Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
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: 8984705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 112788 characters in sequence are not A, C, G, or T
File 5 of 20
Found at i:1563913 original size:22 final size:23
Alignment explanation
Indices: 1563855--1563915 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
1563845 TAGTTGGCAA
**
1563855 TAAAGTATCGATATATTATGAAC
1 TAAAGTATCGATACCTTATGAAC
* *
1563878 -AAAGTATCAATACCTTAT-TAC
1 TAAAGTATCGATACCTTATGAAC
1563899 TAAAGTATCGATACCTT
1 TAAAGTATCGATACCTT
1563916 TTGGACAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (23 bp):
TAAAGTATCGATACCTTATGAAC
Found at i:1571702 original size:16 final size:16
Alignment explanation
Indices: 1571669--1571736 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
1571659 TGATTTTTTT
* *
1571669 ATTAAAAGTAATTTTAA
1 ATTAAAAAT-ATTATAA
*
1571686 ATTATAAATATTATAA
1 ATTAAAAATATTATAA
*
1571702 A-TAAAAATAATTTTAA
1 ATTAAAAAT-ATTATAA
*
1571718 ATTTAAAAACATTATAA
1 A-TTAAAAATATTATAA
1571735 AT
1 AT
1571737 AATAGTAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
15 6 0.15
16 15 0.37
17 14 0.34
18 6 0.15
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (16 bp):
ATTAAAAATATTATAA
Found at i:1571707 original size:32 final size:33
Alignment explanation
Indices: 1571671--1571745 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
1571661 ATTTTTTTAT
* *
1571671 TAAAAGTAATTTTAAA-TTATAAATATTATAAA
1 TAAAAGTAATTTTAAATTTAAAAACATTATAAA
*
1571703 TAAAAATAATTTTAAATTTAAAAACATTATAAA
1 TAAAAGTAATTTTAAATTTAAAAACATTATAAA
*
1571736 TAATAGTAAT
1 TAAAAGTAAT
1571746 AATAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 15 0.41
33 22 0.59
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (33 bp):
TAAAAGTAATTTTAAATTTAAAAACATTATAAA
Found at i:1572975 original size:24 final size:24
Alignment explanation
Indices: 1572916--1572981 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
1572906 TAGATTATTA
* *
1572916 TGTATCTTTATTTATTTTTATTTG
1 TGTATATTTATTTATTTTTACTTG
* * *
1572940 TGTGTCTCTATTTATTTTTACTTG
1 TGTATATTTATTTATTTTTACTTG
*
1572964 TTTATATTTATTTTATTT
1 TGTATATTTA-TTTATTT
1572982 GTTTAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 27 0.79
25 7 0.21
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.70
Consensus pattern (24 bp):
TGTATATTTATTTATTTTTACTTG
Found at i:1572983 original size:19 final size:20
Alignment explanation
Indices: 1572948--1572986 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1572938 TGTGTGTCTC
1572948 TATTTATTTTTACTTGTTTA
1 TATTTATTTTTACTTGTTTA
*
1572968 TATTTA-TTTTATTTGTTTA
1 TATTTATTTTTACTTGTTTA
1572987 AAATATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTACTTGTTTA
Found at i:1574640 original size:13 final size:13
Alignment explanation
Indices: 1574622--1574647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1574612 ATCTCTTGAA
1574622 AAGTTTTTTTATT
1 AAGTTTTTTTATT
1574635 AAGTTTTTTTATT
1 AAGTTTTTTTATT
1574648 TTCTCTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
AAGTTTTTTTATT
Found at i:1577247 original size:28 final size:28
Alignment explanation
Indices: 1577196--1577385 Score: 211
Period size: 28 Copynumber: 6.6 Consensus size: 28
1577186 TCTTATCTTT
*
1577196 AATTAAGACAAA-ATATTTTATCTTGTCTA
1 AATTAAGACAAACAT-GTTT-TCTTGTCTA
* *
1577225 AATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* * * *
1577253 GATTAAGACAAAAATATTTTTTCTGTCTTA
1 AATTAAGACAAACATGTTTTCT-TGTC-TA
* *
1577283 AATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* *
1577311 AATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
*
1577339 AATTAAGGTCAAACATGTTTTCTTGTCTA
1 AATTAA-GACAAACATGTTTTCTTGTCTA
*
1577368 AATTAAGAAAAACATGTT
1 AATTAAGACAAACATGTT
1577386 AAAGGTGTCA
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
28 72 0.51
29 46 0.33
30 23 0.16
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (28 bp):
AATTAAGACAAACATGTTTTCTTGTCTA
Found at i:1577292 original size:58 final size:57
Alignment explanation
Indices: 1577196--1577379 Score: 230
Period size: 58 Copynumber: 3.2 Consensus size: 57
1577186 TCTTATCTTT
* *
1577196 AATTAAGAC-AAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTATC-TGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
* * * *
1577253 GATTAAGACAAAAATATTTTTTCTGTCTTAAATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAAAATATTTTATCTGTC-TAAATTAAGACAAACATGTTTTCTTGTCTA
* * * *
1577311 AATTAAGACAAACATATTTTCT-TATCTAAATTAAGGTCAAACATGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTATCTGTCTAAATTAA-GACAAACATGTTTTCTTGTCTA
1577368 AATTAAGA-AAAA
1 AATTAAGACAAAA
1577380 CATGTTAAAG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
56 11 0.10
57 42 0.38
58 57 0.52
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (57 bp):
AATTAAGACAAAAATATTTTATCTGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
Found at i:1577368 original size:57 final size:56
Alignment explanation
Indices: 1577196--1577382 Score: 232
Period size: 57 Copynumber: 3.3 Consensus size: 56
1577186 TCTTATCTTT
* *
1577196 AATTAAGACAAA-ATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAACATA-TTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
* * * * *
1577253 GATTAAGACAAAAATATTTTTTCTGTCTTAAATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATATTTTCT-TGTC-TAAATTAAGACAAACATGTTTTCTTGTCTA
* *
1577311 AATTAAGACAAACATATTTTCTTATCTAAATTAAGGTCAAACATGTTTTCTTGTCTA
1 AATTAAGACAAACATATTTTCTTGTCTAAATTAA-GACAAACATGTTTTCTTGTCTA
*
1577368 AATTAAGAAAAACAT
1 AATTAAGACAAACAT
1577383 GTTAAAGGTG
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 10 0.09
57 54 0.48
58 48 0.43
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (56 bp):
AATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTA
Found at i:1579044 original size:18 final size:19
Alignment explanation
Indices: 1579021--1579061 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1579011 GAAACTCATA
*
1579021 TTTTA-TCTTTTTAATTAT
1 TTTTATTCTATTTAATTAT
*
1579039 TTTTATTCTATTTATTTAT
1 TTTTATTCTATTTAATTAT
1579058 TTTT
1 TTTT
1579062 TATTTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTCTATTTAATTAT
Found at i:1579527 original size:13 final size:13
Alignment explanation
Indices: 1579509--1579537 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1579499 ATGTGATTTT
1579509 CACATATATTGAG
1 CACATATATTGAG
1579522 CACATATATTGAG
1 CACATATATTGAG
1579535 CAC
1 CAC
1579538 TTTAGCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (13 bp):
CACATATATTGAG
Found at i:1583650 original size:30 final size:29
Alignment explanation
Indices: 1583614--1583683 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
1583604 AATCATTAGT
*
1583614 TATAAGAACTTAGATAACTCAAAATAAAAG
1 TATAAGAA-TTAGATAACTCAAAACAAAAG
** **
1583644 TATAAGAGATTATTTGGCTCAAAACAAAAG
1 TATAAGA-ATTAGATAACTCAAAACAAAAG
1583674 TATAAGAATT
1 TATAAGAATT
1583684 TGATTGAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 30 0.88
31 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (29 bp):
TATAAGAATTAGATAACTCAAAACAAAAG
Found at i:1587322 original size:188 final size:189
Alignment explanation
Indices: 1586965--1587342 Score: 483
Period size: 188 Copynumber: 2.0 Consensus size: 189
1586955 AATAAGCTCT
* * * * *
1586965 TATAATTAATAATTGACTAATGATCATTAGTCGATACTTAATTAAAAATATCACTTATTATTTTA
1 TATAACTAACAATTGACTAATGATAATTAGTCGACAATTAATTAAAAATATCACTTATTATTTTA
* * * * *
1587030 TACTCACATAAAGTTCACATAACGTTAATGTGATGATTATGTAGATAGTGATTTATCACATATTT
66 TACTCACATAAAATTAACATAACATTAATGTGATGATTATGTACAGAGTGATTTATCACATATTT
* * * *** * *
1587095 GTGTCATTATCTCATATTGGCATATCACATTAACTGTTATGACATGTCATCATATCACG
131 ATGTCATCATCCCATATCAACATATCACATTAACTGTTATAACATGTCAGCATATCACG
*
1587154 TATAACTAACAATTGACTAATGATAATTAGTCGACAATTAA-TAAAAATGTCACTTATTATTTTA
1 TATAACTAACAATTGACTAATGATAATTAGTCGACAATTAATTAAAAATATCACTTATTATTTTA
* * * *
1587218 TA-TCTACATAAAATTAACATAATATTGATGTGATG-TTGATGTACAGAGTGATTTGTCACATGT
66 TACTC-ACATAAAATTAACATAACATTAATGTGATGATT-ATGTACAGAGTGATTTATCACATAT
* * *
1587281 TTATGTCATCATCCCATATCAACATGTTACATTATCTGTTATAACATGTCAGCATATCACG
129 TTATGTCATCATCCCATATCAACATATCACATTAACTGTTATAACATGTCAGCATATCACG
1587342 T
1 T
1587343 CAACACTACT
Statistics
Matches: 161, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
187 4 0.02
188 121 0.75
189 36 0.22
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (189 bp):
TATAACTAACAATTGACTAATGATAATTAGTCGACAATTAATTAAAAATATCACTTATTATTTTA
TACTCACATAAAATTAACATAACATTAATGTGATGATTATGTACAGAGTGATTTATCACATATTT
ATGTCATCATCCCATATCAACATATCACATTAACTGTTATAACATGTCAGCATATCACG
Found at i:1589505 original size:29 final size:28
Alignment explanation
Indices: 1589464--1589651 Score: 225
Period size: 28 Copynumber: 6.5 Consensus size: 28
1589454 CACCTTTAAC
* *
1589464 ATGTTTTTCTTAATTTAGACAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAT
* *
1589492 ATGTTTGACCTTAATTTAGATAAGAAAAT
1 ATGTTTG-TCTTAATTTAGACAAGAAAAT
*
1589521 ATGTTTGTCTTAATTTAGATAAGAAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAAT
1589549 ATGTTTGTCTTAATTTAAGACAAGAAAAAT
1 ATGTTTGTCTTAATTT-AGACAAG-AAAAT
* * *
1589579 ATTTTTTGTCTTAATCTAGACAAGAAAAC
1 A-TGTTTGTCTTAATTTAGACAAGAAAAT
* *
1589608 ATATTTGTCTCAATTTAGACAAGATAAAAT
1 ATGTTTGTCTTAATTTAGACAAG--AAAAT
1589638 AT-TTTGTCTTAATT
1 ATGTTTGTCTTAATT
1589652 AAAGATAAGA
Statistics
Matches: 140, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
28 61 0.44
29 47 0.34
30 19 0.14
31 13 0.09
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (28 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAT
Found at i:1589553 original size:57 final size:57
Alignment explanation
Indices: 1589464--1589651 Score: 245
Period size: 57 Copynumber: 3.3 Consensus size: 57
1589454 CACCTTTAAC
* * *
1589464 ATGTTTTTCTTAATTTAGACAAGAAAACATGTTTGACCTTAATTTAGATAAG-AAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTG-TCTTAATTTAGACAAGAAAAAT
* *
1589521 ATGTTTGTCTTAATTTAGATAAGAAAATATGTTTGTCTTAATTTAAGACAAGAAAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTT-AGACAAGAAAAAT
* * * *
1589579 ATTTTTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAAT
1 A-TGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGA-AAAAT
1589638 AT-TTTGTCTTAATT
1 ATGTTTGTCTTAATT
1589652 AAAGATAAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
56 8 0.07
57 49 0.43
58 15 0.13
59 43 0.37
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (57 bp):
ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGAAAAAT
Found at i:1590508 original size:2 final size:2
Alignment explanation
Indices: 1590501--1590542 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1590491 NNNNNNNNNN
*
1590501 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1590543 AGAAGAGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1593107 original size:22 final size:22
Alignment explanation
Indices: 1593062--1593110 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1593052 CGAAGACACA
*
1593062 AAAGTTTTGCACATATATGCAT
1 AAAGTTTTGCACATATACGCAT
* * *
1593084 AAAGTTTTGCATATGTACGTAT
1 AAAGTTTTGCACATATACGCAT
1593106 AAAGT
1 AAAGT
1593111 GATGCTGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (22 bp):
AAAGTTTTGCACATATACGCAT
Found at i:1598939 original size:45 final size:44
Alignment explanation
Indices: 1598853--1598941 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
1598843 AAAGAAATTA
*
1598853 AATTATAGAAAGTAATATTTTTGGAGAGAGAGTAGTTTAGGTTT
1 AATTATAGAAAGTAATATTTTTGAAGAGAGAGTAGTTTAGGTTT
*
1598897 AATTATAGAAGGTAAT-TTTTTGAAGATGGAGAGTAGTTTAGGTTT
1 AATTATAGAAAGTAATATTTTTGAAGA--GAGAGTAGTTTAGGTTT
1598942 TGTCTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 9 0.22
44 15 0.37
45 17 0.41
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (44 bp):
AATTATAGAAAGTAATATTTTTGAAGAGAGAGTAGTTTAGGTTT
Found at i:1601879 original size:37 final size:37
Alignment explanation
Indices: 1601814--1601888 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
1601804 GTTTCTTCAT
* ** * *
1601814 ATGAAAAGTTATCTTAACACAACGGTTATGTTATATA
1 ATGAAAAATTATCTTAACACAAAAGTTATATCATATA
*
1601851 ATGAAAAATTATCTTAACTCAAAAGTTATATCATATA
1 ATGAAAAATTATCTTAACACAAAAGTTATATCATATA
1601888 A
1 A
1601889 GACGACTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (37 bp):
ATGAAAAATTATCTTAACACAAAAGTTATATCATATA
Found at i:1615116 original size:11 final size:11
Alignment explanation
Indices: 1615100--1615133 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1615090 TATAACTTGA
1615100 AAGAAAACTAT
1 AAGAAAACTAT
*
1615111 AAGAAAAATAT
1 AAGAAAACTAT
1615122 AAGAGAAACTAT
1 AAGA-AAACTAT
1615134 TTAGAGGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (11 bp):
AAGAAAACTAT
Found at i:1615147 original size:19 final size:19
Alignment explanation
Indices: 1615123--1615162 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1615113 GAAAAATATA
*
1615123 AGAGAAA-CTATTTAGAGGG
1 AGAGAAAGC-ATTTAAAGGG
1615142 AGAGAAAGCATTTAAAGGG
1 AGAGAAAGCATTTAAAGGG
1615161 AG
1 AG
1615163 CAAGAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.33, T:0.17
Consensus pattern (19 bp):
AGAGAAAGCATTTAAAGGG
Found at i:1617272 original size:17 final size:17
Alignment explanation
Indices: 1617250--1617283 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1617240 ATTAAAATTT
*
1617250 TAATATTTTAACTATAA
1 TAATATTTAAACTATAA
1617267 TAATATTTAAACTATAA
1 TAATATTTAAACTATAA
1617284 ATAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATTTAAACTATAA
Found at i:1617722 original size:23 final size:22
Alignment explanation
Indices: 1617690--1617759 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 22
1617680 TAAATTATAA
1617690 ATAAAATATTAATATTTAAATT
1 ATAAAATATTAATATTTAAATT
1617712 ATCAAAATATTAATATTTTAAATAAATT
1 AT-AAAATATTAATA--TT---TAAATT
1617740 ATAAAATATTAATATTTAAA
1 ATAAAATATTAATATTTAAA
1617760 AATACAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
22 6 0.14
23 12 0.29
25 4 0.10
27 12 0.29
28 8 0.19
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAAATATTAATATTTAAATT
Found at i:1617763 original size:16 final size:15
Alignment explanation
Indices: 1617715--1617760 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
1617705 TTAAATTATC
1617715 AAAATATTAATATTT
1 AAAATATTAATATTT
* *
1617730 TAAATA--AAT-TAT
1 AAAATATTAATATTT
1617742 AAAATATTAATATTT
1 AAAATATTAATATTT
1617757 AAAA
1 AAAA
1617761 ATACAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
12 7 0.29
13 3 0.12
14 3 0.12
15 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATTAATATTT
Found at i:1617763 original size:28 final size:28
Alignment explanation
Indices: 1617706--1617760 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
1617696 TATTAATATT
*
1617706 TAAATTATCAAAATATTAATATTTTAAA
1 TAAATTATCAAAATATTAATATTTAAAA
1617734 TAAATTAT-AAAATATTAATATTTAAAA
1 TAAATTATCAAAATATTAATATTTAAAA
1617761 ATACAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAATTATCAAAATATTAATATTTAAAA
Found at i:1622884 original size:7 final size:6
Alignment explanation
Indices: 1622867--1622923 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
1622857 AAGTGTATAA
* *
1622867 ATTTTT ATTTTT ATTTTT ATTATTT ATTATTT -TACTTT ATTTCT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATT-TTT ATT-TTT AT-TTTT ATTTTT ATTTTT
*
1622917 GTTTTT A
1 ATTTTT A
1622924 CACCCTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 31 0.74
7 11 0.26
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:1626556 original size:5 final size:5
Alignment explanation
Indices: 1626540--1626579 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
1626530 GGAAATGGCA
*
1626540 TCATT TCCTT TCATT TCATT TCAATT TACATT TCATT TCA
1 TCATT TCATT TCATT TCATT TC-ATT T-CATT TCATT TCA
1626580 CCTTCTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 8 0.26
7 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (5 bp):
TCATT
Found at i:1630997 original size:12 final size:12
Alignment explanation
Indices: 1630980--1631057 Score: 63
Period size: 12 Copynumber: 6.3 Consensus size: 12
1630970 TGCCTAAAAC
1630980 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
1630992 AAAAAAGGAAAG
1 AAAAAAAGAAAG
*
1631004 AAAAATAA-ATAAA
1 AAAAA-AAGA-AAG
1631017 AAAAAGAAGAAA-
1 AAAAA-AAGAAAG
*
1631029 AGGAAAAAGAAAG
1 A-AAAAAAGAAAG
1631042 AAAAAATAGAAA-
1 AAAAAA-AGAAAG
1631054 AAAA
1 AAAA
1631058 GTATTCAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
12 32 0.59
13 21 0.39
14 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:1631024 original size:19 final size:19
Alignment explanation
Indices: 1630982--1631055 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
1630972 CCTAAAACAA
1630982 AAAAAGAAAGAAAAAAGGAAAG
1 AAAAA-AAAG-AAAAA-GAAAG
*
1631004 AAAAATAAATAAAAA-AAAG
1 AAAAA-AAAGAAAAAGAAAG
* *
1631023 AAGAAAAGGAAAAAGAAAG
1 AAAAAAAAGAAAAAGAAAG
*
1631042 AAAAAATAGAAAAA
1 AAAAAAAAGAAAAA
1631056 AAGTATTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.16
19 23 0.53
21 5 0.12
22 8 0.19
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAAAAAGAAAAAGAAAG
Found at i:1631056 original size:38 final size:36
Alignment explanation
Indices: 1630975--1631057 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 36
1630965 TACTATGCCT
*
1630975 AAAACAAAAAAAGAAAGAAAAAAGGAAAGAAAAATA
1 AAAAAAAAAAAAGAAAGAAAAAAGGAAAGAAAAATA
*
1631011 AATAAAAAAAAGAAGAAAAGGAAAAA-GAAAGAAAAAATA
1 AA-AAAAAAAA-AAG-AAAGAAAAAAGGAAAG-AAAAATA
*
1631050 GAAAAAAA
1 AAAAAAAA
1631058 GTATTCAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 2 0.05
37 7 0.17
38 14 0.35
39 17 0.43
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (36 bp):
AAAAAAAAAAAAGAAAGAAAAAAGGAAAGAAAAATA
Found at i:1631792 original size:10 final size:10
Alignment explanation
Indices: 1631777--1631803 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1631767 TGCACCATGA
1631777 ATTAAGAACT
1 ATTAAGAACT
1631787 ATTAAGAACT
1 ATTAAGAACT
1631797 ATTAAGA
1 ATTAAGA
1631804 TCCCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (10 bp):
ATTAAGAACT
Found at i:1631981 original size:50 final size:50
Alignment explanation
Indices: 1631885--1632049 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 50
1631875 GTTTATTTTT
* * * *
1631885 ATTACTTTTAAAGTTGTAAAACCTCAGATAAAGAATTGTTTATTTTTCAA
1 ATTAGTTTTAAAGTAGTAAAACCTCAGATGAAGAGTTGTTTATTTTTCAA
* * * *
1631935 ATTAGTTTTGAAGTGGTAGAGCCTCAGATGAAGAGTT-TTTATTTTTTTCAA
1 ATTAGTTTTAAAGTAGTAAAACCTCAGATGAAGAGTTGTTTA--TTTTTCAA
* * *
1631986 ATT-GATTTTAAAATAGTAAAACTTCAGATGAAGAGTTGTTTATTTTTCAG
1 ATTAG-TTTTAAAGTAGTAAAACCTCAGATGAAGAGTTGTTTATTTTTCAA
*
1632036 ATTAATTTTAAAGT
1 ATTAGTTTTAAAGT
1632050 TGTTTAAATC
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.04
50 49 0.52
51 37 0.39
52 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (50 bp):
ATTAGTTTTAAAGTAGTAAAACCTCAGATGAAGAGTTGTTTATTTTTCAA
Found at i:1638926 original size:21 final size:22
Alignment explanation
Indices: 1638891--1638934 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1638881 CTCTTAAAGT
1638891 AATTTAAAATAAAATAACCTAA
1 AATTTAAAATAAAATAACCTAA
* *
1638913 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACCTAA
1638934 A
1 A
1638935 TTAATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACCTAA
Found at i:1641814 original size:20 final size:23
Alignment explanation
Indices: 1641786--1641830 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
1641776 GTTTCTATTT
1641786 AAACTTATAATAC-T-AAATATA
1 AAACTTATAATACATAAAATATA
*
1641807 AAAC-TATAATGCATAAAATATA
1 AAACTTATAATACATAAAATATA
1641829 AA
1 AA
1641831 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
AAACTTATAATACATAAAATATA
Found at i:1644006 original size:3 final size:3
Alignment explanation
Indices: 1643998--1644044 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1643988 GATTTGCATA
* *
1643998 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1644045 AAAAGTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1644046 original size:9 final size:9
Alignment explanation
Indices: 1643995--1644047 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
1643985 AGGGATTTGC
1643995 ATAAATAATA
1 ATAAA-AATA
*
1644005 ATAATAATA
1 ATAAAAATA
*
1644014 ATAATAATA
1 ATAAAAATA
*
1644023 ATAATAATA
1 ATAAAAATA
*
1644032 ACAAAAATA
1 ATAAAAATA
1644041 ATAAAAA
1 ATAAAAA
1644048 AGTAAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
9 35 0.90
10 4 0.10
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:1655913 original size:22 final size:23
Alignment explanation
Indices: 1655888--1655934 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1655878 ATTTCTATGC
*
1655888 ATTACTA-CAAGAATTAGGCT-AA
1 ATTACTATCAA-AATTAAGCTCAA
1655910 ATTACTATCAAAATTAAGCTCAA
1 ATTACTATCAAAATTAAGCTCAA
1655933 AT
1 AT
1655935 AACTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (23 bp):
ATTACTATCAAAATTAAGCTCAA
Found at i:1657484 original size:125 final size:125
Alignment explanation
Indices: 1657251--1657496 Score: 305
Period size: 125 Copynumber: 2.0 Consensus size: 125
1657241 TACACCCCAA
*
1657251 AAGTGGCAATATGGCTCAATTGAGGGAAAGCAATTATGCACTATGCATTGTACTCTTTTTTCCTT
1 AAGTGGCAATATGGCTCAATTGAGGGAAAGCAATTATGCACTATGCACTGTACTCTTTTTTCCTT
* * * *
1657316 TTAACTGGTTTTTATCCCATTGGGTTTTTCCAGCTTAAAGTTTTTAATGAGGCAATCTAG
66 TTAACTGGTTTTTATCCCACTAGGTTTTTCCAACTTAAAGTTTTTAATAAGGCAATCTAG
* ** * * * * *
1657376 AAGTGGCATTATGGCTCAATTGAGAGG-GGGTAATTATGGACTATGCACTGTATTTTTTTTTCTT
1 AAGTGGCAATATGGCTCAATTGAG-GGAAAGCAATTATGCACTATGCACTGTACTCTTTTTTCCT
* * * * * *
1657440 TTTGATTGGTTTTTGTCCCACTAGGTTTTTCTAATTTAAGGTTTTTAATAAGGCAAT
65 TTTAACTGGTTTTTATCCCACTAGGTTTTTCCAACTTAAAGTTTTTAATAAGGCAAT
1657497 ACAATAGACA
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
125 99 0.98
126 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (125 bp):
AAGTGGCAATATGGCTCAATTGAGGGAAAGCAATTATGCACTATGCACTGTACTCTTTTTTCCTT
TTAACTGGTTTTTATCCCACTAGGTTTTTCCAACTTAAAGTTTTTAATAAGGCAATCTAG
Found at i:1658223 original size:16 final size:17
Alignment explanation
Indices: 1658202--1658246 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1658192 TCGGTTAAAT
*
1658202 TTTCCCACCATTT-CGC
1 TTTCCCACCATTTGAGC
* *
1658218 TTTCCCACAATTTGAGT
1 TTTCCCACCATTTGAGC
1658235 TTTCCCACCATT
1 TTTCCCACCATT
1658247 GACCCAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.18, C:0.36, G:0.07, T:0.40
Consensus pattern (17 bp):
TTTCCCACCATTTGAGC
Found at i:1658626 original size:28 final size:27
Alignment explanation
Indices: 1658458--1658854 Score: 315
Period size: 27 Copynumber: 14.6 Consensus size: 27
1658448 ACTTTTTCGT
* * *
1658458 CATGGCATATAACAGCTAAATCTTCAA
1 CATGGCATGTAACAACTAATTCTTCAA
*
1658485 CATGGCATGTAACAA-TAATATTTTTCAA
1 CATGGCATGTAACAACT-A-ATTCTTCAA
* ***
1658513 TATGATGTGTAACAACTAAATT-TTCAA
1 CATGGCATGTAACAACT-AATTCTTCAA
* * * *
1658540 CATAGCTTCT-ACTAACTAAATCTTCAA
1 CATGGCATGTAAC-AACTAATTCTTCAA
*
1658567 CATGGCATGTAACAACTAAATCTTCAA
1 CATGGCATGTAACAACTAATTCTTCAA
* *
1658594 CATGGCGTGTAACAACTGCATTCTTCAA
1 CATGGCATGTAACAACT-AATTCTTCAA
* *
1658622 CATGGCATGTAACAACTACATTTTTCCA
1 CATGGCATGTAACAACTA-ATTCTTCAA
* *
1658650 CATGGCTTGTAACAACTAAATCTTCAA
1 CATGGCATGTAACAACTAATTCTTCAA
* * * *
1658677 CCTGACATGTAACAACTAAATCTTTAA
1 CATGGCATGTAACAACTAATTCTTCAA
* * *
1658704 CATGGCGTGTAACGACTATATTTTTCAA
1 CATGGCATGTAACAACTA-ATTCTTCAA
*
1658732 CATGGCATGTAACAACTACATTTTTCAA
1 CATGGCATGTAACAACTA-ATTCTTCAA
* * * *
1658760 CATGGCGTGTAACAA-TTATT-TCCCA
1 CATGGCATGTAACAACTAATTCTTCAA
*
1658785 CATGGCATGTAACAACTTAATT-TTAAAA
1 CATGGCATGTAACAAC-TAATTCTT-CAA
** * *
1658813 CATGGTGTGGAAC-ACTACATTTTTCAA
1 CATGGCATGTAACAACTA-ATTCTTCAA
1658840 CATGGCA-GTAACAAC
1 CATGGCATGTAACAAC
1658855 ATTTTTTCCA
Statistics
Matches: 296, Mismatches: 59, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
25 17 0.06
26 15 0.05
27 132 0.45
28 129 0.44
29 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (27 bp):
CATGGCATGTAACAACTAATTCTTCAA
Found at i:1658708 original size:110 final size:109
Alignment explanation
Indices: 1658458--1658862 Score: 448
Period size: 110 Copynumber: 3.7 Consensus size: 109
1658448 ACTTTTTCGT
* * * * * ***
1658458 CATGGCATATAACAGCTAAATCTTCAACATGGCATGTAACAA-TAATATTTTTCAATATGATGTG
1 CATGGCATGTAACAACTAAATCTTCAACATGGCGTGTAACAACT-ACATTTTTCAACATGGCATG
* * *
1658522 TAACAACTAAATTTTCAACATAGCTTCT-ACTAACTAAATCTTCAA
65 TAACAACTAATTTTTCAACATGGCTTGTAAC-AACTAAATCTTCAA
* *
1658567 CATGGCATGTAACAACTAAATCTTCAACATGGCGTGTAACAACTGCATTCTTCAACATGGCATGT
1 CATGGCATGTAACAACTAAATCTTCAACATGGCGTGTAACAACTACATTTTTCAACATGGCATGT
*
1658632 AACAACTACATTTTTCCACATGGCTTGTAACAACTAAATCTTCAA
66 AACAACTA-ATTTTTCAACATGGCTTGTAACAACTAAATCTTCAA
* * * * *
1658677 CCTGACATGTAACAACTAAATCTTTAACATGGCGTGTAACGACTATATTTTTCAACATGGCATGT
1 CATGGCATGTAACAACTAAATCTTCAACATGGCGTGTAACAACTACATTTTTCAACATGGCATGT
* * *
1658742 AACAACTACATTTTTCAACATGGCGTGTAACAA-T-TAT-TTCCCA
66 AACAACTA-ATTTTTCAACATGGCTTGTAACAACTAAATCTT-CAA
* * * * *
1658785 CATGGCATGTAACAACTTAATTTTAAAACATGGTGTGGAAC-ACTACATTTTTCAACATGGCA-G
1 CATGGCATGTAACAACTAAATCTT-CAACATGGCGTGTAACAACTACATTTTTCAACATGGCATG
*
1658848 TAACAAC-ATTTTTTC
65 TAACAACTAATTTTTC
1658863 CACAAAATCT
Statistics
Matches: 257, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
105 6 0.02
106 1 0.00
107 10 0.04
108 44 0.17
109 75 0.29
110 119 0.46
111 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (109 bp):
CATGGCATGTAACAACTAAATCTTCAACATGGCGTGTAACAACTACATTTTTCAACATGGCATGT
AACAACTAATTTTTCAACATGGCTTGTAACAACTAAATCTTCAA
Found at i:1660603 original size:20 final size:23
Alignment explanation
Indices: 1660575--1660619 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
1660565 ATTTTTATTT
1660575 AAACTTATAATAC-T-AAATATA
1 AAACTTATAATACATAAAATATA
*
1660596 AAAC-TATAATGCATAAAATATA
1 AAACTTATAATACATAAAATATA
1660618 AA
1 AA
1660620 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
AAACTTATAATACATAAAATATA
Found at i:1661068 original size:9 final size:10
Alignment explanation
Indices: 1661021--1661065 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
1661011 AACGTATAAG
1661021 TAAATAAAATA
1 TAAATAAAA-A
*
1661032 GAAATGAAAAA
1 TAAAT-AAAAA
*
1661043 TAAACAAAAA
1 TAAATAAAAA
1661053 TAAATAAAAA
1 TAAATAAAAA
1661063 TAA
1 TAA
1661066 TAATATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 17 0.59
11 8 0.28
12 4 0.14
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:1662491 original size:13 final size:14
Alignment explanation
Indices: 1662473--1662502 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1662463 TTAAAATTGT
1662473 TAAATATTA-AATA
1 TAAATATTACAATA
1662486 TAAATATTACAATA
1 TAAATATTACAATA
1662500 TAA
1 TAA
1662503 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATATTACAATA
Found at i:1662686 original size:53 final size:53
Alignment explanation
Indices: 1662582--1662686 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 53
1662572 CAATATGACC
* * * *
1662582 TTTTGTTTTTCGTTATGGTTACATTAGTCTTAAACTTTTTGCTTTATTTTTTG
1 TTTTGTTTTTCGTTATGGTTACATCAATCCTAAACTTTTTGCTTCATTTTTTG
* ** *
1662635 TTTTG-TTTTCTTTATGGTTACATCAATCCTAATTTATTTTTCTTCATTTTTT
1 TTTTGTTTTTCGTTATGGTTACATCAATCCTAAACT-TTTTGCTTCATTTTTT
1662687 CATTTTTATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 24 0.56
53 19 0.44
ACGTcount: A:0.16, C:0.11, G:0.10, T:0.63
Consensus pattern (53 bp):
TTTTGTTTTTCGTTATGGTTACATCAATCCTAAACTTTTTGCTTCATTTTTTG
Found at i:1667362 original size:23 final size:23
Alignment explanation
Indices: 1667335--1667378 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1667325 TGCATAAGGG
* *
1667335 TTGATATGTGATTGCGTGACATA
1 TTGATAGGTCATTGCGTGACATA
*
1667358 TTGATAGGTCATTGTGTGACA
1 TTGATAGGTCATTGCGTGACA
1667379 GCATGACTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (23 bp):
TTGATAGGTCATTGCGTGACATA
Found at i:1667590 original size:23 final size:23
Alignment explanation
Indices: 1667557--1667604 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1667547 TTAACATAGT
*
1667557 ATGACTGGTTGATAGGTCT-TTGC
1 ATGACTAGTTGATAGGT-TATTGC
1667580 ATGACTAGTTGATAGGTTATTGC
1 ATGACTAGTTGATAGGTTATTGC
1667603 AT
1 AT
1667605 AAATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (23 bp):
ATGACTAGTTGATAGGTTATTGC
Found at i:1668486 original size:14 final size:14
Alignment explanation
Indices: 1668467--1668496 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1668457 CGCCTCACCA
1668467 GTTGATATTGATTT
1 GTTGATATTGATTT
1668481 GTTGATATTGATTT
1 GTTGATATTGATTT
1668495 GT
1 GT
1668497 GCGAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTGATATTGATTT
Found at i:1668560 original size:23 final size:23
Alignment explanation
Indices: 1668508--1668580 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
1668498 CGAGTATTTG
* * *
1668508 ATATGGAATCACGTGACTACTAA
1 ATATGGAATCACATGACTAGTTA
* *
1668531 ATTTGGAATCACATGACTAGTTC
1 ATATGGAATCACATGACTAGTTA
* *
1668554 ATATGGAATCGCATGACTAGTTG
1 ATATGGAATCACATGACTAGTTA
1668577 ATAT
1 ATAT
1668581 TGAGTCACGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (23 bp):
ATATGGAATCACATGACTAGTTA
Found at i:1668658 original size:69 final size:69
Alignment explanation
Indices: 1668546--1668674 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
1668536 GAATCACATG
* * *
1668546 ACTAGTTCATATGGAATCGCATGACTAGTTGATATTGAGTCACGCGAGTTGTAAATATGGAGTGG
1 ACTAGTTCATATGGAATCGCATGACTAGTTGATATTAAATCACGCGAGTAGTAAATATGGAGTGG
1668611 TGTT
66 TGTT
* * * *
1668615 ACTAGTT-ATTATGGAATCGCGTGATTAGTT-ATTTTAAAATCACGTGAGTAGTAAATATGG
1 ACTAGTTCA-TATGGAATCGCATGACTAGTTGATATT-AAATCACGCGAGTAGTAAATATGG
1668675 GTTCGCGTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
68 5 0.10
69 46 0.90
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (69 bp):
ACTAGTTCATATGGAATCGCATGACTAGTTGATATTAAATCACGCGAGTAGTAAATATGGAGTGG
TGTT
Found at i:1668683 original size:23 final size:23
Alignment explanation
Indices: 1668657--1668721 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
1668647 TTTAAAATCA
**
1668657 CGTGAGTAGTAAATATGGGTTCG
1 CGTGAGTAGTAAATATGGACTCG
** *
1668680 CGTGACG-AGTTGATATTGACTCG
1 CGTGA-GTAGTAAATATGGACTCG
*
1668703 CATGAGTAGTAAATATGGA
1 CGTGAGTAGTAAATATGGA
1668722 GTGGTGTTGC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (23 bp):
CGTGAGTAGTAAATATGGACTCG
Found at i:1668813 original size:112 final size:113
Alignment explanation
Indices: 1668567--1668901 Score: 429
Period size: 112 Copynumber: 2.9 Consensus size: 113
1668557 TGGAATCGCA
* * * ** * *
1668567 TGACTAGTTGATATTGAGTCACGCGAGTTGTAAATATGGAGTGGTGTTACTAGTTATTATGGAAT
1 TGACGAGTTGACATTGACTCACATGAGTAGTAAATATGGAGTGGTGTTACTAGTTATTATTGAAT
* * * * *
1668632 CGCGTGATTAGTTATTTTAAAATCACGTGAGTAGTAAATATGGGTTCGCG
66 CGCATGACTA--TATTATAAAATCACCTGAGTAGTAAATATGGGTTCACG
* * *
1668682 TGACGAGTTGATATTGACTCGCATGAGTAGTAAATATGGAGTGGTGTTGCTAGTTATTATTGAAT
1 TGACGAGTTGACATTGACTCACATGAGTAGTAAATATGGAGTGGTGTTACTAGTTATTATTGAAT
** *
1668747 CGCATGACTA-ATTATAAAATTGCTTGAGTAGTAAATATGGGTTCACG
66 CGCATGACTATATTATAAAATCACCTGAGTAGTAAATATGGGTTCACG
* * *
1668794 TTACTAGTTGACATTGACTCACATGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATTGAAT
1 TGACGAGTTGACATTGACTCACATGAGTAGTAAATATGGAGTGGTGTTACTAGTTATTATTGAAT
*
1668859 CGCATGACTAGTTACTATAAAATCACCTGAGTAGTAAATATGG
66 CGCATGACTA--TATTATAAAATCACCTGAGTAGTAAATATGG
1668902 AGTCGCGTGA
Statistics
Matches: 192, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
112 101 0.53
115 91 0.47
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (113 bp):
TGACGAGTTGACATTGACTCACATGAGTAGTAAATATGGAGTGGTGTTACTAGTTATTATTGAAT
CGCATGACTATATTATAAAATCACCTGAGTAGTAAATATGGGTTCACG
Found at i:1680146 original size:33 final size:34
Alignment explanation
Indices: 1680090--1680153 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
1680080 TATGATGACC
* *
1680090 TTTGGAGACATTGAGGATGATGATATGCCCTTAT
1 TTTGGAGACATTAAGGATAATGATATGCCCTTAT
1680124 TTTGGAGAC-TTAAGGATAATGATATGCCCT
1 TTTGGAGACATTAAGGATAATGATATGCCCT
1680154 GTGTTTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (34 bp):
TTTGGAGACATTAAGGATAATGATATGCCCTTAT
Found at i:1699566 original size:28 final size:27
Alignment explanation
Indices: 1699527--1699602 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 27
1699517 TTATAACAAC
* *
1699527 TCTTCTCTTAATTAAGACAACCATGTTT
1 TCTTGTCTTAATTAAGACAAACAT-TTT
1699555 TCTTGTCTTAATTAAGACAAACATTTT
1 TCTTGTCTTAATTAAGACAAACATTTT
* **
1699582 ACTTGTCCGAATTAAGACAAA
1 TCTTGTCTTAATTAAGACAAA
1699603 TATGTTAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.49
28 22 0.51
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (27 bp):
TCTTGTCTTAATTAAGACAAACATTTT
Found at i:1699594 original size:27 final size:28
Alignment explanation
Indices: 1699536--1699608 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
1699526 CTCTTCTCTT
* * **
1699536 AATTAAGACAACCATGTTTTCTTGTCTT
1 AATTAAGACAAACATGTTTACTTGTCCG
1699564 AATTAAGACAAACAT-TTTACTTGTCCG
1 AATTAAGACAAACATGTTTACTTGTCCG
*
1699591 AATTAAGACAAATATGTT
1 AATTAAGACAAACATGTT
1699609 AAGTTACCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (28 bp):
AATTAAGACAAACATGTTTACTTGTCCG
Found at i:1702793 original size:22 final size:22
Alignment explanation
Indices: 1702757--1702802 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1702747 CCTCAAGAGA
* *
1702757 GCCGTAGCCTTCACTCTTCTAG
1 GCCGTAACCTCCACTCTTCTAG
1702779 GCCGTAACCTCCACTCTTCTAG
1 GCCGTAACCTCCACTCTTCTAG
1702801 GC
1 GC
1702803 TGCAGCCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.39, G:0.17, T:0.28
Consensus pattern (22 bp):
GCCGTAACCTCCACTCTTCTAG
Found at i:1702815 original size:22 final size:22
Alignment explanation
Indices: 1702757--1702815 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
1702747 CCTCAAGAGA
*
1702757 GCCGTAGCCTTCACTCTTCTAG
1 GCCGCAGCCTTCACTCTTCTAG
* * *
1702779 GCCGTAACCTCCACTCTTCTAG
1 GCCGCAGCCTTCACTCTTCTAG
*
1702801 GCTGCAGCCTTCACT
1 GCCGCAGCCTTCACT
1702816 TCCTAATGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.39, G:0.17, T:0.29
Consensus pattern (22 bp):
GCCGCAGCCTTCACTCTTCTAG
Found at i:1706578 original size:26 final size:27
Alignment explanation
Indices: 1706540--1706591 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
1706530 TCTCTTGCTC
*
1706540 ACAAATCTGTTTTAATTTA-TTTTAAG
1 ACAAATCTATTTTAATTTACTTTTAAG
1706566 ACAAATCTATTTTAATTTACTTTTAA
1 ACAAATCTATTTTAATTTACTTTTAA
1706592 ATGATTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.50
Consensus pattern (27 bp):
ACAAATCTATTTTAATTTACTTTTAAG
Found at i:1709332 original size:7 final size:7
Alignment explanation
Indices: 1709320--1709347 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1709310 AGAGAAGAAT
1709320 ACTGGGG
1 ACTGGGG
1709327 ACTGGGG
1 ACTGGGG
1709334 ACTGGGG
1 ACTGGGG
1709341 ACTGGGG
1 ACTGGGG
1709348 GGTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.57, T:0.14
Consensus pattern (7 bp):
ACTGGGG
Found at i:1727539 original size:4 final size:4
Alignment explanation
Indices: 1727530--1727556 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1727520 AGATATAGAG
1727530 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1727557 TGCTGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:1727721 original size:3 final size:3
Alignment explanation
Indices: 1727713--1727746 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1727703 GCTTTTATGC
1727713 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1727747 AAGATAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1729039 original size:17 final size:17
Alignment explanation
Indices: 1729017--1729050 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1729007 CTCTCTCTCT
*
1729017 CTCTTTGTTTCTGTTTC
1 CTCTTTGTCTCTGTTTC
1729034 CTCTTTGTCTCTGTTTC
1 CTCTTTGTCTCTGTTTC
1729051 TCAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.12, T:0.62
Consensus pattern (17 bp):
CTCTTTGTCTCTGTTTC
Found at i:1736313 original size:3 final size:3
Alignment explanation
Indices: 1736305--1736331 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1736295 CTGTGAAGGA
1736305 GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT
1736332 TGAACAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:1751419 original size:17 final size:18
Alignment explanation
Indices: 1751384--1751419 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1751374 TTTGTAGGAT
*
1751384 ATTTGATGAAAAAGGTTC
1 ATTTGATGAAAAAGCTTC
1751402 ATTTGATGAAAAA-CTTC
1 ATTTGATGAAAAAGCTTC
1751419 A
1 A
1751420 CAAGTATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (18 bp):
ATTTGATGAAAAAGCTTC
Found at i:1752313 original size:18 final size:19
Alignment explanation
Indices: 1752290--1752330 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1752280 GTAGAAAGAG
1752290 TATTTT-TAAATAAAATAA
1 TATTTTATAAATAAAATAA
1752308 TATTTTATAAATAAAATAA
1 TATTTTATAAATAAAATAA
1752327 TATT
1 TATT
1752331 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTTTATAAATAAAATAA
Found at i:1752333 original size:15 final size:16
Alignment explanation
Indices: 1752294--1752336 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
1752284 AAAGAGTATT
1752294 TTTAAATAAAATAATA
1 TTTAAATAAAATAATA
1752310 TTTTATAAATAAAATAATA
1 --TT-TAAATAAAATAATA
*
1752329 TTAAAATA
1 TTTAAATA
1752337 TTAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 2 0.09
18 2 0.09
19 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTAAATAAAATAATA
Found at i:1759404 original size:31 final size:31
Alignment explanation
Indices: 1759369--1759449 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 31
1759359 GATTTGTAAT
*
1759369 AAAATATTTATAATATCCATAGTAGCTAAAC
1 AAAATATTTACAATATCCATAGTAGCTAAAC
* *
1759400 AAAATA--TACAATATCCATAGTAGGTAAGC
1 AAAATATTTACAATATCCATAGTAGCTAAAC
* *
1759429 AAGATATATT-GAATATCCATA
1 AAAATAT-TTACAATATCCATA
1759450 ATAACTAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 25 0.60
31 16 0.38
32 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (31 bp):
AAAATATTTACAATATCCATAGTAGCTAAAC
Found at i:1760878 original size:21 final size:20
Alignment explanation
Indices: 1760844--1760897 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
1760834 TAACTATTGT
*
1760844 TAAAGTATATTAAAGCAAAA
1 TAAAGTAAATTAAAGCAAAA
**
1760864 TAAAGTAAAATTAAATTAAAA
1 TAAAGT-AAATTAAAGCAAAA
**
1760885 TAACTTAAATTAA
1 TAAAGTAAATTAA
1760898 CTACCCAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (20 bp):
TAAAGTAAATTAAAGCAAAA
Found at i:1777572 original size:35 final size:35
Alignment explanation
Indices: 1777522--1777633 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
1777512 AAGGGAAATA
* **
1777522 AGCTTTTT-ACAAGATCAAATGAAACCCTCACAAT
1 AGCTTTTTAACGAGATCAAGCGAAACCCTCACAAT
* * * *
1777556 AGATTTTTAATGAGATCAAGCAAAACCCTCATAAT
1 AGCTTTTTAACGAGATCAAGCGAAACCCTCACAAT
* *
1777591 AGCTTTTTAACGAGATTAAGCGAAACCCTTACAAT
1 AGCTTTTTAACGAGATCAAGCGAAACCCTCACAAT
1777626 AGCTTTTT
1 AGCTTTTT
1777634 CTGGGATCAA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
34 7 0.11
35 57 0.89
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (35 bp):
AGCTTTTTAACGAGATCAAGCGAAACCCTCACAAT
Found at i:1784593 original size:21 final size:21
Alignment explanation
Indices: 1784569--1784636 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1784559 TTGAATGGAG
*
1784569 GCATTAGTCTTTGTCATAAAT
1 GCATCAGTCTTTGTCATAAAT
* * * * *
1784590 GCATCAATTTTTATTATGAAT
1 GCATCAGTCTTTGTCATAAAT
*
1784611 GCATCAGTCTTTGTCATGAATT
1 GCATCAGTCTTTGTCAT-AAAT
1784633 GCAT
1 GCAT
1784637 GAATATATCC
Statistics
Matches: 34, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
21 28 0.82
22 6 0.18
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (21 bp):
GCATCAGTCTTTGTCATAAAT
Found at i:1793288 original size:30 final size:30
Alignment explanation
Indices: 1793254--1793314 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
1793244 GATCATTTTG
*
1793254 TCATAATCAAAATTATAATCATTTTAAAGC
1 TCATAATCAAAACTATAATCATTTTAAAGC
1793284 TCATAATCAAAACTATAATCATTTTAAAGC
1 TCATAATCAAAACTATAATCATTTTAAAGC
1793314 T
1 T
1793315 AACAGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (30 bp):
TCATAATCAAAACTATAATCATTTTAAAGC
Found at i:1793289 original size:18 final size:17
Alignment explanation
Indices: 1793267--1793315 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 17
1793257 TAATCAAAAT
1793267 TATAATCATTTTAAAGC
1 TATAATCATTTTAAAGC
1793284 TCATAATCA----AAA-C
1 T-ATAATCATTTTAAAGC
1793297 TATAATCATTTTAAAGC
1 TATAATCATTTTAAAGC
1793314 TA
1 TA
1793316 ACAGGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
12 7 0.27
13 2 0.08
14 3 0.12
16 3 0.12
17 4 0.15
18 7 0.27
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (17 bp):
TATAATCATTTTAAAGC
Found at i:1795251 original size:19 final size:19
Alignment explanation
Indices: 1795208--1795253 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1795198 ATTTAAGGTA
*
1795208 AAGTACCTCAAAAACTATC
1 AAGTACCTCAAAAAATATC
* *
1795227 AGGTACCTCAAAAAATATT
1 AAGTACCTCAAAAAATATC
1795246 AAGTACCT
1 AAGTACCT
1795254 TGTTTGGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (19 bp):
AAGTACCTCAAAAAATATC
Found at i:1803390 original size:20 final size:21
Alignment explanation
Indices: 1803344--1803399 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1803334 AACAAGTTTG
*
1803344 AAAAAGCT-ATTCAAACAAATTC
1 AAAAA-CTCATTCAATC-AATTC
1803366 AAAAA-TCATTCAATCAATTC
1 AAAAACTCATTCAATCAATTC
*
1803386 CAAAACTCATTCAA
1 AAAAACTCATTCAA
1803400 GTAATTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.33
21 15 0.50
22 5 0.17
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAACTCATTCAATCAATTC
Found at i:1803487 original size:22 final size:21
Alignment explanation
Indices: 1803462--1803538 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
1803452 AAAAAAAATT
* *
1803462 AAAAACTATTCAATCAAGTTC
1 AAAAACTATTCAAACAACTTC
1803483 AAAAACTCATTCAAACAACTTC
1 AAAAACT-ATTCAAACAACTTC
* * *
1803505 AAAAATTATTCAAAAAAATTC
1 AAAAACTATTCAAACAACTTC
1803526 AAAAA-TCATTCAA
1 AAAAACT-ATTCAA
1803539 GTAGTTTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 1 0.02
21 30 0.61
22 18 0.37
ACGTcount: A:0.55, C:0.18, G:0.01, T:0.26
Consensus pattern (21 bp):
AAAAACTATTCAAACAACTTC
Found at i:1803518 original size:11 final size:11
Alignment explanation
Indices: 1803480--1803538 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
1803470 TTCAATCAAG
*
1803480 TTCAAAAACTCA
1 TTCAAAAA-TAA
* *
1803492 TTCAAACA-AC
1 TTCAAAAATAA
*
1803502 TTCAAAAATTA
1 TTCAAAAATAA
1803513 TTCAAAAA-AA
1 TTCAAAAATAA
*
1803523 TTCAAAAATCA
1 TTCAAAAATAA
1803534 TTCAA
1 TTCAA
1803539 GTAGTTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
10 16 0.43
11 14 0.38
12 7 0.19
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
TTCAAAAATAA
Found at i:1803661 original size:21 final size:21
Alignment explanation
Indices: 1803619--1803698 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
1803609 TTAATAAATT
1803619 AAGTTCAAAAA-CATATTCAAAC
1 AAGTTCAAAAATCAT-TT-AAAC
*
1803641 AACTTCAAAAATCATTTAAAC
1 AAGTTCAAAAATCATTTAAAC
** * *
1803662 AAGTTCAAGGATCACTCAAAC
1 AAGTTCAAAAATCATTTAAAC
*
1803683 AAGTTCAAAGATCATT
1 AAGTTCAAAAATCATT
1803699 GAAGCAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 34 0.69
22 12 0.24
23 3 0.06
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGTTCAAAAATCATTTAAAC
Found at i:1819813 original size:20 final size:19
Alignment explanation
Indices: 1819772--1819815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1819762 TATAAATAGC
*
1819772 TATTTTAAGTCCATTTATT
1 TATTTTAAGTCCATTTACT
* *
1819791 TATTTTTAGTCCTTTTGACT
1 TATTTTAAGTCCATTT-ACT
1819811 TATTT
1 TATTT
1819816 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.61
Consensus pattern (19 bp):
TATTTTAAGTCCATTTACT
Found at i:1821231 original size:310 final size:310
Alignment explanation
Indices: 1820820--1821441 Score: 1145
Period size: 310 Copynumber: 2.0 Consensus size: 310
1820810 CACTAGTGAC
*
1820820 TTGACCCGTGGACGTTGAATGCTCTTGACCACTTTCACTGACATCACGAGCTAGAAGTTGTAACA
1 TTGACCCATGGACGTTGAATGCTCTTGACCACTTTCACTGACATCACGAGCTAGAAGTTGTAACA
*
1820885 TATTTCTATAACAACGAAACAACTCATCCACTGTTTGTGTCACCAAAGAAAACATCATTGAAGCT
66 TATTTCTATAACAACCAAACAACTCATCCACTGTTTGTGTCACCAAAGAAAACATCATTGAAGCT
*
1820950 TGAGAGGAGGATATATGTCTAGCAAAGTGATTTCAACATAAGAAAGCCTTTTTCTCGAATCAAAT
131 AGAGAGGAGGATATATGTCTAGCAAAGTGATTTCAACATAAGAAAGCCTTTTTCTCGAATCAAAT
* * *
1821015 AAAGTAGCAATGAACAACACAAAATTCATTTTGTTCACATTCCCCAATACTTGTCAAATTTTTGT
196 AAAGTAGCAATGAACAACACAAAATTCATTTTGTCCACATTCCCCAATACTTGTCAAATTTCTAT
1821080 TTCATCTTAATTGTCATAGACCATAAATCAACATCATCACCATTTTGCCA
261 TTCATCTTAATTGTCATAGACCATAAATCAACATCATCACCATTTTGCCA
* *
1821130 TTGACCCATGGATGTTGAATGCTCTTGACCGCTTTCACTGACATCACGAGCTAGAAGTTGTAACA
1 TTGACCCATGGACGTTGAATGCTCTTGACCACTTTCACTGACATCACGAGCTAGAAGTTGTAACA
*
1821195 TATTTCTATAACAACCAAACAACTCGTCCACTGTTTGTGTCACCAAAGAAAACATCATTGAAGCT
66 TATTTCTATAACAACCAAACAACTCATCCACTGTTTGTGTCACCAAAGAAAACATCATTGAAGCT
*
1821260 AGAGAGGAGGATATATGTCTAGCAAAGTGATTTCAACATAAGAAAGCTTTTTTCTCGAATCAAAT
131 AGAGAGGAGGATATATGTCTAGCAAAGTGATTTCAACATAAGAAAGCCTTTTTCTCGAATCAAAT
*
1821325 AAAGTAGCAATGAACAACACAAAATTCATTTTGTCCACATTCCCTAATACTTGTCAAATTTCTAT
196 AAAGTAGCAATGAACAACACAAAATTCATTTTGTCCACATTCCCCAATACTTGTCAAATTTCTAT
1821390 TTCATCTTAATTGTCATAGACCATAAATCAACATCATCACCATTTTGCCA
261 TTCATCTTAATTGTCATAGACCATAAATCAACATCATCACCATTTTGCCA
1821440 TT
1 TT
1821442 CAATCAAAGT
Statistics
Matches: 301, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
310 301 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (310 bp):
TTGACCCATGGACGTTGAATGCTCTTGACCACTTTCACTGACATCACGAGCTAGAAGTTGTAACA
TATTTCTATAACAACCAAACAACTCATCCACTGTTTGTGTCACCAAAGAAAACATCATTGAAGCT
AGAGAGGAGGATATATGTCTAGCAAAGTGATTTCAACATAAGAAAGCCTTTTTCTCGAATCAAAT
AAAGTAGCAATGAACAACACAAAATTCATTTTGTCCACATTCCCCAATACTTGTCAAATTTCTAT
TTCATCTTAATTGTCATAGACCATAAATCAACATCATCACCATTTTGCCA
Found at i:1822256 original size:20 final size:19
Alignment explanation
Indices: 1822231--1822531 Score: 75
Period size: 20 Copynumber: 15.2 Consensus size: 19
1822221 AATATTTTAT
*
1822231 AATATTATAATTAAAATAAA
1 AATATTA-AAATAAAATAAA
*
1822251 AATATTAAAATAAAATATAT
1 AATATTAAAATAAAATA-AA
*
1822271 AATA-TAAGAATAAAAT-TA
1 AATATTAA-AATAAAATAAA
1822289 AA-A-TAAAATAAAATATAA
1 AATATTAAAATAAAATA-AA
* * * *
1822307 AAAATTAACATTTATATAATA
1 AATATTAA-AATAAAATAA-A
* **
1822328 TAGTAAAACAAATTAAAAT-AA
1 -AATATTA-AAA-TAAAATAAA
*
1822349 AATA-TATAATATAAA-AAA
1 AATATTAAAATA-AAATAAA
*
1822367 TATATTAAAGAAATGAAAAT-AA
1 AATATT--A-AAAT-AAAATAAA
*
1822389 AATATATAAAATATAATAATA
1 AATAT-TAAAATAAAATAA-A
*
1822410 AATA--AAAATAAAATATAT
1 AATATTAAAATAAAATA-AA
* * * * *
1822428 GACATTAAAATATATTTAA
1 AATATTAAAATAAAATAAA
* * * *
1822447 AATA-TGATATTATATAAA
1 AATATTAAAATAAAATAAA
* *
1822465 AATTAATAATATAAATATAAA
1 AA-TATTAAAATAAA-ATAAA
*
1822486 TATATTAAAATAAAAATATAA
1 AATATTAAAAT-AAAATA-AA
*
1822507 AATATTATAATAATAAATAAA
1 AATATTAAAAT-A-AAATAAA
1822528 AATA
1 AATA
1822532 AAATATATGA
Statistics
Matches: 203, Mismatches: 47, Indels: 61
0.65 0.15 0.20
Matches are distributed among these distances:
16 8 0.04
17 6 0.03
18 36 0.18
19 25 0.12
20 56 0.28
21 43 0.21
22 22 0.11
23 7 0.03
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATTAAAATAAAATAAA
Found at i:1822264 original size:5 final size:5
Alignment explanation
Indices: 1822242--1822424 Score: 58
Period size: 5 Copynumber: 36.4 Consensus size: 5
1822232 ATATTATAAT
* * * *
1822242 TAAAA TAAAA -ATAT TAAAA TAAAA T-ATA TAATA TAAGAA TAAAA TTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA -TAAAA
* * ** * * * * *
1822292 TAAAA TAAAA TATAAA -AAAT TAACA T-TTA TATAA TATAG TAAAA CAAAT
1 TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
* * * *
1822341 TAAAA TAAAA TATATAA TATAA -AAAA T-ATA TTAAA -GAAA TGAAAA
1 TAAAA TAAAA TA-A-AA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
* *
1822386 TAAAA T-ATA TAAAA TATAA TAATAAA TAAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA T-A-AAA T-AAAA TAAAA TA
1822425 TATGACATTA
Statistics
Matches: 133, Mismatches: 29, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
4 21 0.16
5 81 0.61
6 22 0.17
7 9 0.07
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (5 bp):
TAAAA
Found at i:1822483 original size:6 final size:6
Alignment explanation
Indices: 1822472--1822538 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
1822462 AAAAATTAAT
* *
1822472 AATATA AATATA AATAT- ATTA-A AATAAA AATATAA AATATTA TAATAATA
1 AATATA AATATA AATATA AATATA AATATA AATAT-A AATA-TA -AAT-ATA
*
1822522 AATAAA AATA-A AATATA
1 AATATA AATATA AATATA
1822539 TGACATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
5 11 0.22
6 23 0.46
7 9 0.18
8 6 0.12
9 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:1822575 original size:113 final size:113
Alignment explanation
Indices: 1822382--1823049 Score: 1093
Period size: 113 Copynumber: 6.0 Consensus size: 113
1822372 TAAAGAAATG
1822382 AAAATAAAATATATAAA-A-TATAATAATAAATAAAAATAAAATATATGACATT-AAAATATATT
1 AAAATAAAATATA-AAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
1822444 TAA-AATATGATATTATATAAAAATTAATAATATAAATATAAATATATT-
65 TAAGAA-ATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
1822492 AAAATAAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
1 AAAAT-AAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
1822557 TAAGAAATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
65 TAAGAAATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
* *
1822606 AAAATAAAATATATAAA-ATTATAATAATAAATTAAAATAAAATATATGATATTAAAAATATATT
1 AAAATAAAATATA-AAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATT
1822670 TAA-AATATGATATTATATAAAAATTAAT-ATATAAATAT-AATATATTA
65 TAAGAA-ATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
1822717 AAAATAAAATATAAAATATTATAATAATAAATAAAAA-AAAATATATGACATTAAAAATATA-TT
1 AAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
1822780 AAGAAATGATATTATAT-AAAATTAATAATA-AAGTATAAATATATTA
66 AAGAAATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
*
1822826 AAAATAAAATATAAAATA-T-T-AT-ATAAATAAAAATAAAATATATGATATTAAAAATATATTT
1 AAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
1822887 AAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
66 AAGAAATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
*
1822935 AAAATAAAATAT-AAATATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
1 AAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
1822999 AAGAAATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
66 AAGAAATGATATTATATAAAAATTAATAAT-ATAAATATAAATATATTA
1823048 AA
1 AA
1823050 CTTATATTTT
Statistics
Matches: 530, Mismatches: 7, Indels: 39
0.92 0.01 0.07
Matches are distributed among these distances:
105 11 0.02
106 25 0.05
107 20 0.04
108 33 0.06
109 74 0.14
110 37 0.07
111 52 0.10
112 115 0.22
113 153 0.29
114 10 0.02
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (113 bp):
AAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
AAGAAATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
Found at i:1822831 original size:22 final size:21
Alignment explanation
Indices: 1822792--1822972 Score: 110
Period size: 21 Copynumber: 8.4 Consensus size: 21
1822782 GAAATGATAT
* *
1822792 TATATAAA-ATTAATAATAAAG
1 TATA-AAATATTAAAAATAAAA
1822813 TATAAATATATTAAAAATAAAA
1 TATAAA-ATATTAAAAATAAAA
1822835 TATAAAATATTATATAAATAAAA
1 TATAAAATATTA-A-AAATAAAA
* * *
1822858 -ATAAAATATATGATATTAAAA
1 TATAAAATAT-TAAAAATAAAA
* *
1822879 -AT-ATAT-TTAAGAAATGATATTA
1 TATAAAATATTAA-AAAT-A-A-AA
*
1822901 TATAAAA-ATTAATAATAAAAA
1 TATAAAATATTAAAAAT-AAAA
1822922 TATAAATATATTAAAAATAAAA
1 TATAAA-ATATTAAAAATAAAA
1822944 TAT-AAATATTATAATAAT-AAA
1 TATAAAATATTA-AA-AATAAAA
1822965 TA-AAAATA
1 TATAAAATA
1822973 AAATATATGA
Statistics
Matches: 128, Mismatches: 15, Indels: 34
0.72 0.08 0.19
Matches are distributed among these distances:
18 2 0.02
19 3 0.02
20 12 0.09
21 41 0.32
22 41 0.32
23 23 0.18
24 6 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TATAAAATATTAAAAATAAAA
Found at i:1822906 original size:50 final size:50
Alignment explanation
Indices: 1822852--1823021 Score: 162
Period size: 50 Copynumber: 3.2 Consensus size: 50
1822842 TATTATATAA
1822852 ATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTAT
1 ATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTAT
* * * * * *
1822902 ATAAAAATTAATAATAAAAATATAAATATATTAAAAATAAAATATAA-ATATTATAATAATAA
1 ATAAAAA-TAA-AAT----ATAT---GATATTAAAAAT-ATATTTAAGA-A--ATGATATTAT
1822964 ATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTAT
1 ATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTAT
1823014 ATAAAAAT
1 ATAAAAAT
1823022 TAATAATAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
50 22 0.23
51 3 0.03
52 10 0.11
53 12 0.13
56 8 0.09
59 12 0.13
60 10 0.11
61 3 0.03
62 14 0.15
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (50 bp):
ATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTAT
Found at i:1823219 original size:15 final size:15
Alignment explanation
Indices: 1823199--1823269 Score: 106
Period size: 15 Copynumber: 4.7 Consensus size: 15
1823189 TTTTCTTTGT
1823199 AATCACATTGCTTGC
1 AATCACATTGCTTGC
* *
1823214 AATCACATTACTCGC
1 AATCACATTGCTTGC
1823229 AATCACATTGCTTGC
1 AATCACATTGCTTGC
* *
1823244 AATCACATTACTTGT
1 AATCACATTGCTTGC
1823259 AATCACATTGC
1 AATCACATTGC
1823270 ATTNNNNNNN
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (15 bp):
AATCACATTGCTTGC
Found at i:1823235 original size:30 final size:30
Alignment explanation
Indices: 1823199--1823269 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
1823189 TTTTCTTTGT
1823199 AATCACATTGCTTGCAATCACATTACTCGC
1 AATCACATTGCTTGCAATCACATTACTCGC
* *
1823229 AATCACATTGCTTGCAATCACATTACTTGT
1 AATCACATTGCTTGCAATCACATTACTCGC
1823259 AATCACATTGC
1 AATCACATTGC
1823270 ATTNNNNNNN
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (30 bp):
AATCACATTGCTTGCAATCACATTACTCGC
Found at i:1824446 original size:170 final size:170
Alignment explanation
Indices: 1824150--1824679 Score: 731
Period size: 170 Copynumber: 3.1 Consensus size: 170
1824140 CCAAAATATT
* * * * * * *
1824150 ATTTTCAATGTTTAATTCTAGTATATTGCCAATTATTTTAATTAAAAATCCAAATAACAATTCTA
1 ATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAATCCAAACAATAATTCTA
* *
1824215 AACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATAATGTCAATACTTTTAATTGA
66 AACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAACATAATGTCAATAATTTTAATTGA
* *
1824280 AAATCCAAACAATAATTCTAAACATTAATTCTCAAAGAAA
131 AAATCCAAACAATAATTCTAAACATTAATTCTCAAACATA
* *
1824320 ATTTTTAATATTTAATTCTAGCATATTACTAATCATTTTAATTAAAAATCCAAACAATAATTCTG
1 ATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAATCCAAACAATAATTCTA
*
1824385 AACATTAATTTCCAAACATAATTCTTAATGTTTAATTCTAACATAATGTCAATAATTTTAATTGA
66 AACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAACATAATGTCAATAATTTTAATTGA
1824450 AAATCCAAACAATAATTCTAAACATTAATTCTCAAACATA
131 AAATCCAAACAATAATTCTAAACATTAATTCTCAAACATA
*
1824490 ATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATAAAAAATCCAAACAATAATTCTA
1 ATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAATCCAAACAATAATTCTA
********** * **
1824555 AACATTAATTNNNNNNNNNNATTCTTAATGTTTAATTCTAACATATTACCAATAATTTTAATT-A
66 AACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAACATAATGTCAATAATTTTAATTGA
* * *
1824619 AAAACCTAAACAATAATTCTAAACGTTAATT-TCTAAATATA
131 AAATCC-AAACAATAATTCTAAACATTAATTCTC-AAACATA
* *
1824660 ATTCTTAATGTTTAATTCTA
1 ATTTTTAATATTTAATTCTA
1824680 ACANNNNNNN
Statistics
Matches: 323, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
169 8 0.02
170 315 0.98
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.39
Consensus pattern (170 bp):
ATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAATCCAAACAATAATTCTA
AACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAACATAATGTCAATAATTTTAATTGA
AAATCCAAACAATAATTCTAAACATTAATTCTCAAACATA
Found at i:1824478 original size:13 final size:13
Alignment explanation
Indices: 1824455--1824492 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
1824445 ATTGAAAATC
1824455 CAAACAATAATTCT
1 CAAAC-ATAATTCT
1824469 -AAACATTAATTCT
1 CAAACA-TAATTCT
1824482 CAAACATAATT
1 CAAACATAATT
1824493 TTTAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 16 0.73
14 5 0.23
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAACATAATTCT
Found at i:1824615 original size:255 final size:255
Alignment explanation
Indices: 1824156--1824682 Score: 707
Period size: 255 Copynumber: 2.1 Consensus size: 255
1824146 TATTATTTTC
** * * *
1824156 AATGTTTAATTCTAGTATATTGCCAATTATTTTAATTAAAAATCCAAATAACAATTCTAAACATT
1 AATGTTTAATTCTAACATAATGCCAATAATTTTAATTAAAAATCCAAACAACAATTCTAAACATT
* ** **
1824221 AATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATAATGTCAATACTTTTAATTGAAAATCC
66 AATTCCCAAACATAATTCTTAATATTTAATTCTAGCATAATACCAATACTTTTAATAAAAAATCC
* * *
1824286 AAACAATAATTCTAAACATTAATTCTCAAAGAAAATTTTTAATATTTAATTCTAGCATATTACTA
131 AAACAATAATTCTAAACATTAATTCTCAAAGAAAATTCTTAATATTTAATTCTAACATATTACCA
* *
1824351 ATCATTTTAATTAAAAATCC-AAACAATAATTCTGAACATTAATTTCCAAACATAATTCTT
196 ATAATTTTAATTAAAAA-CCTAAACAATAATTCTAAACATTAATTTCCAAACATAATTCTT
* * *
1824411 AATGTTTAATTCTAACATAATGTCAATAATTTTAATTGAAAATCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAACATAATGCCAATAATTTTAATTAAAAATCCAAACAACAATTCTAAACATT
* * *
1824476 AATTCTCAAACATAATTTTTAATATTTAATTCTAGCATATTACCAAT-CATTTTAATAAAAAATC
66 AATTCCCAAACATAATTCTTAATATTTAATTCTAGCATAATACCAATAC-TTTTAATAAAAAATC
********** *
1824540 CAAACAATAATTCTAAACATTAATTNNNNNNNNNNATTCTTAATGTTTAATTCTAACATATTACC
130 CAAACAATAATTCTAAACATTAATTCTCAAAGAAAATTCTTAATATTTAATTCTAACATATTACC
* * *
1824605 AATAATTTTAATTAAAAACCTAAACAATAATTCTAAACGTTAATTTCTAAATATAATTCTT
195 AATAATTTTAATTAAAAACCTAAACAATAATTCTAAACATTAATTTCCAAACATAATTCTT
1824666 AATGTTTAATTCTAACA
1 AATGTTTAATTCTAACA
1824683 NNNNNNNNNN
Statistics
Matches: 235, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
254 3 0.01
255 232 0.99
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.38
Consensus pattern (255 bp):
AATGTTTAATTCTAACATAATGCCAATAATTTTAATTAAAAATCCAAACAACAATTCTAAACATT
AATTCCCAAACATAATTCTTAATATTTAATTCTAGCATAATACCAATACTTTTAATAAAAAATCC
AAACAATAATTCTAAACATTAATTCTCAAAGAAAATTCTTAATATTTAATTCTAACATATTACCA
ATAATTTTAATTAAAAACCTAAACAATAATTCTAAACATTAATTTCCAAACATAATTCTT
Found at i:1824682 original size:85 final size:85
Alignment explanation
Indices: 1824156--1824679 Score: 622
Period size: 85 Copynumber: 6.2 Consensus size: 85
1824146 TATTATTTTC
* * * * *
1824156 AATGTTTAATTCTAGTATATTGCCAATTATTTTAATTAAAAATCCAAATAACAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
* *
1824221 AATTCCCAAACATAATTCTT
66 AATTTCTAAACATAATTCTT
* ** * *
1824241 AATGTTTAATTCTAGCATAATGTCAATACTTTTAATTGAAAATCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
* * *
1824306 AA-TTCTCAAAGAAAATTTTT
66 AATTTCT-AAACATAATTCTT
* * * *
1824326 AATATTTAATTCTAGCATATTACTAATCATTTTAATTAAAAATCCAAACAATAATTCTGAACATT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
*
1824391 AATTTCCAAACATAATTCTT
66 AATTTCTAAACATAATTCTT
* * ** *
1824411 AATGTTTAATTCTAACATAATGTCAATAATTTTAATTGAAAATCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
*
1824476 AA-TTCTCAAACATAATTTTT
66 AATTTCT-AAACATAATTCTT
* * *
1824496 AATATTTAATTCTAGCATATTACCAATCATTTTAATAAAAAATCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
**********
1824561 AATTNNNNNNNNNNATTCTT
66 AATTTCTAAACATAATTCTT
* *
1824581 AATGTTTAATTCTAACATATTACCAATAATTTTAATTAAAAA-CCTAAACAATAATTCTAAACGT
1 AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCC-AAACAATAATTCTAAACAT
*
1824645 TAATTTCTAAATATAATTCTT
65 TAATTTCTAAACATAATTCTT
1824666 AATGTTTAATTCTA
1 AATGTTTAATTCTA
1824680 ACANNNNNNN
Statistics
Matches: 363, Mismatches: 71, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
84 7 0.02
85 352 0.97
86 4 0.01
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.38
Consensus pattern (85 bp):
AATGTTTAATTCTAGCATATTACCAATAATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
AATTTCTAAACATAATTCTT
Found at i:1827323 original size:77 final size:76
Alignment explanation
Indices: 1827223--1827383 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 76
1827213 TGAATTTCCC
*
1827223 AAAA-TAAAATGTTATCCTTAATTTTAGGAATTTCTTTTAAAGTAGCAAACAATTTCCTATTCTT
1 AAAATTAAAATGTTATCCTTAATTTTAAGAATTTCTTTTAAAGTAGCAAACAATTTCCTATT-TT
*
1827287 TATGAATCACCA
65 TATAAATCACCA
* *
1827299 AAAATTAAAAT-TCTATCCTTAATTTTAAGAATTTCTTTTAAAGTAGGAAACAATTTTCTATTTT
1 AAAATTAAAATGT-TATCCTTAATTTTAAGAATTTCTTTTAAAGTAGCAAACAATTTCCTATTTT
*
1827363 TATAAATCACCC
65 TATAAATCACCA
*
1827375 AAATTTAAA
1 AAAATTAAA
1827384 GTAAATGGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
76 25 0.32
77 52 0.68
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (76 bp):
AAAATTAAAATGTTATCCTTAATTTTAAGAATTTCTTTTAAAGTAGCAAACAATTTCCTATTTTT
ATAAATCACCA
Found at i:1830924 original size:342 final size:337
Alignment explanation
Indices: 1829817--1830929 Score: 1397
Period size: 342 Copynumber: 3.3 Consensus size: 337
1829807 TAATTAGTAT
* * * * * *
1829817 TATACATATACTTTTAATATAAATATATTTACTTTCTATTTTGTGTTAATATTACATAAATTTTA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATA
* *
1829882 ACTTATAAAATTATTGATTATAATA-AGTATACCA-TTGTTTATATAAACTTATAATATATATAC
66 ACTTATAAAATTATTAATTATAATATA-TATA-CATTTTTTTATATAAACTTATAATATATATAC
* * * *
1829945 TTAAAGAG-AGCTTTTGAGATTAGAATAGTTTTGGAATCTAACTATTTTTTTT-AATTTCATGAA
129 -TAAAGAGAAG-TTGTGAGATTAGAATAGTTTT-GAAACTTA-T-TTTTTTTTAAATTTCATGTA
* *
1830008 ATTAACGACAAATCCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTAGT
189 ATTAAGGACAAATCCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTATT
* *
1830073 -ATGTCTTTTAATATATATACTTTATAT-ATTGCGTTAATTTATAAGAAACATAATTACTATTAT
254 AATGTCTTTTAATATATATACTTTATATAATTGGGTTAATTTATAAGAAATATAATTA-TA-T-T
1830136 ATATATACTAAAATATTTTTAG
316 ATATATACTAAAATATTTTTAG
* *
1830158 -AGTGTATATACTCTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTAT
1 TA-TATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTAT
*
1830222 AACTTATAAAATTATTAATTATAATATATAT---TTTTGTTTATATAAACTTATAATATATAAAC
65 AACTTATAAAATTATTAATTATAATATATATACATTTT-TTTATATAAACTTATAATATATATA-
* * * ** * *
1830284 CTAAAGAGAAGTTGTGAGATAAGATTAGTTTTGAAACTTGGTTTTTTTAAAAAAAAAATTCATAT
128 CTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTT-ATTTTTTT----TTAAATTTCATGT
* * * * * *
1830349 AAATGAGAACAAACCCATATAGCTAATTAAATTAATTCATGAAACTATAATTATTAATTAACT-T
188 AATTAAGGACAAATCCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTAT
** * * * *
1830413 GTAACATCTTTTAATATATATATTTTATATATAATTTAGGTTTATTTATAAGGAATATAA-T-TA
253 -TAATGTCTTTTAATATATATA-CTT-TATATAA-TTGGGTTAATTTATAAGAAATATAATTATA
* *
1830476 TTATATATATTAAAATATTTTTAA
314 TTATATATACTAAAATATTTTTAG
* * *
1830500 TATATATATGTACTTTACATACAAACATATTTACTTTCTATTTTGTGTTAGCATTACAAAAATTA
1 TATATATA--TACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTA
*
1830565 TAACTTATAAAATTATTAATTACAATATATATACATTTTTTTATATAAACTTATAATATATATAG
64 TAACTTATAAAATTATTAATTATAATATATATACATTTTTTTATATAAACTTATAATATATATA-
* *
1830630 CTAAAGGGAAGTTGTGAGATTAGAATAGTTTTTAAACTTATTTTTTTTTAAATTTCATGTAATTA
128 CTAAAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTATTTTTTTTTAAATTTCATGTAATTA
* * *
1830695 AGGACAAATCCATATAGTTAATTAAATTAACTAATGAAACTATGATTATTAATTGACTATTAATG
193 AGGACAAATCCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTATTAATG
* * *
1830760 TCTTTTCATATATATACTTTATATACATTGGGTTCATTTATAAAAAATATAATTAGTACTGTATA
258 TCTTTTAATATATATACTTTATATA-ATTGGGTTAATTTATAAGAAATATAATTA-TA-T-TATA
1830825 TATACTAAAATATTTTTAG
319 TATACTAAAATATTTTTAG
*
1830844 TATATATACACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATA
1 TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATA
1830909 ACTTATAAAATTATTAATTAT
66 ACTTATAAAATTATTAATTAT
1830930 GTTTGAGATA
Statistics
Matches: 660, Mismatches: 81, Indels: 61
0.82 0.10 0.08
Matches are distributed among these distances:
337 6 0.01
338 8 0.01
339 76 0.12
340 8 0.01
341 163 0.25
342 167 0.25
343 20 0.03
344 115 0.17
345 12 0.02
346 61 0.09
347 24 0.04
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (337 bp):
TATATATATACTTTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATA
ACTTATAAAATTATTAATTATAATATATATACATTTTTTTATATAAACTTATAATATATATACTA
AAGAGAAGTTGTGAGATTAGAATAGTTTTGAAACTTATTTTTTTTTAAATTTCATGTAATTAAGG
ACAAATCCATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTATTAATGTCT
TTTAATATATATACTTTATATAATTGGGTTAATTTATAAGAAATATAATTATATTATATATACTA
AAATATTTTTAG
Found at i:1844273 original size:23 final size:23
Alignment explanation
Indices: 1844247--1844303 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
1844237 GTTCAAAAAT
1844247 TGTTACACGCCATGTTCACTACA
1 TGTTACACGCCATGTTCACTACA
*
1844270 TGTTACACGCCATGTTCACTACG
1 TGTTACACGCCATGTTCACTACA
1844293 TGTTACACGCC
1 TGTTACACGCC
1844304 CTGTGCTGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (23 bp):
TGTTACACGCCATGTTCACTACA
Found at i:1844285 original size:12 final size:12
Alignment explanation
Indices: 1844247--1844303 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 12
1844237 GTTCAAAAAT
1844247 TGTTACACGCCA
1 TGTTACACGCCA
**
1844259 TGTT-CACTACA
1 TGTTACACGCCA
1844270 TGTTACACGCCA
1 TGTTACACGCCA
** *
1844282 TGTT-CACTACG
1 TGTTACACGCCA
1844293 TGTTACACGCC
1 TGTTACACGCC
1844304 CTGTGCTGAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (12 bp):
TGTTACACGCCA
Found at i:1849569 original size:283 final size:288
Alignment explanation
Indices: 1849053--1849636 Score: 827
Period size: 283 Copynumber: 2.0 Consensus size: 288
1849043 TTCACCACTG
* * * *
1849053 CATCTTTTCTGCTGCTTTGTCCCAGCAAATTGAAATGGTAACTTGGCTGGAGAGTCATTTAGTTA
1 CATCTTTTCTGCTGCTTTGTCCCAGCAAATTGAAATAGTAACTTGACTGGAAAGTCATTTACTTA
1849118 GTACTTGACCTTCTTTTGCTGCTTATGCTTTCGAAACAGAGAAACAAGTATTAAAACATCCCTTT
66 G-AC-T--CCTTCTTTTGCTGCTTATGCTTTCGAAACAGAGAAACAAGTATTAAAACATCCCTTT
* *
1849183 TAACTTAATTACTAGATGTTTCTATCCTATCATTTCTCTGTTGCATCACAATCATGAATTGCTGG
127 TAACTTAATTACTAGATGTTTCTATCCTATCATTCCTCTGCTGCATCACAATCATGAATTGCTGG
* *
1849248 TGGTGTCTCAGCTTTAATCAGTTCTTCAACTGCCACCACTGCCCTCTTCCTGTCACCTTATTGCC
192 TGGTGTCTCAGCTCTAATCAGTTCTTCAACTGCCACCACTGCCCTCTTCCTGTCACCTCATTGCC
*
1849313 TTCCTATCACCACCATCATCATCGTAACATTT
257 TTCCTATCACCACCATCATCATCATAACATTT
* * ** *
1849345 CATCTTTTCTGCTTCTTTGTCCTAGTTAATTGAATTAGTAACTTGACTGGAAAGTCATTTACTTA
1 CATCTTTTCTGCTGCTTTGTCCCAGCAAATTGAAATAGTAACTTGACTGGAAAGTCATTTACTTA
* * * **
1849410 -AC-CC-TCTTTTGGTGCTTTTGCTTTTGAAACAGAG-AACAAGTATTAAAACATTTC-TTTAAC
66 GACTCCTTCTTTTGCTGCTTATGCTTTCGAAACAGAGAAACAAGTATTAAAACATCCCTTTTAAC
* * **
1849470 TTAATTACTAGATGTTTCTATCCTCTTATTCCTCTGCTGCATCAGTATCATGAATTGCTGGTGGT
131 TTAATTACTAGATGTTTCTATCCTATCATTCCTCTGCTGCATCACAATCATGAATTGCTGGTGGT
* * ** *
1849535 GTCTCAGCTCTAATCTGTTCTTCAGCTGCCACCACTGCCCTCTTTGTTTCACCTCATTGCCTTCC
196 GTCTCAGCTCTAATCAGTTCTTCAACTGCCACCACTGCCCTCTTCCTGTCACCTCATTGCCTTCC
* *
1849600 TATCACTACCTTCATCATCATAACATTT
261 TATCACCACCATCATCATCATAACATTT
1849628 CATCTTTTC
1 CATCTTTTC
1849637 AAGTCATTAG
Statistics
Matches: 262, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
283 157 0.60
284 18 0.07
285 27 0.10
286 2 0.01
290 2 0.01
292 56 0.21
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (288 bp):
CATCTTTTCTGCTGCTTTGTCCCAGCAAATTGAAATAGTAACTTGACTGGAAAGTCATTTACTTA
GACTCCTTCTTTTGCTGCTTATGCTTTCGAAACAGAGAAACAAGTATTAAAACATCCCTTTTAAC
TTAATTACTAGATGTTTCTATCCTATCATTCCTCTGCTGCATCACAATCATGAATTGCTGGTGGT
GTCTCAGCTCTAATCAGTTCTTCAACTGCCACCACTGCCCTCTTCCTGTCACCTCATTGCCTTCC
TATCACCACCATCATCATCATAACATTT
Found at i:1863468 original size:7 final size:7
Alignment explanation
Indices: 1863456--1863489 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1863446 NNNNNNNNNN
1863456 TTTATTT
1 TTTATTT
1863463 TTTATTT
1 TTTATTT
*
1863470 TTTACTT
1 TTTATTT
*
1863477 TTTACTT
1 TTTATTT
1863484 TTTATT
1 TTTATT
1863490 AAAGGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTATTT
Found at i:1866942 original size:23 final size:24
Alignment explanation
Indices: 1866889--1866949 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
1866879 TTGATTTTTT
* *
1866889 TAATTTTAATTATTTAAAAAACTA
1 TAATTTTTATTTTTTAAAAAACTA
* *
1866913 TAA-TTTTATTTTTTAAAATATTA
1 TAATTTTTATTTTTTAAAAAACTA
1866936 -AATTTTTTATTTTT
1 TAA-TTTTTATTTTT
1866950 GTCTCTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 16 0.52
24 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATTTTTATTTTTTAAAAAACTA
Found at i:1868186 original size:14 final size:14
Alignment explanation
Indices: 1868160--1868197 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
1868150 TTCCAAATAC
1868160 TTAATATTCTTTT-T
1 TTAATATT-TTTTAT
1868174 TTAATTATTTTTTAT
1 TTAA-TATTTTTTAT
1868189 TTAATATTT
1 TTAATATTT
1868198 AGCATCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATATTTTTTAT
Found at i:1870842 original size:74 final size:75
Alignment explanation
Indices: 1870710--1870858 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 75
1870700 TTTATCCTTC
*
1870710 TTGTATCAAAATGTTTTAATTTTTTTAAAAGAATAAAACTGTAAAAACATGTCTCAAAACAGATA
1 TTGTATCAAAATGTTTTAATTTTTTTAAAAGAATAAAACCGTAAAAACATGTCTCAAAACAGATA
1870775 ATACCTCATA
66 ATACCTCATA
1870785 TTGTATCAAAATGTTTTAATTTTTTTAAAAG-ATAAAACCGTAAAAACATGTCTCAAAACAGATA
1 TTGTATCAAAATGTTTTAATTTTTTTAAAAGAATAAAACCGTAAAAACATGTCTCAAAACAGATA
1870849 ATACCTCATA
66 ATACCTCATA
1870859 CGTAACCACA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 42 0.58
75 31 0.42
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (75 bp):
TTGTATCAAAATGTTTTAATTTTTTTAAAAGAATAAAACCGTAAAAACATGTCTCAAAACAGATA
ATACCTCATA
Found at i:1879004 original size:28 final size:29
Alignment explanation
Indices: 1878946--1879008 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
1878936 TTTTCATCTT
1878946 AAAATT-AATAAAATTAAAAGTATAATAA
1 AAAATTCAATAAAATTAAAAGTATAATAA
* *
1878974 AAAATTCAATAAAATTAAAA-TATGATTA
1 AAAATTCAATAAAATTAAAAGTATAATAA
1879002 AAAATTC
1 AAAATTC
1879009 TATTTTATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AAAATTCAATAAAATTAAAAGTATAATAA
Found at i:1881196 original size:5 final size:5
Alignment explanation
Indices: 1881186--1881213 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1881176 TGGGCTCCCG
1881186 CCTCC CCTCC CCTCC CCTCC CCTCC CCT
1 CCTCC CCTCC CCTCC CCTCC CCTCC CCT
1881214 GTCTCATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21
Consensus pattern (5 bp):
CCTCC
Found at i:1902679 original size:16 final size:16
Alignment explanation
Indices: 1902658--1902690 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1902648 GTTTTTAATT
1902658 AAAAATAAATTGATTG
1 AAAAATAAATTGATTG
1902674 AAAAATAAATTGATTG
1 AAAAATAAATTGATTG
1902690 A
1 A
1902691 GTAGATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AAAAATAAATTGATTG
Found at i:1903298 original size:2 final size:2
Alignment explanation
Indices: 1903293--1903331 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1903283 ATATTGTGTG
1903293 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
1903332 CTTATTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1903456 original size:22 final size:21
Alignment explanation
Indices: 1903416--1903458 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1903406 GGTTGTCTTT
1903416 TGATAAAAAAATAAATAATAA
1 TGATAAAAAAATAAATAATAA
1903437 TGATAAAAGATAA-AAATAATAA
1 TGATAAAA-A-AATAAATAATAA
1903459 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 10 0.50
23 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
TGATAAAAAAATAAATAATAA
Found at i:1908307 original size:73 final size:73
Alignment explanation
Indices: 1908207--1908369 Score: 236
Period size: 73 Copynumber: 2.2 Consensus size: 73
1908197 AAGAAACAAT
* * *
1908207 GTTAGTCGACTAAGAGCTTGCTGCCAGAAACTAGGTTCAGAGATAAAAACGACTTAATCGACTAA
1 GTTAGTCGACTAAGAGCTTACTACCAGAAACTAGGTTCAGAGACAAAAACGACTTAATCGACTAA
1908272 GAAGTTTC
66 GAAGTTTC
* * * * * *
1908280 GTTAGTCAATTAAGAGCTTACTACCAGAAACTGGGTTCAGAGACAGAAATGACTTAATTGACTAA
1 GTTAGTCGACTAAGAGCTTACTACCAGAAACTAGGTTCAGAGACAAAAACGACTTAATCGACTAA
*
1908345 GAAGTTTT
66 GAAGTTTC
1908353 GTTAGTCGACTAAGAGC
1 GTTAGTCGACTAAGAGC
1908370 ATTCTGTTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (73 bp):
GTTAGTCGACTAAGAGCTTACTACCAGAAACTAGGTTCAGAGACAAAAACGACTTAATCGACTAA
GAAGTTTC
Found at i:1917605 original size:58 final size:58
Alignment explanation
Indices: 1917446--1918125 Score: 395
Period size: 58 Copynumber: 12.0 Consensus size: 58
1917436 ACTCCAAATT
* * * * * * *
1917446 TTTAAATCGAACCTATTTTGAGATAGGTTGAACCTAGATTAAGTCTAGGAATTTTAAC
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * * * *
1917504 TCTCAGATTGAATTTATTTAGAGGTAGGTCAAGCCTAGA-TAAGTCTAGGAAATTCAAA
1 T-TTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * *
1917562 TTTAAATAGAATCTATTTTGAGATAGGTTGAGTCTAAATTAAGTTTA-GAAATTTCAAGT
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAA-TTCAA-A
** ** * * * *
1917621 TTTAACCA-AATCTATTTTGAGATAGGTCGAATCTAGATTAAGTTTAAGAATTTCAAGT
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAA-A
* * * * * *
1917679 TTTAAACT-GAACCT-TTTT-AGATAGGT--AACCTAGATTAAGTCTAAGAAGTTTAAGC
1 TTTAAA-TAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAA-A
* * * * * * * * * * *
1917734 TCTTAAATTGAATATGTTCTGATATA-GACAAACCAAAATTAAGTTTAGG--A-TC---
1 T-TTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * * *
1917786 TTTAAATCA-AATTTGTTTTGAGATAGATCGAGCCTAAATTAAGTTTAGGAACTTCAAA
1 TTTAAAT-AGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * * * *
1917844 --T---T-GAATCTATTTTAAGTTAGATTGAGCTTAGATTAAGTCTAGGAATTTCAAG
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * *
1917896 TTTAAATCA-AATCTATTTTAAGATAGATCGAACCTATATTAAGTCTAAGAAATTCAAA
1 TTTAAAT-AGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * * * * *
1917954 TTTAAATTGACTCTATTTTAAGATAGATCAAGCTTAGATTAAGTCTAGG-AATTACAAG
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATT-CAAA
* * *
1918012 TTTAAATTGAATCTATTTTGAGATAGATCGAGCTTAGATTAAGTCTAGGAAATTCAAA
1 TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
* * * *
1918070 TTTAAATCA-AATCTA-TTTAACATTGGTCGAGCCTAGATTAAGTCTAGGAACTTCAA
1 TTTAAAT-AGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAA
1918126 CAAGTTTTGA
Statistics
Matches: 492, Mismatches: 97, Indels: 67
0.75 0.15 0.10
Matches are distributed among these distances:
51 19 0.04
52 58 0.12
53 1 0.00
54 1 0.00
55 28 0.06
56 11 0.02
57 83 0.17
58 232 0.47
59 59 0.12
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (58 bp):
TTTAAATAGAATCTATTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAATTCAAA
Found at i:1918237 original size:12 final size:12
Alignment explanation
Indices: 1918229--1918277 Score: 80
Period size: 12 Copynumber: 4.0 Consensus size: 12
1918219 TTAATTTATC
1918229 TTTTTATTTTTA
1 TTTTTATTTTTA
*
1918241 TTCTTATTTTTA
1 TTTTTATTTTTA
1918253 TTTTTATTTTTA
1 TTTTTATTTTTA
1918265 TTTTTGATTTTTA
1 TTTTT-ATTTTTA
1918278 AATGTTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
12 27 0.79
13 7 0.21
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:1918250 original size:18 final size:18
Alignment explanation
Indices: 1918229--1918277 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1918219 TTAATTTATC
1918229 TTTTTATTTTTATTCTTA
1 TTTTTATTTTTATTCTTA
*
1918247 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTATTCTTA
1918265 TTTTTGATTTTTA
1 TTTTT-ATTTTTA
1918278 AATGTTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTTATTCTTA
Found at i:1918428 original size:20 final size:21
Alignment explanation
Indices: 1918393--1918431 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1918383 CTAGAAATGA
1918393 AAAATATCAAAATAAATAAAC
1 AAAATATCAAAATAAATAAAC
*
1918414 AAAATAT-ACAATAAATAA
1 AAAATATCAAAATAAATAA
1918432 TTTTCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAATATCAAAATAAATAAAC
Found at i:1936065 original size:23 final size:20
Alignment explanation
Indices: 1936024--1936066 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
1936014 ATCTTAATTT
*
1936024 TTATATATTTTTAATATTAA
1 TTATATATTTTTAAAATTAA
1936044 TTATATTATTATTATAAAATTAA
1 TTATA-TATT-TT-TAAAATTAA
1936067 AAGGCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 2 0.11
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATATTTTTAAAATTAA
Found at i:1936399 original size:21 final size:21
Alignment explanation
Indices: 1936369--1936462 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
1936359 TAACTCTAAA
*
1936369 AGAG-AAAAAGGTCAATCCTT
1 AGAGTAAAAAGGTCGATCCTT
1936389 AGAGTAAAAAGGTCGATCCTT
1 AGAGTAAAAAGGTCGATCCTT
* * * * *
1936410 GGAATACAAAGGTTGATCCCT
1 AGAGTAAAAAGGTCGATCCTT
* *
1936431 AAAGAAAAAAGG-CTGATCCTT
1 AGAGTAAAAAGGTC-GATCCTT
*
1936452 TGAGTAAAAAG
1 AGAGTAAAAAG
1936463 ATCAATCCCT
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 4 0.07
21 52 0.93
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (21 bp):
AGAGTAAAAAGGTCGATCCTT
Found at i:1937677 original size:66 final size:65
Alignment explanation
Indices: 1937607--1937900 Score: 254
Period size: 66 Copynumber: 4.4 Consensus size: 65
1937597 TTATAAGGTG
* * * *
1937607 TCCACACGTCATGATGTAGCATTCCACCATATTGTGATGGCGCCCAATTTTGTGTTTTACATCGT
1 TCCACATGTCGTGATGTAGCATTCCACCATGTTGTGATGGCGCCCAATTTTATGTTTTACAT-GT
1937672 T
65 T
* * * * * * * *
1937673 TCCACACGTCATGATGTAGCATTCCACCACGTTGTGATGGTGCCTAGTTTTGTGTTTTATAGTGT
1 TCCACATGTCGTGATGTAGCATTCCACCATGTTGTGATGGCGCCCAATTTTATGTTTTACA-TGT
1937738 T
65 T
* * * * * * * *
1937739 TCCACGTATCGCGATGTAGCATTCCACCATGTTATGATGGTGCCTAGTTTTATGTTTTA-TTGCA
1 TCCACATGTCGTGATGTAGCATTCCACCATGTTGTGATGGCGCCCAATTTTATGTTTTACATG--
1937803 TT
64 TT
* * * *
1937805 TCCACATATCGTGATGTAGCATTCCTCC-TCGTTGTGATGGC-ACCAAGTATTATGTTTCATAGC
1 TCCACATGTCGTGATGTAGCATTCCACCAT-GTTGTGATGGCGCCCAA-TTTTATGTTT--TA-C
1937868 AT-TT
61 ATGTT
*
1937872 TCCACATGTCGTGATGTAGGATTCCACCA
1 TCCACATGTCGTGATGTAGCATTCCACCA
1937901 CATAGTGATG
Statistics
Matches: 190, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
64 2 0.01
65 3 0.02
66 154 0.81
67 28 0.15
68 2 0.01
70 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (65 bp):
TCCACATGTCGTGATGTAGCATTCCACCATGTTGTGATGGCGCCCAATTTTATGTTTTACATGTT
Found at i:1937861 original size:132 final size:132
Alignment explanation
Indices: 1937619--1937943 Score: 323
Period size: 132 Copynumber: 2.5 Consensus size: 132
1937609 CACACGTCAT
* * * *
1937619 GATGTAGCATTCCACCATATTGTGATGGCGCCCAATTTTGTGTTTTACATCGTTTCCACACGTCA
1 GATGTAGCATTCCACCATATTATGATGGCGCCCAATTTTATGTTTTACATCATTTCCACACATCA
** * * * * *
1937684 TGATGTAGCATTCCACCACGTTGTGATGGTGCCTAGTTTTGTGTTTTATAG-TGTTTCCACGTAT
66 TGATGTAGCATTCCACCACGTTGTGATGGCACCAAGTATTATGTTTCATAGAT-TTTCCACATAT
1937748 CGC
130 CGC
* * * * * *
1937751 GATGTAGCATTCCACCATGTTATGATGGTGCCTAGTTTTATGTTTTA-TTGCATTTCCACATATC
1 GATGTAGCATTCCACCATATTATGATGGCGCCCAATTTTATGTTTTACAT-CATTTCCACACATC
* * * *
1937815 GTGATGTAGCATTCCTCCTCGTTGTGATGGCACCAAGTATTATGTTTCATAGCATTTTCCACATG
65 ATGATGTAGCATTCCACCACGTTGTGATGGCACCAAGTATTATGTTTCATAG-ATTTTCCACATA
*
1937880 TCGT
129 TCGC
* * * * * * * *
1937884 GATGTAGGATTCCACCACA-TAGTGATGGCACTCAATATAATGTTTTATAGCATTTCCACA
1 GATGTAGCATTCCACCATATTA-TGATGGCGCCCAATTTTATGTTTTACATCATTTCCACA
1937944 TGTTGTGAGT
Statistics
Matches: 154, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
131 1 0.01
132 97 0.63
133 55 0.36
134 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (132 bp):
GATGTAGCATTCCACCATATTATGATGGCGCCCAATTTTATGTTTTACATCATTTCCACACATCA
TGATGTAGCATTCCACCACGTTGTGATGGCACCAAGTATTATGTTTCATAGATTTTCCACATATC
GC
Found at i:1937976 original size:66 final size:68
Alignment explanation
Indices: 1937790--1937985 Score: 213
Period size: 67 Copynumber: 2.9 Consensus size: 68
1937780 GCCTAGTTTT
* * * * * * *
1937790 ATGTTTTATTGCA-TTTCCACATATCGTGATGTAGCATTCCTCCTCGTTGTGATGGCAC-CAAGT
1 ATGTTTCATAGCATTTTCCACATGTCGTGATGTAGAATTCCACCACATTGTGATGGCACTCAAGT
*
1937853 ATT
66 ATA
* *
1937856 ATGTTTCATAGCATTTTCCACATGTCGTGATGTAGGATTCCACCACATAGTGATGGCACTCAA-T
1 ATGTTTCATAGCATTTTCCACATGTCGTGATGTAGAATTCCACCACATTGTGATGGCACTCAAGT
1937920 ATA
66 ATA
* * * * *
1937923 ATGTTTTATAGCA-TTTCCACATGTTGTGA-GTTTGAATTCCACTACATTGTGATGGCGCTCAAG
1 ATGTTTCATAGCATTTTCCACATGTCGTGATG-TAGAATTCCACCACATTGTGATGGCACTCAAG
1937986 AGAGTATGTT
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.01
66 52 0.47
67 54 0.49
68 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (68 bp):
ATGTTTCATAGCATTTTCCACATGTCGTGATGTAGAATTCCACCACATTGTGATGGCACTCAAGT
ATA
Found at i:1945418 original size:24 final size:24
Alignment explanation
Indices: 1945386--1945436 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1945376 CTTGACCACT
1945386 CATTCACCTTTATATGCTTCATGG
1 CATTCACCTTTATATGCTTCATGG
1945410 CATTCACCTTTATATGCTTCATGG
1 CATTCACCTTTATATGCTTCATGG
1945434 CAT
1 CAT
1945437 ACCCAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (24 bp):
CATTCACCTTTATATGCTTCATGG
Found at i:1947866 original size:15 final size:15
Alignment explanation
Indices: 1947819--1947860 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
1947809 ATGTATTCAC
*
1947819 ATTGTAGGGAATATA
1 ATTGTAAGGAATATA
1947834 ATTGTAAGGAATATA
1 ATTGTAAGGAATATA
1947849 ATTGTAAGGAAT
1 ATTGTAAGGAAT
1947861 GCAATTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (15 bp):
ATTGTAAGGAATATA
Found at i:1948240 original size:8 final size:8
Alignment explanation
Indices: 1948209--1948247 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1948199 TTCCCTATTA
1948209 TTCTTTTCT
1 TTCTTTT-T
*
1948218 TTCTTTCT
1 TTCTTTTT
1948226 TTCTTTTT
1 TTCTTTTT
*
1948234 TTCTTTTA
1 TTCTTTTT
1948242 TTCTTT
1 TTCTTT
1948248 GTTTGCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (8 bp):
TTCTTTTT
Found at i:1949575 original size:42 final size:42
Alignment explanation
Indices: 1949516--1949598 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
1949506 TCCCATTTAC
*
1949516 CTTAGTTGATTCTTCTGTATCACTCATGAAGAATCTCATGGT
1 CTTAGTTGATTCTTCTGTAGCACTCATGAAGAATCTCATGGT
1949558 CTTAGTTGATTCTTCTGTAGCACTCATGAAGAATCTCATGG
1 CTTAGTTGATTCTTCTGTAGCACTCATGAAGAATCTCATGG
1949599 GGCTTTTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (42 bp):
CTTAGTTGATTCTTCTGTAGCACTCATGAAGAATCTCATGGT
Found at i:1953212 original size:20 final size:19
Alignment explanation
Indices: 1953175--1953218 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1953165 TGATGTTTCC
1953175 TTAA-TCTTTATTTATTAG
1 TTAATTCTTTATTTATTAG
1953193 TTAATTCTTTATTGTATTAG
1 TTAATTCTTTATT-TATTAG
*
1953213 TCAATT
1 TTAATT
1953219 AAGTCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 11 0.48
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (19 bp):
TTAATTCTTTATTTATTAG
Done.