Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 14 of 190
Found at i:4115552 original size:52 final size:52
Alignment explanation
Indices: 4115496--4115598 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
4115486 TTAATATGGA
* *
4115496 TTTGAGAGATTTTTGGAAGGAACTTGAGAGGATTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAG
4115548 TTTGAGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
4115599 TAGGATTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.35, C:0.01, G:0.34, T:0.30
Consensus pattern (52 bp):
TTTGAGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAG
Found at i:4115554 original size:30 final size:30
Alignment explanation
Indices: 4115519--4115577 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4115509 TGGAAGGAAC
*
4115519 TTGAGAGGATTTTGGAAGGAAATTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
4115549 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
4115578 GATTTTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:4115577 original size:22 final size:22
Alignment explanation
Indices: 4115549--4115598 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
4115539 AATTGAGAGT
4115549 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
4115571 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
4115593 TTGAGA
1 TTGAGA
4115599 TAGGATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:4126252 original size:20 final size:20
Alignment explanation
Indices: 4126213--4126252 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4126203 CCATAAAATG
**
4126213 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGACTTAC
*
4126233 ATTTCTGTAAAATGACTTAC
1 ATTTCTGGAAAATGACTTAC
4126253 TGGAAAATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGACTTAC
Found at i:4127793 original size:12 final size:12
Alignment explanation
Indices: 4127776--4127802 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4127766 AAATTAGTAA
4127776 TAAAAATTATGT
1 TAAAAATTATGT
4127788 TAAAAATTATGT
1 TAAAAATTATGT
4127800 TAA
1 TAA
4127803 GAATAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
TAAAAATTATGT
Found at i:4132145 original size:21 final size:21
Alignment explanation
Indices: 4132119--4132170 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4132109 GCCATTGTTT
* *
4132119 TTAATCTCACCGCTACAGT-A
1 TTAATCTCACCACTACAATAA
*
4132139 TTCAATCTCTCCACTACAATAA
1 TT-AATCTCACCACTACAATAA
4132161 TTAATCTCAC
1 TTAATCTCAC
4132171 TGCCACTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAATCTCACCACTACAATAA
Found at i:4132247 original size:14 final size:15
Alignment explanation
Indices: 4132228--4132256 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4132218 CAAACTAAGC
4132228 CTTAATCATC-TTAA
1 CTTAATCATCATTAA
4132242 CTTAATCATCATTAA
1 CTTAATCATCATTAA
4132257 GCAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (15 bp):
CTTAATCATCATTAA
Found at i:4133283 original size:24 final size:25
Alignment explanation
Indices: 4133254--4133309 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
4133244 CGTGTCATGT
*
4133254 TATTATTCAAC-GATGGTGCATGAAA
1 TATTATTC-ACTGATGGTGCATCAAA
*
4133279 T-TTATGCACTGATGGTGCATCAAA
1 TATTATTCACTGATGGTGCATCAAA
4133303 TATTATT
1 TATTATT
4133310 ATTATTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 19 0.73
25 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (25 bp):
TATTATTCACTGATGGTGCATCAAA
Found at i:4134721 original size:9 final size:9
Alignment explanation
Indices: 4134687--4134711 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4134677 AAAATAAACA
4134687 TAATTATAT
1 TAATTATAT
4134696 TAATTATAT
1 TAATTATAT
4134705 TAATTAT
1 TAATTAT
4134712 TAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTATAT
Found at i:4136650 original size:41 final size:41
Alignment explanation
Indices: 4136581--4136668 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
4136571 ACCTAGGGGT
* *
4136581 GCATATAGGCTCGCAAGTTCCTAGGGTTCACACATAGGCTC
1 GCATGTAGGCTCGCAAGTACCTAGGGTTCACACATAGGCTC
* * * * **
4136622 GCATGTAGGCTTGCATGTACCTATGGTTCGCATGTAGGCTC
1 GCATGTAGGCTCGCAAGTACCTAGGGTTCACACATAGGCTC
*
4136663 TCATGT
1 GCATGT
4136669 TCCTATGTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (41 bp):
GCATGTAGGCTCGCAAGTACCTAGGGTTCACACATAGGCTC
Found at i:4136679 original size:69 final size:69
Alignment explanation
Indices: 4136558--4136694 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 69
4136548 CATGATCATA
*
4136558 TAGGCTTGTATGCACCTAGGGGTGCATATAGGCTCGCAAGTTCCTAGGGTTCACACATAGGCTCG
1 TAGGCTTGCATGCACCTAGGGGTGCATATAGGCTCGCAAGTTCCTAGGGTTCACACATAGGCTCG
4136623 CATG
66 CATG
* * * * * * * *
4136627 TAGGCTTGCATGTACCTATGGTTCGCATGTAGGCTCTCATGTTCCTA-TGTTCACATATAGGCTC
1 TAGGCTTGCATGCACCTAGGGGT-GCATATAGGCTCGCAAGTTCCTAGGGTTCACACATAGGCTC
4136691 GCAT
65 GCAT
4136695 AATTCTATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 38 0.66
70 20 0.34
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (69 bp):
TAGGCTTGCATGCACCTAGGGGTGCATATAGGCTCGCAAGTTCCTAGGGTTCACACATAGGCTCG
CATG
Found at i:4136688 original size:28 final size:28
Alignment explanation
Indices: 4136620--4136719 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
4136610 ACACATAGGC
* *
4136620 TCGCATGTAGGCT-TGCATGTACCTATGGT
1 TCGCATATAGGCTCT-CATGTTCCTAT-GT
*
4136649 TCGCATGTAGGCTCTCATGTTCCTATGT
1 TCGCATATAGGCTCTCATGTTCCTATGT
* * *
4136677 TCACATATAGGCTCGCATAATT-CTATTGT
1 TCGCATATAGGCTCTCAT-GTTCCTA-TGT
4136706 TCGCATATAGGCTC
1 TCGCATATAGGCTC
4136720 GCATATAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 20 0.32
29 41 0.66
30 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (28 bp):
TCGCATATAGGCTCTCATGTTCCTATGT
Found at i:4136714 original size:29 final size:30
Alignment explanation
Indices: 4136641--4136724 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
4136631 CTTGCATGTA
* * * *
4136641 CCTATGGTTCGCATGTAGGCTCTCAT-GTT
1 CCTATTGTTCGCATATAGGCTCGCATAATT
*
4136670 CCTA-TGTTCACATATAGGCTCGCATAATT
1 CCTATTGTTCGCATATAGGCTCGCATAATT
4136699 -CTATTGTTCGCATATAGGCTCGCATA
1 CCTATTGTTCGCATATAGGCTCGCATA
4136725 TAATCAACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.43
29 27 0.57
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (30 bp):
CCTATTGTTCGCATATAGGCTCGCATAATT
Found at i:4140958 original size:21 final size:21
Alignment explanation
Indices: 4140913--4140959 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4140903 TTTATTTTCG
*
4140913 ATAT-GTATATTGATTCATCT
1 ATATAGTATATTGATTCATAT
*
4140933 ATATAGTATATTGTTTACATATT
1 ATATAGTATATTGATT-CATA-T
4140956 ATAT
1 ATAT
4140960 TTATTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 3 0.14
23 5 0.23
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (21 bp):
ATATAGTATATTGATTCATAT
Found at i:4141661 original size:62 final size:62
Alignment explanation
Indices: 4141564--4141686 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
4141554 CGCTCTACCG
* *
4141564 TTGAGCTATTGAAGAACAACGGGAGATTAGATCTCATAGAGTTCAATTCTCGTTCTCCACCT
1 TTGAGCTATTGAAGAACAACGAGAGATTAGATCTCATAGAGTTCAATTCTCATTCTCCACCT
4141626 TTGAGCTATTGAAGAACAACGAGAGATTAGATCTCATAGAGTTCAATTCTCATTCTCCACC
1 TTGAGCTATTGAAGAACAACGAGAGATTAGATCTCATAGAGTTCAATTCTCATTCTCCACC
4141687 CATGACTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (62 bp):
TTGAGCTATTGAAGAACAACGAGAGATTAGATCTCATAGAGTTCAATTCTCATTCTCCACCT
Found at i:4142103 original size:14 final size:13
Alignment explanation
Indices: 4142075--4142099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4142065 TAATTATATA
4142075 ATAAATTTTAAAT
1 ATAAATTTTAAAT
4142088 ATAAATTTTAAA
1 ATAAATTTTAAA
4142100 ATATTCTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAATTTTAAAT
Found at i:4142147 original size:11 final size:10
Alignment explanation
Indices: 4142123--4142156 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4142113 TAAACAATGA
4142123 AAATATAT-T
1 AAATATATAT
4142132 AAATATAATAT
1 AAATAT-ATAT
4142143 AAATATATAT
1 AAATATATAT
4142153 AAAT
1 AAAT
4142157 TTCATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATATAT
Found at i:4142573 original size:18 final size:18
Alignment explanation
Indices: 4142552--4142586 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4142542 TTTTATTTAG
*
4142552 TTTTAGGAGTTTAATTTT
1 TTTTAAGAGTTTAATTTT
*
4142570 TTTTAAGAGTTTGATTT
1 TTTTAAGAGTTTAATTT
4142587 CAGAGTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (18 bp):
TTTTAAGAGTTTAATTTT
Found at i:4149163 original size:6 final size:6
Alignment explanation
Indices: 4149152--4149179 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4149142 TTCAATTTGT
4149152 TGTGCC TGTGCC TGTGCC TGTGCC TGTG
1 TGTGCC TGTGCC TGTGCC TGTGCC TGTG
4149180 AGACACTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.36, T:0.36
Consensus pattern (6 bp):
TGTGCC
Found at i:4150121 original size:174 final size:174
Alignment explanation
Indices: 4149831--4150183 Score: 607
Period size: 174 Copynumber: 2.0 Consensus size: 174
4149821 TTATTTGCTT
* *
4149831 TTTCATCTCCATCTCCACCATCCACTGAATCAAGACCAGCTGTAGCCCCTTTTACTTCTGTACGC
1 TTTCATCTCCATCTCCACCATCCACTGAATCAAGACCAGCCGTAGCCCCTTTTACTTCTGTACAC
4149896 TCTTGTCCCTGATCAGTATCTCCTTTAACAGGCATCTCAATTACTGTATCAGACTTGAGACTTCT
66 TCTTGTCCCTGATCAGTATCTCCTTTAACAGGCATCTCAATTACTGTATCAGACTTGAGACTTCT
* * * * *
4149961 TTTTTCCTCGTCCCTTGGAACTTCTGTTTCTCCGGTACCATTGA
131 TTTTTCATCATCCCTCGAAACTTCTGTTTCTCCAGTACCATTGA
* * *
4150005 TTTCATCTTCATCTCCACCATGCACTGAATCCAGACCAGCCGTAGCCCCTTTTACTTCTGTACAC
1 TTTCATCTCCATCTCCACCATCCACTGAATCAAGACCAGCCGTAGCCCCTTTTACTTCTGTACAC
*
4150070 TCTTGTCCCTGATCAGTATCTCCTTTTACAGGCATCTCAATTACTGTATCAGACTTGAGACTTCT
66 TCTTGTCCCTGATCAGTATCTCCTTTAACAGGCATCTCAATTACTGTATCAGACTTGAGACTTCT
4150135 TTTTTCATCATCCCTCGAAACTTCTGTTTCTCCAGTACCATTGA
131 TTTTTCATCATCCCTCGAAACTTCTGTTTCTCCAGTACCATTGA
4150179 TTTCA
1 TTTCA
4150184 AGTACTTCCT
Statistics
Matches: 168, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 168 1.00
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (174 bp):
TTTCATCTCCATCTCCACCATCCACTGAATCAAGACCAGCCGTAGCCCCTTTTACTTCTGTACAC
TCTTGTCCCTGATCAGTATCTCCTTTAACAGGCATCTCAATTACTGTATCAGACTTGAGACTTCT
TTTTTCATCATCCCTCGAAACTTCTGTTTCTCCAGTACCATTGA
Found at i:4150478 original size:117 final size:117
Alignment explanation
Indices: 4150325--4150554 Score: 415
Period size: 117 Copynumber: 2.0 Consensus size: 117
4150315 GTTTCTATCA
* * *
4150325 GCAGAAGCAACTGTCTCTTCAACAGATTTCCTTGGCTCAAACAGCCTATCTTTCAGTTCATCAAT
1 GCAGAAGCAACTGTCTCTTCAACAGATTTCCCTGGCTCAAACAGCCCATCTTTCAGCTCATCAAT
4150390 CTCACTATTAAGCTTCATGTCCCTAGCATTCAATAAATCTTTTAGTTCATCT
66 CTCACTATTAAGCTTCATGTCCCTAGCATTCAATAAATCTTTTAGTTCATCT
*
4150442 GCAGAAGCAACTGTCTCTTCAACAGATTTCCCTGGCTCAGACAGCCCATCTTTCAGCTCATCAAT
1 GCAGAAGCAACTGTCTCTTCAACAGATTTCCCTGGCTCAAACAGCCCATCTTTCAGCTCATCAAT
*
4150507 CTCACTATTAAGCTTCATGTCTCTAGCATTCAATAAATCTTTTAGTTC
66 CTCACTATTAAGCTTCATGTCCCTAGCATTCAATAAATCTTTTAGTTC
4150555 TCCATTCATG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (117 bp):
GCAGAAGCAACTGTCTCTTCAACAGATTTCCCTGGCTCAAACAGCCCATCTTTCAGCTCATCAAT
CTCACTATTAAGCTTCATGTCCCTAGCATTCAATAAATCTTTTAGTTCATCT
Found at i:4154532 original size:302 final size:302
Alignment explanation
Indices: 4153982--4154587 Score: 1158
Period size: 302 Copynumber: 2.0 Consensus size: 302
4153972 AGTAGGGGCC
4153982 CTATCATAAGCTGTAATAGTATTTGTAACAACATGTATAAATACCCGAACACTCCTATCAATAAC
1 CTATCATAAGCTGTAATAGTATTTGTAACAACATGTATAAATACCCGAACACTCCTATCAATAAC
* *
4154047 ATAGAAGAAAATATTACTCAACAATTAGTGTGATGAACATAGACAAACTTTCGATCATCAGATTT
66 ATACAAGAAAATATTACTCAACAATTAGTGCGATGAACATAGACAAACTTTCGATCATCAGATTT
4154112 TTCCAAGTTTAATTAAGTTTTCTTCAGTTTTCAAAGCAAATGGTTTTCCCAAGTTTTTAATCGAG
131 TTCCAAGTTTAATTAAGTTTTCTTCAGTTTTCAAAGCAAATGGTTTTCCCAAGTTTTTAATCGAG
* *
4154177 ACAAGCCGGAACGTTAAGTTCTGGTGACCAGCATAACGAAACAGACTTATTCACCAGATGGTTCA
196 ACAAGCCGGAAAGTTAAGTTCTGGTGACCAGCATAACGAAACAGACGTATTCACCAGATGGTTCA
4154242 CCAATAGACCAGAAAACCTCGGTAACATAGTTTATTGGGGAG
261 CCAATAGACCAGAAAACCTCGGTAACATAGTTTATTGGGGAG
4154284 CTATCATAAGCTGTAATAGTATTTGTAACAACATGTATAAATACCCGAACACTCCTATCAATAAC
1 CTATCATAAGCTGTAATAGTATTTGTAACAACATGTATAAATACCCGAACACTCCTATCAATAAC
4154349 ATACAAGAAAATATTACTCAACAATTAGTGCGATGAACATAGACAAACTTTCGATCATCAGATTT
66 ATACAAGAAAATATTACTCAACAATTAGTGCGATGAACATAGACAAACTTTCGATCATCAGATTT
*
4154414 TTCCAAGTTTAATTAAGTTTTCTTCAGTTTTCAAAGCAAATGGTTTTCCCGAGTTTTTAATCGAG
131 TTCCAAGTTTAATTAAGTTTTCTTCAGTTTTCAAAGCAAATGGTTTTCCCAAGTTTTTAATCGAG
4154479 ACAAGCCGGAAAGTTAAGTTCTGGTGACCAGCATAACGAAACAGACGTATTCACCAGATGGTTCA
196 ACAAGCCGGAAAGTTAAGTTCTGGTGACCAGCATAACGAAACAGACGTATTCACCAGATGGTTCA
*
4154544 CCAATAGACCAGAAAACCTTGGTAACATAGTTTATTGGGGAG
261 CCAATAGACCAGAAAACCTCGGTAACATAGTTTATTGGGGAG
4154586 CT
1 CT
4154588 TCTGGTCCTT
Statistics
Matches: 298, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
302 298 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (302 bp):
CTATCATAAGCTGTAATAGTATTTGTAACAACATGTATAAATACCCGAACACTCCTATCAATAAC
ATACAAGAAAATATTACTCAACAATTAGTGCGATGAACATAGACAAACTTTCGATCATCAGATTT
TTCCAAGTTTAATTAAGTTTTCTTCAGTTTTCAAAGCAAATGGTTTTCCCAAGTTTTTAATCGAG
ACAAGCCGGAAAGTTAAGTTCTGGTGACCAGCATAACGAAACAGACGTATTCACCAGATGGTTCA
CCAATAGACCAGAAAACCTCGGTAACATAGTTTATTGGGGAG
Found at i:4160396 original size:69 final size:69
Alignment explanation
Indices: 4160273--4160688 Score: 358
Period size: 69 Copynumber: 6.1 Consensus size: 69
4160263 AACATTTATG
* * * * *
4160273 TCATATTAAGGCTCATAGGATAAAAACTGCAGCCTCCAACACAGTCAGCGAGAGCAAAGCTCCCA
1 TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCA
4160338 GCTT
66 GCTT
* * * *
4160342 TTATATTAAAGCTCGCAGGATAAATACTGCAGCCTCCAACACAATTAGCAAGAGCAAAACTCCCA
1 TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCA
* *
4160407 ACTA
66 GCTT
* * * * * * * *
4160411 TCATATTAAAGCTCATAGGATAAAATCTGCA-TCTCTAACATAGTTAGCGAGAGCAAAGCTCTCA
1 TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCA
4160475 G-TT
66 GCTT
* * *** * *
4160478 GTCATATTAAGGCTCGCAGGATAAAAACCATAGCCTCCAATACAATTAGCGAGGGCAAAACTCCC
1 -TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCC
*
4160543 -GCTA
65 AGCTT
* * * * ** * * * *
4160547 CCATACTAAAGATTGTAGGATAAAAACTATAGCCTTCAACA-AATTAGCAATAGCAAAGCTCCCA
1 TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCA
4160611 G-TT
66 GCTT
* * * * **
4160614 GTCATACTAAGGCCCGTAAGATAAAAA-TCGCAGCCTCCAACACAATTAATGAGAGCAAAACTCC
1 -TCATATTAAAGCTCGTAGGATAAAAACT-GCAGCCTCCAACACAATTAGCGAGAGCAAAACTCC
**
4160678 CAATTT
64 CAGCTT
4160684 TCATA
1 TCATA
4160689 CTAAGGCTTA
Statistics
Matches: 269, Mismatches: 70, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
67 21 0.08
68 114 0.42
69 132 0.49
70 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (69 bp):
TCATATTAAAGCTCGTAGGATAAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCA
GCTT
Found at i:4160493 original size:137 final size:137
Alignment explanation
Indices: 4160273--4160734 Score: 432
Period size: 137 Copynumber: 3.4 Consensus size: 137
4160263 AACATTTATG
* * * * * * *
4160273 TCATATTAAGGCTCATAGGATAAAAACTGCAGCCTCCAACACAGTCAGCGAGAGCAAAGCTCCCA
1 TCATACTAAAGCTCATAGGATAAAATCTGCACCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
* * *
4160338 GCTT-TTATATTAAAGCTCGCAGGATAAATACTGCAGCCTCCAACACAATTAGCAAGAGCAAAAC
66 G-TTGTCATATTAAGGCTCGCAGGATAAA-ACTGCAGCCTCCAACACAATTAGCGAGAGCAAAAC
4160402 TCCCAACTA
129 TCCCAACTA
* * *
4160411 TCATATTAAAGCTCATAGGATAAAATCTGCA-TCTCTAACATAGTTAGCGAGAGCAAAGCTCTCA
1 TCATACTAAAGCTCATAGGATAAAATCTGCACCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
*** * *
4160475 GTTGTCATATTAAGGCTCGCAGGATAAAAACCATAGCCTCCAATACAATTAGCGAGGGCAAAACT
66 GTTGTCATATTAAGGCTCGCAGGAT-AAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACT
*
4160540 CCC-GCTA
130 CCCAACTA
* * ** * ** * * * *
4160547 CCATACTAAAGATTGTAGGATAAAAACTATAGCCT-TCAACA-AATTAGCAATAGCAAAGCTCCC
1 TCATACTAAAGCTCATAGGATAAAATCTGCACCCTCT-AACATAGTTAGCGAGAGCAAAGCTCCC
* * * * * **
4160610 AGTTGTCATACTAAGGCCCGTAAGATAAAAATCGCAGCCTCCAACACAATTAATGAGAGCAAAAC
65 AGTTGTCATATTAAGGCTCGCAGGATAAAACT-GCAGCCTCCAACACAATTAGCGAGAGCAAAAC
* *
4160675 TCCCAATTT
129 TCCCAACTA
* * * * *
4160684 TCATACTAAGGCTTACAGGATAAAGA-CCGTACCCTCTAACATAGTTAGCGA
1 TCATACTAAAGCTCATAGGATAAA-ATCTGCACCCTCTAACATAGTTAGCGA
4160735 AAGTTGAAAA
Statistics
Matches: 261, Mismatches: 54, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
135 4 0.02
136 99 0.38
137 117 0.45
138 41 0.16
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (137 bp):
TCATACTAAAGCTCATAGGATAAAATCTGCACCCTCTAACATAGTTAGCGAGAGCAAAGCTCCCA
GTTGTCATATTAAGGCTCGCAGGATAAAACTGCAGCCTCCAACACAATTAGCGAGAGCAAAACTC
CCAACTA
Found at i:4160625 original size:136 final size:138
Alignment explanation
Indices: 4160285--4160680 Score: 426
Period size: 136 Copynumber: 2.9 Consensus size: 138
4160275 ATATTAAGGC
** * * *
4160285 TCATAGGATAAAAACTGCAGCCTCCAACACAGTCAGCGAGAGCAAAGCTCCCAGCTT-TTATATT
1 TCATAGGATAAAAACTATAGCCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAG-TTGTCATATT
* * * * *
4160349 AAAGCTCGCAGGATAAATACTGCAGCCTCCAACACAATTAGCAAGAGCAAAACTCCCAACTATCA
65 AAGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCAACTACCA
* *
4160414 TATTAAAGC
130 TACTAAAGA
* * * *
4160423 TCATAGGAT-AAAA-TCT-GCATCTCTAACATAGTTAGCGAGAGCAAAGCTCTCAGTTGTCATAT
1 TCATAGGATAAAAACTATAGCCT-TC-AACACAGTTAGCGAGAGCAAAGCTCCCAGTTGTCATAT
** * * *
4160485 TAAGGCTCGCAGGATAAAAACCATAGCCTCCAATACAATTAGCGAGGGCAAAACTCCC-GCTACC
64 TAAGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCAACTACC
4160549 ATACTAAAGA
129 ATACTAAAGA
** * * * *
4160559 TTGTAGGATAAAAACTATAGCCTTCAACA-AATTAGCAATAGCAAAGCTCCCAGTTGTCATACTA
1 TCATAGGATAAAAACTATAGCCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGTTGTCATATTA
* * * * **
4160623 AGGCCCGTAAGATAAAAATCGCAGCCTCCAACACAATTAATGAGAGCAAAACTCCCAA
66 AGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCAA
4160681 TTTTCATACT
Statistics
Matches: 211, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
135 3 0.01
136 99 0.47
137 93 0.44
138 13 0.06
139 3 0.01
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (138 bp):
TCATAGGATAAAAACTATAGCCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGTTGTCATATTA
AGGCTCGCAGGATAAAAACCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCCCAACTACCAT
ACTAAAGA
Found at i:4160952 original size:57 final size:57
Alignment explanation
Indices: 4160756--4160958 Score: 246
Period size: 58 Copynumber: 3.5 Consensus size: 57
4160746 TCTCAACTGT
* * * *
4160756 GTTATCTTTCAAAATTTTATTAAGTATAAAACGACTCACGGATTCACATCACTAGCTG
1 GTTATCTTTCAAAATTTTCTTAAATATAAAACAACTCACGAATTCACATC-CTAGCTG
* * * * *
4160814 GTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCAC-AGATTCACATCCCCAACTG
1 GTTATCTTTCAAAATTTTCTTAAATATAAAACAACTCACGA-ATTCACAT-CCTAGCTG
* * * *
4160872 GTTATCTTTCAAAATTTTCTTAAATATGAAACAATTCGCGAATTCACATCCTAGTTG
1 GTTATCTTTCAAAATTTTCTTAAATATAAAACAACTCACGAATTCACATCCTAGCTG
*
4160929 ATTATCTTTCAAAATTTTCTTAAATATAAA
1 GTTATCTTTCAAAATTTTCTTAAATATAAA
4160959 GTTGCTTGTG
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
57 33 0.27
58 89 0.72
59 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (57 bp):
GTTATCTTTCAAAATTTTCTTAAATATAAAACAACTCACGAATTCACATCCTAGCTG
Found at i:4167065 original size:12 final size:12
Alignment explanation
Indices: 4167048--4167077 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4167038 ACAAAATTTG
4167048 AATTTAATTTCC
1 AATTTAATTTCC
*
4167060 AATTTAATTTCT
1 AATTTAATTTCC
4167072 AATTTA
1 AATTTA
4167078 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:4172693 original size:2 final size:2
Alignment explanation
Indices: 4172686--4172727 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
4172676 TGTTTAATAG
* *
4172686 AT AT AT AT AA AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4172728 GTATCAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4173363 original size:41 final size:41
Alignment explanation
Indices: 4173306--4173455 Score: 255
Period size: 41 Copynumber: 3.6 Consensus size: 41
4173296 GACTATACGT
4173306 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
4173347 CTAGCAGGCTAAGTGCCGGTAATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
4173388 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
4173429 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
4173456 TTAAATTAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 97 0.95
42 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:4173487 original size:2 final size:2
Alignment explanation
Indices: 4173482--4173509 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4173472 TATACATTTG
4173482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4173510 GATTTTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4176034 original size:17 final size:18
Alignment explanation
Indices: 4176007--4176040 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4175997 CACACAATAA
4176007 ACCCAAAATAAGCCCAAC
1 ACCCAAAATAAGCCCAAC
*
4176025 ACCC-AAATAAGTCCAA
1 ACCCAAAATAAGCCCAA
4176041 GAGGAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.35, G:0.06, T:0.09
Consensus pattern (18 bp):
ACCCAAAATAAGCCCAAC
Found at i:4180524 original size:42 final size:42
Alignment explanation
Indices: 4180463--4180564 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
4180453 TGAGTTTCTG
* **
4180463 TTTAACCCTTATGGCTTTTCGTTCAGCTCTTTTGAGCTTTAA
1 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTTAA
**
4180505 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTTCG
1 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTTAA
*
4180547 TTCAACCCTTATGGGTTT
1 TTTAACCCTTATGGGTTT
4180565 CTGTTTGGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTTAA
Found at i:4192321 original size:22 final size:22
Alignment explanation
Indices: 4192297--4192373 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
4192287 TACATGGACT
*
4192297 AAAAAATTTGAATTATAAAGAT
1 AAAAAATTTGAATTATAAAGAG
* * **
4192319 AAAAAAATTCAATT-TGCAGAG
1 AAAAAATTTGAATTATAAAGAG
* **
4192340 AAAAAATATCGAATTATAGCGAG
1 AAAAAAT-TTGAATTATAAAGAG
4192363 AAAAAATTTGA
1 AAAAAATTTGA
4192374 CTTGGAGGAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
21 10 0.24
22 20 0.49
23 11 0.27
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (22 bp):
AAAAAATTTGAATTATAAAGAG
Found at i:4192511 original size:22 final size:21
Alignment explanation
Indices: 4192469--4192520 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
4192459 TGAAATACAT
4192469 GGAAAAAATCAACTAATAGGG
1 GGAAAAAATCAACTAATAGGG
*
4192490 AGGAAAAAATCGACTTAA-AGGG
1 -GGAAAAAATCAAC-TAATAGGG
*
4192512 GTAAAAAAT
1 GGAAAAAAT
4192521 TTCAGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 16 0.59
23 3 0.11
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (21 bp):
GGAAAAAATCAACTAATAGGG
Found at i:4200557 original size:19 final size:19
Alignment explanation
Indices: 4200533--4200606 Score: 75
Period size: 19 Copynumber: 4.0 Consensus size: 19
4200523 AAATAAGATG
4200533 AATATTTTTATATTTTTTA
1 AATATTTTTATATTTTTTA
4200552 AATA-TTTT-TA-TTTTTA
1 AATATTTTTATATTTTTTA
*
4200568 AATATTTTTTTAATTTTTTCA
1 AATATTTTTAT-ATTTTTT-A
* *
4200589 TATATTTTAAT-TTTTTTA
1 AATATTTTTATATTTTTTA
4200607 TAAAAATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 10 0.21
17 6 0.13
18 6 0.13
19 11 0.23
20 5 0.11
21 9 0.19
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (19 bp):
AATATTTTTATATTTTTTA
Found at i:4200567 original size:16 final size:16
Alignment explanation
Indices: 4200546--4200576 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4200536 ATTTTTATAT
4200546 TTTTTAAATATTTTTA
1 TTTTTAAATATTTTTA
4200562 TTTTTAAATATTTTT
1 TTTTTAAATATTTTT
4200577 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTAAATATTTTTA
Found at i:4200594 original size:37 final size:35
Alignment explanation
Indices: 4200533--4200603 Score: 97
Period size: 37 Copynumber: 2.0 Consensus size: 35
4200523 AAATAAGATG
*
4200533 AATATTTTTATATTTTTTAAATATTTTTATTTTTA
1 AATATTTTTATATTTTTTAAATATTTTAATTTTTA
* *
4200568 AATATTTTTTTAATTTTTTCATATATTTTAATTTTT
1 AATATTTTTAT-ATTTTTT-AAATATTTTAATTTTT
4200604 TTATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 10 0.32
36 7 0.23
37 14 0.45
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (35 bp):
AATATTTTTATATTTTTTAAATATTTTAATTTTTA
Found at i:4203462 original size:25 final size:26
Alignment explanation
Indices: 4203434--4203482 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
4203424 TATAGATATA
4203434 TATATTGCCGAATTTG-ATTGTTTTG
1 TATATTGCCGAATTTGAATTGTTTTG
4203459 TATATTGCCGAATTTGAATTGTTT
1 TATATTGCCGAATTTGAATTGTTT
4203483 ATAGTTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (26 bp):
TATATTGCCGAATTTGAATTGTTTTG
Found at i:4203563 original size:61 final size:60
Alignment explanation
Indices: 4203477--4204063 Score: 350
Period size: 61 Copynumber: 9.6 Consensus size: 60
4203467 CGAATTTGAA
* * * * *
4203477 TTGTTTATAGTTATACATTGTTGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTAAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGATGATAA-TTGCTGAATTAAT
* * * * * * * *
4203538 TCGTATATGGTTGTCCATTGCTGAAATTTATTTGTATATGATTATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGATGA-TAATTGCTGAA-TTAAT
* * * * * * *
4203600 TTGTAAATGGATATA-AGTTGCCG-AATTAATTCGTATATGGTTG-TACATTGCTGAAATTTAT
1 TTGTATATGGTTATACA-TTGCTGAAATTGATTTGTATAT-GATGATA-ATTGCTG-AATTAAT
* * * * * *
4203661 TTGTATATGATTATTCATTGTTGAATTTGATTTGTAAATGGAT-ATAAGTTGCCGAATTAAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATAT-GATGATAA-TTGCTGAATTAAT
* * * * * * * *
4203722 TCGTATATGGTTGTACATTGCTGAAATTTATTTGTATATGGTCATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGATGA-TAATTGCTGAA-TTAAT
* * * * *
4203784 TTGTAAATGGATATA-AGTTGCCG-AATTGATTCGTATATGGATG-TACATTGCTGAAATTTAT
1 TTGTATATGGTTATACA-TTGCTGAAATTGATTTGTATAT-GATGATA-ATTGCTG-AATTAAT
**
4203845 TTGTATATGGTTATACATTATTGAAATTGATTTGTATATGGAT-ATAAGTTGCTGAATTAAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATAT-GATGATAA-TTGCTGAATTAAT
* * * * * *
4203906 TCGTATATGGTTATACAATG-TCGAATTTGATTTGTATATGATTATACATTTCTGAACTTGAT
1 TTGTATATGGTTATACATTGCT-GAAATTGATTTGTATATGATGATA-ATTGCTGAA-TTAAT
*** * * * * * *
4203968 CCATATACGGTTATACATTGC-CAAATTGATTTGTATATGATTATACATTACCGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGATGATA-ATTGCTGAA-TTAAT
* * *
4204029 TCGTATATGAATATATACATTGTTG-AATTGATTTG
1 TTGTATATG-GT-TATACATTGCTGAAATTGATTTG
4204064 AGCATTGGAT
Statistics
Matches: 405, Mismatches: 92, Indels: 56
0.73 0.17 0.10
Matches are distributed among these distances:
60 8 0.02
61 256 0.63
62 122 0.30
63 19 0.05
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (60 bp):
TTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGATGATAATTGCTGAATTAAT
Found at i:4203576 original size:31 final size:30
Alignment explanation
Indices: 4203462--4204063 Score: 379
Period size: 31 Copynumber: 19.6 Consensus size: 30
4203452 TGTTTTGTAT
* * * *
4203462 ATTGCCGAATTTGAATTGTTTATAGTTATAC
1 ATTGCTGAATTT-ATTTGTATATGGTTATAC
* * ***
4203493 ATTGTTGAAATTGATTTGTATATGAAGATA-
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
* * * * *
4203523 AGTTGCCGAATTAATTCGTATATGGTTGTCC
1 A-TTGCTGAATTTATTTGTATATGGTTATAC
* *
4203554 ATTGCTGAAATTTATTTGTATATGATTATTC
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
* * *
4203585 ATTGTTGAATTTGATTTGTAAATGGATATA-
1 ATTGCTGAATTT-ATTTGTATATGGTTATAC
* * * *
4203615 AGTTGCCGAATTAATTCGTATATGGTTGTAC
1 A-TTGCTGAATTTATTTGTATATGGTTATAC
* *
4203646 ATTGCTGAAATTTATTTGTATATGATTATTC
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
* * *
4203677 ATTGTTGAATTTGATTTGTAAATGGATATA-
1 ATTGCTGAATTT-ATTTGTATATGGTTATAC
* * * *
4203707 AGTTGCCGAATTAATTCGTATATGGTTGTAC
1 A-TTGCTGAATTTATTTGTATATGGTTATAC
* *
4203738 ATTGCTGAAATTTATTTGTATATGGTCATTC
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
* * *
4203769 ATTGTTGAATTTGATTTGTAAATGGATATA-
1 ATTGCTGAATTT-ATTTGTATATGGTTATAC
* * * * *
4203799 AGTTGCCGAATTGATTCGTATATGGATGTAC
1 A-TTGCTGAATTTATTTGTATATGGTTATAC
4203830 ATTGCTGAAATTTATTTGTATATGGTTATAC
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
** * *
4203861 ATTATTGAAATTGATTTGTATATGGATATA-
1 ATTGCTG-AATTTATTTGTATATGGTTATAC
* *
4203891 AGTTGCTGAATTAATTCGTATATGGTTATAC
1 A-TTGCTGAATTTATTTGTATATGGTTATAC
* *
4203922 AATG-TCGAATTTGATTTGTATATGATTATAC
1 ATTGCT-GAATTT-ATTTGTATATGGTTATAC
* * *** *
4203953 ATTTCTGAACTTGATCCATATACGGTTATAC
1 ATTGCTGAA-TTTATTTGTATATGGTTATAC
** * *
4203984 ATTGCCAAATTGATTTGTATATGATTATAC
1 ATTGCTGAATTTATTTGTATATGGTTATAC
* * * *
4204014 ATTACCGAATTTGATTCGTATATGAATATATAC
1 ATTGCTGAATTT-ATTTGTATATG-GT-TATAC
* *
4204047 ATTGTTGAATTGATTTG
1 ATTGCTGAATTTATTTG
4204064 AGCATTGGAT
Statistics
Matches: 432, Mismatches: 114, Indels: 49
0.73 0.19 0.08
Matches are distributed among these distances:
29 1 0.00
30 146 0.34
31 259 0.60
32 13 0.03
33 13 0.03
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (30 bp):
ATTGCTGAATTTATTTGTATATGGTTATAC
Found at i:4203589 original size:92 final size:92
Alignment explanation
Indices: 4203487--4204063 Score: 743
Period size: 92 Copynumber: 6.3 Consensus size: 92
4203477 TTGTTTATAG
* * * *
4203487 TTATACATTGTTGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4203552 CCATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
*
4203579 TTATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
4203644 ACATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
*
4203671 TTATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4203736 ACATTGCTGAAATTTATTTGTATATGG
66 ACATTGCTGAAATTTATTTGTATATGA
* * * *
4203763 TCATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTGATTCGTATATGGATGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4203828 ACATTGCTGAAATTTATTTGTATATGG
66 ACATTGCTGAAATTTATTTGTATATGA
* * * * *
4203855 TTATACATTATTGAAATTGATTTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTAT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4203920 ACAATG-TCG-AATTTGATTTGTATATGA
66 ACATTGCT-GAAATTT-ATTTGTATATGA
* *** * * * * * * *
4203947 TTATACATT-TCTGAACTTGATCCATATACGGTTATACA-TTGCCAAATTGATTTGTATATGATT
1 TTATACATTGT-TGAATTTGATTTGTAAATGGATATA-AGTTGCCGAATTAATTCGTATATGGTT
* * * *
4204010 ATACATTACCG-AATTTGATTCGTATATGAA
64 GTACATTGCTGAAATTT-ATTTGTATATG-A
4204040 TATATACATTGTTGAA-TTGATTTG
1 T-TATACATTGTTGAATTTGATTTG
4204064 AGCATTGGAT
Statistics
Matches: 438, Mismatches: 39, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
91 7 0.02
92 410 0.94
93 8 0.02
94 12 0.03
95 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (92 bp):
TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
ACATTGCTGAAATTTATTTGTATATGA
Found at i:4208113 original size:16 final size:16
Alignment explanation
Indices: 4208092--4208123 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4208082 GTTTTGTTGC
*
4208092 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
4208108 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
4208124 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:4215419 original size:39 final size:37
Alignment explanation
Indices: 4215332--4215419 Score: 88
Period size: 41 Copynumber: 2.3 Consensus size: 37
4215322 AAAATTATAT
* *
4215332 TTATAATTTTTAAAAATTTTAATATTTTTATATAATA
1 TTATGATTTTTAAAAATTTTAATATTTATATATAATA
* * *
4215369 TTTTTACTTTTTAAAAATTTTTTAATTATTTATATATTATA
1 TTATGA-TTTTTAAAAA--TTTTAA-TATTTATATATAATA
4215410 -TATGATTTTT
1 TTATGATTTTT
4215420 TACATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
37 4 0.10
38 10 0.24
39 5 0.12
40 9 0.22
41 13 0.32
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (37 bp):
TTATGATTTTTAAAAATTTTAATATTTATATATAATA
Found at i:4222394 original size:17 final size:17
Alignment explanation
Indices: 4222369--4222406 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4222359 TAAGGGAGTA
* *
4222369 AAAATAAATAAATAACG
1 AAAAGAAATAAATAAAG
4222386 AAAAGAAATAAATAAAG
1 AAAAGAAATAAATAAAG
4222403 AAAA
1 AAAA
4222407 CTAAACAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAATAAAG
Found at i:4223930 original size:13 final size:13
Alignment explanation
Indices: 4223914--4223939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4223904 GGAATGATTT
4223914 TTTGAAAATTTCG
1 TTTGAAAATTTCG
4223927 TTTGAAAATTTCG
1 TTTGAAAATTTCG
4223940 ACGTTTGGGC
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:4225125 original size:50 final size:50
Alignment explanation
Indices: 4225009--4225307 Score: 264
Period size: 50 Copynumber: 5.9 Consensus size: 50
4224999 ACATTTGGGT
* * * *
4225009 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGACATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
4225060 GATTATGAGATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * **
4225113 GATGAGAGGTCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACTTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * *
4225163 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
4225213 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * *
4225262 CAAGAAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
4225308 TGTTATTATC
Statistics
Matches: 206, Mismatches: 36, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
49 37 0.18
50 125 0.61
51 1 0.00
53 3 0.01
54 6 0.03
55 1 0.00
56 33 0.16
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:4226894 original size:24 final size:25
Alignment explanation
Indices: 4226860--4226923 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
4226850 GTACATGTAT
*
4226860 GCTCATACGAGCTGTA-AACGAGAA
1 GCTCATGCGAGCTGTATAACGAGAA
* *
4226884 GCTCATGCGAGCTGAATAACGGGAA
1 GCTCATGCGAGCTGTATAACGAGAA
4226909 GCTCATGCGAGCTGT
1 GCTCATGCGAGCTGT
4226924 GGGGTGTCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 14 0.40
25 21 0.60
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (25 bp):
GCTCATGCGAGCTGTATAACGAGAA
Found at i:4231524 original size:19 final size:19
Alignment explanation
Indices: 4231500--4231544 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4231490 ATAGATGTAA
4231500 TAAAATGTACAAAATGA-AT
1 TAAAATGTACAAAA-GATAT
*
4231519 TAAAATGTATAAAAGATAT
1 TAAAATGTACAAAAGATAT
4231538 TAAAATG
1 TAAAATG
4231545 AATTTTTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (19 bp):
TAAAATGTACAAAAGATAT
Found at i:4238504 original size:34 final size:34
Alignment explanation
Indices: 4238455--4238560 Score: 167
Period size: 34 Copynumber: 3.1 Consensus size: 34
4238445 GGGATATAAT
* * * * *
4238455 ATTATATTTCGTAATAGGATTACAAGAATGTAAG
1 ATTACATTTCATAATAGGACTACGAGAATGCAAG
4238489 ATTACATTTCATAATAGGACTACGAGAATGCAAG
1 ATTACATTTCATAATAGGACTACGAGAATGCAAG
4238523 ATTACATTTCATAATAGGACTACGAGAATGCAAG
1 ATTACATTTCATAATAGGACTACGAGAATGCAAG
4238557 ATTA
1 ATTA
4238561 TGGGAGGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTACATTTCATAATAGGACTACGAGAATGCAAG
Found at i:4239003 original size:93 final size:94
Alignment explanation
Indices: 4238896--4239082 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 94
4238886 GAAACAAGCC
4238896 CAAATATAAAGTAAGTTGTTATTAGACCAAATG-AAAAAAAAGAGATAAAAACAAAGGTGGACAC
1 CAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAAAAAGAGATAAAAACAAAGGTGGACAC
4238960 AAAAAACTTGATTAAATAGTTCAACAGCG
66 AAAAAACTTGATTAAATAGTTCAACAGCG
*
4238989 CAAATATAAAGTAAGTTGTTATTAGATCAAATGAAAAAAAAAAAAAGAGATAAAAACAAAGGTGG
1 CAAATATAAAGTAAGTTGTTATTAGACCAAATG----AAAAAAAAAGAGATAAAAACAAAGGTGG
4239054 ACACAAAAAACTTGATTAAATAGTTCAAC
62 ACACAAAAAACTTGATTAAATAGTTCAAC
4239083 TTCATCCTAG
Statistics
Matches: 88, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
93 32 0.36
98 56 0.64
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.21
Consensus pattern (94 bp):
CAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAAAAAGAGATAAAAACAAAGGTGGACAC
AAAAAACTTGATTAAATAGTTCAACAGCG
Found at i:4239331 original size:30 final size:31
Alignment explanation
Indices: 4239297--4239359 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
4239287 CATATGTACA
4239297 ATGATAAGTGTTCTTTTAG-TTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
4239327 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
4239358 AT
1 AT
4239360 AGTACAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (31 bp):
ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
Found at i:4260548 original size:16 final size:15
Alignment explanation
Indices: 4260529--4260580 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
4260519 AATAGAACTA
4260529 TAATGTAATAGAGTTG
1 TAATG-AATAGAGTTG
*
4260545 TAATGAAATAGAGCTG
1 TAATG-AATAGAGTTG
4260561 TAATAGAATAGAGTTG
1 TAAT-GAATAGAGTTG
4260577 TAAT
1 TAAT
4260581 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (15 bp):
TAATGAATAGAGTTG
Found at i:4260904 original size:58 final size:59
Alignment explanation
Indices: 4260753--4260904 Score: 199
Period size: 57 Copynumber: 2.6 Consensus size: 59
4260743 TTTTAATAAG
* *
4260753 ATTATTATTAAATATAATTTAATAAAAATAATAA-ATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAATATAATTTAATAACATTTTAACATA
* *
4260811 ATTATTATTAAATACAATTTAAT-AAAATAAT-ATATAATTTAATAACATTTTTA-AT-
1 ATTATTATTAAATATAATTTAATAAAAATAATAATATAATTTAATAACATTTTAACATA
*
4260866 ATTATTATTAAAATATGAA-TTAATAAAAATCATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAATATA
4260905 TAATATTATA
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
55 9 0.11
56 13 0.16
57 34 0.41
58 27 0.33
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAATATAATTTAATAACATTTTAACATA
Found at i:4260905 original size:24 final size:23
Alignment explanation
Indices: 4260878--4260927 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
4260868 TATTATTAAA
*
4260878 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
4260902 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
4260925 ATA
1 ATA
4260928 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:4264261 original size:31 final size:31
Alignment explanation
Indices: 4264219--4264302 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
4264209 GGCCCATATT
4264219 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAA
* *
4264250 TATTTTCAAAATATTTTAAAATT-AAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAAA
4264280 -ATTTTAAAAAGTATTTTAAAAAT
1 TATTTTAAAAA-TA-TTTAAAAAT
4264303 ATTTTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 9 0.20
30 9 0.20
31 25 0.54
32 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAA
Found at i:4264279 original size:41 final size:40
Alignment explanation
Indices: 4264219--4264399 Score: 247
Period size: 41 Copynumber: 4.5 Consensus size: 40
4264209 GGCCCATATT
** *
4264219 TATTTTAAAAATTTTAAAAAATTAAAAAAAATATTTTCAAAA
1 TATTTT-AAAATTAAAAAAAATT-AAAAAAATATTTTAAAAA
* *
4264261 TATTTTAAAATTAAAAAAAATTTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAA-TTAAAAAAATATTTTAAAAA
4264302 TATTTTAAAATT-AAAAAAATTAAAAAAATATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAATATTTTAAAAA
* * *
4264341 TATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAA-TTAAAAAAAATTAAAAAAATATTTTAAAAA
4264382 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
4264400 TAAATATATT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
39 28 0.22
40 17 0.13
41 73 0.58
42 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAATATTTTAAAAA
Found at i:4264328 original size:80 final size:81
Alignment explanation
Indices: 4264219--4264399 Score: 276
Period size: 80 Copynumber: 2.2 Consensus size: 81
4264209 GGCCCATATT
* *
4264219 TATTTTAAAAATTTTAAAAAATTAAAAAAAATATTTTCAAAATATTTTAAAA-TTAAAAAAAATT
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTTAAAAAAAA-T
* * *
4264283 TTAAAAAGTATTTTAAAAA
63 TAAAAAAGTATGTAAAAAA
4264302 TATTTTAAAATTAAAAAAATT-AAAAAAATATTTTAAAAATATTTTAAAATTTAAAAAAAATTAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTTAAAAAAAATTAA
4264366 AAAAGTATGTAAAAAA
66 AAAAGTATGTAAAAAA
4264382 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
4264400 TAAATATATT
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
80 62 0.67
81 20 0.22
82 4 0.04
83 6 0.07
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (81 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAATATTTTAAAAATATTTTAAAATTTAAAAAAAATTAA
AAAAGTATGTAAAAAA
Found at i:4264391 original size:11 final size:11
Alignment explanation
Indices: 4264219--4264350 Score: 90
Period size: 11 Copynumber: 12.9 Consensus size: 11
4264209 GGCCCATATT
4264219 TATTTT-AAAA
1 TATTTTAAAAA
4264229 -ATTTTAAAAA
1 TATTTTAAAAA
**
4264239 -ATTAAAAAAAA
1 TATT-TTAAAAA
*
4264250 TATTTTCAAAA
1 TATTTTAAAAA
4264261 TATTTT--AAA
1 TATTTTAAAAA
*
4264270 -A-TTAAAAAA
1 TATTTTAAAAA
*
4264279 AATTTTAAAAA
1 TATTTTAAAAA
4264290 GTATTTTAAAAA
1 -TATTTTAAAAA
4264302 TATTTT--AAA
1 TATTTTAAAAA
4264311 -A--TTAAAAA
1 TATTTTAAAAA
* **
4264319 AATTAAAAAAA
1 TATTTTAAAAA
4264330 TATTTTAAAAA
1 TATTTTAAAAA
4264341 TATTTTAAAA
1 TATTTTAAAA
4264351 TTTAAAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.05
9 15 0.16
10 8 0.08
11 51 0.53
12 13 0.14
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4266349 original size:18 final size:17
Alignment explanation
Indices: 4266322--4266355 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4266312 TTTTTATAAT
*
4266322 ATTTTTTATTTCTTTAG
1 ATTTTTTATTTATTTAG
4266339 ATTTTTATATTTATTTA
1 ATTTTT-TATTTATTTA
4266356 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTTATTTATTTAG
Found at i:4266751 original size:11 final size:11
Alignment explanation
Indices: 4266737--4266777 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
4266727 ATTTTTTAAA
4266737 TTTAAAATATT
1 TTTAAAATATT
4266748 TTTAAAATACTT
1 TTTAAAATA-TT
* *
4266760 TTTTAAATTTT
1 TTTAAAATATT
4266771 TTTAAAA
1 TTTAAAA
4266778 AAATTGGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:4269505 original size:43 final size:43
Alignment explanation
Indices: 4269424--4269505 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
4269414 GTAAGACCAC
* * *
4269424 GTCTGGGACGTTGGCATCGACTTGTGTTTACGTATAAGATCCT
1 GTCTGGGACGTTGGCATCGACTTGTGATCACATATAAGATCCT
*
4269467 GTCTGGGACAG-TGGCATCGA-TCTGTGATCACATGTAAGA
1 GTCTGGGAC-GTTGGCATCGACT-TGTGATCACATATAAGA
4269506 CCATGTATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
42 1 0.03
43 31 0.94
44 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
GTCTGGGACGTTGGCATCGACTTGTGATCACATATAAGATCCT
Found at i:4270495 original size:22 final size:21
Alignment explanation
Indices: 4270470--4270510 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4270460 TGTATGGTGT
*
4270470 GATTTGGTTTTGGTATTATATA
1 GATTTGGTTCTGGT-TTATATA
4270492 GATTTGGTTCTGGTTTATA
1 GATTTGGTTCTGGTTTATA
4270511 AGTATAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (21 bp):
GATTTGGTTCTGGTTTATATA
Found at i:4272566 original size:25 final size:25
Alignment explanation
Indices: 4272529--4272581 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
4272519 TTCTTGATTT
*
4272529 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAATTA-TATT-AATTAAA
4272556 ATATTAT-AAATTATATTAATTAAA
1 ATATTATAAAATTATATTAATTAAA
4272580 AT
1 AT
4272582 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTATAAAATTATATTAATTAAA
Found at i:4272567 original size:15 final size:16
Alignment explanation
Indices: 4272537--4272568 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4272527 TTATATTATA
4272537 AAAATATTATTAAATT
1 AAAATATTATTAAATT
4272553 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
4272568 A
1 A
4272569 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:4272589 original size:25 final size:22
Alignment explanation
Indices: 4272539--4272596 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
4272529 ATATTATAAA
**
4272539 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
4272563 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
4272588 AATATATTA
1 AATATATTA
4272597 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:4272596 original size:28 final size:27
Alignment explanation
Indices: 4272540--4272598 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
4272530 TATTATAAAA
4272540 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
4272568 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
4272596 ATA
1 ATA
4272599 GGAAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:4273794 original size:21 final size:21
Alignment explanation
Indices: 4273736--4273822 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
4273726 CTTTGCCGAT
* *
4273736 CAGGCACTTTATGTGTCGTATCT
1 CAGGCAC-TCATGTGTCGTAT-A
* *
4273759 CATGCACATTATGTGTCGTAT-
1 CAGGCAC-TCATGTGTCGTATA
*
4273780 CAGGCACCTCGTGTGTCGT-TA
1 CAGGCA-CTCATGTGTCGTATA
*
4273801 CAGGCACTTATGTGTCGTATA
1 CAGGCACTCATGTGTCGTATA
4273822 C
1 C
4273823 TGATCAGGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 11 0.20
21 23 0.43
22 1 0.02
23 19 0.35
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
CAGGCACTCATGTGTCGTATA
Found at i:4273888 original size:26 final size:26
Alignment explanation
Indices: 4273869--4273922 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4273859 CCGTATTGGT
*
4273869 GTGTTTGGGTTGAAATCCGTGTATCC
1 GTGTTTGGGTTGAAATCCGTATATCC
* *
4273895 GTGTTTGGGTTGGAATCCGTGTATCC
1 GTGTTTGGGTTGAAATCCGTATATCC
4273921 GT
1 GT
4273923 CAAAGTCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.39
Consensus pattern (26 bp):
GTGTTTGGGTTGAAATCCGTATATCC
Found at i:4278443 original size:8 final size:8
Alignment explanation
Indices: 4278432--4278511 Score: 124
Period size: 8 Copynumber: 10.0 Consensus size: 8
4278422 ATAGGAAAAA
4278432 ATCATGGG
1 ATCATGGG
4278440 ATCATGGG
1 ATCATGGG
*
4278448 ATCATGAG
1 ATCATGGG
*
4278456 ATCATGAG
1 ATCATGGG
4278464 ATCATGGG
1 ATCATGGG
*
4278472 ATCATGAG
1 ATCATGGG
*
4278480 ATCATGAG
1 ATCATGGG
4278488 ATCATGGG
1 ATCATGGG
4278496 ATCATGGG
1 ATCATGGG
4278504 ATCATGGG
1 ATCATGGG
4278512 CCTACTCTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 68 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (8 bp):
ATCATGGG
Found at i:4278466 original size:24 final size:24
Alignment explanation
Indices: 4278432--4278509 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
4278422 ATAGGAAAAA
*
4278432 ATCATGGGATCATGGGATCATGAG
1 ATCATGAGATCATGGGATCATGAG
4278456 ATCATGAGATCATGGGATCATGAG
1 ATCATGAGATCATGGGATCATGAG
*
4278480 ATCATGAGATCATGGGATCATGGG
1 ATCATGAGATCATGGGATCATGAG
4278504 ATCATG
1 ATCATG
4278510 GGCCTACTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (24 bp):
ATCATGAGATCATGGGATCATGAG
Found at i:4286965 original size:21 final size:19
Alignment explanation
Indices: 4286928--4286966 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4286918 AATTTAATAA
*
4286928 ATAAATAAATTTTATTATC
1 ATAAATAAATTTAATTATC
4286947 ATAAATATAACTTTAATTAT
1 ATAAATA-AA-TTTAATTAT
4286967 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATAAATTTAATTATC
Found at i:4287178 original size:14 final size:14
Alignment explanation
Indices: 4287161--4287204 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4287151 TGAAATTAAT
4287161 AATTAAAAATAAAA
1 AATTAAAAATAAAA
* * *
4287175 AATTATAACTAGAA
1 AATTAAAAATAAAA
*
4287189 AATTGAAAATAAAA
1 AATTAAAAATAAAA
4287203 AA
1 AA
4287205 AAAATCAACA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (14 bp):
AATTAAAAATAAAA
Found at i:4287674 original size:17 final size:16
Alignment explanation
Indices: 4287635--4287703 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
4287625 AGTGTTATAA
4287635 AATTAAATTATATTTTT
1 AATTAAATT-TATTTTT
*
4287652 TA-TAAATTTATTTTT
1 AATTAAATTTATTTTT
* *
4287667 CAATTAAAATTAATATTT
1 -AATT-AAATTTATTTTT
*
4287685 AATTAAATTATATATTT
1 AATTAAATT-TATTTTT
4287702 AA
1 AA
4287704 CTCTAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 7 0.16
16 12 0.28
17 14 0.33
18 10 0.23
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTAAATTTATTTTT
Found at i:4288234 original size:2 final size:2
Alignment explanation
Indices: 4288227--4288270 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4288217 AAGCTTTCAA
*
4288227 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4288269 AT
1 AT
4288271 TTGAAGTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4292229 original size:21 final size:22
Alignment explanation
Indices: 4292190--4292232 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4292180 ATTTTTTGAT
* *
4292190 AAAAATACATAAGATTTATAAA
1 AAAAACACATAAGAATTATAAA
4292212 AAAAACACAT-AGAATTATAAA
1 AAAAACACATAAGAATTATAAA
4292233 TAAATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAAACACATAAGAATTATAAA
Found at i:4305290 original size:27 final size:27
Alignment explanation
Indices: 4305260--4305318 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
4305250 TAGGTTCAAA
4305260 TTTGAGGATGATTATTCAAGAATTCTT
1 TTTGAGGATGATTATTCAAGAATTCTT
4305287 TTTGAGGATGATTATTCAAGAATTCTT
1 TTTGAGGATGATTATTCAAGAATTCTT
4305314 TTTGA
1 TTTGA
4305319 AGGGCCTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.46
Consensus pattern (27 bp):
TTTGAGGATGATTATTCAAGAATTCTT
Found at i:4306384 original size:23 final size:21
Alignment explanation
Indices: 4306346--4306392 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
4306336 TCAAGGGATT
4306346 TAAACATCATTCAAAAACA-CC
1 TAAACATCATTC-AAAACATCC
*
4306367 TAAACATGCCATTTAAAACATCC
1 TAAACAT--CATTCAAAACATCC
4306390 TAA
1 TAA
4306393 CTCATCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 6 0.27
23 9 0.41
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACATCATTCAAAACATCC
Found at i:4308762 original size:45 final size:45
Alignment explanation
Indices: 4308698--4308877 Score: 258
Period size: 45 Copynumber: 4.0 Consensus size: 45
4308688 TACTACATAT
* * *
4308698 ACCGGGTACCATTGATTATAAAAGTGGTTGCTATGTGTTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
4308743 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
4308788 ACCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
4308833 ATCGAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
4308876 AC
1 AC
4308878 TGTGTACCTG
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
43 4 0.03
44 14 0.11
45 104 0.85
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:4311566 original size:30 final size:30
Alignment explanation
Indices: 4311530--4311600 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
4311520 GACCCATCCT
*
4311530 TTTTCATAATTCGATAACTGAAG-TTACCCC
1 TTTTCATAATTCGACAACTGAAGCTT-CCCC
* * *
4311560 TTTTCATAGTTCGACAGCTGAAGCTTTCCC
1 TTTTCATAATTCGACAACTGAAGCTTCCCC
4311590 TTTTCATAATT
1 TTTTCATAATT
4311601 TGATGGTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTTCATAATTCGACAACTGAAGCTTCCCC
Found at i:4311620 original size:30 final size:30
Alignment explanation
Indices: 4311586--4311787 Score: 162
Period size: 30 Copynumber: 6.8 Consensus size: 30
4311576 GCTGAAGCTT
* *
4311586 TCCCTTTTCATAATTTGATGGTTGTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
**
4311616 TCCCTTTTCATTGTTCGATGG-CAGTCACCA
1 TCCCTTTTCATAATTCGATGGTC-GTCACCA
** * *
4311646 TCCCTTTTCATAATTTTATAGTCG-AAGCCA
1 TCCCTTTTCATAATTCGATGGTCGTCA-CCA
* * * * * *
4311676 TCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTCGATGGTCGTCA-CCA
* * *
4311706 TCTCTTTTCATAGTTCGATGGTCCTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
**
4311736 TCCCTTTTCATTGTT-GATGGTCGTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
*
4311765 TCCCTTTTCATAA-TCGATAGTCG
1 TCCCTTTTCATAATTCGATGGTCG
4311788 AAGATATTCT
Statistics
Matches: 139, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 32 0.23
30 104 0.75
31 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (30 bp):
TCCCTTTTCATAATTCGATGGTCGTCACCA
Found at i:4311621 original size:60 final size:60
Alignment explanation
Indices: 4311557--4311746 Score: 186
Period size: 60 Copynumber: 3.2 Consensus size: 60
4311547 CTGAAGTTAC
* * ** *
4311557 CCCTTTTCATAGTTCGACAGCTGAAGCTTTCCCTTTTCATAATTTGATGGTTGTCACCAT
1 CCCTTTTCATAGTTCGATAGCAGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACCAT
* * * * * *
4311617 CCCTTTTCATTGTTCGATGGCAGTCA-CCATCCCTTTTCATAATTTTATAGTCG-AAGCCAT
1 CCCTTTTCATAGTTCGATAGCAG-AAGCCATCCCTTTTCATAATTTGATGGTCGTCA-CCAT
* * * * * * *
4311677 CCTTTTTCATAGTTCAATAGCCGAAGCCATCTCTTTTCATAGTTCGATGGTCCTCACCAT
1 CCCTTTTCATAGTTCGATAGCAGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACCAT
4311737 CCCTTTTCAT
1 CCCTTTTCAT
4311747 TGTTGATGGT
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
59 2 0.02
60 97 0.96
61 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (60 bp):
CCCTTTTCATAGTTCGATAGCAGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACCAT
Found at i:4311771 original size:90 final size:88
Alignment explanation
Indices: 4311613--4311776 Score: 199
Period size: 90 Copynumber: 1.8 Consensus size: 88
4311603 ATGGTTGTCA
* * *
4311613 CCATCCCTTTTCATTGTTCGATGGCAGTCACCATCCCTTTTCATAATTTTATAGTCGAAGCCATC
1 CCATCCCTTTTCATAGTTCGATGGCACTCACCATCCCTTTTCAT-ATTTGATAGTCGAAGCCATC
4311678 CTTTTTCATAGTTCAATAGCCGAAG
65 C-TTTTCATAGTTCAATAGCCGAAG
* * *
4311703 CCATCTCTTTTCATAGTTCGATGGTC-CTCACCATCCCTTTTCAT-TGTTGATGGTCGTCA-CCA
1 CCATCCCTTTTCATAGTTCGATGG-CACTCACCATCCCTTTTCATAT-TTGATAGTCG-AAGCCA
4311765 TCCCTTTTCATA
63 T-CCTTTTCATA
4311777 ATCGATAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
88 1 0.02
89 20 0.31
90 42 0.66
91 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (88 bp):
CCATCCCTTTTCATAGTTCGATGGCACTCACCATCCCTTTTCATATTTGATAGTCGAAGCCATCC
TTTTCATAGTTCAATAGCCGAAG
Found at i:4318678 original size:20 final size:18
Alignment explanation
Indices: 4318645--4318681 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4318635 TGTGATGTTG
4318645 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
4318663 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
4318682 CATGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:4324072 original size:21 final size:21
Alignment explanation
Indices: 4324042--4324084 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4324032 ATGAACCATT
*
4324042 CCATTCCATTTCCTTTACTTA
1 CCATTCCATTTCATTTACTTA
* *
4324063 CCATTTCATTTCATTTATTTA
1 CCATTCCATTTCATTTACTTA
4324084 C
1 C
4324085 TTGTTAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (21 bp):
CCATTCCATTTCATTTACTTA
Found at i:4324072 original size:26 final size:25
Alignment explanation
Indices: 4324036--4324086 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
4324026 AAGATCATGA
*
4324036 ACCATTCCATTCCATTTCCTTTACTT
1 ACCATTCCATTCCATTT-ATTTACTT
* *
4324062 ACCATTTCATTTCATTTATTTACTT
1 ACCATTCCATTCCATTTATTTACTT
4324087 GTTAAACCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (25 bp):
ACCATTCCATTCCATTTATTTACTT
Found at i:4329227 original size:3 final size:3
Alignment explanation
Indices: 4329219--4329282 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
4329209 CTGATTTTAT
4329219 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4329267 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
4329283 AAGTTCTGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4331221 original size:23 final size:23
Alignment explanation
Indices: 4331194--4331238 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4331184 ATCACCTACC
* * *
4331194 CTCAGCATATGTTCACCATTACT
1 CTCAGCACAAGTTAACCATTACT
4331217 CTCAGCACAAGTTAACCATTAC
1 CTCAGCACAAGTTAACCATTAC
4331239 CCAAAGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (23 bp):
CTCAGCACAAGTTAACCATTACT
Found at i:4341466 original size:20 final size:20
Alignment explanation
Indices: 4341429--4341467 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4341419 TAAAAAAACA
* **
4341429 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
4341449 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
4341468 GTGTGTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:4346715 original size:16 final size:17
Alignment explanation
Indices: 4346675--4346717 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
4346665 TTCTTGATAT
4346675 AGTTGTTCTCAATGAAG
1 AGTTGTTCTCAATGAAG
4346692 ATGTTGTTC-CAACT-AAG
1 A-GTTGTTCTCAA-TGAAG
4346709 AGTTGTTCT
1 AGTTGTTCT
4346718 GTGGTGCCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (17 bp):
AGTTGTTCTCAATGAAG
Found at i:4346796 original size:16 final size:16
Alignment explanation
Indices: 4346775--4346816 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4346765 CGAAAAAAAA
4346775 TTGTTCTAAAT-ACAAG
1 TTGTTCTAAATAAC-AG
* *
4346791 TTGTTCCAAATAACGG
1 TTGTTCTAAATAACAG
4346807 TTGTTCTAAA
1 TTGTTCTAAA
4346817 CATAGCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (16 bp):
TTGTTCTAAATAACAG
Found at i:4348790 original size:21 final size:21
Alignment explanation
Indices: 4348765--4348820 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4348755 AACAACAGTG
*
4348765 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
4348786 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
4348807 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
4348821 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:4350797 original size:97 final size:97
Alignment explanation
Indices: 4350687--4350877 Score: 328
Period size: 97 Copynumber: 2.0 Consensus size: 97
4350677 TAAGTTATAA
*
4350687 AGTGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATAC
1 AGTGTAGCTAAAATATGAACAAGAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATAC
* *
4350752 TCGTACAAAAGGGATTAGAAGTATGAATTTGT
66 TCGTACAAAAGAGAGTAGAAGTATGAATTTGT
* *
4350784 AGTGTAGCTAAAATATGAACCAGAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCTTAC
1 AGTGTAGCTAAAATATGAACAAGAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATAC
*
4350849 TCGTACAAAATAGAGTAGAAGTATGAATT
66 TCGTACAAAAGAGAGTAGAAGTATGAATT
4350878 CCTTTTATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (97 bp):
AGTGTAGCTAAAATATGAACAAGAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATAC
TCGTACAAAAGAGAGTAGAAGTATGAATTTGT
Found at i:4352581 original size:26 final size:26
Alignment explanation
Indices: 4352522--4352581 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
4352512 TTTTCTTTTC
* *
4352522 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGATTAGAT
*
4352548 TTTCTCTTTTC-TTTTTAGATTAGAT
1 TTTTTCTTTTCATTTTTAGATTAGAT
4352573 TTTATTCTT
1 TTT-TTCTT
4352582 GTAGTGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.68
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGATTAGAT
Found at i:4357415 original size:20 final size:20
Alignment explanation
Indices: 4357390--4357430 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4357380 CATTATATAT
4357390 AGTTCAATTCACATTCTTTC
1 AGTTCAATTCACATTCTTTC
4357410 AGTTCAATTCACATTCTTTC
1 AGTTCAATTCACATTCTTTC
4357430 A
1 A
4357431 TTCTCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (20 bp):
AGTTCAATTCACATTCTTTC
Found at i:4360892 original size:6 final size:6
Alignment explanation
Indices: 4360881--4360914 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4360871 GTGGGCATTT
4360881 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTT
4360915 CCTCCTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:4365053 original size:15 final size:15
Alignment explanation
Indices: 4365029--4365084 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
4365019 TAAAGTCCTG
*
4365029 TTCTGAACATGGTTA
1 TTCTGAACATAGTTA
*
4365044 TTCTGGACATAGTTA
1 TTCTGAACATAGTTA
*
4365059 TTCTCGAACAACAGTTA
1 TTCT-GAAC-ATAGTTA
*
4365076 TTCTAAACA
1 TTCTGAACA
4365085 AGAATTGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 18 0.53
16 6 0.18
17 10 0.29
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (15 bp):
TTCTGAACATAGTTA
Found at i:4367308 original size:20 final size:21
Alignment explanation
Indices: 4367285--4367329 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
4367275 AAAATAAAAC
*
4367285 AAAATTCTAAAAAATTTTA-A
1 AAAATTCTAAAAAATTATAGA
*
4367305 AAAA-TCTTAAAAATTATAGA
1 AAAATTCTAAAAAATTATAGA
4367325 AAAAT
1 AAAAT
4367330 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTCTAAAAAATTATAGA
Found at i:4367350 original size:23 final size:24
Alignment explanation
Indices: 4367311--4367355 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
4367301 TTAAAAAATC
*
4367311 TTAAAAATTATAGAAAA-ATATTT
1 TTAAAAAGTATAGAAAATATATTT
4367334 TTAAAAAGTATTA-AAAATATAT
1 TTAAAAAGTA-TAGAAAATATAT
4367356 ATATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
TTAAAAAGTATAGAAAATATATTT
Found at i:4367768 original size:43 final size:44
Alignment explanation
Indices: 4367693--4367777 Score: 145
Period size: 43 Copynumber: 1.9 Consensus size: 44
4367683 TCGAAAAAAA
4367693 TTCAAATTTCGAGTTAAACGAATCGAGTTGAGTTTTCGAATTTTTT
1 TTCAAATTTCGAGTT--ACGAATCGAGTTGAGTTTTCGAATTTTTT
4367739 TTCAAATTTCGAGTT-CGAATCGAGTTGAGTTTTCGAATT
1 TTCAAATTTCGAGTTACGAATCGAGTTGAGTTTTCGAATT
4367778 CGAATAACTC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
43 24 0.62
46 15 0.38
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (44 bp):
TTCAAATTTCGAGTTACGAATCGAGTTGAGTTTTCGAATTTTTT
Found at i:4367791 original size:9 final size:9
Alignment explanation
Indices: 4367777--4367810 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
4367767 GTTTTCGAAT
4367777 TCGAATAAC
1 TCGAATAAC
4367786 TCGAATAAC
1 TCGAATAAC
*
4367795 TCGAATAAT
1 TCGAATAAC
4367804 TCGAATA
1 TCGAATA
4367811 TTAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:4367921 original size:5 final size:5
Alignment explanation
Indices: 4367911--4367935 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4367901 AAAACTTTTA
4367911 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
4367936 AACCCCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:4369347 original size:33 final size:32
Alignment explanation
Indices: 4369310--4369373 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4369300 TAATTAAAAC
* *
4369310 TTTTAATTGATTT-GTTTTTTGCTTCAATCAAG
1 TTTTTATTGATTTAG-TTTTGGCTTCAATCAAG
*
4369342 TTTTTATTTATTTAGTTTTGGCTTCAATCAAG
1 TTTTTATTGATTTAGTTTTGGCTTCAATCAAG
4369374 CATGAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.56
Consensus pattern (32 bp):
TTTTTATTGATTTAGTTTTGGCTTCAATCAAG
Found at i:4372727 original size:10 final size:10
Alignment explanation
Indices: 4372712--4372736 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4372702 AGTTTTTAAT
4372712 TTTTAAAATA
1 TTTTAAAATA
4372722 TTTTAAAATA
1 TTTTAAAATA
4372732 TTTTA
1 TTTTA
4372737 TTTTGCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:4374363 original size:33 final size:33
Alignment explanation
Indices: 4374321--4374389 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
4374311 TATTAAAAAG
4374321 AAAGAATTTTTGTTTTCACCCCAAAAGGAGAGA
1 AAAGAATTTTTGTTTTCACCCCAAAAGGAGAGA
* *
4374354 AAAGGATTTTTGTTTTTACCCCAAAAGGAGAGA
1 AAAGAATTTTTGTTTTCACCCCAAAAGGAGAGA
4374387 AAA
1 AAA
4374390 CTTTTTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (33 bp):
AAAGAATTTTTGTTTTCACCCCAAAAGGAGAGA
Found at i:4378527 original size:6 final size:6
Alignment explanation
Indices: 4378516--4378566 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
4378506 TACTAATAAA
* * * *
4378516 AAACCT AAACCT AACCCT AACCCT AACCCT -AACCTT AAACTT AAACCT
1 AAACCT AAACCT AAACCT AAACCT AAACCT AAACC-T AAACCT AAACCT
4378564 AAA
1 AAA
4378567 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 33 0.85
7 3 0.08
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (6 bp):
AAACCT
Found at i:4378540 original size:18 final size:18
Alignment explanation
Indices: 4378516--4378565 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
4378506 TACTAATAAA
4378516 AAACCTAAACCTAACCCT
1 AAACCTAAACCTAACCCT
* * *
4378534 AACCCTAACCCTAACCTT
1 AAACCTAAACCTAACCCT
*
4378552 AAACTTAAACCTAA
1 AAACCTAAACCTAA
4378566 AAAAAAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (18 bp):
AAACCTAAACCTAACCCT
Found at i:4380876 original size:18 final size:19
Alignment explanation
Indices: 4380837--4380906 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
4380827 TTTACTTTTT
4380837 TTTTA-CTTTTT-TATTAAC
1 TTTTATCTTTTTCT-TTAAC
4380855 TTTTATCTTTTTCTTTAA-
1 TTTTATCTTTTTCTTTAAC
* * *
4380873 TTTT-TTTTGTTTTTTTAAG
1 TTTTATCTT-TTTCTTTAAC
*
4380892 TTTTATATTTTTCTT
1 TTTTATCTTTTTCTT
4380907 ATTTGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.07
18 17 0.40
19 19 0.44
20 4 0.09
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTATCTTTTTCTTTAAC
Found at i:4380970 original size:23 final size:22
Alignment explanation
Indices: 4380944--4381015 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
4380934 ATTGTTATTA
*
4380944 ATTTTAAAAATTTTGAAATGTAT
1 ATTTTAAAAATTTT-AAATATAT
* **
4380967 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAAAATTTTA-AATATAT
*
4380990 ATTTTTAAAATTTTAAATAT-T
1 ATTTTAAAAATTTTAAATATAT
4381011 ATTTT
1 ATTTT
4381016 TAAATTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
23 28 0.70
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:4381026 original size:23 final size:23
Alignment explanation
Indices: 4380977--4381019 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
4380967 ATTTGAAATG
4380977 TTTTATAATATATATTTTTAAAA
1 TTTTATAATATATATTTTTAAAA
4381000 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATATATTTTTAAA
4381020 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTATAATATATATTTTTAAAA
Found at i:4381045 original size:21 final size:20
Alignment explanation
Indices: 4381011--4381054 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
4381001 TTTAAATATT
*
4381011 ATTTTTAAATTATTTTTAAA
1 ATTTTAAAATTATTTTTAAA
*
4381031 ATTTTAAATATTATTTTTTAA
1 ATTTTAAA-ATTATTTTTAAA
4381052 ATT
1 ATT
4381055 ATGTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAAAATTATTTTTAAA
Found at i:4381135 original size:14 final size:14
Alignment explanation
Indices: 4381116--4381144 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4381106 TTTTAATTTT
4381116 AAATATATTTTTAA
1 AAATATATTTTTAA
4381130 AAATATATTTTTAA
1 AAATATATTTTTAA
4381144 A
1 A
4381145 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATATTTTTAA
Found at i:4381218 original size:34 final size:33
Alignment explanation
Indices: 4380989--4381228 Score: 134
Period size: 33 Copynumber: 6.8 Consensus size: 33
4380979 TTATAATATA
*
4380989 TATTTTTA-AAATTTTAAATAT-TATTTTTAAAT
1 TATTTTTATAAATTTTAAATATATA-TTTAAAAT
* *
4381021 TATTTTTA-AAATTTTAAATATTATTTTTTAAAT
1 TATTTTTATAAATTTTAAATA-TATATTTAAAAT
*
4381054 TATGTCTTATTATAAATTTTAAAAATATATATTTGAAAT
1 TA--T-TT-TTATAAATTTT--AAATATATATTTAAAAT
* *
4381093 TAATTTTTCTAAATTTTAATTTTAAATATATTTTTAAAAAT
1 T-A-TTTT-T--A--TAAATTTTAAATATATATTT-AAAAT
*** *
4381134 ATATTTTTA-AACAAAATAAA-ATA-ATTTCAAAAA
1 -TATTTTTATAA-ATTTTAAATATATATTT-AAAAT
*
4381167 TATATTTT-TAAATTTTAAATATATATTTGAAAT
1 TAT-TTTTATAAATTTTAAATATATATTTAAAAT
*
4381200 TATTTCTTATAAATTTTAAAAATATATTT
1 TATTT-TTATAAATTTTAAATATATATTT
4381229 TTTAATTTTA
Statistics
Matches: 164, Mismatches: 20, Indels: 46
0.71 0.09 0.20
Matches are distributed among these distances:
32 30 0.18
33 35 0.21
34 28 0.17
35 6 0.04
36 2 0.01
37 5 0.03
38 10 0.06
39 13 0.08
40 22 0.13
41 5 0.03
42 8 0.05
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (33 bp):
TATTTTTATAAATTTTAAATATATATTTAAAAT
Found at i:4381235 original size:21 final size:21
Alignment explanation
Indices: 4381209--4381271 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4381199 TTATTTCTTA
4381209 TAAATTTTAAAAATATATTTT
1 TAAATTTTAAAAATATATTTT
* * *
4381230 TTAATTTTAAATAT-TAATTT
1 TAAATTTTAAAAATATATTTT
*
4381250 TAAATATT--AAATATATTTT
1 TAAATTTTAAAAATATATTTT
4381269 TAA
1 TAA
4381272 TAATATTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 11 0.32
21 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTTTAAAAATATATTTT
Found at i:4381246 original size:13 final size:13
Alignment explanation
Indices: 4381230--4381259 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4381220 AATATATTTT
4381230 TTAATTTTAAATA
1 TTAATTTTAAATA
4381243 TTAATTTTAAATA
1 TTAATTTTAAATA
4381256 TTAA
1 TTAA
4381260 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:4381366 original size:13 final size:11
Alignment explanation
Indices: 4381334--4381372 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 11
4381324 AAAAAGGTTT
4381334 AAATATATTTAA
1 AAATA-ATTTAA
4381346 AAATAATTTAA
1 AAATAATTTAA
4381357 AATCATAATTTAA
1 AA--ATAATTTAA
4381370 AAA
1 AAA
4381373 ATTCTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.36
12 5 0.20
13 11 0.44
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATAATTTAA
Found at i:4381584 original size:40 final size:41
Alignment explanation
Indices: 4381529--4381613 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
4381519 TAAAATATAT
4381529 ATTAAGTACATAAATTTATAAATGTGTACTAAAATAAAAAA
1 ATTAAGTACATAAATTTATAAATGTGTACTAAAATAAAAAA
* *
4381570 ATTAA-TATATAAATTTATAAATGTGTACTAAAATTAAAAA
1 ATTAAGTACATAAATTTATAAATGTGTACTAAAATAAAAAA
4381610 ATTA
1 ATTA
4381614 TAACCAACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (41 bp):
ATTAAGTACATAAATTTATAAATGTGTACTAAAATAAAAAA
Found at i:4381603 original size:20 final size:20
Alignment explanation
Indices: 4381540--4381604 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
4381530 TTAAGTACAT
4381540 AAATTTATAAATGTGTACTA
1 AAATTTATAAATGTGTACTA
** * *
4381560 AAATAAAAAAAT-TAATA-TA
1 AAATTTATAAATGT-GTACTA
4381579 TAAATTTATAAATGTGTACTA
1 -AAATTTATAAATGTGTACTA
4381600 AAATT
1 AAATT
4381605 AAAAAATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATTTATAAATGTGTACTA
Found at i:4381611 original size:20 final size:20
Alignment explanation
Indices: 4381548--4381611 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
4381538 ATAAATTTAT
*
4381548 AAATGTGTACTAAAATAAAA
1 AAATGTGTACTAAAATTAAA
* * *
4381568 AAAT-TAATA-TATAAATTTAT
1 AAATGT-GTACTA-AAATTAAA
4381588 AAATGTGTACTAAAATTAAA
1 AAATGTGTACTAAAATTAAA
4381608 AAAT
1 AAAT
4381612 TATAACCAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATGTGTACTAAAATTAAA
Found at i:4382067 original size:20 final size:20
Alignment explanation
Indices: 4382044--4382098 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
4382034 TGTGATCTTA
4382044 TAATATATATTTTTAAC-TTT
1 TAATATATATTTTT-ACTTTT
* *
4382064 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTACTTTT
4382084 TAATATATATATTTT
1 TAATATATAT-TTTT
4382099 TAAATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 23 0.79
21 4 0.14
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATATATTTTTACTTTT
Found at i:4382135 original size:19 final size:20
Alignment explanation
Indices: 4382100--4382143 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
4382090 ATATATTTTT
*
4382100 AAATAAATTTATTTTTTAAC
1 AAATAAATCTATTTTTTAAC
4382120 AAATAAATCT-TTTTTTAAC
1 AAATAAATCTATTTTTTAAC
4382139 AAATA
1 AAATA
4382144 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAATCTATTTTTTAAC
Done.