Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 100 of 167
Found at i:33009599 original size:21 final size:23
Alignment explanation
Indices: 33009573--33009634 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
33009563 ATAATAAAAT
*
33009573 TTATAAACAAAATATATA-ATAA
1 TTATAAACAATATATATAGATAA
33009595 -TATAAACAATAT-TATAGATAA
1 TTATAAACAATATATATAGATAA
*
33009616 TTTATAAATAATATATATA
1 -TTATAAACAATATATATA
33009635 CTATTTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.12
21 15 0.44
23 11 0.32
24 4 0.12
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
TTATAAACAATATATATAGATAA
Found at i:33009620 original size:44 final size:41
Alignment explanation
Indices: 33009542--33009634 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 41
33009532 AAGGAATAAT
33009542 ATATAGTAAAATATATAACATATAATAAAATTTATAAACAAA
1 ATATA-TAAAATATATAACATATAATAAAATTTATAAACAAA
* * *
33009584 ATATATAATAATATA-AACAATATTATAGATAATTTATAAATAAT
1 ATATATAA-AATATATAAC-ATATAATA-A-AATTTATAAACAAA
33009628 ATATATA
1 ATATATA
33009635 CTATTTACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 6 0.14
42 18 0.41
43 1 0.02
44 19 0.43
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (41 bp):
ATATATAAAATATATAACATATAATAAAATTTATAAACAAA
Found at i:33009629 original size:42 final size:42
Alignment explanation
Indices: 33009536--33009632 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
33009526 TAATGTAAGG
33009536 AATAATATATAGTAAAATATATAACATATAATAAAATTTATAA
1 AATAATATATAG-AAAATATATAACATATAATAAAATTTATAA
* * *
33009579 ACAAAATATATA-ATAATATA-AACAATATTATAGATAATTTAT-A
1 A-ATAATATATAGAAAATATATAAC-ATATAATA-A-AATTTATAA
33009622 AATAATATATA
1 AATAATATATA
33009633 TACTATTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
41 3 0.07
42 23 0.50
43 4 0.09
44 16 0.35
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (42 bp):
AATAATATATAGAAAATATATAACATATAATAAAATTTATAA
Found at i:33011240 original size:44 final size:44
Alignment explanation
Indices: 33011098--33011342 Score: 192
Period size: 44 Copynumber: 5.5 Consensus size: 44
33011088 TGCATCTCGC
* *
33011098 CTAATACAGAGACACCAAATCATGCTATCTTCGATCTGCTCTCTGT
1 CTAATACAGAGACGCCAAATC-TGCT-TCTTCGATCTGCTCTCTAT
** * * * * *
33011144 C-AATACAGAGATACTAGATGTGCTTTCTTCGATCTGCTATCCAT
1 CTAATACAGAGACGCCAAATCTGC-TTCTTCGATCTGCTCTCTAT
* * *
33011188 C-AACACAGAGACGCCAAATCTTCTTCTTTGATCTGCTCTCTAT
1 CTAATACAGAGACGCCAAATCTGCTTCTTCGATCTGCTCTCTAT
* * * *
33011231 CTAATACAGAGACGCCAAATCTATCATCCTCGATCTGCT-TCGAT
1 CTAATACAGAGACGCCAAATCT-GCTTCTTCGATCTGCTCTCTAT
* * * * * *
33011275 GTAA-ACACACGAATGCTAGATCTGCTATCTTTGATCTGCTCTCTAT
1 CTAATACAGA-G-ACGCCAAATCTGCT-TCTTCGATCTGCTCTCTAT
*
33011321 CTAATACAGAGATGCCAAATCT
1 CTAATACAGAGACGCCAAATCT
33011343 ACTATTGGTG
Statistics
Matches: 155, Mismatches: 36, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
43 22 0.14
44 63 0.41
45 57 0.37
46 9 0.06
47 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
CTAATACAGAGACGCCAAATCTGCTTCTTCGATCTGCTCTCTAT
Found at i:33011311 original size:133 final size:134
Alignment explanation
Indices: 33011098--33011342 Score: 311
Period size: 133 Copynumber: 1.8 Consensus size: 134
33011088 TGCATCTCGC
* * *
33011098 CTAATACAGAGACACCAAATCATGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATACTAGAT
1 CTAATACAGAGACACCAAATCATGCTATCCTCGATCTGCTCTCTGTAAACACAGAGATACTAGAT
* *
33011163 GTGCTTTCTTCGATCTGCTATCCATC-AACACAGAGACGCCAAATCTTCTTCTTTGATCTGCTCT
66 CTGCTATCTTCGATCTGCTATCCATCTAACACAGAGACGCCAAATCTTCTTCTTTGATCTGCTCT
33011227 CTAT
131 CTAT
* *
33011231 CTAATACAGAGACGCCAAATCTAT-C-ATCCTCGATCTGCT-TCGATGTAAACACACGA-ATGCT
1 CTAATACAGAGACACCAAATC-ATGCTATCCTCGATCTGCTCTC--TGTAAACACA-GAGATACT
* * * * *
33011292 AGATCTGCTATCTTTGATCTGCTCTCTATCTAATACAGAGATGCCAAATCT
62 AGATCTGCTATCTTCGATCTGCTATCCATCTAACACAGAGACGCCAAATCT
33011343 ACTATTGGTG
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
131 2 0.02
132 13 0.14
133 58 0.61
134 22 0.23
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (134 bp):
CTAATACAGAGACACCAAATCATGCTATCCTCGATCTGCTCTCTGTAAACACAGAGATACTAGAT
CTGCTATCTTCGATCTGCTATCCATCTAACACAGAGACGCCAAATCTTCTTCTTTGATCTGCTCT
CTAT
Found at i:33011815 original size:25 final size:25
Alignment explanation
Indices: 33011787--33011836 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33011777 ATGCAAAACT
33011787 TCATTTGTAAAATATTTAGTTCATC
1 TCATTTGTAAAATATTTAGTTCATC
33011812 TCATTTGTAAAATATTTAGTTCATC
1 TCATTTGTAAAATATTTAGTTCATC
33011837 AATCATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
TCATTTGTAAAATATTTAGTTCATC
Found at i:33018692 original size:4 final size:4
Alignment explanation
Indices: 33018683--33018789 Score: 56
Period size: 4 Copynumber: 24.8 Consensus size: 4
33018673 TACCTAATAC
* * *
33018683 TTAT TTAT TTA- TTAT TTAT ATCTAT TATAT TTGT TTAT TTAT TTGT TCAT
1 TTAT TTAT TTAT TTAT TTAT -T-TAT T-TAT TTAT TTAT TTAT TTAT TTAT
* *
33018733 TTAT TTGAAT TTAAT GTTAT GTATAT TTGTT TTAT TTAT TCAT TTA- TTAT
1 TTAT TT--AT TT-AT -TTAT -T-TAT TT-AT TTAT TTAT TTAT TTAT TTAT
*
33018783 TCAT TTA
1 TTAT TTA
33018790 ATTTTTTTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
3 6 0.07
4 46 0.57
5 17 0.21
6 12 0.15
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (4 bp):
TTAT
Found at i:33019255 original size:2 final size:2
Alignment explanation
Indices: 33019250--33019274 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33019240 ATTTCAAATA
33019250 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33019275 AAGATAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33029552 original size:26 final size:25
Alignment explanation
Indices: 33029501--33029556 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
33029491 GTGTTTTTTC
** *
33029501 TAGGGCTTAGGGTTATTTGCATGTT
1 TAGGGCTTAGGGTTATAGGCAGGTT
*
33029526 TAGGGCTTAGGGTTTATAGGTAGGTT
1 TAGGGCTTAGGG-TTATAGGCAGGTT
33029552 TAGGG
1 TAGGG
33029557 TTTTTGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.18, C:0.05, G:0.38, T:0.39
Consensus pattern (25 bp):
TAGGGCTTAGGGTTATAGGCAGGTT
Found at i:33030132 original size:25 final size:25
Alignment explanation
Indices: 33030101--33030172 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
33030091 TTACAGCAAG
* *
33030101 AGAAATTGGAGAAGTTTAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
33030126 AGAAATTGAAGAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
33030151 AGAAATTGAAGAAGTTGAGAAG
1 AGAAATTGAAGAAGTTCAGAAG
33030173 GTATAAGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.51, C:0.01, G:0.26, T:0.21
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:33037813 original size:21 final size:21
Alignment explanation
Indices: 33037789--33037835 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
33037779 TGTGGGGGTC
33037789 TACACGCCCATGTGAAGGCCA
1 TACACGCCCATGTGAAGGCCA
**
33037810 TACACGCCTGTGTGAAGGCCA
1 TACACGCCCATGTGAAGGCCA
*
33037831 CACAC
1 TACAC
33037836 ATGTGGAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (21 bp):
TACACGCCCATGTGAAGGCCA
Found at i:33037833 original size:19 final size:19
Alignment explanation
Indices: 33037799--33037855 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
33037789 TACACGCCCA
33037799 TGTGAAGGCCATACACGCCTG
1 TGTGAAGGCC--ACACGCCTG
* *
33037820 TGTGAAGGCCACACACATG
1 TGTGAAGGCCACACGCCTG
*
33037839 TG-GAGAGGGCACACGCC
1 TGTGA-AGGCCACACGCC
33037856 CATGTGAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
21 10 0.33
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.14
Consensus pattern (19 bp):
TGTGAAGGCCACACGCCTG
Found at i:33041690 original size:49 final size:47
Alignment explanation
Indices: 33041567--33041883 Score: 165
Period size: 46 Copynumber: 6.7 Consensus size: 47
33041557 AGGGTATAAT
** *
33041567 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCATCAATCAA
* * *
33041614 GTCGATGCCATGTCCCAGACATAGTCTTACACTGAAT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCATC--AATC-AA
* * ** **
33041663 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-AATCATCA-AT-CAA
* * *
33041713 GCCGATGCCATGTCCCAGGCATGGTCTTATACTGACA-CATC--TCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-ATCATCAATC-AA
* * ** *
33041759 GCCGAT-ACATGTCCCAAACAT-GTCTTACACTGGCTTACATC--TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAAT-CATCAATC-AA
* * * **
33041805 GTCGAT-ACATGTCCCAGACAT-GTCATACACTAGCTTTCATC--TCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-AATCATCAATCAA
* *
33041850 TGTCGATGCCATGTCCCAGACATGGTTTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
33041884 AGCTCTTATA
Statistics
Matches: 213, Mismatches: 39, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.04
45 15 0.07
46 58 0.27
47 49 0.23
48 13 0.06
49 33 0.15
50 32 0.15
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCATCAATCAA
Found at i:33041763 original size:96 final size:92
Alignment explanation
Indices: 33041567--33041888 Score: 223
Period size: 96 Copynumber: 3.4 Consensus size: 92
33041557 AGGGTATAAT
* *
33041567 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAG
1 GCCGA-GCCATGTCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
*
33041632 ACATAGTCTTACACTGAATATCGAAATCGAG
65 ACATAGTCTTACACTGAACATC---ATCGAG
*
33041663 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACAT-ATCCGTGCCGATGCCATGT
1 GCCGA-GCCATGTCCCAAACATGGTCTTACACTAGCTCATC-CATCA--AGT--CGATGCCATGT
* * *
33041726 CCCAGGCATGGTCTTATACTGACACATC-TCGTA-
60 CCCAGACATAGTCTTACACTGA-ACATCATCG-AG
** * * *
33041759 GCCGATACATGTCCCAAACAT-GTCTTACACTGGCTTACAT-C-TCGAGGTCGAT-ACATGTCCC
1 GCCGAGCCATGTCCCAAACATGGTCTTACACTAGC-T-CATCCATC-AAGTCGATGCCATGTCCC
* * * * *
33041820 AGACAT-GTCATACACT-AGCTTTCATCTCAAT
63 AGACATAGTCTTACACTGAAC-ATCA--TCGAG
* * *
33041851 GTCGATGCCATGTCCCAGACATGGTTTTACACTAGCTC
1 GCCGA-GCCATGTCCCAAACATGGTCTTACACTAGCTC
33041889 TTATAATGTG
Statistics
Matches: 182, Mismatches: 25, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
88 1 0.01
89 3 0.02
90 8 0.04
91 14 0.08
92 11 0.06
93 14 0.08
94 26 0.14
95 19 0.10
96 48 0.26
97 4 0.02
99 30 0.16
100 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (92 bp):
GCCGAGCCATGTCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGA
CATAGTCTTACACTGAACATCATCGAG
Found at i:33041799 original size:46 final size:47
Alignment explanation
Indices: 33041671--33041887 Score: 171
Period size: 46 Copynumber: 4.6 Consensus size: 47
33041661 AGGCCGACGC
* *
33041671 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCT-T-ACATCT-CGTAGCCGAT-A
** *
33041721 CATGTCCCAGGCATGGTCTTATACT-GAC--ACATCTCGTAGCCGATA
1 CATGTCCCAAACATGGTCTTACACTAG-CTTACATCTCGTAGCCGATA
* *
33041766 CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCG-AGGTCGATA
1 CATGTCCCAAACATGGTCTTACACTAGCTTACATCTCGTA-GCCGATA
* * * * * *
33041812 CATGTCCCAGACAT-GTCATACACTAGCTTTCATCTC-AATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTTACATCTCGTA-GCCGAT-A
* *
33041859 CATGTCCCAGACATGGTTTTACACTAGCT
1 CATGTCCCAAACATGGTCTTACACTAGCT
33041888 CTTATAATGT
Statistics
Matches: 141, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 64 0.45
47 14 0.10
48 12 0.09
49 1 0.01
50 23 0.16
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTAGCTTACATCTCGTAGCCGATA
Found at i:33049863 original size:786 final size:786
Alignment explanation
Indices: 33048351--33049908 Score: 2990
Period size: 786 Copynumber: 2.0 Consensus size: 786
33048341 AAGTCAGAAT
33048351 AGGGGATCCAGAAATCGCTCTGGCCCTGTTTCACGAAAACTTAAACATCTCATAAAATACGGCAC
1 AGGGGATCCAGAAATCGCTCTGGCCCTGTTTCACGAAAACTTAAACATCTCATAAAATACGGCAC
33048416 ATACGGTTGTTTTGTTTCTTTCATATGAAAATAGACTCATCAAAATTTGATTACATAATTTATTC
66 ATACGGTTGTTTTGTTTCTTTCATATGAAAATAGACTCATCAAAATTTGATTACATAATTTATTC
*
33048481 ATTATTTAATTTCATTTATACTATTTTTAGTGATTTTTCAAATTCACATGACTGCTGCTGCCAGC
131 ATTATTTAATTTCATTTATACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGCCAGC
33048546 ATCTATTTTAAGGTAAATTTTACCTATTTCATAGTTTTCCATGAATCAACTAGTAATTTGACATA
196 ATCTATTTTAAGGTAAATTTTACCTATTTCATAGTTTTCCATGAATCAACTAGTAATTTGACATA
33048611 CATTATTTCCAAGTATAATCACGATTAGCCATGACATACGTAGCACCAATAGGGCCATGATTGGC
261 CATTATTTCCAAGTATAATCACGATTAGCCATGACATACGTAGCACCAATAGGGCCATGATTGGC
33048676 CATTCCAATGGCTAATCATTACCAAACATTTCCACACCACTTAATAACCATATCATAAGACCATA
326 CATTCCAATGGCTAATCATTACCAAACATTTCCACACCACTTAATAACCATATCATAAGACCATA
33048741 TATACAAAATGATCATAATGTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATA
391 TATACAAAATGATCATAATGTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATA
33048806 TACATTACCAAAAGATACTTAATTAACAACAAGGGTCAGCCCTATACATGCCATTATCAAGTTCA
456 TACATTACCAAAAGATACTTAATTAACAACAAGGGTCAGCCCTATACATGCCATTATCAAGTTCA
*
33048871 ACTGAAGAGTACCAAAAAATGGCTTAGATAGTGTGGATGACTTCAACTTTGACACCTCCAAGTCC
521 ACTGAAGAGTACCAAAAAATGGCTTAGACAGTGTGGATGACTTCAACTTTGACACCTCCAAGTCC
33048936 GATAGCTGACGAACAAAATCTATAATACAGAGAATTTAAGCAACAGAGTAAGCGTCTCGATGCTT
586 GATAGCTGACGAACAAAATCTATAATACAGAGAATTTAAGCAACAGAGTAAGCGTCTCGATGCTT
33049001 AGTAAGTTTATAAGGAAGGAACTCATTTGAAACAAAAACACAAAAGAAATAGCATTCATAAGGAT
651 AGTAAGTTTATAAGGAAGGAACTCATTTGAAACAAAAACACAAAAGAAATAGCATTCATAAGGAT
*
33049066 AAATAAATGCCTATGCACAAGATCACGTATTCGTTTTAATTTACACTTTTATCAATATGTATTAT
716 AAATAAATGCCTATGCACAAGATCACGTATTCATTTTAATTTACACTTTTATCAATATGTATTAT
33049131 TACGAC
781 TACGAC
*
33049137 AGGGGATCCAGAAATCGCTCTGGCCCTGTTTCACGAAAACTTAAACATCTCATAAAATACGGCTC
1 AGGGGATCCAGAAATCGCTCTGGCCCTGTTTCACGAAAACTTAAACATCTCATAAAATACGGCAC
* *
33049202 ATATGGTTGTTTTGTTTTTTTCATATGAAAATAGACTCATCAAAATTTGATTACATAATTTATTC
66 ATACGGTTGTTTTGTTTCTTTCATATGAAAATAGACTCATCAAAATTTGATTACATAATTTATTC
* * *
33049267 ATTATTTAATTTCATTTATAGTATTTTTAGTGATTTTTCAAATTCGCATCACTGCTGCTGTCAGC
131 ATTATTTAATTTCATTTATACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGCCAGC
33049332 ATCTATTTTAAGGTAAATTTTACCTATTTCATAGTTTTCCATGAATCAACTAGTAATTTGACATA
196 ATCTATTTTAAGGTAAATTTTACCTATTTCATAGTTTTCCATGAATCAACTAGTAATTTGACATA
33049397 CATTATTTCCAAGTATAATCACGATTAGCCATGACATACGTAGCACCAATAGGGCCATGATTGGC
261 CATTATTTCCAAGTATAATCACGATTAGCCATGACATACGTAGCACCAATAGGGCCATGATTGGC
33049462 CATTCCAATGGCTAATCATTACCAAACATTTCCACACCACTTAATAACCATATCATAAGACCATA
326 CATTCCAATGGCTAATCATTACCAAACATTTCCACACCACTTAATAACCATATCATAAGACCATA
33049527 TATACAAAATGATCATAATGTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATA
391 TATACAAAATGATCATAATGTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATA
33049592 TACATTACCAAAAGATACTTAATTAACAACAAGGGTCAGCCCTATACATGCCATTATCAAGTTCA
456 TACATTACCAAAAGATACTTAATTAACAACAAGGGTCAGCCCTATACATGCCATTATCAAGTTCA
* * *
33049657 ACTGAAGAGTACCAAAAAGTGGCTTAGACAGTGTGGATGACTTCGACTTTGACACCTCCGAGTCC
521 ACTGAAGAGTACCAAAAAATGGCTTAGACAGTGTGGATGACTTCAACTTTGACACCTCCAAGTCC
33049722 GATAGCTGACGAACAAAATCTATAATACAGAGAATTTAAGCAACAGAGTAAGCGTCTCGATGCTT
586 GATAGCTGACGAACAAAATCTATAATACAGAGAATTTAAGCAACAGAGTAAGCGTCTCGATGCTT
*
33049787 AGTAAGTTTATAAGTAAGGAACTCATTTGAAACAAAAACACAAAAGAAATAGCATTCATAAGGAT
651 AGTAAGTTTATAAGGAAGGAACTCATTTGAAACAAAAACACAAAAGAAATAGCATTCATAAGGAT
*
33049852 AAATAAATGCCTATGCACAAGATCACGTATTCATTTTAATTTACACTTTTGTCAATA
716 AAATAAATGCCTATGCACAAGATCACGTATTCATTTTAATTTACACTTTTATCAATA
33049909 GGTTTATACA
Statistics
Matches: 758, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
786 758 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (786 bp):
AGGGGATCCAGAAATCGCTCTGGCCCTGTTTCACGAAAACTTAAACATCTCATAAAATACGGCAC
ATACGGTTGTTTTGTTTCTTTCATATGAAAATAGACTCATCAAAATTTGATTACATAATTTATTC
ATTATTTAATTTCATTTATACTATTTTTAGTGATTTTTCAAATTCACATCACTGCTGCTGCCAGC
ATCTATTTTAAGGTAAATTTTACCTATTTCATAGTTTTCCATGAATCAACTAGTAATTTGACATA
CATTATTTCCAAGTATAATCACGATTAGCCATGACATACGTAGCACCAATAGGGCCATGATTGGC
CATTCCAATGGCTAATCATTACCAAACATTTCCACACCACTTAATAACCATATCATAAGACCATA
TATACAAAATGATCATAATGTTATACTCAAAATATACAAGCCATTTTCGCATGGCTATACGAATA
TACATTACCAAAAGATACTTAATTAACAACAAGGGTCAGCCCTATACATGCCATTATCAAGTTCA
ACTGAAGAGTACCAAAAAATGGCTTAGACAGTGTGGATGACTTCAACTTTGACACCTCCAAGTCC
GATAGCTGACGAACAAAATCTATAATACAGAGAATTTAAGCAACAGAGTAAGCGTCTCGATGCTT
AGTAAGTTTATAAGGAAGGAACTCATTTGAAACAAAAACACAAAAGAAATAGCATTCATAAGGAT
AAATAAATGCCTATGCACAAGATCACGTATTCATTTTAATTTACACTTTTATCAATATGTATTAT
TACGAC
Found at i:33050339 original size:40 final size:40
Alignment explanation
Indices: 33050182--33050331 Score: 237
Period size: 40 Copynumber: 3.8 Consensus size: 40
33050172 CGGATGTAAC
* * *
33050182 AACCAGCACAAATGCTTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
* * *
33050222 AACTCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
*
33050262 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
33050302 AACCCGCACGAATGCCTTCGGGACTTAACC
1 AACCCGCACGAATGCCTTCGGGACTTAACC
33050332 TGGTTATATT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
Found at i:33052218 original size:28 final size:28
Alignment explanation
Indices: 33052185--33052250 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
33052175 CTTGTCTATG
*
33052185 GCCCGTGTCCCTCACATGACCATGACAC
1 GCCCGTGTCCCTCACATGACCACGACAC
33052213 GCCCGTGTCCCTCACATGACCACGACAC
1 GCCCGTGTCCCTCACATGACCACGACAC
*
33052241 ACCCGTGTCC
1 GCCCGTGTCC
33052251 TAGGCCGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (28 bp):
GCCCGTGTCCCTCACATGACCACGACAC
Found at i:33053403 original size:92 final size:93
Alignment explanation
Indices: 33053246--33053458 Score: 247
Period size: 92 Copynumber: 2.3 Consensus size: 93
33053236 ATGCCAATAC
* **
33053246 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAATCGATGCCATGTCCCAGGCATGGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCTCATCCATCAAATCGATGCCATGTCCCAAACATGGTC
* **
33053311 TTATACT-G-ACACATCTTGTAGCCGATG
65 TTACACTAGCACACATAATGTAGCCGATG
*
33053338 CATGTCCCAGACATGTCTTACACTAGCTCTAGT-C-TC-AATGCCGATGCCATGTCTCAAACATG
1 CATGTCCCAGACATGTCTTACACTAGCTC-A-TCCATCAAAT--CGATGCCATGTCCCAAACATG
* * *
33053400 GTCTTACACTAGCTCTCATAATGTGGCCGATG
62 GTCTTACACTAGCACACATAATGTAGCCGATG
*
33053432 CATGTCCCAGACATGTATTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
33053459 GCACAAAGGA
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
90 3 0.03
91 16 0.15
92 43 0.41
93 2 0.02
94 40 0.38
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCATCCATCAAATCGATGCCATGTCCCAAACATGGTCT
TACACTAGCACACATAATGTAGCCGATG
Found at i:33053436 original size:47 final size:44
Alignment explanation
Indices: 33053331--33053458 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 44
33053321 ACATCTTGTA
33053331 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTA--CTCAAT
* *
33053377 GCCGATGCCATGTCTCAAACATGGTCTTACACTAGCTCT-CAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTAC-TCAA--T
*
33053424 GGCCGATGCATGTCCCAGACATGTATTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
33053459 GCACAAAGGA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
45 3 0.04
46 20 0.28
47 25 0.35
48 23 0.32
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACTCAAT
Found at i:33055640 original size:21 final size:22
Alignment explanation
Indices: 33055614--33055656 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33055604 CTACTTTTCA
*
33055614 AAAAAATA-ATTCAATTTATTT
1 AAAAAATATATTCAATTAATTT
*
33055635 AAAAAATATATTTAATTAATTT
1 AAAAAATATATTCAATTAATTT
33055657 TTTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAAATATATTCAATTAATTT
Found at i:33062338 original size:40 final size:40
Alignment explanation
Indices: 33062191--33062376 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
33062181 TTGAATGATG
* * * * *
33062191 TCCGGGCTAAGTCCCGAAGGC-TTTGTCCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
33062231 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33062271 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33062311 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33062352 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33062377 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33062394 original size:80 final size:79
Alignment explanation
Indices: 33062244--33062409 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 79
33062234 GGACTAAGAT
* ** *
33062244 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGTATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTA
*
33062309 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
33062324 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GA
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA
*
33062385 GCTATATCCGGTTAAATC
63 -CTAAATCCGGTTAAATC
33062403 CCGAAGG
1 CCGAAGG
33062410 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
79 18 0.24
80 54 0.73
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTA
AATCCGGTTAAATC
Found at i:33064212 original size:103 final size:104
Alignment explanation
Indices: 33064033--33064296 Score: 406
Period size: 103 Copynumber: 2.5 Consensus size: 104
33064023 ACCGTTATTA
* * * * *
33064033 GTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAGAA
** *
33064098 TCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATACG
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
33064136 GTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGAGA
1 GTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGAGA
33064200 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
* **
33064240 GTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
33064297 TTATGTACAA
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 80 0.54
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
Found at i:33073264 original size:31 final size:31
Alignment explanation
Indices: 33073203--33073265 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
33073193 TTTCTCGACT
* *
33073203 CGCTCTGGGTAGTCCCTGAGAAAAAGTGGTCA
1 CGCTCTGGGCAATCCCTGAG-AAAAGTGGTCA
*
33073235 NCGCTCTGGGCAATCCCTGAG-GAAGTGGTCA
1 -CGCTCTGGGCAATCCCTGAGAAAAGTGGTCA
33073266 AGAGAACCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
33 18 0.67
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.21
Consensus pattern (31 bp):
CGCTCTGGGCAATCCCTGAGAAAAGTGGTCA
Found at i:33093405 original size:15 final size:15
Alignment explanation
Indices: 33093385--33093413 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33093375 AAAATATTAG
33093385 TATATTATATTATAC
1 TATATTATATTATAC
33093400 TATATTATATTATA
1 TATATTATATTATA
33093414 ATTAAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATATTATAC
Found at i:33093654 original size:14 final size:13
Alignment explanation
Indices: 33093627--33093668 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
33093617 AAAACAGGGG
33093627 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
33093640 AAAGAAAGAAAGAA
1 AAAGAAAG-AAGAA
*
33093654 AAAGAAAGGAGAA
1 AAAGAAAGAAGAA
33093667 AA
1 AA
33093669 TTTAGGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:33094892 original size:16 final size:15
Alignment explanation
Indices: 33094842--33094893 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
33094832 TTATATACTT
*
33094842 ATGAATTGAGTATGGT
1 ATGAATTGAGTAT-GC
* *
33094858 ATGAAATGATGTATTC
1 ATGAATTGA-GTATGC
33094874 ATGAATTGAGTACTGC
1 ATGAATTGAGTA-TGC
33094890 ATGA
1 ATGA
33094894 CTGATGCCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (15 bp):
ATGAATTGAGTATGC
Found at i:33096029 original size:30 final size:28
Alignment explanation
Indices: 33095990--33096051 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
33095980 ATGGATTTAA
33095990 ATTACTTATTATTAAAGTAAATAGATATTT
1 ATTACTTATTATT-AAGTAAA-AGATATTT
*
33096020 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
33096048 ATTA
1 ATTA
33096052 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:33097239 original size:18 final size:18
Alignment explanation
Indices: 33097216--33097319 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
33097206 TAAACTATTG
33097216 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
33097234 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
33097254 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
* ** *
33097273 TATTGAATAACTAAACTACT
1 TACTGAATAA-TTGA-TAGT
* *
33097293 GCACTGAATATTTGATAGT
1 -TACTGAATAATTGATAGT
33097312 TACTGAAT
1 TACTGAAT
33097320 GACTAAATTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 27 0.43
19 10 0.16
20 10 0.16
21 16 0.25
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:33097262 original size:39 final size:39
Alignment explanation
Indices: 33097214--33097356 Score: 214
Period size: 39 Copynumber: 3.7 Consensus size: 39
33097204 GGTAAACTAT
33097214 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * *
33097253 TGTATTGAATAATTGATAGTTATTGAATAACTAAACTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * *
33097292 TGCACTGAATATTTGATAGTTACTGAATGACTAAATTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* *
33097331 TGTACTGAATAACTGATTGTTACTGA
1 TGTACTGAATAATTGATAGTTACTGA
33097357 TTAAATATGA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (39 bp):
TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
Found at i:33099314 original size:25 final size:25
Alignment explanation
Indices: 33099256--33099328 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
33099246 AAAAGCGTAC
* *
33099256 ACGACGATGGAGCAGAGGACTATCG
1 ACGACGATGCAGCAGAGGACTATCA
*
33099281 AC-AGTGATGCAGCAGAGGACTATCA
1 ACGA-CGATGCAGCAGAGGACTATCA
** *
33099306 ACGACGATGTTGGAGAGGACTAT
1 ACGACGATGCAGCAGAGGACTAT
33099329 TGACGGCGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.16
Consensus pattern (25 bp):
ACGACGATGCAGCAGAGGACTATCA
Found at i:33099384 original size:20 final size:21
Alignment explanation
Indices: 33099356--33099398 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
33099346 ACATTCAAGG
*
33099356 AAAATCTAAGGGA-TTGGGGA
1 AAAAACTAAGGGATTTGGGGA
33099376 AAAAACTAAGGGATTTGGGGA
1 AAAAACTAAGGGATTTGGGGA
33099397 AA
1 AA
33099399 TTATTTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.19
Consensus pattern (21 bp):
AAAAACTAAGGGATTTGGGGA
Found at i:33100683 original size:18 final size:19
Alignment explanation
Indices: 33100647--33100684 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
33100637 ATAATAAAAT
**
33100647 TTAACTAAAAAAATTTAAA
1 TTAACTAAAAAAAAATAAA
33100666 TTAAC-AAAAAAAAATAAA
1 TTAACTAAAAAAAAATAAA
33100684 T
1 T
33100685 ATTAAGCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAACTAAAAAAAAATAAA
Found at i:33100688 original size:20 final size:20
Alignment explanation
Indices: 33100643--33100689 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
33100633 ATTAATAATA
* *
33100643 AAAT-TTAACTAAAAAAATT
1 AAATATTAACAAAAAAAAAT
*
33100662 TAA-ATTAACAAAAAAAAAT
1 AAATATTAACAAAAAAAAAT
33100681 AAATATTAA
1 AAATATTAA
33100690 GCACTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATTAACAAAAAAAAAT
Found at i:33103126 original size:20 final size:20
Alignment explanation
Indices: 33103089--33103127 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33103079 ATATTTTATA
* * *
33103089 AATTTGTAAAACATTATTAG
1 AATTTATAAAAAAATATTAG
33103109 AATTTATAAAAAAATATTA
1 AATTTATAAAAAAATATTA
33103128 AATAAAGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTATAAAAAAATATTAG
Found at i:33103298 original size:18 final size:19
Alignment explanation
Indices: 33103269--33103304 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33103259 TGACATTTCT
*
33103269 AAATTATATAAAATTTAAA
1 AAATTATATAAAAATTAAA
33103288 AAATTAT-TAAAAATTAA
1 AAATTATATAAAAATTAA
33103305 TTTTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTATATAAAAATTAAA
Found at i:33103804 original size:18 final size:18
Alignment explanation
Indices: 33103781--33103845 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
33103771 TTTTAAATGG
*
33103781 TTTTTTAATTAATTTTAA
1 TTTTTTAATAAATTTTAA
*
33103799 TTTTTTTATAAATTTTAA
1 TTTTTTAATAAATTTTAA
* * *
33103817 TAATATTGTAAAAAATTATAA
1 T--T-TTTTAATAAATTTTAA
33103838 TTTTTTAA
1 TTTTTTAA
33103846 AAAAGATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 22 0.59
19 1 0.03
20 1 0.03
21 13 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTTTAATAAATTTTAA
Found at i:33110055 original size:30 final size:30
Alignment explanation
Indices: 33110009--33110069 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33109999 TTCCCGAGCC
33110009 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
33110039 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
33110069 T
1 T
33110070 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:33110851 original size:68 final size:66
Alignment explanation
Indices: 33110779--33110926 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 66
33110769 CATCATGTGT
* * * *
33110779 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGAGTGATACCAGTGAAGGACACCA
33110842 TGTAG
62 TGTAG
* * *
33110847 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGAGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGAGTGATACCA-GTGAAGGACACCATGT
33110912 AG
65 AG
33110914 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
33110927 GAGATAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGAGTGATACCAGTGAAGGACACCATGTA
G
Found at i:33113802 original size:18 final size:18
Alignment explanation
Indices: 33113779--33113816 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
33113769 TCTTACACAT
33113779 CACCAGTTTTAATTTTGC
1 CACCAGTTTTAATTTTGC
33113797 CACCAGTTTTAATTTTGC
1 CACCAGTTTTAATTTTGC
33113815 CA
1 CA
33113817 TAAATGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (18 bp):
CACCAGTTTTAATTTTGC
Found at i:33114150 original size:30 final size:31
Alignment explanation
Indices: 33114114--33114182 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
33114104 GGTTTTATTT
*
33114114 CAATCACTCAAC-TTTTAAAAAA-TAACAAAA
1 CAATCACT-AACGTTATAAAAAAGTAACAAAA
*
33114144 CAATCACTAACGTTATAAAAAAGTGACAAAA
1 CAATCACTAACGTTATAAAAAAGTAACAAAA
33114175 CAATCACT
1 CAATCACT
33114183 GATTAACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 3 0.09
30 17 0.49
31 15 0.43
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (31 bp):
CAATCACTAACGTTATAAAAAAGTAACAAAA
Found at i:33114315 original size:3 final size:3
Alignment explanation
Indices: 33114305--33114333 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
33114295 CCTTAATAAT
33114305 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
33114334 GACTGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:33115398 original size:21 final size:21
Alignment explanation
Indices: 33115372--33115411 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33115362 TAACGTGGCA
*
33115372 AGTTAACTGGCTACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
33115393 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
33115412 TGTCTCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:33116148 original size:53 final size:52
Alignment explanation
Indices: 33116085--33116202 Score: 157
Period size: 52 Copynumber: 2.2 Consensus size: 52
33116075 TTTGAAACAG
* *
33116085 ATGGCCGACACCCATTTTTTGTATAAAATTTTTTTGAGGGTTTTGGAC-ACCTT
1 ATGGTCGACACCCATTTTTTGTAT-AAATTTTTTTGAGGGTTTTGGACAACC-C
* * *
33116138 ATGGTCGACACCCCTTTTTTGTATTAATTTTTTTGGGGGTTTTGGACAACCC
1 ATGGTCGACACCCATTTTTTGTATAAATTTTTTTGAGGGTTTTGGACAACCC
*
33116190 ATGGTCGGCACCC
1 ATGGTCGACACCC
33116203 CTTTGTCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 33 0.57
53 25 0.43
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.39
Consensus pattern (52 bp):
ATGGTCGACACCCATTTTTTGTATAAATTTTTTTGAGGGTTTTGGACAACCC
Found at i:33116222 original size:52 final size:51
Alignment explanation
Indices: 33116101--33116223 Score: 128
Period size: 52 Copynumber: 2.4 Consensus size: 51
33116091 GACACCCATT
*
33116101 TTTTGTA-TAAAATTTTTTTGAGGGTTTTGGACACCTTATGGTCGACACCCC
1 TTTTGTATTAAAA-TTTTTTGAGGGTTTTGGACACCTCATGGTCGACACCCC
* * *
33116152 TTTTTTGTATT-AATTTTTTTGGGGGTTTTGGACAACC-CATGGTCGGCACCCC
1 --TTTTGTATTAAAATTTTTTGAGGGTTTTGGAC-ACCTCATGGTCGACACCCC
33116204 -TTTGTCATTCAAAATTTTTT
1 TTTTGT-ATT-AAAATTTTTT
33116224 TGGAGTGTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
49 5 0.08
50 3 0.05
52 39 0.65
53 12 0.20
54 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.45
Consensus pattern (51 bp):
TTTTGTATTAAAATTTTTTGAGGGTTTTGGACACCTCATGGTCGACACCCC
Found at i:33119159 original size:13 final size:13
Alignment explanation
Indices: 33119143--33119169 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33119133 AAAAGTTTGG
33119143 AGTAAATATGAAA
1 AGTAAATATGAAA
33119156 AGTAAATATGAAA
1 AGTAAATATGAAA
33119169 A
1 A
33119170 TTAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (13 bp):
AGTAAATATGAAA
Found at i:33122128 original size:21 final size:21
Alignment explanation
Indices: 33122104--33122174 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
33122094 CTCTCTGATA
33122104 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
*
33122125 TGAAA-GT-TACCATGCAACC-TGAT
1 TGAAATGTGTA--A-G--ACCATGGT
33122148 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
33122170 TGAAA
1 TGAAA
33122175 GATACCATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 14 0.36
22 4 0.10
23 4 0.10
24 9 0.23
25 2 0.05
26 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:33122208 original size:46 final size:46
Alignment explanation
Indices: 33122098--33122370 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
33122088 AGTGTGCTCT
* ** *
33122098 CTGATATGAAATGTGTAAGACCATGGTTGAAAGTTACCAT-GCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
33122143 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
33122189 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
33122235 ATGACGGGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
33122281 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
33122327 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
33122371 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 40 0.19
46 167 0.81
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:33122677 original size:16 final size:17
Alignment explanation
Indices: 33122656--33122688 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33122646 ATGATGGTGC
33122656 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
33122672 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
33122689 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:33127277 original size:30 final size:30
Alignment explanation
Indices: 33127221--33127277 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
33127211 AATCTTATAA
*
33127221 ATATTGAGGACTAAATTTGTTAAATATTTT
1 ATATTGAGGACTAAATTTGATAAATATTTT
* *
33127251 ATATTTAGGATTAAA-TTGATAGAATAT
1 ATATTGAGGACTAAATTTGATA-AATAT
33127278 ATAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (30 bp):
ATATTGAGGACTAAATTTGATAAATATTTT
Found at i:33133782 original size:5 final size:5
Alignment explanation
Indices: 33133772--33133797 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33133762 TTTTGGCCTG
33133772 GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC GGCCC GGCCC GGCCC GGCCC G
33133798 AATTATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.58, G:0.42, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:33135209 original size:5 final size:5
Alignment explanation
Indices: 33135203--33135263 Score: 95
Period size: 5 Copynumber: 12.0 Consensus size: 5
33135193 TTTTAATCAG
*
33135203 TTCAG TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA
*
33135253 TCCAA TATCAA
1 TTCAA T-TCAA
33135264 CTTTTTGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 49 0.94
6 3 0.06
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (5 bp):
TTCAA
Found at i:33145084 original size:17 final size:17
Alignment explanation
Indices: 33145058--33145091 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33145048 TTCCTTATTC
*
33145058 AATAATAATTAAATAAA
1 AATAAAAATTAAATAAA
*
33145075 AATAAAAATTAATTAAA
1 AATAAAAATTAAATAAA
33145092 TAGTTAAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAAATTAAATAAA
Found at i:33147345 original size:16 final size:17
Alignment explanation
Indices: 33147324--33147357 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33147314 AATAAAATTT
*
33147324 TAAAAAT-TTATAAAAA
1 TAAAAATATTAAAAAAA
33147340 TAAAAATATTAAAAAAA
1 TAAAAATATTAAAAAAA
33147357 T
1 T
33147358 TTCGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATATTAAAAAAA
Found at i:33149998 original size:43 final size:43
Alignment explanation
Indices: 33149951--33150033 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
33149941 ATTGAAAACG
* * * *
33149951 CTGCTAAAGGTCA-TGTTCTTTAGCGGCATTTTTGAAAAAAGCA
1 CTGCTAAAAGT-ATTGTTCTTAAGCAGCATTTGTGAAAAAAGCA
*
33149994 CTGCTAAAAGTATTGTTCTTAAGCAGCGTTTGTGAAAAAA
1 CTGCTAAAAGTATTGTTCTTAAGCAGCATTTGTGAAAAAA
33150034 AACGCCACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (43 bp):
CTGCTAAAAGTATTGTTCTTAAGCAGCATTTGTGAAAAAAGCA
Found at i:33150847 original size:13 final size:14
Alignment explanation
Indices: 33150821--33150849 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33150811 ACAAACGACG
33150821 AATTAAACCATTAT
1 AATTAAACCATTAT
33150835 AATTAAA-CATTAT
1 AATTAAACCATTAT
33150848 AA
1 AA
33150850 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:33153818 original size:28 final size:28
Alignment explanation
Indices: 33153787--33153847 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
33153777 TCAACATGGG
** *
33153787 AATGTCATGACTATGAGAACAGAGGCTT
1 AATGTCACAACTATGAGAACAGAGACTT
* * *
33153815 AATGCCACAACTATGGGAATAGAGACTT
1 AATGTCACAACTATGAGAACAGAGACTT
33153843 AATGT
1 AATGT
33153848 TGCGACTTCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (28 bp):
AATGTCACAACTATGAGAACAGAGACTT
Found at i:33162511 original size:48 final size:48
Alignment explanation
Indices: 33162448--33162624 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 48
33162438 TATTCGAGAA
* * *
33162448 GTGTGCCTATGTAAGACCATGTCTGGGACATGGTATCGTCAATGATAT
1 GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * *
33162496 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
*
33162544 GTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
** *
33162592 GTG-GATTCATGTAAGACCATGTCGGGGACATGG
1 GTGTGCCT-ATGTAAGACCATGTCTGGGACATGG
33162625 TATTGGTACT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 114 0.99
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:33166379 original size:48 final size:48
Alignment explanation
Indices: 33166276--33166380 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
33166266 GTGACATGCC
* * *
33166276 CGTGTGAG-GTGGCTTAGGCCGTGTTTAGAGTCTGCTAAATACACACGG
1 CGTGTG-GTGTGGCTTAGGCCATGTTTACAATCTGCTAAATACACACGG
* * *
33166324 CTGTGTGGTGTGGCTTAGGCCATG-TTACAATCTGTTAAATAGACATGGG
1 C-GTGTGGTGTGGCTTAGGCCATGTTTACAATCTGCTAAATACACA-CGG
33166373 CGTGTGGT
1 CGTGTGGT
33166381 CTACCCGTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 26 0.54
49 22 0.46
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.30
Consensus pattern (48 bp):
CGTGTGGTGTGGCTTAGGCCATGTTTACAATCTGCTAAATACACACGG
Found at i:33167975 original size:27 final size:27
Alignment explanation
Indices: 33167937--33168004 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
33167927 TTTATATCTG
* *
33167937 AAACTGTATCTGAACGGGCTAAGGCCT
1 AAACTATATCTGAACGGGCTAAAGCCT
33167964 AAACTATATCTGAACGGGCTAAAGCCT
1 AAACTATATCTGAACGGGCTAAAGCCT
33167991 AAACTATATCTGAA
1 AAACTATATCTGAA
33168005 TCTGTAATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AAACTATATCTGAACGGGCTAAAGCCT
Found at i:33175057 original size:36 final size:36
Alignment explanation
Indices: 33175030--33175099 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
33175020 TGTGTTTTGG
*
33175030 ATGGATTAACTCTTTTGAGCATCTGGTGTGCTTCAC
1 ATGGATTAACTCTTTTGAGCATCTGGTGTGTTTCAC
*
33175066 ATGGATTAGCTCTTTTGAGCATCTGGTGTGTTTC
1 ATGGATTAACTCTTTTGAGCATCTGGTGTGTTTC
33175100 GGTTGGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (36 bp):
ATGGATTAACTCTTTTGAGCATCTGGTGTGTTTCAC
Found at i:33176568 original size:14 final size:13
Alignment explanation
Indices: 33176549--33176586 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
33176539 TTTTAATGTT
33176549 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
33176563 TAATTATTAAGGA
1 TAATTATTTAGGA
33176576 TAATTATTTAG
1 TAATTATTTAG
33176587 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:33180158 original size:43 final size:42
Alignment explanation
Indices: 33180057--33180167 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
33180047 AATTTACTTA
* * ***
33180057 TAAGACCATGTCTGGGACATCGTCATCGTATCTGATTTTGTG
1 TAAGACCACGTCTGGGACATCGGCATCGTATCTGATTACATG
*
33180099 TAAGACC-CTGTTTGGGACATCGGCATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTGGGACATCGGCATCG-TATCTG-ATTACATG
*
33180142 TAAGACCACGTCTGGGACGTCGGCAT
1 TAAGACCACGTCTGGGACATCGGCAT
33180168 TGTACTTGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.46
43 30 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATCGGCATCGTATCTGATTACATG
Found at i:33192806 original size:21 final size:21
Alignment explanation
Indices: 33192780--33192821 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33192770 TTATTTCTCT
* * *
33192780 TTATTTTTTATTTTATTTTAA
1 TTATTTATAATTTTATCTTAA
33192801 TTATTTATAATTTTATCTTAA
1 TTATTTATAATTTTATCTTAA
33192822 GCATTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATTTATAATTTTATCTTAA
Found at i:33192827 original size:21 final size:21
Alignment explanation
Indices: 33192789--33192829 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33192779 TTTATTTTTT
* **
33192789 ATTTTATTTTAATTATTTATA
1 ATTTTATCTTAAGCATTTATA
33192810 ATTTTATCTTAAGCATTTAT
1 ATTTTATCTTAAGCATTTAT
33192830 TACTTAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTATCTTAAGCATTTATA
Found at i:33194942 original size:21 final size:20
Alignment explanation
Indices: 33194908--33194946 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33194898 ATTTTAGATG
*
33194908 CTGTTTTTTTGTTGTTGCTT
1 CTGTTTTGTTGTTGTTGCTT
33194928 CTGTTTTGGTTGTTGTTGC
1 CTGTTTT-GTTGTTGTTGC
33194947 CCATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.26, T:0.64
Consensus pattern (20 bp):
CTGTTTTGTTGTTGTTGCTT
Found at i:33196249 original size:14 final size:13
Alignment explanation
Indices: 33196230--33196267 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
33196220 GTTTAATGTT
33196230 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
33196244 TAATTATTAAGGA
1 TAATTATTTAGGA
33196257 TAATTATTTAG
1 TAATTATTTAG
33196268 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:33197075 original size:17 final size:18
Alignment explanation
Indices: 33197043--33197076 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33197033 TAGTCTCCAT
*
33197043 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
33197061 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
33197077 CAATTCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:33204044 original size:23 final size:23
Alignment explanation
Indices: 33204015--33204167 Score: 141
Period size: 23 Copynumber: 6.7 Consensus size: 23
33204005 AACAAAGACG
*
33204015 AACAGTGAAGATTCTCTGCAATT
1 AACAGTGAAGATTCTCTACAATT
* *
33204038 AATAGTGAAGATTCTCTACAATA
1 AACAGTGAAGATTCTCTACAATT
*
33204061 AACAGTGAAGATTCTCTACAATA
1 AACAGTGAAGATTCTCTACAATT
* * * *
33204084 AACGGTAAAGATTCTGTGCAA-T
1 AACAGTGAAGATTCTCTACAATT
* * *
33204106 AAGTAGTGAAGATT-TCCTGCAATG
1 AA-CAGTGAAGATTCT-CTACAATT
*
33204130 AACAGTGAAGATTCCCTACAA-T
1 AACAGTGAAGATTCTCTACAATT
*
33204152 AACTAGTGAGGATTCT
1 AAC-AGTGAAGATTCT
33204168 TTGTAAAAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
22 6 0.06
23 97 0.92
24 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (23 bp):
AACAGTGAAGATTCTCTACAATT
Found at i:33204095 original size:46 final size:46
Alignment explanation
Indices: 33204015--33204167 Score: 166
Period size: 46 Copynumber: 3.3 Consensus size: 46
33204005 AACAAAGACG
* *
33204015 AACAGTGAAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATA
1 AACAGTGAAGATTCTCTGCAATAAACAGTGAAGATTCTCTACAATA
* * * * *
33204061 AACAGTGAAGATTCTCTACAATAAACGGTAAAGATTCTGTGCAATA
1 AACAGTGAAGATTCTCTGCAATAAACAGTGAAGATTCTCTACAATA
** * *
33204107 AGTAGTGAAGATT-TCCTGCAATGAACAGTGAAGATTCCCTACAAT-
1 AACAGTGAAGATTCT-CTGCAATAAACAGTGAAGATTCTCTACAATA
*
33204152 AACTAGTGAGGATTCT
1 AAC-AGTGAAGATTCT
33204168 TTGTAAAAAA
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
45 2 0.02
46 82 0.96
47 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (46 bp):
AACAGTGAAGATTCTCTGCAATAAACAGTGAAGATTCTCTACAATA
Found at i:33204134 original size:69 final size:69
Alignment explanation
Indices: 33204022--33204153 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
33204012 ACGAACAGTG
*
33204022 AAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCTCTACAATAAAC
1 AAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCCCTACAATAAAC
33204087 GGTA
66 GGTA
* * *
33204091 AAGATTCTGTGCAA-TAAGTAGTGAAGATT-TCCTGCAATGAACAGTGAAGATTCCCTACAATAA
1 AAGATTCTCTGCAATTAA-TAGTGAAGATTCT-CTACAATAAACAGTGAAGATTCCCTACAATAA
33204154 CTAGTGAGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 4 0.07
69 53 0.93
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (69 bp):
AAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCCCTACAATAAAC
GGTA
Found at i:33204166 original size:69 final size:69
Alignment explanation
Indices: 33204015--33204167 Score: 195
Period size: 69 Copynumber: 2.2 Consensus size: 69
33204005 AACAAAGACG
*
33204015 AACAGTGAAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCTCTAC
1 AACAGTGAAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCCCTAC
33204080 AATA
66 AATA
* * * * *
33204084 AACGGTAAAGATTCTGTGCAA-TAAGTAGTGAAGATT-TCCTGCAATGAACAGTGAAGATTCCCT
1 AACAGTGAAGATTCTCTGCAATTAA-TAGTGAAGATTCT-CTACAATAAACAGTGAAGATTCCCT
33204147 ACAAT-
64 ACAATA
*
33204152 AACTAGTGAGGATTCT
1 AAC-AGTGAAGATTCT
33204168 TTGTAAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
68 7 0.10
69 65 0.90
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (69 bp):
AACAGTGAAGATTCTCTGCAATTAATAGTGAAGATTCTCTACAATAAACAGTGAAGATTCCCTAC
AATA
Found at i:33208305 original size:19 final size:20
Alignment explanation
Indices: 33208264--33208307 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
33208254 TTAAATATAA
* *
33208264 ATTTTAGAATTTTTATAAAT
1 ATTTTAGAATTTTAAGAAAT
*
33208284 ATTTTA-AATTTTAAGAATT
1 ATTTTAGAATTTTAAGAAAT
33208303 ATTTT
1 ATTTT
33208308 GAGTTTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTAGAATTTTAAGAAAT
Found at i:33210988 original size:37 final size:37
Alignment explanation
Indices: 33210928--33211033 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 37
33210918 AGCTCAGACG
* **
33210928 AAATCTCCACACGAAGTTTTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33210965 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * * *
33211002 TACTCTCTACACATAGTCATCGGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
33211034 AGAATATATT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33211253 original size:47 final size:47
Alignment explanation
Indices: 33211199--33211337 Score: 215
Period size: 47 Copynumber: 3.0 Consensus size: 47
33211189 TTTCACACTA
* * * *
33211199 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
33211246 GCCATTCGACCTTATCACACATATGCATGTTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
33211293 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
33211338 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:33222598 original size:39 final size:39
Alignment explanation
Indices: 33222549--33222627 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
33222539 AATTTTGAAG
33222549 AAAGAGAGTTTAATTAAAATAAAAGGACTAAATCAAATA
1 AAAGAGAGTTTAATTAAAATAAAAGGACTAAATCAAATA
* *
33222588 AAAGATAGTTTAATTAAAATAAAGGGACTAAATCAAATA
1 AAAGAGAGTTTAATTAAAATAAAAGGACTAAATCAAATA
33222627 A
1 A
33222628 GTGATAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (39 bp):
AAAGAGAGTTTAATTAAAATAAAAGGACTAAATCAAATA
Found at i:33224696 original size:17 final size:19
Alignment explanation
Indices: 33224668--33224707 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
33224658 TAGACTGATC
33224668 TGGGCAGTGTGGG-CCACA
1 TGGGCAGTGTGGGTCCACA
*
33224686 TGGGC-GTGTGGGTCCATA
1 TGGGCAGTGTGGGTCCACA
33224704 TGGG
1 TGGG
33224708 TAGTCCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.12, C:0.17, G:0.47, T:0.23
Consensus pattern (19 bp):
TGGGCAGTGTGGGTCCACA
Found at i:33225312 original size:41 final size:41
Alignment explanation
Indices: 33225254--33225334 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
33225244 ATTTACTGAT
* * ** *
33225254 TAATGTATATCTGATACTGTTACTGTAATGGGCTAAGGCCC
1 TAATGCATATCTAATACTGAAACTGAAATGGGCTAAGGCCC
33225295 TAATGCATATCTAATACTGAAACTGAAATGGGCTAAGGCC
1 TAATGCATATCTAATACTGAAACTGAAATGGGCTAAGGCC
33225335 TAAACTGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (41 bp):
TAATGCATATCTAATACTGAAACTGAAATGGGCTAAGGCCC
Found at i:33225382 original size:34 final size:34
Alignment explanation
Indices: 33225311--33225382 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
33225301 ATATCTAATA
* * * *
33225311 CTGAAACTGAAATGGGCTAAGGCCTAAACTGCTT
1 CTGAAACTGAAACGGGCTAAGGCCCAAACTACAT
* *
33225345 CTGAAACTGAAACGGGCTTAGGCCCAGACTACAT
1 CTGAAACTGAAACGGGCTAAGGCCCAAACTACAT
33225379 CTGA
1 CTGA
33225383 TTGATAACTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (34 bp):
CTGAAACTGAAACGGGCTAAGGCCCAAACTACAT
Found at i:33227175 original size:34 final size:34
Alignment explanation
Indices: 33227105--33227175 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
33227095 TATCTGATAT
** * * **
33227105 TGAAACTGAAATGGGCTAAGGTCCAAATTGTTTC
1 TGAAACTGAAACAGGCTAAGGCCCAAACTGCATC
*
33227139 TGAAACTGAAACAGGCTTAGGCCCAAACTGCATC
1 TGAAACTGAAACAGGCTAAGGCCCAAACTGCATC
33227173 TGA
1 TGA
33227176 CTGATAACTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (34 bp):
TGAAACTGAAACAGGCTAAGGCCCAAACTGCATC
Found at i:33228931 original size:28 final size:28
Alignment explanation
Indices: 33228899--33228954 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33228889 ATGTAGGATG
*
33228899 TATAGATGAATTGTTGAAGAATTTGGCT
1 TATAGATGAATTGTTGAAGAATCTGGCT
33228927 TATAGATGAATTGTTGAAGAATCTGGCT
1 TATAGATGAATTGTTGAAGAATCTGGCT
33228955 AACTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (28 bp):
TATAGATGAATTGTTGAAGAATCTGGCT
Found at i:33247631 original size:22 final size:23
Alignment explanation
Indices: 33247606--33247660 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
33247596 AATAAAAACT
*
33247606 GAAATAAAAATTACAAAT-AAGA
1 GAAATAAAAACTACAAATAAAGA
** *
33247628 GAAATCTAAACTACAAATGAAAGT
1 GAAATAAAAACTACAAAT-AAAGA
33247652 GAAATAAAA
1 GAAATAAAA
33247661 CTTTGGAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 15 0.60
24 10 0.40
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (23 bp):
GAAATAAAAACTACAAATAAAGA
Found at i:33250638 original size:72 final size:72
Alignment explanation
Indices: 33250521--33250848 Score: 638
Period size: 72 Copynumber: 4.6 Consensus size: 72
33250511 ACAACTTGAC
*
33250521 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33250586 ACTAACA
66 ACTAACA
33250593 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33250658 ACTAACA
66 ACTAACA
33250665 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33250730 ACTAACA
66 ACTAACA
33250737 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33250802 ACTAACA
66 ACTAACA
*
33250809 AACTTAGTTGGAATACAACTAAGTTACATCATTGCATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
33250849 AATAATAATA
Statistics
Matches: 254, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 254 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:33250857 original size:3 final size:3
Alignment explanation
Indices: 33250849--33250889 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33250839 ATTGCATCCA
33250849 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33250890 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33253890 original size:19 final size:18
Alignment explanation
Indices: 33253866--33253905 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33253856 TTTATATATA
*
33253866 TATGAATATTTACATGAAT
1 TATGAATA-GTACATGAAT
*
33253885 TATGAATAGTATATGAAT
1 TATGAATAGTACATGAAT
33253903 TAT
1 TAT
33253906 AATTATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (18 bp):
TATGAATAGTACATGAAT
Found at i:33254608 original size:15 final size:17
Alignment explanation
Indices: 33254576--33254608 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33254566 TGTGGGAAAG
33254576 TTTGAAAATCTAATTAT
1 TTTGAAAATCTAATTAT
33254593 TTTGAAAA-CT-ATTAT
1 TTTGAAAATCTAATTAT
33254608 T
1 T
33254609 GTGAGTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTGAAAATCTAATTAT
Found at i:33265212 original size:21 final size:21
Alignment explanation
Indices: 33265188--33265240 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
33265178 GACGTGTAGA
*
33265188 GTAGCCACATGAGCATGTGGG
1 GTAGCCACACGAGCATGTGGG
* *
33265209 GTAGCCACACGGGCGTGTGGG
1 GTAGCCACACGAGCATGTGGG
33265230 GTAGCCACACG
1 GTAGCCACACG
33265241 TCCATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
GTAGCCACACGAGCATGTGGG
Found at i:33266539 original size:14 final size:16
Alignment explanation
Indices: 33266503--33266542 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
33266493 GTTTATATAT
33266503 ATATATTTTAAACAAA
1 ATATATTTTAAACAAA
*
33266519 ATATATTTTTAA-AAA
1 ATATATTTTAAACAAA
33266534 AT-TATTTTA
1 ATATATTTTA
33266543 CATGTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATTTTAAACAAA
Found at i:33267058 original size:15 final size:16
Alignment explanation
Indices: 33267018--33267060 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
33267008 AAAGTAAAAG
*
33267018 TATAAAAATAATTATTA
1 TATAAAAATAA-TATAA
33267035 TATTAAAAATAA-ATAA
1 TA-TAAAAATAATATAA
33267051 TATAAAAATA
1 TATAAAAATA
33267061 TTCAATATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 2 0.08
18 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAAATAATATAA
Found at i:33273516 original size:39 final size:39
Alignment explanation
Indices: 33273462--33273540 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
33273452 CACAATCACC
*
33273462 CACGCTGAATCCTTCCTAAAGAGATTTAGAGGTAAACCA
1 CACGCTGAATCCTTCCTAAAGAGACTTAGAGGTAAACCA
*
33273501 CACGCTGAATCCTTCCTAATGAGACTTAGAGGTAAACCA
1 CACGCTGAATCCTTCCTAAAGAGACTTAGAGGTAAACCA
33273540 C
1 C
33273541 TTACGAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (39 bp):
CACGCTGAATCCTTCCTAAAGAGACTTAGAGGTAAACCA
Found at i:33278537 original size:14 final size:14
Alignment explanation
Indices: 33278487--33278541 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
33278477 GTTTCACACC
*
33278487 TAAGGGTTTGCACA
1 TAAGGGTTCGCACA
33278501 TAAGGGTTCGCA-A
1 TAAGGGTTCGCACA
* *
33278514 AAGTAGGGTTCGCACT
1 TA--AGGGTTCGCACA
33278530 TAAGGGTTCGCA
1 TAAGGGTTCGCA
33278542 AGTTTTTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.06
14 21 0.62
15 10 0.29
16 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (14 bp):
TAAGGGTTCGCACA
Found at i:33295009 original size:40 final size:40
Alignment explanation
Indices: 33294957--33295038 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
33294947 ACTTCTTGGA
33294957 GTGTAGGGAAGGGTAGGTTGATTATATCCCCACATGAAGT
1 GTGTAGGGAAGGGTAGGTTGATTATATCCCCACATGAAGT
*
33294997 GTGTAGGGAAGGGTGGGTTGATTATATCCCCACATGAAGT
1 GTGTAGGGAAGGGTAGGTTGATTATATCCCCACATGAAGT
33295037 GT
1 GT
33295039 AGGGTTGGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (40 bp):
GTGTAGGGAAGGGTAGGTTGATTATATCCCCACATGAAGT
Found at i:33307433 original size:40 final size:40
Alignment explanation
Indices: 33307372--33307447 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
33307362 CGGTACTTTA
* *
33307372 TGGTGTGTAAGGTTGGATGGGTCGATTTTATTCCCATATT
1 TGGTGTGTAAGGATGGATGGGTCGATTTTATCCCCATATT
* *
33307412 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAAGGATGGATGGGTCGATTTTATCCCCA
33307448 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAAGGATGGATGGGTCGATTTTATCCCCATATT
Found at i:33309089 original size:48 final size:48
Alignment explanation
Indices: 33309035--33309263 Score: 314
Period size: 48 Copynumber: 4.8 Consensus size: 48
33309025 TCTCATATCG
* * * * **
33309035 ATGCCATGTCCCAAACATAGTCTTAAACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * * *
33309083 ATGCCATATCCCAGATATGGTCTTACATGGTATCACATATAGATTCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
33309131 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTGATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
33309179 ATGCCATGTCCCAAACATGGTCTTACATGTGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
33309227 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
33309264 ATGCCATATC
Statistics
Matches: 158, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 158 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:33309305 original size:37 final size:37
Alignment explanation
Indices: 33309225--33309327 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
33309215 ATATCAATGC
** **
33309225 CAATGCCAT-GTCCCAGACATGGTCTTACATGGGATCA
1 CAATGCCATAG-CCCAGTTATGGTCTTACATGCCATCA
* * *
33309262 CAATGCCATATCTCAGTTATGGTCTTACATGCCATTA
1 CAATGCCATAGCCCAGTTATGGTCTTACATGCCATCA
* *
33309299 CGATGCCATAGCCCAGTTGTGGTCTTACA
1 CAATGCCATAGCCCAGTTATGGTCTTACA
33309328 CGTACTCACA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (37 bp):
CAATGCCATAGCCCAGTTATGGTCTTACATGCCATCA
Found at i:33316901 original size:55 final size:54
Alignment explanation
Indices: 33316840--33316954 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 54
33316830 AAAATAGGAG
* * *
33316840 AAAGAATATTTCAGAATATTATAAAAATCTCAAGTATAGAGAATATAGAAAAGAA
1 AAAGAATATTTCAAAATATTATAAAAAGCTCAAGTATAGAAAATATAGAAAA-AA
33316895 AAAGAATATTTCAAAATATTATAAAAAGCTCAAGTATAGAAAATATAGAAAAAA
1 AAAGAATATTTCAAAATATTATAAAAAGCTCAAGTATAGAAAATATAGAAAAAA
33316949 AAAGAA
1 AAAGAA
33316955 ACAACAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 8 0.14
55 49 0.86
ACGTcount: A:0.60, C:0.05, G:0.11, T:0.23
Consensus pattern (54 bp):
AAAGAATATTTCAAAATATTATAAAAAGCTCAAGTATAGAAAATATAGAAAAAA
Found at i:33317644 original size:19 final size:19
Alignment explanation
Indices: 33317624--33317661 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
33317614 CTATCCAAAT
33317624 ATATT-TAATAAA-AATAA
1 ATATTATAATAAATAATAA
33317641 ATATTATAATAAATAATAA
1 ATATTATAATAAATAATAA
33317660 AT
1 AT
33317662 TTCAATTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATTATAATAAATAATAA
Found at i:33327052 original size:25 final size:27
Alignment explanation
Indices: 33327015--33327067 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33327005 TCAAACATGC
*
33327015 ATTTGGGTCAATTTAAC-CTTAGGGGT
1 ATTTCGGTCAATTTAACTCTTAGGGGT
*
33327041 ATTTCGGT-AATTTATCTCTTAGGGGT
1 ATTTCGGTCAATTTAACTCTTAGGGGT
33327067 A
1 A
33327068 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (27 bp):
ATTTCGGTCAATTTAACTCTTAGGGGT
Found at i:33330213 original size:43 final size:43
Alignment explanation
Indices: 33330047--33330258 Score: 193
Period size: 43 Copynumber: 5.0 Consensus size: 43
33330037 ATATCGTACA
* * * **
33330047 ATGCCAATGTCCTAGACGTGGTCTTACATGCT-ATCTTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
** * *
33330090 ATG-CTGCTGTCCCAGACAG-GGTCTTACATG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * * *
33330131 ATACCGATGTCCTAGACATGGTCTTACACGTAA-CTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATC-ACATATCG
33330174 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
33330217 ACGCCAACGTCCCAAACGTGGTCTTACTCGTAATCACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATC
33330259 AATGTCACAT
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.17
42 14 0.10
43 99 0.72
44 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:33333214 original size:154 final size:150
Alignment explanation
Indices: 33333048--33333477 Score: 628
Period size: 154 Copynumber: 2.8 Consensus size: 150
33333038 GAATTTTTTA
* * * *
33333048 TTTTTTTAAAAAAAGAGAAATTTTAGATTTT-AACAAATAAAAATTTATTTATTTTTAGTTATTT
1 TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTGAA-AAATAAAAATATATTT-TTTTTAGTCATTT
* *
33333112 TAAAGGAAAGTTCAAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAGTAAAAGCT
64 TAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGCT
33333177 TTAATCTTTAAGAAAAATAGTG
129 TTAATCTTTAAGAAAAATAGTG
* *
33333199 TTTTTATTTTTAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTATTTTTTTTAGTCATT
1 --TTT-TTTTTAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTTTAGTCATT
* *
33333264 TTAAAGGAAATTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTACTTCAAAATAAAA
63 TTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGA-TTTTTTTT-AACTATTTCAAAATAAAA
33333329 GCTTTAATCTTTAAGAAAAATAGTG
126 GCTTTAATCTTTAAGAAAAATAGTG
* *
33333354 TTTTTTTTAAAAGAGAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTT
1 TTTTTTTTAAAA-A-AGAGAAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTTTAGTCATTT
* * * *
33333419 TAAAGAAAAGTTTAAAATTTTAAAACAAAATTTTTATTTTTTTTAACTATTTCGAAATA
64 TAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAATA
33333478 GAGTTTTGAT
Statistics
Matches: 252, Mismatches: 19, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
152 22 0.09
153 61 0.24
154 126 0.50
155 43 0.17
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (150 bp):
TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATATTTTTTTTAGTCATTTTA
AAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGCTTT
AATCTTTAAGAAAAATAGTG
Found at i:33334304 original size:17 final size:18
Alignment explanation
Indices: 33334271--33334305 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33334261 TTAACTTTTC
33334271 ATTAATTTTAGCCAATTTA
1 ATTAATTTTA-CCAATTTA
33334290 ATTAATTTT-CCAATTT
1 ATTAATTTTACCAATTT
33334306 CATTTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTTTACCAATTTA
Found at i:33337620 original size:37 final size:37
Alignment explanation
Indices: 33337524--33337607 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
33337514 TGAACAACGA
* * * *
33337524 GATTTCCTATAGAGCAAAGACAGAAATGAACAGGAGT
1 GATTCCCTGTAGAGCAAAAACAAAAATGAACAGGAGT
* *
33337561 GATTCTCTGTAGAGCAAAAACAAAAATGAATAGGAGT
1 GATTCCCTGTAGAGCAAAAACAAAAATGAACAGGAGT
*
33337598 TATTCCCTGT
1 GATTCCCTGT
33337608 CAAGAACAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (37 bp):
GATTCCCTGTAGAGCAAAAACAAAAATGAACAGGAGT
Found at i:33338035 original size:17 final size:16
Alignment explanation
Indices: 33337992--33338038 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
33337982 AAATATAAAT
33337992 AATTATATAAATATGTA
1 AATTATAT-AATATGTA
*
33338009 TATT-TAATAATATGATA
1 AATTAT-ATAATATG-TA
33338026 AATTATATAATAT
1 AATTATATAATAT
33338039 TACAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 7 0.28
17 17 0.68
18 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
AATTATATAATATGTA
Found at i:33343663 original size:18 final size:18
Alignment explanation
Indices: 33343637--33343671 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33343627 CATGAGGCAG
33343637 AGCCAGTTGCCAGAGTTA
1 AGCCAGTTGCCAGAGTTA
* *
33343655 AGCCTGTTGCTAGAGTT
1 AGCCAGTTGCCAGAGTT
33343672 GAGCAGGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (18 bp):
AGCCAGTTGCCAGAGTTA
Found at i:33354891 original size:17 final size:17
Alignment explanation
Indices: 33354869--33354903 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33354859 ATGGATGGTA
33354869 AAAATAAAA-AAAGAAAG
1 AAAATAAAATAAA-AAAG
33354886 AAAATAAAATAAAAAAG
1 AAAATAAAATAAAAAAG
33354903 A
1 A
33354904 GAGGCTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAATAAAAAAG
Found at i:33356260 original size:45 final size:44
Alignment explanation
Indices: 33356191--33356712 Score: 203
Period size: 45 Copynumber: 11.8 Consensus size: 44
33356181 GATTCTACAG
* *
33356191 ATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGC-A
* * * ** ** *
33356236 ATCTTGTCTTCCTGAAGTTGCAGTGAAGCAAATTTAAG-CCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGCA
* * * * * * * *
33356279 ATCCTATCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTGTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACTGCA
* * * *
33356323 GATCTTGTCTCCCTGAAGTTGCAGTAGAACAGATCGAAAACAGCAA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGC-A
* * * * * * ** ** *
33356369 ATTTTGTTTTCCTGAAGTTGCAATGAATCAGATTTAA-ACCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGCA
* * * * * * * * **
33356412 ATCCTATCTCCCTAAAATTGTAGTGGAGTAG-GCTGAAGATTTTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACTGCA
* * * *
33356456 GATCTTGTCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGATTGTAA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTG-CA
*
33356502 ATCTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGGTG-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAC--TGCA
* ** * * * ** * *
33356547 ATCTTGCCTTTCTGAAATTGTAGTGAAGCAGATTTAA-ACCGCC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGCA
* * * * * * * * * *
33356590 ATCCTATCTCTCTAAAGTTGTAGCGGAGCAG-GCTAAAGATTGTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACTGCA
* * * * *
33356634 GATCTTGTCTCCCTAAAGTTGCAGTAGAGTAGATCAAAGACAGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGC-A
** *
33356680 ATCTTGTCTTTCTGAAGTTGCAGTGAAGCAGAT
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGAT
33356713 TTAAGCCACC
Statistics
Matches: 334, Mismatches: 125, Indels: 36
0.67 0.25 0.07
Matches are distributed among these distances:
42 1 0.00
43 72 0.22
44 10 0.03
45 243 0.73
46 6 0.02
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (44 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGCA
Found at i:33356427 original size:133 final size:133
Alignment explanation
Indices: 33356189--33356523 Score: 481
Period size: 133 Copynumber: 2.5 Consensus size: 133
33356179 CTGATTCTAC
* * * *
33356189 AGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACAGCAAATCTTGTCTTCCTGAAGT
* * *
33356254 TGCAGTGAAGCAAATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAATGAAGCAAATTTAAACCACCATCCTATCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
33356319 TGT
131 TGT
* * * *
33356322 AGATCTTGTCTCCCTGAAGTTGCAGTAGAACAGATCGAAAACAGCAAATTTTGTTTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACAGCAAATCTTGTCTTCCTGAAGT
* *
33356387 TGCAATGAATCAGATTTAAACCACCATCCTATCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
66 TGCAATGAAGCAAATTTAAACCACCATCCTATCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
*
33356452 TTT
131 TGT
* * * ** * *
33356455 AGATCTTGTCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGATTGTAAATCTTGTCTCCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACAGCAAATCTTGTCTTCCTGAAGT
33356520 TGCA
66 TGCA
33356524 GTGGAGTAGA
Statistics
Matches: 177, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 177 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACAGCAAATCTTGTCTTCCTGAAGT
TGCAATGAAGCAAATTTAAACCACCATCCTATCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:33356515 original size:178 final size:177
Alignment explanation
Indices: 33356285--33356712 Score: 509
Period size: 178 Copynumber: 2.4 Consensus size: 177
33356275 CACCATCCTA
* * *
33356285 TCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTA
1 TCTCCCTAAAGTTGCAGTGGAGTAGATC-GAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGT-
* * * *
33356349 GAACAGATCGAAAACAGCAAATTTTG-TTTTCCTGAAGTTGCAATGAATCAGATTTAAACCACCA
64 GAACAGATCGAAAACAGCAAATCTTGCCTTT-CTGAAATTGCAATGAAGCAGATTTAAACCACCA
* * * *
33356413 TCCTATCTCCCTAAAATTGTAGTGGAGTAGGCTGAAGATTTTAGATCTTG
128 TCCTATCTCCCTAAAATTGTAGCGGAGCAGGCTAAAGATTGTAGATCTTG
* *
33356463 TCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGT-G
** * * ** * * *
33356528 AGTAGATCGAAGACGGTGAATCTTGCCTTTCTGAAATTGTAGTGAAGCAGATTTAAACCGCCATC
65 AACAGATCGAAAACAGCAAATCTTGCCTTTCTGAAATTGCAATGAAGCAGATTTAAACCACCATC
* *
33356593 CTATCTCTCTAAAGTTGTAGCGGAGCAGGCTAAAGATTGTAGATCTTG
130 CTATCTCCCTAAAATTGTAGCGGAGCAGGCTAAAGATTGTAGATCTTG
* * ** ** **
33356641 TCTCCCTAAAGTTGCAGTAGAGTAGATCAAAGACAGCGAATCTTGTCTTTCTGAAGTTGCAGTGA
1 TCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGTGA
33356706 AGCAGAT
66 A-CAGAT
33356713 TTAAGCCACC
Statistics
Matches: 210, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
177 2 0.01
178 204 0.97
179 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (177 bp):
TCTCCCTAAAGTTGCAGTGGAGTAGATCGAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGTGA
ACAGATCGAAAACAGCAAATCTTGCCTTTCTGAAATTGCAATGAAGCAGATTTAAACCACCATCC
TATCTCCCTAAAATTGTAGCGGAGCAGGCTAAAGATTGTAGATCTTG
Found at i:33356600 original size:133 final size:133
Alignment explanation
Indices: 33356463--33356807 Score: 408
Period size: 133 Copynumber: 2.6 Consensus size: 133
33356453 TTAGATCTTG
* * * * *
33356463 TCTCTCTAAAGTTGCAGTGGAGCA-GATCGAAGATTGTAAATCTTGTCTCCCTGAAGTTGCAGTG
1 TCTCTCTAAAGTTGTAGTGGAGCAGGCT-AAAGATTGTAAATCTTGTCTCCCTAAAGTTGCAGTA
* * * * *
33356527 GAGTAGATCGAAGACGGTGAATCTTGCCTTTCTGAAATTGTAGTGAAGCAGATTTAAACCGCCAT
65 GAGTAGATCAAAGACAGCGAATCTTGCCTTTCTGAAATTGCAGTGAAGCAGATTTAAACCACCAT
33356592 CCTA
130 CCTA
* *
33356596 TCTCTCTAAAGTTGTAGCGGAGCAGGCTAAAGATTGTAGATCTTGTCTCCCTAAAGTTGCAGTAG
1 TCTCTCTAAAGTTGTAGTGGAGCAGGCTAAAGATTGTAAATCTTGTCTCCCTAAAGTTGCAGTAG
* * *
33356661 AGTAGATCAAAGACAGCGAATCTTGTCTTTCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATC
66 AGTAGATCAAAGACAGCGAATCTTGCCTTTCTGAAATTGCAGTGAAGCAGATTTAAACCACCATC
33356726 CTA
131 CTA
* * * * * * *
33356729 TCTCCCT-AAGTTGTAGTGGAGTAGGTTAAAAAAAATT-TATAGATCGTGTCTCTCTGAAGTTGC
1 TCTCTCTAAAGTTGTAGTGGAGCAGGCT---AAAGATTGTA-A-ATCTTGTCTCCCTAAAGTTGC
*
33356792 AGTAGAGCAGATCAAA
61 AGTAGAGTAGATCAAA
33356808 ACACACATTA
Statistics
Matches: 181, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
132 17 0.09
133 121 0.67
134 4 0.02
135 6 0.03
136 33 0.18
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (133 bp):
TCTCTCTAAAGTTGTAGTGGAGCAGGCTAAAGATTGTAAATCTTGTCTCCCTAAAGTTGCAGTAG
AGTAGATCAAAGACAGCGAATCTTGCCTTTCTGAAATTGCAGTGAAGCAGATTTAAACCACCATC
CTA
Found at i:33356827 original size:41 final size:41
Alignment explanation
Indices: 33356777--33356931 Score: 112
Period size: 41 Copynumber: 3.6 Consensus size: 41
33356767 ATAGATCGTG
*
33356777 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACACACATTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACACATTA
* * * * ** * *
33356818 TTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTAAATTACAGATCCTG
1 TCTCCCTGAAGTTGCAGTAGAGCAGA-T----C-AAAACACACAT--TA
* * *
33356867 TCTCTCTGAAGTTGCAGTAGAGCACATCAAAACACACCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACACATTA
* *
33356908 TCTCCTTGAAGTTGCAGTGGAGCA
1 TCTCCCTGAAGTTGCAGTAGAGCA
33356932 TGTTGTAGTC
Statistics
Matches: 83, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
41 43 0.52
42 1 0.01
43 7 0.08
44 1 0.01
46 1 0.01
47 8 0.10
48 1 0.01
49 21 0.25
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACACATTA
Found at i:33357661 original size:16 final size:16
Alignment explanation
Indices: 33357640--33357685 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
33357630 TCTTATTTTC
33357640 TTTTTCTTTTTTTATA
1 TTTTTCTTTTTTTATA
* *
33357656 TTTTTCGTTTTTGATA
1 TTTTTCTTTTTTTATA
*
33357672 TTTTT-TTGTTTTAT
1 TTTTTCTTTTTTTAT
33357686 TTATTTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTCTTTTTTTATA
Found at i:33357690 original size:17 final size:16
Alignment explanation
Indices: 33357640--33357692 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
33357630 TCTTATTTTC
*
33357640 TTTTTCTTTTTTTATAT
1 TTTTTGTTTTTTTAT-T
* *
33357657 TTTTCGTTTTTGATATT
1 TTTTTGTTTTT-TTATT
33357674 TTTTTGTTTTATTTATT
1 TTTTTGTTTT-TTTATT
33357691 TT
1 TT
33357693 ATAAATCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTGTTTTTTTATT
Found at i:33358636 original size:17 final size:18
Alignment explanation
Indices: 33358603--33358636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33358593 TTTTTTCACA
33358603 TATTATACATATTTAAAC
1 TATTATACATATTTAAAC
*
33358621 TATTATTCAT-TTTAAA
1 TATTATACATATTTAAA
33358637 ATGTACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATACATATTTAAAC
Found at i:33363311 original size:77 final size:76
Alignment explanation
Indices: 33363216--33363484 Score: 230
Period size: 77 Copynumber: 3.6 Consensus size: 76
33363206 AAAGTAAGTA
* * * *
33363216 AATTACTAAATTTTTTAAAGACTGATTAAGGTTTTAAGTAACATCAAAGAAATTAAGTAACTTTC
1 AATTACTTAATTTCTTAAAGACTGATTAAAGTTTTAAGTAACATAAAAGAAATTAA-TAACTTTC
33363281 CCATAGTTTAGG
65 CCATAGTTTAGG
** * * * *
33363293 AATTACTTAATTTCTTAAAGGTTGGTTAAGGTTTTAAGTAGCATAAAAGAAA-T--TAACTATCC
1 AATTACTTAATTTCTTAAAGACTGATTAAAGTTTTAAGTAACATAAAAGAAATTAATAACTTTCC
*
33363355 CATTGTTTAGG
66 CATAGTTTAGG
* * * * ** *
33363366 ATTTGCTTAATTTCTTAAAGAAC-AAATAAAGTTTTAAGTAATGTTAAAA-AATTTAAATAA-TT
1 AATTACTTAATTTCTTAAAG-ACTGATTAAAGTTTTAAGTAA-CATAAAAGAAATT-AATAACTT
* *
33363428 TTCCATTAATTTAGG
63 TCCCA-TAGTTTAGG
*
33363443 AATTACTTAATTTTTTAAAGA-T-ATTTTAAAGTTTTAAGTAAC
1 AATTACTTAATTTCTTAAAGACTGA--TTAAAGTTTTAAGTAAC
33363485 CGTTAAGAAA
Statistics
Matches: 152, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
73 51 0.34
74 6 0.04
75 1 0.01
76 7 0.05
77 87 0.57
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (76 bp):
AATTACTTAATTTCTTAAAGACTGATTAAAGTTTTAAGTAACATAAAAGAAATTAATAACTTTCC
CATAGTTTAGG
Found at i:33363400 original size:73 final size:75
Alignment explanation
Indices: 33363246--33363463 Score: 174
Period size: 73 Copynumber: 2.9 Consensus size: 75
33363236 ACTGATTAAG
* *
33363246 GTTTTAAGTAACATCAAAGAAATTAAGTAACTTTCCCATAGTTTAGGAATTACTTAATTTCTTAA
1 GTTTTAAGTAACATAAAAGAAATT-A-TAACTATCCCATAGTTTAGGAATTACTTAATTTCTTAA
****** *
33363311 AGGTTGGTTAAG
64 AGAACAAATAAA
* * * *
33363323 GTTTTAAGTAGCATAAAAGAAA-T-TAACTATCCCATTGTTTAGGATTTGCTTAATTTCTTAAAG
1 GTTTTAAGTAACATAAAAGAAATTATAACTATCCCATAGTTTAGGAATTACTTAATTTCTTAAAG
33363386 AACAAATAAA
66 AACAAATAAA
** * * * * *
33363396 GTTTTAAGTAATGTTAAAA-AATTTAAATAA-TTTTCCATTAATTTAGGAATTACTTAATTTTTT
1 GTTTTAAGTAA-CATAAAAGAAATT--ATAACTATCCCA-TAGTTTAGGAATTACTTAATTTCTT
33363459 AAAGA
62 AAAGA
33363464 TATTTTAAAG
Statistics
Matches: 111, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
73 51 0.46
74 6 0.05
76 6 0.05
77 48 0.43
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (75 bp):
GTTTTAAGTAACATAAAAGAAATTATAACTATCCCATAGTTTAGGAATTACTTAATTTCTTAAAG
AACAAATAAA
Found at i:33364151 original size:4 final size:4
Alignment explanation
Indices: 33364142--33364188 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
33364132 AGGTAATATC
33364142 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
33364189 ACAACTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:33375665 original size:12 final size:13
Alignment explanation
Indices: 33375636--33375668 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33375626 GGTGGAAAAT
*
33375636 AAATTTTATGTGA
1 AAATTTTATATGA
33375649 AAATTTTATAT-A
1 AAATTTTATATGA
33375661 AAATTTTA
1 AAATTTTA
33375669 ATTAGGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
AAATTTTATATGA
Found at i:33384475 original size:18 final size:18
Alignment explanation
Indices: 33384452--33384486 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33384442 TGACCTCCTT
33384452 TACCACGATAACCACATC
1 TACCACGATAACCACATC
33384470 TACCACGATAACCACAT
1 TACCACGATAACCACAT
33384487 ATGTATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.17
Consensus pattern (18 bp):
TACCACGATAACCACATC
Found at i:33391679 original size:12 final size:12
Alignment explanation
Indices: 33391662--33391691 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33391652 CCCTATACGC
33391662 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
33391674 CCGTGTGCTAGG
1 CCGTGTGCCAGG
33391686 CCGTGT
1 CCGTGT
33391692 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Done.