57098957 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
57098904 GTCTCTTTAG
* *
57098914 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
57098933 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
57098952 GCATTA
1 GCATTA
57098958 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:57104022 original size:44 final size:42
Alignment explanation
Indices: 57103785--57104110 Score: 198
Period size: 44 Copynumber: 7.6 Consensus size: 42
57103775 TTAAAGATTC
* * * *
57103785 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAGAGATA
1 GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CA
* * * * *
57103828 GTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--A
1 G-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA
* * * * *
57103868 GGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACGTCA
1 GGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAG-CA
** ** *
57103910 GG-TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAA
1 GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA
*
57103951 TTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCA
1 ----GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CA
* * *
57103998 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACA
1 G-GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAAGCA
** * * **
57104042 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAA
1 GGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-AAA-GCA
* *
57104086 GGATCTTATCTCTCTGAGGTTACAG
1 GGATCTTATCTCCCTGAGATTACAG
57104111 CAGAGTAGAT
Statistics
Matches: 216, Mismatches: 47, Indels: 39
0.72 0.16 0.13
Matches are distributed among these distances:
38 2 0.01
39 24 0.11
40 2 0.01
41 26 0.12
42 7 0.03
43 34 0.16
44 83 0.38
45 5 0.02
46 32 0.15
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA
Found at i:57104052 original size:87 final size:87
Alignment explanation
Indices: 57103961--57104122 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
57103951 TTTCGGATCT
* * *
57103961 TATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
57104025 GGAGCAGATCGAAAACACTATCC
65 AGAGCAGATCGAAAACACTATCC
* * * *
57104048 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
57104113 GAGTAGATCG
66 GAGCAGATCG
57104123 CATCAGGTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 63 0.97
88 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAAACACTATCC
Found at i:57105754 original size:20 final size:20
Alignment explanation
Indices: 57105729--57105775 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
57105719 GATATTTGTT
57105729 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
57105749 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
57105769 TTTATAT
1 TTTATAT
57105776 CTTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:57107506 original size:15 final size:15
Alignment explanation
Indices: 57107486--57107515 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57107476 TTATATTGAA
57107486 ATCAGCATCCACTAC
1 ATCAGCATCCACTAC
57107501 ATCAGCATCCACTAC
1 ATCAGCATCCACTAC
57107516 TCTTACATAT
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:0.33, C:0.40, G:0.07, T:0.20
Consensus pattern (15 bp):
ATCAGCATCCACTAC
Found at i:57110667 original size:17 final size:17
Alignment explanation
Indices: 57110630--57110667 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
57110620 CATTTAAACT
**
57110630 TTTTATAAAATAATTTG
1 TTTTATAAAATAATTCA
57110647 TTTTATAAAATAATTCA
1 TTTTATAAAATAATTCA
57110664 TTTT
1 TTTT
57110668 CAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTATAAAATAATTCA
Found at i:57112064 original size:17 final size:17
Alignment explanation
Indices: 57112021--57112066 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
57112011 ATCTGTAATG
57112021 ATCTCCATACAATCACTT
1 ATCT-CATACAATCACTT
57112039 ATC-CTATACAATCA-TGT
1 ATCTC-ATACAATCACT-T
57112056 ATCTCATACAA
1 ATCTCATACAA
57112067 GCGTGCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.08
17 19 0.76
18 4 0.16
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (17 bp):
ATCTCATACAATCACTT
Found at i:57114166 original size:5 final size:5
Alignment explanation
Indices: 57114135--57114199 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
57114125 AAATTTAGCC
** *
57114135 TAAAA TAATT TAATA TAAAA TCAAAAA TAAAA TAAAA -ATAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T--AAAA TAAAA TAAAA TA-AAA TAAAA
*
57114182 TAAAA TAAAG TAAAA TAA
1 TAAAA TAAAA TAAAA TAA
57114200 GACTTTCCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 1 0.02
5 43 0.86
6 1 0.02
7 5 0.10
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:57117328 original size:19 final size:19
Alignment explanation
Indices: 57117306--57117349 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
57117296 TGATTTTTGG
57117306 TTCATTTTTCCCATTTTAT
1 TTCATTTTTCCCATTTTAT
57117325 TTCATTTTTCCCATTTTAT
1 TTCATTTTTCCCATTTTAT
57117344 TTCATT
1 TTCATT
57117350 AAAATGCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (19 bp):
TTCATTTTTCCCATTTTAT
Found at i:57120276 original size:18 final size:18
Alignment explanation
Indices: 57120249--57120283 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
57120239 AATTCCATAG
57120249 TTACAT-AAAAATATAAA
1 TTACATAAAAAATATAAA
57120266 TTACTATAAAAAATATAA
1 TTAC-ATAAAAAATATAA
57120284 GTATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 2 0.12
19 10 0.62
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TTACATAAAAAATATAAA
Found at i:57128853 original size:24 final size:25
Alignment explanation
Indices: 57128819--57128869 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
57128809 CACGTTAGCG
*
57128819 AACAAAAATATATAAATAT-AAATA
1 AACAAAAATATATAAAAATAAAATA
*
57128843 AACAAATATATATAAAAATAAAATA
1 AACAAAAATATATAAAAATAAAATA
57128868 AA
1 AA
57128870 TTGAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (25 bp):
AACAAAAATATATAAAAATAAAATA
Found at i:57130881 original size:25 final size:24
Alignment explanation
Indices: 57130853--57130905 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
57130843 TTCATTGGAT
57130853 AAATTAAACATAGCATCATGACTCA
1 AAATT-AACATAGCATCATGACTCA
*** *
57130878 AAATTTGTATAGCATCATGACTTA
1 AAATTAACATAGCATCATGACTCA
57130902 AAAT
1 AAAT
57130906 CTGTACAGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATTAACATAGCATCATGACTCA
Found at i:57130889 original size:24 final size:24
Alignment explanation
Indices: 57130862--57130910 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
57130852 TAAATTAAAC
*
57130862 ATAGCATCATGACTCAAAATTTGT
1 ATAGCATCATGACTCAAAATCTGT
*
57130886 ATAGCATCATGACTTAAAATCTGT
1 ATAGCATCATGACTCAAAATCTGT
57130910 A
1 A
57130911 CAGCGCCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (24 bp):
ATAGCATCATGACTCAAAATCTGT
Found at i:57133723 original size:43 final size:43
Alignment explanation
Indices: 57133658--57133823 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
57133648 ATCTCGTACA
* * * *
57133658 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCAC-ATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAATA-CG
* * * * ** *
57133700 ATGCCATTGTCCCAGATAGGGTCTTACACAAAATCATAATACG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAATACG
* *
57133743 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAATACG
* *
57133786 ATGCCAATGTCCCAAACATGGTCTTACATGTAACCACA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACA
57133824 TCTCGATAAC
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
42 5 0.05
43 95 0.92
44 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAATACG
Found at i:57136774 original size:18 final size:18
Alignment explanation
Indices: 57136753--57136788 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57136743 TAATAAATAA
57136753 AAAAATTGAGAGAGAAAT
1 AAAAATTGAGAGAGAAAT
* *
57136771 AAAATTTGAGTGAGAAAT
1 AAAAATTGAGAGAGAAAT
57136789 TAACAGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (18 bp):
AAAAATTGAGAGAGAAAT
Found at i:57144188 original size:22 final size:22
Alignment explanation
Indices: 57144163--57144207 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57144153 TTCATGGTTT
*
57144163 CCGTGTGAGAGTGTAACCTCCC
1 CCGTGTGAAAGTGTAACCTCCC
*
57144185 CCGTGTGAAAGTGTAACTTCCC
1 CCGTGTGAAAGTGTAACCTCCC
57144207 C
1 C
57144208 AACCCGGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (22 bp):
CCGTGTGAAAGTGTAACCTCCC
Found at i:57147615 original size:44 final size:42
Alignment explanation
Indices: 57147565--57147672 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 42
57147555 TATGTGATTT
** * *
57147565 GTGTAAGACCACATCTAGGATGTTGGCATCG-ATTTGTAGTTTAC
1 GTGTAAGACCACATCTAGGACATCGGCATCGTATATG-AG-TT-C
**
57147609 GTGTAAGACCATGTCTAGGACATCGGCATCGTATATGAGTTC
1 GTGTAAGACCACATCTAGGACATCGGCATCGTATATGAGTTC
* *
57147651 GTGTAAGACCCCATCTGGGACA
1 GTGTAAGACCACATCTAGGACA
57147673 GTGGTATCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 19 0.36
43 2 0.04
44 28 0.53
45 4 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACATCGGCATCGTATATGAGTTC
Found at i:57151611 original size:31 final size:31
Alignment explanation
Indices: 57151573--57151637 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
57151563 AAATAATTTT
*
57151573 TTTATTATTTTCTAATTTGCATATATTTTCA
1 TTTATTATTTTCTAATTTGCATATATCTTCA
57151604 TTTATTATTTTCTAATTTGCATATATCTTCA
1 TTTATTATTTTCTAATTTGCATATATCTTCA
57151635 TTT
1 TTT
57151638 TCCAAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTATTATTTTCTAATTTGCATATATCTTCA
Found at i:57154472 original size:30 final size:30
Alignment explanation
Indices: 57154431--57154490 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
57154421 TATTTTATTA
*
57154431 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTCTGTTATTATTTTAAAGGCATTTG
*
57154461 TTAATTCTGTTATTATTTTAGAGGCATTTG
1 TTAATTCTGTTATTATTTTAAAGGCATTTG
57154491 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (30 bp):
TTAATTCTGTTATTATTTTAAAGGCATTTG
Found at i:57164027 original size:78 final size:78
Alignment explanation
Indices: 57163850--57164108 Score: 308
Period size: 78 Copynumber: 3.3 Consensus size: 78
57163840 ACAATAGAGA
* * *
57163850 TTCTGTTTGAAACAAAAATCAAACAAATCCTATTAAACGGCAGGAA-AAAATCCTGAAACGGGAG
1 TTCTGTTTGAAACAGAAATCAAACAAATCCTGTTAAACGGCAGGAATAAAATCCTGAAACAGGAG
57163914 TGTTCAATT-AA-
66 TGTTCAATTGAAT
* * * * * *
57163925 TTCTTGTTTTGAAATAGAAGTCAAACAAATCCTGTTAAACGGCAGGAATAGAGTCTTGAAACAAG
1 TTC-TG-TTTGAAACAGAAATCAAACAAATCCTGTTAAACGGCAGGAATAAAATCCTGAAACAGG
57163990 AGTGTTCAATTGAAT
64 AGTGTTCAATTGAAT
* * * * * *
57164005 TTCTGTTTGAAACAGAAATCAAACAAATCCTGTAAAATGGCAAGAGTAAAATCCTAAAACAGGAA
1 TTCTGTTTGAAACAGAAATCAAACAAATCCTGTTAAACGGCAGGAATAAAATCCTGAAACAGGAG
* **
57164070 TGTTTAATTGGCT
66 TGTTCAATTGAAT
*
57164083 TTATGTTTGAAACAGAAATCAAACAA
1 TTCTGTTTGAAACAGAAATCAAACAA
57164109 TCTCTTGTTG
Statistics
Matches: 154, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
75 3 0.02
76 2 0.01
77 37 0.24
78 105 0.68
79 4 0.03
80 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (78 bp):
TTCTGTTTGAAACAGAAATCAAACAAATCCTGTTAAACGGCAGGAATAAAATCCTGAAACAGGAG
TGTTCAATTGAAT
Found at i:57166704 original size:4 final size:4
Alignment explanation
Indices: 57166695--57166719 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57166685 CTCACGCCTG
57166695 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
57166720 ATAATATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:57173514 original size:11 final size:11
Alignment explanation
Indices: 57173500--57173549 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
57173490 TTTCAATATT
57173500 CTCTCAAATTC
1 CTCTCAAATTC
57173511 CTCTCAAA-T-
1 CTCTCAAATTC
*
57173520 CTCTCAAATTT
1 CTCTCAAATTC
*
57173531 CTCTTAAATTC
1 CTCTCAAATTC
57173542 CTCTCAAA
1 CTCTCAAA
57173550 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:57173524 original size:20 final size:21
Alignment explanation
Indices: 57173492--57173549 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
57173482 CTTCAATCTT
57173492 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
57173514 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
57173534 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
57173550 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:57175370 original size:18 final size:18
Alignment explanation
Indices: 57175347--57175384 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57175337 TGCCAGGTAC
*
57175347 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
57175365 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
57175383 GT
1 GT
57175385 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:57179134 original size:125 final size:126
Alignment explanation
Indices: 57178806--57179343 Score: 821
Period size: 125 Copynumber: 4.3 Consensus size: 126
57178796 GCCCAAGTTA
* * *
57178806 TTTCAGAAACCACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
57178871 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
57178932 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
57178997 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTA-TT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
57179057 TTTCAGAGACTATTGTAGCAAAAGAGCGTTCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** * *
57179122 TGCATCCTGCTTGAAGTATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
57179183 TTTCAGATA-TACTGTAGGAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
57179247 TGCATCCTGCTTGAAGCGTTTTTTGACACTATTTGCGTAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCG-TTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
57179309 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
57179344 AGAAGCTTTT
Statistics
Matches: 373, Mismatches: 34, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
125 179 0.48
126 171 0.46
127 23 0.06
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:57179279 original size:251 final size:252
Alignment explanation
Indices: 57178806--57179351 Score: 846
Period size: 251 Copynumber: 2.2 Consensus size: 252
57178796 GCCCAAGTTA
* * * *
57178806 TTTCAGAAACCACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* **
57178871 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACATCTTCTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACACAGACACATCTTCTCAAAATTATTTTTTC
57178936 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
131 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
57179001 TCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTA-TT
196 TCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
57179057 TTTCAGAGACTATTGTAGCAAAAGAGCGTTCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * *
57179122 TGCATCCTGCTTGAAGTATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCATTTTTGACACTATTTACACAGACACATCTTCTCAAAATTATTTTTTC
* * * * * *
57179187 AGATA-TACTGTAGGAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
131 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
* *
57179251 TCCTGCTTGAAGCGTTTTTTGA-CACTATTTGCGTAGACACGTCTTCTCAAATTTATTT
196 TCCTGCTTGAAGCG-TTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
57179309 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
57179352 TTTTATATTA
Statistics
Matches: 267, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
250 68 0.25
251 156 0.58
252 43 0.16
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (252 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCATTTTTGACACTATTTACACAGACACATCTTCTCAAAATTATTTTTTC
AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
TCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:57179444 original size:15 final size:15
Alignment explanation
Indices: 57179424--57179453 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57179414 TTTTTTAAAT
57179424 ACCCTAAAATCCTAA
1 ACCCTAAAATCCTAA
57179439 ACCCTAAAATCCTAA
1 ACCCTAAAATCCTAA
57179454 TCTAATTTTT
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):
ACCCTAAAATCCTAA
Found at i:57179605 original size:96 final size:99
Alignment explanation
Indices: 57179451--57179627 Score: 236
Period size: 96 Copynumber: 1.8 Consensus size: 99
57179441 CCTAAAATCC
* ** *
57179451 TAATCTAATTTTTTTTAAAATTTATAATTAATTTACTTAAGTAACCCTAAACCCTAATTTATTTG
1 TAATCTAATTTTTTTTAAAATTTATAATTAATTTAATTAACAAACACTAAACCCTAATTTATTTG
*
57179516 A-TTTTTTCTTTAAAAACCATAAACACTAAGCCA
66 ATTTTTTTCCTTAAAAACCATAAACACTAAGCCA
* * *
57179549 TAATCTAA-TTTTTTT-AAA-TTAGTAATTAATTTAATTAACAAATACTAGACCTTAATTTATTT
1 TAATCTAATTTTTTTTAAAATTTA-TAATTAATTTAATTAACAAACACTAAACCCTAATTTATTT
*
57179611 TATTTTTTTCCTTAAAA
65 GATTTTTTTCCTTAAAA
57179628 CCCTAAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.04
96 37 0.54
97 20 0.29
98 8 0.12
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.46
Consensus pattern (99 bp):
TAATCTAATTTTTTTTAAAATTTATAATTAATTTAATTAACAAACACTAAACCCTAATTTATTTG
ATTTTTTTCCTTAAAAACCATAAACACTAAGCCA
Found at i:57181782 original size:46 final size:44
Alignment explanation
Indices: 57181730--57181815 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
57181720 AGAACAGAAA
*
57181730 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
57181776 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
57181816 AGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:57181829 original size:44 final size:45
Alignment explanation
Indices: 57181732--57181856 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
57181722 AACAGAAATG
* * * *
57181732 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
*
57181778 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
57181822 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57181857 CAGGATATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:57188373 original size:178 final size:178
Alignment explanation
Indices: 57188008--57189188 Score: 1559
Period size: 178 Copynumber: 6.7 Consensus size: 178
57187998 CACTGCAACT
* * * * * * * * *
57188008 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCG
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * * * * * *
57188073 TCTTCGATCTGCTCCACTA-CTGCTTA-A-GGAGATAAGATCTGTAACTTTCAGTCTAC-TCCAC
66 TTTTCGATCTACTCCA-TAGCCG-ATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCC-T
* * *
57188134 TG-TAACTCAGGACA-ATAAGACTTGTATCTTCAACCTGCTCTCTTACTACC
128 TGCTACCTCAGGA-AGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* * * *
57188184 TCAAAGAGATAAGGTTGGTGGCCAAAATCTGCTCCATAGCCGATACATAGAGATAAGAGTCACCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * * *
57188249 TTTTCGATCTATTCTATAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTACTTGC
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
* * *
57188314 TACCTCAGAAAGATAAGACTTATATCTTCAACCTGCTCTCTTGCTACC
131 TACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* * * *
57188362 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTGCATAGCCGATACATGGAAATAAGAATCGCCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * *
57188427 TTTTCGATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGC
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
* * *
57188492 TACCTTAGGAAGAGAAGACCTGTATCTTCAACATGCTCTCTTGCTACC
131 TACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* * * * *
57188540 TTAGAGAGATAAGGTTAGTGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCTA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* *
57188605 TTTTTGATCTACTCTATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
* *
57188670 TAACTCAGGAAGATAAGACCTATATCTTCAACCTGCTCTCTTGCTACC
131 TACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* * * * * *
57188718 TTAGAGAAATAAGGTTAGTGGCTAAAATCTACTCCATAGCTGATACATAGAGATAAGACTCGTCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * *
57188783 TTTTTGATCTATTCCATAGCCAATACATGGAGATAA-ATCTGTAAATTTCAGTCTGCTT-CTTAG
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTT-G
*
57188846 CTACCTTAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
130 CTACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* ** * *
57188895 TTAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGACAAGACTCGCCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * * *
57188960 TTTTCAATCTACTTCATAGCCGATACATGGAGATAATATCTGTAAATTTTAGTCTGCTTCCTTGC
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
* * *
57189025 TACCTCAGGAAGATAAGACATGTATCTTCAAGCTGCTCTTTTGCTACC
131 TACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
* * * *
57189073 TCAGAGAGATAAGGCTGGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
* * *
57189138 TTTTCAACCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
66 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
57189189 CCGATGTCGC
Statistics
Matches: 890, Mismatches: 106, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
175 4 0.00
176 71 0.08
177 185 0.21
178 627 0.70
179 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (178 bp):
TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
TACCTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACC
Found at i:57188483 original size:45 final size:45
Alignment explanation
Indices: 57188388--57188484 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
57188378 GGTGGCTAAA
* ** *
57188388 ATCTGCTGCATAGCCGATACATGGAAATAAGAATCGCCATTTTCG
1 ATCTGCTCCATAGCCGATACATGGAAATAAGAATCGAAATTTTAG
* *
57188433 ATCTGCTCCATAGCCGATATATGGAGATAAG-ATCTGTAAATTTTAG
1 ATCTGCTCCATAGCCGATACATGGAAATAAGAATC-G-AAATTTTAG
57188479 -TCTGCT
1 ATCTGCT
57188485 TCCTTGCTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 35 0.80
46 6 0.14
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAAATAAGAATCGAAATTTTAG
Found at i:57188981 original size:355 final size:357
Alignment explanation
Indices: 57188008--57189188 Score: 1655
Period size: 355 Copynumber: 3.3 Consensus size: 357
57187998 CACTGCAACT
* * * * * * * *
57188008 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCG
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
* * * * * *
57188073 TCTTCGATCTGCTCCACTA-CTGCTTA-A-GGAGATAAGATCTGTAACTTTCAGTCTAC-TCCAC
66 TTTTCGATCTGCTCCA-TAGCCG-ATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCC-T
* * * * * *
57188134 TG-TAACTCAGGACA-ATAAGACTTGTATCTTCAACCTGCTCTCTTACTACCTCAAAGAGATAAG
128 TGCTACCTTAGGA-AGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAG
* * * *
57188197 GTTGGTGGCCAAAATCTGCTCCATAGCCGATACATAGAGATAAGAGTCACCATTTTCGATCTA-T
192 GTTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTACT
* *
57188261 TCTATAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTACTTGCTACCTCAGAAAG
257 TCTATAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAG
*
57188326 ATAAGACTTATATCTTCAACCTGCTCTCTTGCTACC
322 ATAAGACATATATCTTCAACCTGCTCTCTTGCTACC
* * * * *
57188362 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTGCATAGCCGATACATGGAAATAAGAATCGCCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
* *
57188427 TTTTCGATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGC
66 TTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
* * *
57188492 TACCTTAGGAAGAGAAGACCTGTATCTTCAACATGCTCTCTTGCTACCTTAGAGAGATAAGGTTA
131 TACCTTAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGTTG
* * *
57188557 GTGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCTATTTTTGATCTAC-TCTA
196 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTACTTCTA
* *
57188621 TAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAA
261 TAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
*
57188686 GACCTATATCTTCAACCTGCTCTCTTGCTACC
326 GACATATATCTTCAACCTGCTCTCTTGCTACC
* * * * *
57188718 TTAGAGAAATAAGGTTAGTGGCTAAAATCTACTCCATAGCTGATACATAGAGATAAGACTCGTCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
* ** *
57188783 TTTTTGATCTATTCCATAGCCAATACATGGAGATAA-ATCTGTAAATTTCAGTCTGCTT-CTTAG
66 TTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTT-G
**
57188846 CTACCTTAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGACT
130 CTACCTTAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGTT
* *
57188911 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGACAAGACTCGCCATTTTCAATCTACTTC-
195 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTACTTCT
*
57188975 ATAGCCGATACATGGAGATAATATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATA
260 ATAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATA
* * *
57189040 AGACATGTATCTTCAAGCTGCTCTTTTGCTACC
325 AGACATATATCTTCAACCTGCTCTCTTGCTACC
* * *
57189073 TCAGAGAGATAAGGCTGGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
* *
57189138 TTTTCAACCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
66 TTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
57189189 CCGATGTCGC
Statistics
Matches: 732, Mismatches: 85, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
353 4 0.01
354 76 0.10
355 345 0.47
356 307 0.42
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (357 bp):
TCAGAGAGATAAGGTTGGTGGCTAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
TTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCCTTGC
TACCTTAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGTTG
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTACTTCTA
TAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
GACATATATCTTCAACCTGCTCTCTTGCTACC
Found at i:57189106 original size:533 final size:533
Alignment explanation
Indices: 57188008--57189188 Score: 1633
Period size: 533 Copynumber: 2.2 Consensus size: 533
57187998 CACTGCAACT
* * ** * * * *
57188008 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCG
1 TCAGAGAGATAAGGCTAGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
* * * * * * *
57188073 TCTTCGATCTGCTCCACTA-CTGCTTA-A-GGAGATAAGATCTGTAACTTTCAGTCTACTCCACT
66 TTTTCAACCTACTCCA-TAGCCG-ATACATGGAGATAAGATCTGTAAATTTCAGTCTACTCCACT
* * *
57188135 GTAACTCAGGACAATAAGACTTGTATCTTCAACCTGCTCTCTTACTACCTCAAAGAGATAAGGTT
129 GTAACTCAGGACAATAAGACCTATATCTTCAACCTGCTCTCTTACTACCTCAAAGAAATAAGGTT
* * * *
57188200 GGTGGCCAAAATCTGCTCCATAGCCGATACATAGAGATAAGAGTCACCATTTTCGATCTATTCTA
194 AGTGGCCAAAATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTATTCCA
* *
57188265 TAGCCGATACATGGAGATAAGATCTGTAAATTTTAGTCTGCTTACTTGCTACCTCAGAAAGATAA
259 TAGCCAATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTACTTGCTACCTCAGAAAGATAA
* **
57188330 GACTTATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCT
324 GACCTATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTGCT
* * * * *
57188395 GCATAGCCGATACATGGAAATAAGAATCGCCATTTTCGATCTGCTCCATAGCCGATATATGGAGA
389 CCATAGCCGATACATGGAAACAAGAATCGCCATTTTCAATCTACTCCATAGCCGATACATGGAGA
* *
57188460 TAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTTAGGAAGAGAAGACCTGTATCTTCAACA
454 TAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGAGAAGACATGTATCTTCAACA
57188525 TGCTCTCTTGCTACC
519 TGCTCTCTTGCTACC
* * * * * *
57188540 TTAGAGAGATAAGGTTAGTGGCTAAAATCTGCTCCATAG-TCGATACATGGAGATAAGACTCGCT
1 TCAGAGAGATAAGGCTAGTAGCCAAAATCTGCTCCATAGCT-GATACATAGAGATAAGACTCGCC
** * * * *
57188604 ATTTTTGATCTACTCTATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTCC-TT
65 ATTTTCAACCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTAC-TCCACT
* * *
57188668 GCTAACTCAGGA-AGATAAGACCTATATCTTCAACCTGCTCTCTTGCTACCTTAGAGAAATAAGG
129 G-TAACTCAGGACA-ATAAGACCTATATCTTCAACCTGCTCTCTTACTACCTCAAAGAAATAAGG
* * ** *
57188732 TTAGTGGCTAAAATCTACTCCATAGCTGATACATAGAGATAAGACTCGTCATTTTTGATCTATTC
192 TTAGTGGCCAAAATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTATTC
* *
57188797 CATAGCCAATACATGGAGATAA-ATCTGTAAATTTCAGTCTGCTT-CTTAGCTACCTTAGGAAGA
257 CATAGCCAATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTACTT-GCTACCTCAGAAAGA
* *
57188860 TAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGACTGGTGGCTAAAATCT
321 TAAGACCTATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCT
* * *
57188925 GCTCCATAGCCGATACATGGAGACAAGACTCGCCATTTTCAATCTACTTCATAGCCGATACATGG
386 GCTCCATAGCCGATACATGGAAACAAGAATCGCCATTTTCAATCTACTCCATAGCCGATACATGG
* *
57188990 AGATAATATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACATGTATCTTCA
451 AGATAAGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGAGAAGACATGTATCTTCA
*
57189055 AGC-TGCTCTTTTGCTACC
516 A-CATGCTCTCTTGCTACC
*
57189073 TCAGAGAGATAAGGCTGGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTAGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
*
57189138 TTTTCAACCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
66 TTTTCAACCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCA
57189189 CCGATGTCGC
Statistics
Matches: 573, Mismatches: 66, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
531 5 0.01
532 73 0.13
533 359 0.63
534 136 0.24
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (533 bp):
TCAGAGAGATAAGGCTAGTAGCCAAAATCTGCTCCATAGCTGATACATAGAGATAAGACTCGCCA
TTTTCAACCTACTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTACTCCACTGT
AACTCAGGACAATAAGACCTATATCTTCAACCTGCTCTCTTACTACCTCAAAGAAATAAGGTTAG
TGGCCAAAATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCGATCTATTCCATA
GCCAATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTACTTGCTACCTCAGAAAGATAAGA
CCTATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCC
ATAGCCGATACATGGAAACAAGAATCGCCATTTTCAATCTACTCCATAGCCGATACATGGAGATA
AGATCTGTAAATTTTAGTCTGCTTCCTTGCTACCTCAGGAAGAGAAGACATGTATCTTCAACATG
CTCTCTTGCTACC
Found at i:57189188 original size:45 final size:45
Alignment explanation
Indices: 57189101--57189188 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
57189091 TAGCCAAAAT
* * *
57189101 CTGCTCCATAGCTGATACATAGAGATAAGACTCGCCATTTTCAAC
1 CTGCTCCATAGCCGATACATAGAGATAAGACTCGCAAATTTCAAC
* *
57189146 CTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAAATTTCA
1 CTGCTCCATAGCCGATACATAGAGATAAGACTC-GCAAATTTCA
57189189 CCGATGTCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.05
45 35 0.95
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (45 bp):
CTGCTCCATAGCCGATACATAGAGATAAGACTCGCAAATTTCAAC
Found at i:57193375 original size:19 final size:19
Alignment explanation
Indices: 57193334--57193375 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
57193324 AAATCAAATG
* *
57193334 CAAATGATGCAATGCAATG
1 CAAATGATGAAATGCAATA
57193353 CAAATGCATGAAATG-AATA
1 CAAATG-ATGAAATGCAATA
57193372 CAAA
1 CAAA
57193376 AGAAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (19 bp):
CAAATGATGAAATGCAATA
Found at i:57196867 original size:21 final size:21
Alignment explanation
Indices: 57196833--57196890 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
57196823 TAAATAATTT
* *
57196833 AAAAATTATAAAAATGTTCA-
1 AAAAATAAAAAAAATGTTCAG
*
57196853 AAAAATAAAATAAAAAGTTCATG
1 AAAAATAAAA-AAAATGTTCA-G
*
57196876 AAAATTAAAAAAAAT
1 AAAAATAAAAAAAAT
57196891 ATATAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 8 0.27
21 9 0.30
22 4 0.13
23 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAAATAAAAAAAATGTTCAG
Found at i:57196868 original size:22 final size:23
Alignment explanation
Indices: 57196840--57196890 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
57196830 TTTAAAAATT
57196840 ATAAAAATGTTCA-AAAAATAAA
1 ATAAAAATGTTCATAAAAATAAA
* *
57196862 ATAAAAA-GTTCATGAAAATTAA
1 ATAAAAATGTTCATAAAAATAAA
57196884 A-AAAAAT
1 ATAAAAAT
57196891 ATATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (23 bp):
ATAAAAATGTTCATAAAAATAAA
Found at i:57197034 original size:31 final size:32
Alignment explanation
Indices: 57196972--57197038 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
57196962 TTAAAAAAAT
*
57196972 AATTCAACTCTTTTTTGTAAAATTAATAGTCA
1 AATTCAACTCTTTTTTGTAAAATTAAGAGTCA
**
57197004 AATTCAACT-TTTTTT-TAAAGATTGGGAGTCA
1 AATTCAACTCTTTTTTGTAAA-ATTAAGAGTCA
57197035 AATT
1 AATT
57197039 TAGCTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 18 0.58
32 9 0.29
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (32 bp):
AATTCAACTCTTTTTTGTAAAATTAAGAGTCA
Found at i:57198917 original size:15 final size:15
Alignment explanation
Indices: 57198887--57198915 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57198877 AGTTTTAAAC
57198887 ATTTATTATTTATTT
1 ATTTATTATTTATTT
57198902 ATTTATT-TTTATTT
1 ATTTATTATTTATTT
57198916 TAATTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTATTATTTATTT
Found at i:57201513 original size:20 final size:21
Alignment explanation
Indices: 57201472--57201513 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57201462 CAAAATTACC
*
57201472 TTTATAATAATATTTATTATT
1 TTTAAAATAATATTTATTATT
*
57201493 TTTAAAATAAT-TTTTTTATT
1 TTTAAAATAATATTTATTATT
57201513 T
1 T
57201514 CTCAAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAAAATAATATTTATTATT
Found at i:57201520 original size:20 final size:20
Alignment explanation
Indices: 57201477--57201525 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
57201467 TTACCTTTAT
*
57201477 AATAATATTTATTATTTTTAA
1 AATAAT-TTTATTATTTCTAA
* *
57201498 AATAATTTTTTTATTTCTCA
1 AATAATTTTATTATTTCTAA
*
57201518 AATGATTT
1 AATAATTT
57201526 AGTGTCAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
AATAATTTTATTATTTCTAA
Found at i:57203263 original size:20 final size:20
Alignment explanation
Indices: 57203238--57203282 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
57203228 CCTTAATTTG
57203238 TTTTATTTATAAGA-TTATTA
1 TTTTATTTATAA-ATTTATTA
57203258 TTTTATTTATAAATTTATTA
1 TTTTATTTATAAATTTATTA
57203278 TTTTA
1 TTTTA
57203283 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATTTATAAATTTATTA
Found at i:57211366 original size:18 final size:21
Alignment explanation
Indices: 57211340--57211387 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
57211330 ATTAAAAATA
*
57211340 TAATAATTTT-AT-ATTT-TT
1 TAATTATTTTAATGATTTATT
57211358 TAATTATTTTAATGATTTATT
1 TAATTATTTTAATGATTTATT
57211379 TAATT-TTTT
1 TAATTATTTT
57211388 CTTTAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 8 0.31
21 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TAATTATTTTAATGATTTATT
Found at i:57213038 original size:16 final size:16
Alignment explanation
Indices: 57213017--57213048 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57213007 AGTTAAACTC
57213017 AAATTAAGTCTAATAA
1 AAATTAAGTCTAATAA
57213033 AAATTAAGTCTAATAA
1 AAATTAAGTCTAATAA
57213049 TTGAACCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
AAATTAAGTCTAATAA
Found at i:57214457 original size:17 final size:18
Alignment explanation
Indices: 57214435--57214475 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
57214425 TTTTTAAAAT
57214435 TATAAAAAAAAT-AGAAA
1 TATAAAAAAAATGAGAAA
57214452 TAT-AAAAAAATGAGAAA
1 TATAAAAAAAATGAGAAA
57214469 TA-AAAAA
1 TATAAAAA
57214476 TTCAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
TATAAAAAAAATGAGAAA
Found at i:57214460 original size:15 final size:16
Alignment explanation
Indices: 57214436--57214475 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
57214426 TTTTAAAATT
57214436 ATAAAAAAAAT-AGAA
1 ATAAAAAAAATGAGAA
57214451 ATATAAAAAAATGAGAA
1 ATA-AAAAAAATGAGAA
57214468 ATAAAAAA
1 ATAAAAAA
57214476 TTCAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 13 0.57
17 7 0.30
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
ATAAAAAAAATGAGAA
Found at i:57215612 original size:11 final size:12
Alignment explanation
Indices: 57215591--57215620 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
57215581 GTTTATGAAG
57215591 TTTTAATAATAT
1 TTTTAATAATAT
57215603 TTTTAA-AATAT
1 TTTTAATAATAT
57215614 TTTTAAT
1 TTTTAAT
57215621 TTTTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAATAATAT
Found at i:57215686 original size:32 final size:32
Alignment explanation
Indices: 57215650--57215713 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
57215640 TTTCATCTAC
*
57215650 AATGAATC-TAAACAAATAAATGTTCATATTCA
1 AATGAA-CATAAACAAATAAATGTACATATTCA
** *
57215682 AATGAACATGGATAAATAAATGTACATATTCA
1 AATGAACATAAACAAATAAATGTACATATTCA
57215714 TATAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (32 bp):
AATGAACATAAACAAATAAATGTACATATTCA
Found at i:57218401 original size:16 final size:16
Alignment explanation
Indices: 57218376--57218410 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57218366 AAAATGTAAT
*
57218376 TTTATTATTTTAATAA
1 TTTATAATTTTAATAA
*
57218392 TTTATAATTTTTATAA
1 TTTATAATTTTAATAA
57218408 TTT
1 TTT
57218411 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATAATTTTAATAA
Found at i:57221536 original size:12 final size:12
Alignment explanation
Indices: 57221519--57221543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57221509 TCATCTGATG
57221519 AAAATGAAGAGA
1 AAAATGAAGAGA
57221531 AAAATGAAGAGA
1 AAAATGAAGAGA
57221543 A
1 A
57221544 TTCTAGATAT
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AAAATGAAGAGA
Found at i:57224401 original size:23 final size:23
Alignment explanation
Indices: 57224347--57224401 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
57224337 TATACATGAG
*
57224347 GTGCCTGAAATACGACACATAAA
1 GTGCCTGATATACGACACATAAA
57224370 GTGCCTGATATACGACACATAAA
1 GTGCCTGATATACGACACATAAA
57224393 GTGCCTGAT
1 GTGCCTGAT
57224402 CGGCAAAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (23 bp):
GTGCCTGATATACGACACATAAA
Found at i:57227226 original size:30 final size:30
Alignment explanation
Indices: 57227192--57227259 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
57227182 TTCTGAGGCT
* *
57227192 GTGTCTCTCACACGATCGAGACACATGGCC
1 GTGTCTCTCACACGATCGAGACACACGACC
* *
57227222 GTGTCTCTCACACGGTTGAGACACACGACC
1 GTGTCTCTCACACGATCGAGACACACGACC
57227252 GTGTCTCT
1 GTGTCTCT
57227260 TCCTTTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (30 bp):
GTGTCTCTCACACGATCGAGACACACGACC
Found at i:57228312 original size:50 final size:49
Alignment explanation
Indices: 57228199--57228344 Score: 179
Period size: 50 Copynumber: 3.0 Consensus size: 49
57228189 CACATAATAA
* * * *
57228199 GATGCCAACGCCATGTTCCAGATATGGTCTTACATGGGATT-ACCA-CTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTCA-TATCTC
* * *
57228247 GATGCCAATGACATGTCCCATACATGGTCTTACATGGGATCTCATATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TCATATCTC
*
57228297 GATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATTTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTCATATC
57228345 AACGCCATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 35 0.42
49 2 0.02
50 45 0.54
51 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTCATATCTC
Found at i:57231794 original size:16 final size:16
Alignment explanation
Indices: 57231773--57231803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57231763 GATATTTTAA
57231773 TATATTATATTAATAT
1 TATATTATATTAATAT
*
57231789 TATATTATGTTAATA
1 TATATTATATTAATA
57231804 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:57231900 original size:12 final size:12
Alignment explanation
Indices: 57231883--57231913 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57231873 GAAGCAGGGG
57231883 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
57231895 AGAAAAAGGGAA
1 AGAAAAAGAGAA
57231907 AGAAAAA
1 AGAAAAA
57231914 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:57236535 original size:21 final size:20
Alignment explanation
Indices: 57236506--57236544 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57236496 TCATTGAGGT
* *
57236506 AAACATTTTCAATCAAGTTA
1 AAACATTTTAAAACAAGTTA
57236526 AAACTATTTTAAAACAAGT
1 AAAC-ATTTTAAAACAAGT
57236545 CAATATTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (20 bp):
AAACATTTTAAAACAAGTTA
Found at i:57246339 original size:5 final size:5
Alignment explanation
Indices: 57246329--57246359 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
57246319 TTTTAATATC
57246329 CATTT CATTT CATTT ACATTT CATTT CATTT
1 CATTT CATTT CATTT -CATTT CATTT CATTT
57246360 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (5 bp):
CATTT
Found at i:57246350 original size:16 final size:16
Alignment explanation
Indices: 57246329--57246401 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 16
57246319 TTTTAATATC
57246329 CATTTCATTTCATTTA
1 CATTTCATTTCATTTA
57246345 CATTTCATTTCATTTA
1 CATTTCATTTCATTTA
* *
57246361 AATTTAAATTTTCTATTTA
1 CATTT-CA-TTTC-ATTTA
*
57246380 AATTT-ATTT-ATTTA
1 CATTTCATTTCATTTA
57246394 TCATTTCA
1 -CATTTCA
57246402 GTTTTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 5 0.10
15 4 0.08
16 24 0.49
17 2 0.04
18 4 0.08
19 10 0.20
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (16 bp):
CATTTCATTTCATTTA
Found at i:57246410 original size:19 final size:18
Alignment explanation
Indices: 57246386--57246447 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
57246376 TTTAAATTTA
57246386 TTTATTTATCATTTCAGTT
1 TTTATTTATCATTTCA-TT
57246405 TTTATTT-TCATTTTCATT
1 TTTATTTATCA-TTTCATT
** *
57246423 TAAATTTATAATTT-ATT
1 TTTATTTATCATTTCATT
57246440 TTTATTTA
1 TTTATTTA
57246448 AACTTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 9 0.25
18 13 0.36
19 14 0.39
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATTTATCATTTCATT
Found at i:57246482 original size:5 final size:5
Alignment explanation
Indices: 57246472--57246519 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
57246462 TTCATAATCA
* *
57246472 TCATT TCATT TCATT TCATAT TCATT ACAAATT ACATT TCATT TCATT
1 TCATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT TCATT TCATT
57246520 GATTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 28 0.74
6 5 0.13
7 5 0.13
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (5 bp):
TCATT
Found at i:57246532 original size:19 final size:20
Alignment explanation
Indices: 57246508--57246548 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57246498 ACAAATTACA
*
57246508 TTTCATTT-CATTGATTTTT
1 TTTCATTTAAATTGATTTTT
*
57246527 TTTCATTTAAATTTATTTTT
1 TTTCATTTAAATTGATTTTT
57246547 TT
1 TT
57246549 CCTAATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCATTTAAATTGATTTTT
Found at i:57246647 original size:26 final size:25
Alignment explanation
Indices: 57246618--57246674 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
57246608 TTCTTTCCAT
*
57246618 TTTAATTT-AATTTTTTCCTTATTTCA
1 TTTAATTTAAATTTTTT--TCATTTCA
57246644 TTTAAATTTAAATTTTTTTCATTTCA
1 TTT-AATTTAAATTTTTTTCATTTCA
57246670 TTTAA
1 TTTAA
57246675 ATTATCTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.07
26 13 0.46
27 5 0.18
28 8 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTAATTTAAATTTTTTTCATTTCA
Found at i:57246791 original size:25 final size:24
Alignment explanation
Indices: 57246692--57246791 Score: 78
Period size: 25 Copynumber: 4.1 Consensus size: 24
57246682 ATCTTCCTAT
* * * *
57246692 TTTAATTTAATTTTTTGTCATTTCA
1 TTTAAATT-ATTTTTTTTCATGTAA
* *
57246717 TTTAAATTATTTTATTCCATGTAAA
1 TTTAAATTATTTTTTTTCATGT-AA
* * *
57246742 TTTAAATT-TTTTTCTT-ATTTCA
1 TTTAAATTATTTTTTTTCATGTAA
57246764 TTTAAATTATCTTTTTTTCATGTAA
1 TTTAAATTAT-TTTTTTTCATGTAA
57246789 TTT
1 TTT
57246792 TTTTATATCT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
22 9 0.16
23 4 0.07
24 21 0.37
25 23 0.40
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTAAATTATTTTTTTTCATGTAA
Found at i:57246791 original size:47 final size:46
Alignment explanation
Indices: 57246636--57246788 Score: 184
Period size: 47 Copynumber: 3.3 Consensus size: 46
57246626 AATTTTTTCC
* *
57246636 TTATTTCATTTAAATTTAAATTTTTTTCATTTCATTTAAATTATCT
1 TTATTCCATGTAAATTTAAATTTTTTTCATTTCATTTAAATTATCT
* * * *
57246682 ATCTTCCTATTTTAATTT-AATTTTTTGTCATTTCATTTAAATTAT-T
1 TTATTCC-ATGTAAATTTAAATTTTTT-TCATTTCATTTAAATTATCT
57246728 TTATTCCATGTAAATTTAAATTTTTTTCTTATTTCATTTAAATTATCT
1 TTATTCCATGTAAATTTAAATTTTTTTC--ATTTCATTTAAATTATCT
* *
57246776 TTTTTTCATGTAA
1 TTATTCCATGTAA
57246789 TTTTTTTATA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
45 10 0.11
46 26 0.29
47 43 0.47
48 12 0.13
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (46 bp):
TTATTCCATGTAAATTTAAATTTTTTTCATTTCATTTAAATTATCT
Found at i:57251828 original size:21 final size:21
Alignment explanation
Indices: 57251795--57251834 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57251785 AAAAGAGATA
* * *
57251795 TTTGATTTGATGAGTGCAGTC
1 TTTGATGTAATGAATGCAGTC
57251816 TTTGATGTAATGAATGCAG
1 TTTGATGTAATGAATGCAG
57251835 CTAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (21 bp):
TTTGATGTAATGAATGCAGTC
Found at i:57253613 original size:43 final size:43
Alignment explanation
Indices: 57253400--57253606 Score: 261
Period size: 43 Copynumber: 4.8 Consensus size: 43
57253390 TTTGAAAAAT
* * * * *
57253400 CTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAAGATAATGGC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
* *
57253443 CTTTAGTGACGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
* * *
57253486 CTTTAGCAGCACTTTTCCCACAAATGCCGCTAAAAATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
* ** * *
57253529 CTTTGGCAACGCTTTTCCCACAAACGCCACTAAAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
* *
57253572 CTTTAGCGGCACTTTTCCTACAAATGCCGCTAAAG
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAG
57253607 GCCATGAAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 139 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGATCATGAC
Found at i:57255587 original size:126 final size:125
Alignment explanation
Indices: 57255362--57255613 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 125
57255352 TTCCTTATCT
*
57255362 GGTTCCTCACTATGTGAATCAACTTCAATGGGGTTATTATAAACTGGATCCTTATCCAGTTTCCC
1 GGTTCCTCACTATGTGAATCAACATCAATGGGGTTATTATAAACTGGATCCTTATCCAGTTTCCC
57255427 ATTTTCATGAAGAAATGATTTGTCTACTTCAGTCACTTTGTCAATAGACAATTGTGCCAG
66 ATTTTCATGAAGAAATGATTTGTCTACTTCAGTCACTTTGTCAATAGACAATTGTGCCAG
57255487 NGGTTCCTCACTATGTGAATCAACATCAATGGGGTTATTATAAACTGGATCCTTATCCAGTTTCC
1 -GGTTCCTCACTATGTGAATCAACATCAATGGGGTTATTATAAACTGGATCCTTATCCAGTTTCC
57255552 CATTTTCATGAAGAAATGATTTGTCTACTTCAGTCACTTTGTCAATAGACAATTGTGCCAG
65 CATTTTCATGAAGAAATGATTTGTCTACTTCAGTCACTTTGTCAATAGACAATTGTGCCAG
57255613 G
1 G
57255614 TCTGAATCAA
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
125 1 0.01
126 124 0.99
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (125 bp):
GGTTCCTCACTATGTGAATCAACATCAATGGGGTTATTATAAACTGGATCCTTATCCAGTTTCCC
ATTTTCATGAAGAAATGATTTGTCTACTTCAGTCACTTTGTCAATAGACAATTGTGCCAG
Found at i:57257306 original size:33 final size:33
Alignment explanation
Indices: 57257243--57257315 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
57257233 TCATCTTCAC
57257243 TCTCTTCTTCTTCCTCCTCTCCCGTCTTCT-CT
1 TCTCTTCTTCTTCCTCCTCTCCCGTCTTCTCCT
* * *
57257275 TCCTCTTCTTCTTCTTCTTCTTCC-TCGTTCTCCT
1 T-CTCTTCTTCTTCCTCCTCTCCCGTC-TTCTCCT
57257309 TCTCTTC
1 TCTCTTC
57257316 AATATCTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.09
33 29 0.83
34 3 0.09
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (33 bp):
TCTCTTCTTCTTCCTCCTCTCCCGTCTTCTCCT
Found at i:57258140 original size:14 final size:14
Alignment explanation
Indices: 57258115--57258186 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
57258105 CTGAATCATG
*
57258115 AACACTTAACCCTT
1 AACACCTAACCCTT
* *
57258129 AACTCCTAACCCCT
1 AACACCTAACCCTT
57258143 AACACCTAACACC-T
1 AACACCTAAC-CCTT
*
57258157 AACACCTAAACCTT
1 AACACCTAACCCTT
*
57258171 AA-ACCCCAACCCTT
1 AACA-CCTAACCCTT
57258185 AA
1 AA
57258187 ACCATAATCT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 3 0.06
14 43 0.90
15 2 0.04
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (14 bp):
AACACCTAACCCTT
Found at i:57258150 original size:7 final size:7
Alignment explanation
Indices: 57258115--57258169 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
57258105 CTGAATCATG
*
57258115 AACACTT
1 AACACCT
57258122 AAC-CCTT
1 AACACC-T
*
57258129 AACTCCT
1 AACACCT
*
57258136 AACCCCT
1 AACACCT
57258143 AACACCT
1 AACACCT
57258150 AACACCT
1 AACACCT
57258157 AACACCT
1 AACACCT
57258164 AA-ACCT
1 AACACCT
57258170 TAAACCCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 5 0.12
7 36 0.84
8 2 0.05
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (7 bp):
AACACCT
Found at i:57258955 original size:122 final size:123
Alignment explanation
Indices: 57258737--57258996 Score: 427
Period size: 122 Copynumber: 2.1 Consensus size: 123
57258727 GTTATATGAC
*
57258737 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGGTTTATAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGGTTTATAGCGACGTTTTACCAAAAGC
**
57258802 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAACGCCGTTAATGCTCTGGT
66 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAACGCCGCCAATGCTCTGGT
57258860 TTTTAGCGGCGTTTTATC-AAAAGCGCCGCTAATGCTCTGGGTTT-T-GCGACGTTTTACCAAAA
1 TTTTAGCGGCGTTTTA-CAAAAAGCGCCGCTAATGCTCT-GGTTTATAGCGACGTTTTACCAAAA
* * *
57258922 GCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGTCGCCAATGCTGTGGT
64 GCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAACGCCGCCAATGCTCTGGT
57258982 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
57258997 TGGTAAAACG
Statistics
Matches: 129, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
122 86 0.67
123 37 0.29
124 6 0.05
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGGTTTATAGCGACGTTTTACCAAAAGC
GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAACGCCGCCAATGCTCTGGT
Found at i:57259027 original size:41 final size:41
Alignment explanation
Indices: 57258737--57258996 Score: 423
Period size: 41 Copynumber: 6.4 Consensus size: 41
57258727 GTTATATGAC
*
57258737 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
57258778 TTATAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
57258819 TTTTAGCGGCGTTTTACCAAAAACGCCGTTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
57258860 TTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
57258901 TTTT-GCGACGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
57258941 TTTTAGCGGCGTTTTACCAAAAGCGTCGCCAATGCTGTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
57258982 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
57258997 TGGTAAAACG
Statistics
Matches: 202, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 37 0.18
41 165 0.82
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:57259067 original size:12 final size:12
Alignment explanation
Indices: 57259052--57259077 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57259042 TTTTTTGAAT
57259052 AAATGCCGCTAA
1 AAATGCCGCTAA
57259064 AAATGCCGCTAA
1 AAATGCCGCTAA
57259076 AA
1 AA
57259078 CCCTATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:57261274 original size:26 final size:25
Alignment explanation
Indices: 57261241--57261299 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
57261231 TTTGTAATTT
*
57261241 TCCCAAATCACATAGTTTGTTTTACA
1 TCCCAAAT-ACATACTTTGTTTTACA
* **
57261267 TCTCAAATGTATACTTTGTTTTACA
1 TCCCAAATACATACTTTGTTTTACA
57261292 TCCCAAAT
1 TCCCAAAT
57261300 GTACACTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (25 bp):
TCCCAAATACATACTTTGTTTTACA
Found at i:57261284 original size:25 final size:25
Alignment explanation
Indices: 57261256--57261313 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
57261246 AATCACATAG
* *
57261256 TTTGTTTTACATCTCAAATGTATAC
1 TTTGTTTTACATCCCAAATGTACAC
57261281 TTTGTTTTACATCCCAAATGTACAC
1 TTTGTTTTACATCCCAAATGTACAC
*
57261306 TTTTTTTT
1 TTTGTTTT
57261314 TTCAATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (25 bp):
TTTGTTTTACATCCCAAATGTACAC
Found at i:57266685 original size:22 final size:22
Alignment explanation
Indices: 57266660--57266702 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57266650 CACTAAGTCA
* *
57266660 ACAGAACGGCTTAATGCCGTAG
1 ACAGAACGGCTAAAGGCCGTAG
57266682 ACAGAACGGCTAAAGGCCGTA
1 ACAGAACGGCTAAAGGCCGTA
57266703 AATATCGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.28, T:0.14
Consensus pattern (22 bp):
ACAGAACGGCTAAAGGCCGTAG
Found at i:57268693 original size:40 final size:38
Alignment explanation
Indices: 57268649--57268732 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 38
57268639 TAGCAAAGTG
* * *
57268649 AAAACGCATCCTACAGGGCGCGCTTTTATTCTCTCTCCTA
1 AAAACACATCCTACAGGGCACACTTTTA-TCTCTCTCC-A
* *
57268689 AAAACACGTCCTACAGGGCACATTTTTATCTCTCTCCA
1 AAAACACATCCTACAGGGCACACTTTTATCTCTCTCCA
57268727 AAAACA
1 AAAACA
57268733 ACGCCGATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 7 0.18
39 9 0.23
40 23 0.59
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (38 bp):
AAAACACATCCTACAGGGCACACTTTTATCTCTCTCCA
Found at i:57269228 original size:5 final size:5
Alignment explanation
Indices: 57269213--57269243 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
57269203 TCATAACATG
*
57269213 TAAAA TGAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
57269244 TAATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:57269679 original size:139 final size:139
Alignment explanation
Indices: 57269429--57269708 Score: 551
Period size: 139 Copynumber: 2.0 Consensus size: 139
57269419 CAGTATTGCT
57269429 TTTCAAAAGTGTTTTTAAAGCAAAAGTTGAAATTTTATATTTCTACTTTTGACTAAAAAAGTGTT
1 TTTCAAAAGTGTTTTTAAAGCAAAAGTTGAAATTTTATATTTCTACTTTTGACTAAAAAAGTGTT
57269494 TTTGCAAAGTATTTTTTTGTTTTAAAAGCACTTTTGAAAAGCTTAAAAGCATATTATTTAGCAAT
66 TTTGCAAAGTATTTTTTTGTTTTAAAAGCACTTTTGAAAAGCTTAAAAGCATATTATTTAGCAAT
57269559 ATTTTTATC
131 ATTTTTATC
57269568 TTTCAAAAGTGTTTTTAAAGCAAAAGTTGAAATTTTATATTTCTACTTTTGACTAAAAAAGTGTT
1 TTTCAAAAGTGTTTTTAAAGCAAAAGTTGAAATTTTATATTTCTACTTTTGACTAAAAAAGTGTT
*
57269633 TTTGTAAAGTATTTTTTTGTTTTAAAAGCACTTTTGAAAAGCTTAAAAGCATATTATTTAGCAAT
66 TTTGCAAAGTATTTTTTTGTTTTAAAAGCACTTTTGAAAAGCTTAAAAGCATATTATTTAGCAAT
57269698 ATTTTTATC
131 ATTTTTATC
57269707 TT
1 TT
57269709 AAAAATATTT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (139 bp):
TTTCAAAAGTGTTTTTAAAGCAAAAGTTGAAATTTTATATTTCTACTTTTGACTAAAAAAGTGTT
TTTGCAAAGTATTTTTTTGTTTTAAAAGCACTTTTGAAAAGCTTAAAAGCATATTATTTAGCAAT
ATTTTTATC
Found at i:57274092 original size:23 final size:23
Alignment explanation
Indices: 57274066--57274117 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
57274056 TGATTTTTAA
57274066 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
57274089 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
57274112 ATTTAG
1 ATTTAG
57274118 TGATAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:57274093 original size:13 final size:13
Alignment explanation
Indices: 57274075--57274130 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
57274065 AATTTAGAAT
57274075 TATTTAGTGATAA
1 TATTTAGTGATAA
*
57274088 TATTTA--GA-AT
1 TATTTAGTGATAA
57274098 TATTTAGTGATAA
1 TATTTAGTGATAA
57274111 TATTTAGTGATAA
1 TATTTAGTGATAA
57274124 TATTTAG
1 TATTTAG
57274131 AATTATTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 2 0.05
13 27 0.71
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:57274116 original size:36 final size:36
Alignment explanation
Indices: 57274075--57274153 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
57274065 AATTTAGAAT
* * *
57274075 TATTTAGTGATAATATTTAGAATTATTTAGTGATAA
1 TATTTAGTGATAATATTTAGAATTATTCAATAATAA
57274111 TATTTAGTGATAATATTTAGAATTATTCAATAATAA
1 TATTTAGTGATAATATTTAGAATTATTCAATAATAA
57274147 TATTTAG
1 TATTTAG
57274154 GAAAAATCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (36 bp):
TATTTAGTGATAATATTTAGAATTATTCAATAATAA
Found at i:57274680 original size:47 final size:47
Alignment explanation
Indices: 57274611--57274709 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
57274601 TGGCGTATGG
* *
57274611 TTGGGAAGACGAATTGGCCGTGTTGTGTTCGAATCCCCGCGAAGAAA
1 TTGGGAAAACGAATTGGCCGTGTTGTGTTCGAATCCCCGCGAACAAA
* * *
57274658 TTGGGAAAACGAATTGGCCGTGTTGTGTTTGAATTCCTGCGAACAAA
1 TTGGGAAAACGAATTGGCCGTGTTGTGTTCGAATCCCCGCGAACAAA
57274705 TTGGG
1 TTGGG
57274710 GTGTCTAGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (47 bp):
TTGGGAAAACGAATTGGCCGTGTTGTGTTCGAATCCCCGCGAACAAA
Found at i:57276713 original size:25 final size:25
Alignment explanation
Indices: 57276677--57276779 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 25
57276667 ACACACCACA
* *
57276677 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTAGGAGCTTCCCGATATATG
* *
57276702 GCTCTTGGGAGCTTCCCAATA-ACTG
1 GCTCTTAGGAGCTTCCCGATATA-TG
* * *
57276727 GCTTTTATGAGCTTCCTGAT-TAATG
1 GCTCTTAGGAGCTTCCCGATAT-ATG
**
57276752 GCTCTCCGGAGCTTCCCGATAT-TG
1 GCTCTTAGGAGCTTCCCGATATATG
57276776 GCTC
1 GCTC
57276780 GCTTGAACTT
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
24 7 0.12
25 51 0.85
26 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
GCTCTTAGGAGCTTCCCGATATATG
Found at i:57279157 original size:41 final size:43
Alignment explanation
Indices: 57279050--57279207 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
57279040 ATATCGTACA
** * * * ** *
57279050 ATGCCAACATCCCAGACGTGGTGTTACATGCTATCACATATC-
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
57279092 ATTGCCATTGTCCCAGACAGGGTCTTACACGAAAT-AAATAT-G
1 A-TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
57279134 ATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
57279177 ATGCCAACGTCCCA-A-ATGCGGTCTTACACGA
1 ATGCCAATGTCCCAGACAT--GGTCTTACACGA
57279208 GAACACATAT
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 31 0.34
42 13 0.14
43 48 0.52
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:57281413 original size:14 final size:14
Alignment explanation
Indices: 57281390--57281422 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
57281380 CCAAAAACTT
*
57281390 TGTATGCAGATGTA
1 TGTATACAGATGTA
57281404 TGTATACAGATGTA
1 TGTATACAGATGTA
57281418 TGTAT
1 TGTAT
57281423 GCAAATGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (14 bp):
TGTATACAGATGTA
Found at i:57285343 original size:27 final size:27
Alignment explanation
Indices: 57285305--57285359 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57285295 TAAATAATGA
57285305 ACCTCAAGAAAGATGATATGAAAAATT
1 ACCTCAAGAAAGATGATATGAAAAATT
57285332 ACCTCAAGAAAGATGATATGAAAAATT
1 ACCTCAAGAAAGATGATATGAAAAATT
57285359 A
1 A
57285360 ACATCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.22
Consensus pattern (27 bp):
ACCTCAAGAAAGATGATATGAAAAATT
Found at i:57290065 original size:11 final size:11
Alignment explanation
Indices: 57290033--57290065 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57290023 TTTTTTTAAT
*
57290033 AATTAAAGTTT
1 AATTAAAGTTA
57290044 AATTAAA-TTA
1 AATTAAAGTTA
57290054 AATTAAAGTTA
1 AATTAAAGTTA
57290065 A
1 A
57290066 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AATTAAAGTTA
Found at i:57290076 original size:20 final size:21
Alignment explanation
Indices: 57290033--57290080 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
57290023 TTTTTTTAAT
* **
57290033 AATTAAAGTTTAATTAAATTA
1 AATTAAAGTTTAATAAAAGAA
57290054 AATTAAAG-TTAATAAAAGAA
1 AATTAAAGTTTAATAAAAGAA
57290074 AATTAAA
1 AATTAAA
57290081 AAGTGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTAAAGTTTAATAAAAGAA
Found at i:57292284 original size:53 final size:53
Alignment explanation
Indices: 57292179--57292286 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
57292169 CGGATCACAT
* * *
57292179 ATCACACTGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATAATCAC
1 ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATAATCAC
* * * *
57292232 ATCACACCGATGCCATGGCCCAGTTATGGTCTTATACAGAAATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAG-AAGCACATAATCAC
57292285 AT
1 AT
57292287 GTTACCATGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.85
54 7 0.15
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGATATGGTCTTACACAGAAGCACATAATCAC
Found at i:57292923 original size:24 final size:24
Alignment explanation
Indices: 57292896--57292984 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
57292886 CAAGTACACT
*
57292896 TGAATGATTTTGATTAAATATACA
1 TGAATGATCTTGATTAAATATACA
* *
57292920 TGAATGATCTTGAGTGAATATACA
1 TGAATGATCTTGATTAAATATACA
*
57292944 TGAATGATCTTGATTGAATATACA
1 TGAATGATCTTGATTAAATATACA
* *
57292968 TAAATGATCTTTATTAA
1 TGAATGATCTTGATTAA
57292985 TTCTTGATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (24 bp):
TGAATGATCTTGATTAAATATACA
Found at i:57294447 original size:6 final size:6
Alignment explanation
Indices: 57294436--57294566 Score: 244
Period size: 6 Copynumber: 21.8 Consensus size: 6
57294426 GATGTTACAT
*
57294436 ATATAC ATATAC ATATAC AAATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
57294484 ATATAC ATATAC ATATAC ATATAT ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
57294532 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
57294567 TTATTTTTTG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 121 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:57298597 original size:26 final size:26
Alignment explanation
Indices: 57298524--57298604 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
57298514 TGAAATTCCA
57298524 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
57298550 ATCATGG-ACACTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57298575 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57298601 ATCA
1 ATCA
57298605 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 24 0.46
26 28 0.54
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57299398 original size:3 final size:3
Alignment explanation
Indices: 57299392--57299456 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
57299382 TTCTAAGATT
* *
57299392 TTA TTA TTA TTA TTA TTAA TTA TTA TTA TGA TT- TTA -TA TTA -AA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
57299435 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
57299457 GGTTTCATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:57299457 original size:36 final size:37
Alignment explanation
Indices: 57299397--57299486 Score: 128
Period size: 36 Copynumber: 2.4 Consensus size: 37
57299387 AGATTTTATT
*
57299397 ATTATTATTATTAATTATTATTATGATTTTATATTAA
1 ATTATTATTATTAATTATTATTATGATTTCATATTAA
*
57299434 ATTATTATTATT-ATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTAATTATTATTATGATTTCATATTAA
* *
57299470 GTTATAATTATTTAATT
1 ATTATTATTA-TTAATT
57299487 GGTATTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
36 30 0.64
37 14 0.30
38 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (37 bp):
ATTATTATTATTAATTATTATTATGATTTCATATTAA
Found at i:57299814 original size:40 final size:39
Alignment explanation
Indices: 57299770--57299901 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
57299760 TCAAATACAT
*
57299770 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAATTATTAAAACAA-AAACAAATAAAAAATATA
* * *
57299810 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAATTATTAAAACAA-AAACAAA-TAAAAAATATA
* * *
57299851 AT-AAA-AATTGATTATATAATAAAAATATAATAAAAAATATA
1 TTAAAACAATT-ATTA-A-AACAAAAACA-AATAAAAAATATA
57299892 TTAAAACAAT
1 TTAAAACAAT
57299902 ACACATATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
39 4 0.05
40 31 0.42
41 26 0.36
42 9 0.12
43 3 0.04
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (39 bp):
TTAAAACAATTATTAAAACAAAAACAAATAAAAAATATA
Found at i:57299858 original size:19 final size:18
Alignment explanation
Indices: 57299836--57299876 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57299826 AACAATACAC
57299836 AAATTGAAAAATATAATAA
1 AAATTG-AAAATATAATAA
**
57299855 AAATTGATTATATAATAA
1 AAATTGAAAATATAATAA
57299873 AAAT
1 AAAT
57299877 ATAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAATTGAAAATATAATAA
Found at i:57299888 original size:12 final size:12
Alignment explanation
Indices: 57299864--57299902 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
57299854 AAAATTGATT
57299864 ATATAAT-AAAA
1 ATATAATAAAAA
57299875 ATATAATAAAAA
1 ATATAATAAAAA
*
57299887 ATATATTAAAACA
1 ATATAATAAAA-A
57299900 ATA
1 ATA
57299903 CACATATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 7 0.28
12 14 0.56
13 4 0.16
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
ATATAATAAAAA
Found at i:57300187 original size:23 final size:23
Alignment explanation
Indices: 57300161--57300220 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
57300151 ATAATGACAA
* *
57300161 TTGTAATAAAAATATTGGTACAT
1 TTGTAATAAAAATATAGGTACAC
* *
57300184 TTGTAATAAATAGATAGGTACAC
1 TTGTAATAAAAATATAGGTACAC
57300207 TTGTAATAAAAATA
1 TTGTAATAAAAATA
57300221 ACTAATTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (23 bp):
TTGTAATAAAAATATAGGTACAC
Found at i:57301422 original size:23 final size:23
Alignment explanation
Indices: 57301367--57301430 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 23
57301357 GCCGATCAGA
57301367 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCGTATTTTAGG
* **
57301390 CACCTCGTGTGTCG--TTTTAGG
1 CACTTTATGTGTCGTATTTTAGG
*
57301411 CACTTTATGTGTTGTATTTT
1 CACTTTATGTGTCGTATTTT
57301431 GATCAGGTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 17 0.53
23 15 0.47
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (23 bp):
CACTTTATGTGTCGTATTTTAGG
Found at i:57305316 original size:32 final size:32
Alignment explanation
Indices: 57305275--57305338 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
57305265 AACTAGAATG
57305275 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
1 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
57305307 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
1 ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
57305339 CATTTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (32 bp):
ACTTTGCTTTAAACTAATGGGTTTTGAACAAT
Found at i:57306246 original size:17 final size:18
Alignment explanation
Indices: 57306224--57306257 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57306214 CTAATTGTAA
*
57306224 TTTAAAT-TCTAATTATT
1 TTTAAATGTATAATTATT
57306241 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
57306258 CAGAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:57308136 original size:40 final size:40
Alignment explanation
Indices: 57308091--57308282 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
57308081 ATAACCACAA
* * *
57308091 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
57308131 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
57308171 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
57308211 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
57308251 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
57308283 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:57308175 original size:80 final size:80
Alignment explanation
Indices: 57308062--57308281 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
57308052 ACCCAAGTTT
* * * * * * * * *
57308062 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
57308125 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
57308141 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
57308205 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
57308221 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
57308282 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:57312029 original size:51 final size:52
Alignment explanation
Indices: 57311936--57312044 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
57311926 ATGGAAATGG
*
57311936 TGAAAATGAAGAAATGGGAAACATTTGGAAATGATTAAGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
* * *
57311988 TGAAAATGGAGAAAT-GGAATCATTTGGAAATGAATATGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
57312039 TGAAAA
1 TGAAAA
57312045 CAAAAATGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 39 0.74
52 14 0.26
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (52 bp):
TGAAAATGAAGAAATGGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAA
Found at i:57313379 original size:38 final size:38
Alignment explanation
Indices: 57313331--57313404 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
57313321 AATTAAGGTA
*
57313331 AAAGTTTAATTATAGATTAATAAAAAGAAAGGGGGATT
1 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGATT
57313369 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGA
1 AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGA
57313405 CCACAATGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.26
Consensus pattern (38 bp):
AAAGATTAATTATAGATTAATAAAAAGAAAGGGGGATT
Found at i:57313465 original size:3 final size:3
Alignment explanation
Indices: 57313457--57313493 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57313447 AGTAGATTTA
57313457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
57313494 AATAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57313663 original size:41 final size:40
Alignment explanation
Indices: 57313590--57313672 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 40
57313580 AGATATTTAG
* * *
57313590 AATAAATATATTATAATATATATATTAAGTAAATAAATAA
1 AATAAATATATTATAATATATATATAAAGTAAAAAAACAA
57313630 AATAAAGTATA-TAT-ATATATATATAAAAGGTAAAAAAACAA
1 AATAAA-TATATTATAATATATATAT-AAA-GTAAAAAAACAA
57313671 AA
1 AA
57313673 GAAAAAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 10 0.27
40 11 0.30
41 16 0.43
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (40 bp):
AATAAATATATTATAATATATATATAAAGTAAAAAAACAA
Found at i:57317688 original size:25 final size:26
Alignment explanation
Indices: 57317639--57317688 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
57317629 TCTTTTCTAT
*
57317639 TCTTTTCATTTTTAGTTGAGGTTTTC
1 TCTTTTCATTTTTAGTTGAGATTTTC
57317665 TCTTTTC-TTTTTAGGTT-AGATTTT
1 TCTTTTCATTTTTA-GTTGAGATTTT
57317689 ATTTTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAGTTGAGATTTTC
Found at i:57322007 original size:28 final size:28
Alignment explanation
Indices: 57321907--57322007 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
57321897 TAGAGTTAAC
* * * *
57321907 TGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCCATAGCCCATATCAGTATCAATT
*
57321935 TGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 TGGGCCATAGCCCATAT-CAGTATCA-A-T-T
57321966 ACTGGGCC-TAGCCCATATCAGTATCAATT
1 --TGGGCCATAGCCCATATCAGTATCAATT
57321995 TGGGCCATAGCCC
1 TGGGCCATAGCCC
57322008 TATTATAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 7 0.12
28 25 0.42
29 2 0.03
30 2 0.03
31 1 0.02
32 15 0.25
33 7 0.12
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (28 bp):
TGGGCCATAGCCCATATCAGTATCAATT
Found at i:57322032 original size:60 final size:59
Alignment explanation
Indices: 57321905--57322043 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
57321895 ATTAGAGTTA
* * *
57321905 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAG-ATCAGAGTAT
* *
57321966 ACTGGGCCTAGCCCATATCAGTATCAATTTGGGCCATAGCCCTATTATAAG-TC-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTA-AAGATCAGAG-TAT
* *
57322026 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
57322044 TAACACAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 52 0.76
61 11 0.16
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAGATCAGAGTAT
Found at i:57322089 original size:19 final size:19
Alignment explanation
Indices: 57322036--57322090 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
57322026 ATTGGGCCTT
*
57322036 GCCCATATTAACACAGTTGG
1 GCCCATA-TAAAACAGTTGG
*
57322056 GCCCAT-TCAATACAGTT-G
1 GCCCATAT-AAAACAGTTGG
57322074 GCCCATAATAAAACAGT
1 GCCCAT-ATAAAACAGT
57322091 CTCATATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 8 0.27
19 15 0.50
20 7 0.23
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (19 bp):
GCCCATATAAAACAGTTGG
Found at i:57327425 original size:22 final size:23
Alignment explanation
Indices: 57327400--57327442 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
57327390 AATACACATT
57327400 AATTGCCATAT-CAAA-ACCTACC
1 AATT-CCATATCCAAATACCTACC
*
57327422 AATTTCATATCCAAATACCTA
1 AATTCCATATCCAAATACCTA
57327443 TTTAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (23 bp):
AATTCCATATCCAAATACCTACC
Found at i:57332001 original size:2 final size:2
Alignment explanation
Indices: 57331996--57332027 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57331986 TGTGTTTTTC
57331996 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57332028 TATATAGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57332077 original size:18 final size:18
Alignment explanation
Indices: 57332054--57332093 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
57332044 ATAATAAAAT
57332054 AATAAAATATCTTATTAA
1 AATAAAATATCTTATTAA
57332072 AATAAAATATCTTATTAA
1 AATAAAATATCTTATTAA
57332090 AATA
1 AATA
57332094 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAATATCTTATTAA
Found at i:57340686 original size:17 final size:17
Alignment explanation
Indices: 57340664--57340698 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57340654 TCGTGATCTT
*
57340664 TTAATGAAGGTTCTATG
1 TTAATGAAGGTTCCATG
57340681 TTAATGAAGGTTCCATG
1 TTAATGAAGGTTCCATG
57340698 T
1 T
57340699 CAATTAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (17 bp):
TTAATGAAGGTTCCATG
Done.