Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 26 of 125
Found at i:4963534 original size:5 final size:5
Alignment explanation
Indices: 4963521--4963630 Score: 84
Period size: 5 Copynumber: 21.6 Consensus size: 5
4963511 AGATTTATTT
* *
4963521 TAAAA -AAAA TAAAA T--AA TAAAA CAAAA TAATAG TGAAAA TAAAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA T-AAAA TAAAA TAAAA
* * *
4963569 TAAAA TAAAG TAAAA TAAAAA TAAAAA TAAAA TAAAGA TAAAA GAATA
1 TAAAA TAAAA TAAAA T-AAAA T-AAAA TAAAA TAAA-A TAAAA TAAAA
*
4963617 TTAAA TAAACA TAA
1 TAAAA TAAA-A TAA
4963631 TCTAATAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
3 3 0.04
4 8 0.10
5 47 0.56
6 24 0.29
7 2 0.02
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:4963573 original size:6 final size:6
Alignment explanation
Indices: 4963525--4963611 Score: 51
Period size: 6 Copynumber: 14.7 Consensus size: 6
4963515 TTATTTTAAA
* * *
4963525 AAAAAT -AAAAT AATAAA- ACAAAAT AATAGT GAAAAT AAAAA- AAATAA-
1 AAAAAT AAAAAT AA-AAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAA-AAT
*
4963572 AATAAAGT -AAAAT AAAAAT AAAAAT -AAAAT AAAGAT AAAA
1 AA-AAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
4963612 GAATATTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
5 14 0.22
6 42 0.67
7 7 0.11
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:4963576 original size:36 final size:36
Alignment explanation
Indices: 4963521--4963647 Score: 92
Period size: 36 Copynumber: 3.3 Consensus size: 36
4963511 AGATTTATTT
* * *
4963521 TAAAAAAAATAAAATAATAAAACAAAATAATAGTGAAAA
1 TAAAAAAAAT--AA-AATAAAACAAAATAAAAATAAAAA
**
4963560 TAAAAAAAATAAAATAAAGTAAAATAAAAATAAAAA
1 TAAAAAAAATAAAATAAAACAAAATAAAAATAAAAA
* * ** * *
4963596 TAAAATAAAGATAAAAGAATATTAAATAAACATAATCTAA
1 TAAAA-AAA-ATAAAATAAAACAAAATAAAAATAA--AAA
4963636 TAAAAAAAATAA
1 TAAAAAAAATAA
4963648 TAATTAATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
36 24 0.33
37 5 0.07
38 24 0.33
39 13 0.18
40 7 0.10
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (36 bp):
TAAAAAAAATAAAATAAAACAAAATAAAAATAAAAA
Found at i:4964488 original size:9 final size:9
Alignment explanation
Indices: 4964474--4964529 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
4964464 ATTTCAGTCG
4964474 AATAAATAA
1 AATAAATAA
*
4964483 AATAAATCA
1 AATAAATAA
*
4964492 AATAAATCA
1 AATAAATAA
*
4964501 AATAAATCA
1 AATAAATAA
*
4964510 GATAAATTAA
1 AATAAA-TAA
4964520 AATTAAATAA
1 AA-TAAATAA
4964530 CAGATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
9 31 0.76
10 6 0.15
11 4 0.10
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAATAA
Found at i:4964497 original size:18 final size:18
Alignment explanation
Indices: 4964474--4964527 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
4964464 ATTTCAGTCG
4964474 AATAAATAAAATAAATCA
1 AATAAATAAAATAAATCA
*
4964492 AATAAATCAAATAAATCA
1 AATAAATAAAATAAATCA
*
4964510 GATAAATTAAAATTAAAT
1 AATAAA-TAAAA-TAAAT
4964528 AACAGATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 22 0.71
19 4 0.13
20 5 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAAATAAAATAAATCA
Found at i:4964516 original size:22 final size:21
Alignment explanation
Indices: 4964491--4964538 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4964481 AAAATAAATC
4964491 AAAT-AAATCAAATAAATCAGAT
1 AAATAAAATCAAAT-AA-CAGAT
*
4964513 AAATTAAAATTAAATAACAGAT
1 AAA-TAAAATCAAATAACAGAT
4964535 AAAT
1 AAAT
4964539 TATAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 3 0.13
24 8 0.35
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (21 bp):
AAATAAAATCAAATAACAGAT
Found at i:4964616 original size:29 final size:25
Alignment explanation
Indices: 4964584--4964646 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 25
4964574 CAGAAAAAGA
*
4964584 AAATAATAATAATAAGGATATATATTAAT
1 AAATAATAATAATAA--ATA-A-ATAAAT
*
4964613 AAATAGTAATAATAAATAAATAAAT
1 AAATAATAATAATAAATAAATAAAT
4964638 AAATAATAA
1 AAATAATAA
4964647 ATACCTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 13 0.42
26 1 0.03
27 3 0.10
29 14 0.45
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (25 bp):
AAATAATAATAATAAATAAATAAAT
Found at i:4964705 original size:6 final size:6
Alignment explanation
Indices: 4964656--4964740 Score: 55
Period size: 6 Copynumber: 13.2 Consensus size: 6
4964646 AATACCTAAG
* * *
4964656 ATAAAA ATAAAAGA AAAAAA ATAATA ATAATA ATAAAA AT-AAA ATAAAA
1 ATAAAA AT-AAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
4964705 ATGTAAAA TGTAAAA TACAAAAA ATAAAA ATAAAA A
1 A--TAAAA -ATAAAA -A-TAAAA ATAAAA ATAAAA A
4964741 AAAGAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
5 5 0.08
6 35 0.55
7 13 0.20
8 11 0.17
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:4964732 original size:14 final size:14
Alignment explanation
Indices: 4964658--4964750 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
4964648 TACCTAAGAT
*
4964658 AAAAATAAAAGAAA
1 AAAAATAAAATAAA
4964672 AAAAATAATAATAATAA
1 AAAAATAA-AAT-A-AA
4964689 TAAAAATAAAATAAAA
1 -AAAAATAAAAT-AAA
*
4964705 ATGTAAAATGTAAAATACA
1 A---AAAA--TAAAATAAA
4964724 AAAAATAAAAATAAA
1 AAAAAT-AAAATAAA
*
4964739 AAAAAGAAAATA
1 AAAAATAAAATA
4964751 GACTTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 15 0.23
15 15 0.23
16 7 0.11
17 7 0.11
18 12 0.18
19 3 0.05
20 6 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:4964909 original size:10 final size:10
Alignment explanation
Indices: 4964896--4964920 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4964886 ACATTTTCAT
4964896 TTTTTTTTTA
1 TTTTTTTTTA
4964906 TTTTTTTTTA
1 TTTTTTTTTA
4964916 TTTTT
1 TTTTT
4964921 GACCAAAGCT
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:4964993 original size:43 final size:41
Alignment explanation
Indices: 4964928--4965012 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 41
4964918 TTTGACCAAA
4964928 GCTCCTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAGTAGAGGCTCAACGACTTTGA-AAA-ATAAATG
*
4964971 GCTCCTCTAA-TCAGAGGTTCAACGACTTTGAAAAATAAATG
1 GCTCCTCTAAGT-AGAGGCTCAACGACTTTGAAAAATAAATG
4965012 G
1 G
4965013 TGACTTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 8 0.20
42 4 0.10
43 28 0.70
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAGTAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:4965048 original size:61 final size:64
Alignment explanation
Indices: 4964951--4965072 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 64
4964941 GAGGCTCAAC
*
4964951 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGTTCAACGACTTTG-AAAAATAAATGGT
1 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGT
*
4965014 GACTTTGA-AAA-ATAAATTGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
1 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
4965073 TGCTCCTCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 35 0.62
62 13 0.23
63 8 0.14
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (64 bp):
GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGT
Found at i:4965074 original size:42 final size:41
Alignment explanation
Indices: 4965014--4965120 Score: 160
Period size: 42 Copynumber: 2.6 Consensus size: 41
4965004 AATAAATGGT
* *
4965014 GACTTTGAAAAATAAATTGCTCCTCTAATCAGAGGCTCAAC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACAAC
*
4965055 GACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACAAC
* *
4965097 GACTTTGGAAAGTAAATTGCTCCT
1 GACTTTGAAAAATAAATTGCTCCT
4965121 TGACAATCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 22 0.37
42 38 0.63
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (41 bp):
GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACAAC
Found at i:4966151 original size:16 final size:17
Alignment explanation
Indices: 4966132--4966171 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4966122 TTCATTCACT
4966132 TTTTTTTCA-TTTTTCA
1 TTTTTTTCATTTTTTCA
4966148 TTTTTTTCATTTTTTCA
1 TTTTTTTCATTTTTTCA
4966165 TTTTTTT
1 TTTTTTT
4966172 TCAAGCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:4966152 original size:8 final size:8
Alignment explanation
Indices: 4966133--4966170 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
4966123 TCATTCACTT
4966133 TTTTTTCA
1 TTTTTTCA
4966141 -TTTTTCA
1 TTTTTTCA
4966148 TTTTTTTCA
1 -TTTTTTCA
4966157 TTTTTTCA
1 TTTTTTCA
4966165 TTTTTT
1 TTTTTT
4966171 TTCAAGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4966153 original size:9 final size:9
Alignment explanation
Indices: 4966132--4966171 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
4966122 TTCATTCACT
4966132 TTTTTTTCA
1 TTTTTTTCA
4966141 --TTTTTCA
1 TTTTTTTCA
4966148 TTTTTTTCA
1 TTTTTTTCA
4966157 -TTTTTTCA
1 TTTTTTTCA
4966165 TTTTTTT
1 TTTTTTT
4966172 TCAAGCATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 7 0.25
8 8 0.29
9 13 0.46
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:4966153 original size:17 final size:18
Alignment explanation
Indices: 4966126--4966174 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
4966116 TCCTTTTTCA
4966126 TTCACTTTTTTTTCA-TTT
1 TTCA-TTTTTTTTCATTTT
4966144 TTCA-TTTTTTTCATTTT
1 TTCATTTTTTTTCATTTT
4966161 TTCATTTTTTTTCA
1 TTCATTTTTTTTCA
4966175 AGCATAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.31
17 7 0.24
18 13 0.45
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCATTTTTTTTCATTTT
Found at i:4975205 original size:535 final size:535
Alignment explanation
Indices: 4974196--4975241 Score: 1939
Period size: 535 Copynumber: 2.0 Consensus size: 535
4974186 TGAGAGATTT
* *
4974196 CATAAGTGAATACCATTTCTTGTCTTCTTTTTATTCTCCAAACCAAGTACCATGGGGTGACTTTA
1 CATAAGTGAATACCATTTCTTATCTTCTTTTTATTCTCCAAACCAAGTACCATGAGGTGACTTTA
* *
4974261 TCAGTAAATGGCCCATGACTCACTTTTCAAGGATTTTTCCATGCTTTAATCATCTCATTCATCCT
66 TCAATAAATGACCCATGACTCACTTTTCAAGGATTTTTCCATGCTTTAATCATCTCATTCATCCT
* * *
4974326 TTGAAATGCTTTAGGCTCATTGTAAGAGAAATCTAACTGATTAAGCCTATAAGTCATAGGAATGA
131 TTGAAATGCTTTAGGCTCACTGTAAAAGAAATCTAACTAATTAAGCCTATAAGTCATAGGAATGA
*
4974391 ACTGTTCTCCCTCAAATTGCCTTATCACTAGGAGTGGTGCATAATTCGTCACTCTCCATAAACCC
196 ACTGTTCTCCCTCAAATTACCTTATCACTAGGAGTGGTGCATAATTCGTCACTCTCCATAAACCC
4974456 AGAAGTGGGACCATTGTACTATCCTCACATTGATACAACATAGGCTCACGATTCATCTATGAGGC
261 AGAAGTGGGACCATTGTACTATCCTCACATTGATACAACATAGGCTCACGATTCATCTATGAGGC
**
4974521 CAACCATCTCACCCTGGTGCTTTTCAACTTTTGTAGAAAAGTTATCCATTCTTGTTTAGACTTTC
326 CAACCATCTCACCCTGACGCTTTTCAACTTTTGTAGAAAAGTTATCCATTCTTGTTTAGACTTTC
4974586 GTTTTGACCACCCACTTTCACAGAATTCCTTAATCGGAGCTTGATTACTGATATAAAGCTTCAAG
391 GTTTTGACCACCCACTTTCACAGAATTCCTTAATCGGAGCTTGATTACTGATATAAAGCTTCAAG
4974651 AAAGCACCACTTCTCTGTTCAAAATGGCTTTTCATCCATAAGTACAATAACTGTATCTCTGTTCA
456 AAAGCACCACTTCTCTGTTCAAAATGGCTTTTCATCCATAAGTACAATAACTGTATCTCTGTTCA
4974716 AAATGGCTTTTCATC
521 AAATGGCTTTTCATC
*
4974731 CATAAGTGAATACCATTTCTTATCTTCTTTTTATTCTCCAAACCAAGTACCCTGAGGTGACTTTA
1 CATAAGTGAATACCATTTCTTATCTTCTTTTTATTCTCCAAACCAAGTACCATGAGGTGACTTTA
* *
4974796 TTAATAAATGACCCATGACTCACTTTTCAAGGATTTTTCCATGTTTTAATCATCTCATTCATCCT
66 TCAATAAATGACCCATGACTCACTTTTCAAGGATTTTTCCATGCTTTAATCATCTCATTCATCCT
4974861 TTGAAATGCTTTAGGCTCACTGTAAAAGAAATCTAACTAATTAAGCCTATAAGTCATAGGAATGA
131 TTGAAATGCTTTAGGCTCACTGTAAAAGAAATCTAACTAATTAAGCCTATAAGTCATAGGAATGA
4974926 ACTGTTCTCCCTCAAATTACCTTATCACTAGGAGTGGTGCATAATTCGTCACTCTCCATAAACCC
196 ACTGTTCTCCCTCAAATTACCTTATCACTAGGAGTGGTGCATAATTCGTCACTCTCCATAAACCC
4974991 AGAAGTGGGACCATTGTACTATCCTCACATTGATACAACATAGGCTCACGATTCATCTATGAGGC
261 AGAAGTGGGACCATTGTACTATCCTCACATTGATACAACATAGGCTCACGATTCATCTATGAGGC
* *
4975056 CAACCATCTCACCTTGACGCTTTTCAACTTTTGTAGGAAAGTTATCCATTCTTGTTTAGACTTTC
326 CAACCATCTCACCCTGACGCTTTTCAACTTTTGTAGAAAAGTTATCCATTCTTGTTTAGACTTTC
*
4975121 GTTTTGACCACCCACTTTCACAGAATTCCTTAATCGGAGCTTGATTACTGATATAAAGCTTCGAG
391 GTTTTGACCACCCACTTTCACAGAATTCCTTAATCGGAGCTTGATTACTGATATAAAGCTTCAAG
*
4975186 AAAGCACCACTTCTCTGTTCAAAATGGCTTTTCATCCATAAGTACAATAATTGTAT
456 AAAGCACCACTTCTCTGTTCAAAATGGCTTTTCATCCATAAGTACAATAACTGTAT
4975242 GTAACCTATG
Statistics
Matches: 494, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
535 494 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (535 bp):
CATAAGTGAATACCATTTCTTATCTTCTTTTTATTCTCCAAACCAAGTACCATGAGGTGACTTTA
TCAATAAATGACCCATGACTCACTTTTCAAGGATTTTTCCATGCTTTAATCATCTCATTCATCCT
TTGAAATGCTTTAGGCTCACTGTAAAAGAAATCTAACTAATTAAGCCTATAAGTCATAGGAATGA
ACTGTTCTCCCTCAAATTACCTTATCACTAGGAGTGGTGCATAATTCGTCACTCTCCATAAACCC
AGAAGTGGGACCATTGTACTATCCTCACATTGATACAACATAGGCTCACGATTCATCTATGAGGC
CAACCATCTCACCCTGACGCTTTTCAACTTTTGTAGAAAAGTTATCCATTCTTGTTTAGACTTTC
GTTTTGACCACCCACTTTCACAGAATTCCTTAATCGGAGCTTGATTACTGATATAAAGCTTCAAG
AAAGCACCACTTCTCTGTTCAAAATGGCTTTTCATCCATAAGTACAATAACTGTATCTCTGTTCA
AAATGGCTTTTCATC
Found at i:4977073 original size:60 final size:59
Alignment explanation
Indices: 4976782--4977243 Score: 372
Period size: 60 Copynumber: 7.7 Consensus size: 59
4976772 GTTTTTTGCA
* * ** * *
4976782 GAAAAATGATTAC-TTCAACTTTTCC-AAAATATTTTTTTTTTGTGGAAAGCTTATTTTCAAG
1 GAAAATTGA-TACTTTCAACTTTTCCTCAAA-ATTTTTTTTTT-T-GAAAATTTAATTTCGAG
* *
4976843 GAAAA-TGATACTTTTCCAACCTTTTCCCTAAAATATTTTTGTTTTTTCAAAATTTAATTTCGA-
1 GAAAATTGATAC-TTT-CAA-CTTTT-CCTCAAA-ATTTTT-TTTTTTGAAAATTTAATTTCGAG
* * * * * **
4976906 GAAAAATGATACTTTTCAACTTTTCCTCAAAA---ATCTCTTTGAAAAGTTTATTTTTAAG
1 GAAAATTGATAC-TTTCAACTTTTCCTCAAAATTTTTTTTTTTGAAAA-TTTAATTTCGAG
* * **
4976964 GAAAATTGATTACTTTTCAACTTTTCCCCAAAAATTAATTTTTTG-AAATTTAATTTCGAG
1 GAAAATTGA-TAC-TTTCAACTTTTCCTCAAAATTTTTTTTTTTGAAAATTTAATTTCGAG
* **
4977024 GAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAT-TTTTTTTTTTGAAAATTTAATTTCGAG
* * * * * *
4977084 AAAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTGGAAACTTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTTGAAA-ATTTAATTTCGAG
* *
4977143 GAAAATTGATACTTTCAACTTTT-CTCCAAAA-ATATTTTTTTGAAAAATTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAATTTTTTTTTTTG-AAAA-TTTAATTTCGAG
* *
4977203 GAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAATTTTTTTTTT
4977244 GGAGATTTAT
Statistics
Matches: 336, Mismatches: 44, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
56 8 0.02
57 9 0.03
58 38 0.11
59 83 0.25
60 109 0.32
61 22 0.07
62 14 0.04
63 13 0.04
64 23 0.07
65 12 0.04
66 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTTGAAAATTTAATTTCGAG
Found at i:4977149 original size:119 final size:115
Alignment explanation
Indices: 4976782--4977242 Score: 447
Period size: 119 Copynumber: 3.9 Consensus size: 115
4976772 GTTTTTTGCA
* * * * * *
4976782 GAAAAATGATTAC-TTCAACTTTTCC-AAAATATTTTTTTTTTGTGGAAAGCTTATTTTCAAGGA
1 GAAAATTGA-TACTTTCAACTTTTCCTCAAA-A-TCTTTTTTT-TGAAAAGTTTATTTTTAAGGA
* * *
4976845 AAA-TGATACTTTTCCAACCTTTTCCCTAAAATATTTTTGTTTTTTCAAAATTTAATTTCGA-
62 AAATTGATAC-TTT-CAA-CTTTTCCCCAAAA-A----TATTTTTT-GAAATTTAATTTCGAG
* *
4976906 GAAAAATGATACTTTTCAACTTTTCCTCAAAAATC---TCTTTGAAAAGTTTATTTTTAAGGAAA
1 GAAAATTGATAC-TTTCAACTTTTCCTC-AAAATCTTTTTTTTGAAAAGTTTATTTTTAAGGAAA
4976968 ATTGATTACTTTTCAACTTTTCCCCAAAAATTAATTTTTTGAAATTTAATTTCGAG
64 ATTGA-TAC-TTTCAACTTTTCCCCAAAAA-T-ATTTTTTGAAATTTAATTTCGAG
*
4977024 GAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAA-TTTATTTTTAAGAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATC--TTTTTTTTGAAAAGTTTATTTTTAAGGAAA
4977088 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAG
64 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAA--TTTAATTTCGAG
* * * **
4977143 GAAAATTGATACTTTCAACTTTT-CTCCAAAAAT-ATTTTTTTGAAAAATTTTAATTTCGAGGAA
1 GAAAATTGATACTTTCAACTTTTCCT-C-AAAATCTTTTTTTTG-AAAAGTTTATTTTTAAGGAA
*
4977206 AATTGATACTTTCAACTTTTCTCCAAAAATATTTTTT
63 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
4977243 TGGAGATTTA
Statistics
Matches: 299, Mismatches: 18, Indels: 45
0.83 0.05 0.12
Matches are distributed among these distances:
116 13 0.04
117 44 0.15
118 43 0.14
119 86 0.29
120 26 0.09
121 42 0.14
122 9 0.03
123 10 0.03
124 9 0.03
125 13 0.04
126 1 0.00
127 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (115 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTGAAAAGTTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTAATTTCGAG
Found at i:4977244 original size:60 final size:57
Alignment explanation
Indices: 4976884--4977244 Score: 406
Period size: 60 Copynumber: 6.1 Consensus size: 57
4976874 AATATTTTTG
* *
4976884 TTTTTTCAAAATTTAATTTCGA-GAAAAATGATACTTTTCAACTTTTCCTC-AAAA-AT
1 TTTTTTGAAAATTTAATTTCGAGGAAAATTGATAC-TTTCAACTTTTCC-CAAAAATAT
* * * ** *
4976940 CTCTTTGAAAAGTTTATTTTTAAGGAAAATTGATTACTTTTCAACTTTTCCCCAAAAATTAA
1 TTTTTTGAAAA-TTTAATTTCGAGGAAAATTGA-TAC-TTTCAACTTTT-CCCAAAAA-TAT
* *
4977002 TTTTTTG-AAATTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTT
1 TTTTTTGAAAATTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCC-CAAAA--ATAT
* ** *
4977061 TTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAT
1 TTTTTTGAAAATTTAATTTCGAGGAAAATTGATACTTTCAACTTTT-CCCAAAAATAT
* *
4977119 TTTTTGGAAACTTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATAT
1 TTTTTTGAAA-ATTTAATTTCGAGGAAAATTGATACTTTCAACTTTTC-CCAAAAATAT
4977178 TTTTTTGAAAAATTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATAT
1 TTTTTTG-AAAA-TTTAATTTCGAGGAAAATTGATACTTTCAACTTTTC-CCAAAAATAT
4977238 TTTTTTG
1 TTTTTTG
4977245 GAGATTTATT
Statistics
Matches: 259, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
56 8 0.03
57 10 0.04
58 36 0.14
59 74 0.29
60 120 0.46
61 5 0.02
62 6 0.02
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
TTTTTTGAAAATTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCCAAAAATAT
Found at i:4977318 original size:7 final size:6
Alignment explanation
Indices: 4977261--4977369 Score: 68
Period size: 6 Copynumber: 18.5 Consensus size: 6
4977251 TATTTTAAAG
* * * *
4977261 AAAAT- AAAATA ATAAA-A CAAAATA ATAGTG AAAATA AAAA-A ATAAAGA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA A-AAATA
* * *
4977309 AAAGTA AAAATA AAAA-A ATAAAGA AAATTA AAAAT- AAAATA AAAAT-
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA
*
4977355 AAAATA AAGATA AAA
1 AAAATA AAAATA AAA
4977370 GAATATTAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
5 19 0.24
6 52 0.65
7 9 0.11
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:4977318 original size:24 final size:23
Alignment explanation
Indices: 4977256--4977374 Score: 109
Period size: 24 Copynumber: 5.1 Consensus size: 23
4977246 AGATTTATTT
4977256 TAAAGAAAAT-AAAATAATAAAACA
1 TAAAGAAAATAAAAATAA-AAAA-A
* * *
4977280 -AAATAATAGTGAAAATAAAAAAA
1 TAAAGAA-AATAAAAATAAAAAAA
4977303 TAAAGAAAAGTAAAAATAAAAAAA
1 TAAAGAAAA-TAAAAATAAAAAAA
*
4977327 TAAAGAAAATTAAAAATAAAATAA
1 TAAAGAAAA-TAAAAATAAAAAAA
* * *
4977351 -AAATAAAATAAAGATAAAAGAA
1 TAAAGAAAATAAAAATAAAAAAA
4977373 TA
1 TA
4977375 TTAAATAAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
22 12 0.15
23 15 0.19
24 46 0.57
25 7 0.09
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.17
Consensus pattern (23 bp):
TAAAGAAAATAAAAATAAAAAAA
Found at i:4977319 original size:16 final size:14
Alignment explanation
Indices: 4977298--4977374 Score: 57
Period size: 16 Copynumber: 5.1 Consensus size: 14
4977288 GTGAAAATAA
4977298 AAAAATAAAGAAAAGT
1 AAAAATAAA-AAAA-T
4977314 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
4977328 AAAGAA-AATTAAAAAT
1 AAA-AATAA--AAAAAT
*
4977344 AAAATAAAAATAAAAT
1 AAAA-ATAAA-AAAAT
* *
4977360 AAAGATAAAAGAAT
1 AAAAATAAAAAAAT
4977374 A
1 A
4977375 TTAAATAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
14 11 0.21
15 12 0.23
16 27 0.52
17 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:4977351 original size:11 final size:11
Alignment explanation
Indices: 4977291--4977369 Score: 77
Period size: 12 Copynumber: 6.8 Consensus size: 11
4977281 AATAATAGTG
*
4977291 AAAATAAAAAA
1 AAAATAAAATA
*
4977302 ATAAAGAAAAGTA
1 A-AAATAAAA-TA
*
4977315 AAAATAAAAAA
1 AAAATAAAATA
*
4977326 ATAAAGAAAATTA
1 A-AAATAAAA-TA
4977339 AAAATAAAATA
1 AAAATAAAATA
4977350 AAAATAAAATA
1 AAAATAAAATA
*
4977361 AAGATAAAA
1 AAAATAAAA
4977370 GAATATTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
11 24 0.43
12 28 0.50
13 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:4977367 original size:6 final size:5
Alignment explanation
Indices: 4977261--4977383 Score: 55
Period size: 5 Copynumber: 24.6 Consensus size: 5
4977251 TATTTTAAAG
* *
4977261 AAAAT AAAAT --AAT AAAAC AAAAT AATAGT GAAAAT -AAA- AAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT -AAAAT AAAAT AAAAT AAA-AT
* *
4977309 AAAGT AAAA- ATAAA- AAAAT AAAGA- AAATT AAAAAT AAAAT AAAAAT
1 AAAAT AAAAT A-AAAT AAAAT AAA-AT AAAAT -AAAAT AAAAT -AAAAT
* * *
4977355 AAAAT AAAGAT AAAAG AATAT TAAAT AAA
1 AAAAT AAA-AT AAAAT AAAAT AAAAT AAA
4977384 CCTAATCTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
3 3 0.03
4 10 0.11
5 54 0.61
6 20 0.22
7 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4978274 original size:9 final size:9
Alignment explanation
Indices: 4978260--4978298 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
4978250 ATTTCAGTCG
4978260 AATAAATAA
1 AATAAATAA
4978269 AATAAATAA
1 AATAAATAA
*
4978278 AATAAATCA
1 AATAAATAA
*
4978287 GATAAATCAA
1 AATAAAT-AA
4978297 AA
1 AA
4978299 AATTAACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 23 0.92
10 2 0.08
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:4978459 original size:6 final size:6
Alignment explanation
Indices: 4978448--4978549 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
4978438 AATACCTAAG
* *
4978448 ATAAAA ATAAAA GA-AAAA A-AACA ATAATA ATAAAA ATAAAA AT-AAA
1 ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
4978494 ATAAAA ATGTAAAA TACAAAA ATTAAAA ATTAAAA ATTAAA A-AAAA A-AAAA
1 ATAAAA A--TAAAA -ATAAAA A-TAAAA A-TAAAA ATAAAA ATAAAA ATAAAA
4978545 ATAAA
1 ATAAA
4978550 CTTACCTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
5 19 0.23
6 39 0.48
7 17 0.21
8 5 0.06
9 1 0.01
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:4978485 original size:12 final size:12
Alignment explanation
Indices: 4978448--4978549 Score: 79
Period size: 11 Copynumber: 8.4 Consensus size: 12
4978438 AATACCTAAG
4978448 ATAAAAATAAAA
1 ATAAAAATAAAA
*
4978460 GA-AAAAA-AACA
1 -ATAAAAATAAAA
*
4978471 ATAATAATAAAA
1 ATAAAAATAAAA
4978483 ATAAAAAT-AAA
1 ATAAAAATAAAA
4978494 ATAAAAATGTAAAA
1 ATAAAAA--TAAAA
*
4978508 TACAAAAATTAAAA
1 -ATAAAAA-TAAAA
*
4978522 ATTAAAAATTAAA
1 A-TAAAAATAAAA
4978535 A-AAAAA-AAAA
1 ATAAAAATAAAA
4978545 ATAAA
1 ATAAA
4978550 CTTACCTATT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
10 5 0.07
11 25 0.35
12 15 0.21
13 8 0.11
14 13 0.18
15 6 0.08
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:4978488 original size:23 final size:22
Alignment explanation
Indices: 4978448--4978549 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 22
4978438 AATACCTAAG
4978448 ATAAAAATAAAAGA-AAAAAAACA
1 ATAAAAATAAAA-ATAAAAAAA-A
*
4978471 ATAATAATAAAAATAAAAATAAA
1 ATAAAAATAAAAATAAAAA-AAA
* *
4978494 ATAAAAATGTAAAAT-ACAAAAA
1 ATAAAAAT-AAAAATAAAAAAAA
*
4978516 TTAAAAATTAAAAATTAAAAAAAA
1 ATAAAAA-TAAAAA-TAAAAAAAA
4978540 A-AAAAATAAA
1 ATAAAAATAAA
4978550 CTTACCTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
22 18 0.28
23 34 0.52
24 13 0.20
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (22 bp):
ATAAAAATAAAAATAAAAAAAA
Found at i:4978521 original size:7 final size:7
Alignment explanation
Indices: 4978478--4978536 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
4978468 ACAATAATAA
4978478 TAAAAA-
1 TAAAAAT
4978484 TAAAAA-
1 TAAAAAT
4978490 T-AAAA-
1 TAAAAAT
4978495 TAAAAAT
1 TAAAAAT
4978502 GT-AAAAT
1 -TAAAAAT
*
4978509 ACAAAAAT
1 -TAAAAAT
4978517 TAAAAAT
1 TAAAAAT
4978524 TAAAAAT
1 TAAAAAT
4978531 TAAAAA
1 TAAAAA
4978537 AAAAAAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.11
6 11 0.24
7 24 0.52
8 6 0.13
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAAAAT
Found at i:4988192 original size:20 final size:22
Alignment explanation
Indices: 4988164--4988204 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
4988154 TAACTCTCCT
*
4988164 TTTTTTTCTTT-TTTT-TTAGC
1 TTTTCTTCTTTCTTTTCTTAGC
4988184 TTTTCTTCTTTCTTTTCTTAG
1 TTTTCTTCTTTCTTTTCTTAG
4988205 TTTGCGACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTCTTCTTTCTTTTCTTAGC
Found at i:4992501 original size:125 final size:119
Alignment explanation
Indices: 4992280--4992521 Score: 351
Period size: 125 Copynumber: 2.0 Consensus size: 119
4992270 ACTGAATCAT
* *
4992280 CCAATACCGGCTCATACAAATCTTTATAGTATAAATGATCTTTCATCATAGGCTTCTAAATTAAA
1 CCAATACCGGCTCATACAAATCGTTACAGTATAAATGATCTTTCATCATAGGCTTCTAAATTAAA
* *
4992345 TAATTTGATGCTGTCAATTTTATCATGAAATCTGTATCACACTCCATGATCTCA
66 TAATTTGATGCTGTCAATTTTATCATAAAATCTATATCACACTCCATGATCTCA
*
4992399 CCAATACCGGCTCATGCAAATCGTTACAGTATAAATGATCTTGATCTTCCATCATAGGCTT-TCA
1 CCAATACCGGCTCATACAAATCGTTACAGTATAAATGATC----T-TT-CATCATAGGCTTCT-A
* *
4992463 AATTGAATAATTTGATGCTGTCAATTTTATCATAAAATCTATATCACCCTCCATGATCT
59 AATTAAATAATTTGATGCTGTCAATTTTATCATAAAATCTATATCACACTCCATGATCT
4992522 TAAATAGAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
119 37 0.34
123 1 0.01
124 3 0.03
125 68 0.62
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (119 bp):
CCAATACCGGCTCATACAAATCGTTACAGTATAAATGATCTTTCATCATAGGCTTCTAAATTAAA
TAATTTGATGCTGTCAATTTTATCATAAAATCTATATCACACTCCATGATCTCA
Found at i:5000342 original size:18 final size:17
Alignment explanation
Indices: 5000311--5000344 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5000301 TATTCTTTAT
*
5000311 AAATACAAACTAGGAGC
1 AAATACAAAATAGGAGC
5000328 AAATCACAAAATAGGAG
1 AAAT-ACAAAATAGGAG
5000345 AGAGCACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.12
Consensus pattern (17 bp):
AAATACAAAATAGGAGC
Found at i:5001281 original size:61 final size:57
Alignment explanation
Indices: 5001196--5001485 Score: 299
Period size: 61 Copynumber: 5.0 Consensus size: 57
5001186 AAAATATTAT
* *
5001196 ATATTTTTAAAGG-AAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAAATTTTTTAAAA
1 ATATTTTT-AAGGAAAAGTTGAAAATATCAATTTTTC-TTGAAAAT-AAAA-TTTCTAAAA
* * *
5001255 ATTATTTTTTGAGGAAAAGTT-AAAAGTTTCAATTTTTCTTGAAGATAAATATTTCTAAAAA
1 A-TA-TTTTTAAGGAAAAGTTGAAAA-TATCAATTTTTCTTGAAAATAAA-ATTTCT-AAAA
*
5001316 ATATTTTTAAGGAAAAAGTTGAAAATATCAAATTTTTCTTAAAAATAAAATTGT-TAAAA
1 ATATTTTTAAGG-AAAAGTTGAAAATATC-AATTTTTCTTGAAAATAAAATT-TCTAAAA
* *
5001375 A-A-TTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAAATAAAATTTCTAAAA
1 ATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTCTAAAA
* * * *
5001430 AGTATTTTGAA-GAAAAATTGAAAATATTAATTTTTCTT-AAAATAAATTTTCTAAAA
1 A-TATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTCTAAAA
5001486 TAAAAATTTT
Statistics
Matches: 200, Mismatches: 16, Indels: 33
0.80 0.06 0.13
Matches are distributed among these distances:
54 1 0.00
55 26 0.13
56 32 0.16
57 34 0.17
58 6 0.03
59 14 0.07
60 31 0.16
61 51 0.25
62 5 0.03
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (57 bp):
ATATTTTTAAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAAATTTCTAAAA
Found at i:5001360 original size:116 final size:109
Alignment explanation
Indices: 5001261--5001471 Score: 271
Period size: 116 Copynumber: 1.9 Consensus size: 109
5001251 AAAAATTATT
* * * * * *
5001261 TTTTGAGGAAAAGTT-AAAAGTTTCAATTTTTCTTGAAGATAAATATTTCTAAAAAATATTTTTA
1 TTTTAAGGAAAAATTGAAAA-TATCAATTTTCCTTGAAAATAAA-ATTTCTAAAAAATATTTTGA
5001325 AGGAAAAAGTTGAAAATATCAAATTTTTCTTAAAAATAAAATTGTTAAAAAA
64 A-GAAAAA-TTGAAAATAT-AAATTTTTCTTAAAAAT---ATTGTTAAAAAA
*
5001377 TTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAAATAAAATTTCTAAAAAGTATTTTGAAG
1 TTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAAATAAAATTTCTAAAAAATATTTTGAAG
*
5001442 AAAAATTGAAAATATTAATTTTTCTTAAAA
66 AAAAATTGAAAATATAAATTTTTCTTAAAA
5001472 TAAATTTTCT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
112 14 0.16
113 10 0.12
114 6 0.07
115 19 0.22
116 33 0.38
117 4 0.05
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (109 bp):
TTTTAAGGAAAAATTGAAAATATCAATTTTCCTTGAAAATAAAATTTCTAAAAAATATTTTGAAG
AAAAATTGAAAATATAAATTTTTCTTAAAAATATTGTTAAAAAA
Found at i:5001486 original size:14 final size:15
Alignment explanation
Indices: 5001461--5001489 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5001451 AAATATTAAT
5001461 TTTTCTTAAAATAAA
1 TTTTCTTAAAATAAA
5001476 TTTTC-TAAAATAAA
1 TTTTCTTAAAATAAA
5001490 AATTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTCTTAAAATAAA
Found at i:5001572 original size:72 final size:73
Alignment explanation
Indices: 5001412--5001613 Score: 263
Period size: 72 Copynumber: 2.8 Consensus size: 73
5001402 ATTTTCCTTG
* * * * *
5001412 AAAATAAAA-TTTCTAAAAAGTATTTTGAAGAAAAATTGAAAATATTAATTTTTCTT---AAAAT
1 AAAATAAAATTTTC-CAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAT
*
5001473 AAATTTTCT
65 AAAATTTCT
*
5001482 AAAATAAAAATTTT-CAAAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAAAAT
1 AAAAT-AAAATTTTCCAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAT
5001545 AAAATTTCT
65 AAAATTTCT
* *
5001554 AAAATAAAATTTTCCAAAAGTATTTTGAGAAAAAGTTGAAAGCATCAATTTTTCTTAAAA
1 AAAATAAAATTTTCCAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
5001614 TTAAAATTTT
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
69 2 0.02
70 38 0.33
71 12 0.10
72 57 0.50
73 6 0.05
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (73 bp):
AAAATAAAATTTTCCAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAATA
AAATTTCT
Found at i:5001619 original size:57 final size:56
Alignment explanation
Indices: 5001549--5001663 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 56
5001539 AAAAATAAAA
** * * * *
5001549 TTTCTAAAATAAAATTTTCCAAAA-GTATTTTGAGAAAAAGTTGAAAGCATCAATT
1 TTTCTAAAATAAAATTTTAAAAAATATATTTTAAAAAAAAGTTAAAAGCATCAATT
5001604 TTTCTTAAAATTAAAATTTTAAAAAATATATTTTAAAAAAAAGTTAAAAGCATCAATT
1 TTTC-TAAAA-TAAAATTTTAAAAAATATATTTTAAAAAAAAGTTAAAAGCATCAATT
5001662 TT
1 TT
5001664 CATTATACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 4 0.08
56 5 0.10
57 13 0.25
58 29 0.57
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (56 bp):
TTTCTAAAATAAAATTTTAAAAAATATATTTTAAAAAAAAGTTAAAAGCATCAATT
Found at i:5001751 original size:5 final size:5
Alignment explanation
Indices: 5001741--5001773 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
5001731 ATTATTCTTT
5001741 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
5001774 TCTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:5001774 original size:15 final size:14
Alignment explanation
Indices: 5001738--5001774 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
5001728 ATCATTATTC
5001738 TTTTTTTATTTTAT
1 TTTTTTTATTTTAT
5001752 TTTATTTTATTTTAT
1 TTT-TTTTATTTTAT
5001767 TTATTTTT
1 TT-TTTTT
5001775 CTTTCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 17 0.81
16 1 0.05
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTATTTTAT
Found at i:5002522 original size:14 final size:13
Alignment explanation
Indices: 5002502--5002551 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
5002492 TAAATATCAA
5002502 TTTTAATAAAATT
1 TTTTAATAAAATT
5002515 TATTTAATATAAATT
1 T-TTTAATA-AAATT
*
5002530 TTTTTATAAATTATT
1 TTTTAATAAA--ATT
5002545 TTTTAAT
1 TTTTAAT
5002552 TATAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 3 0.10
14 13 0.42
15 15 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:5002528 original size:15 final size:15
Alignment explanation
Indices: 5002503--5002545 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
5002493 AAATATCAAT
5002503 TTTAATA-AAATTTA
1 TTTAATATAAATTTA
5002517 TTTAATATAAATTT-
1 TTTAATATAAATTTA
5002531 TTT--TATAAA-TTA
1 TTTAATATAAATTTA
5002543 TTT
1 TTT
5002546 TTTAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 9 0.33
14 10 0.37
15 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATATAAATTTA
Found at i:5002562 original size:24 final size:24
Alignment explanation
Indices: 5002533--5002603 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
5002523 ATAAATTTTT
5002533 TTATAAATTATTTTTTAATTATAA
1 TTATAAATTATTTTTTAATTATAA
* *
5002557 TTATAATAATCTTTTTTAATTATAA
1 TTATAA-ATTATTTTTTAATTATAA
* *
5002582 TTA-AAATAATTTTATTATTTAT
1 TTATAAATTATTTT-TTAATTAT
5002604 TTTAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 5 0.13
24 15 0.38
25 19 0.49
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATAAATTATTTTTTAATTATAA
Found at i:5002577 original size:25 final size:25
Alignment explanation
Indices: 5002543--5002591 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
5002533 TTATAAATTA
*
5002543 TTTTTTAATTATAATTATAATAATC
1 TTTTTTAATTATAATTAAAATAATC
5002568 TTTTTTAATTATAATTAAAATAAT
1 TTTTTTAATTATAATTAAAATAAT
5002592 TTTATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTTTAATTATAATTAAAATAATC
Found at i:5002635 original size:22 final size:22
Alignment explanation
Indices: 5002610--5002651 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5002600 TTATTTTAAT
*
5002610 TTTATCAAAATTAATCTTAACG
1 TTTATCAAAATAAATCTTAACG
*
5002632 TTTATCCAAATAAATCTTAA
1 TTTATCAAAATAAATCTTAA
5002652 ATCATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTATCAAAATAAATCTTAACG
Found at i:5003914 original size:6 final size:6
Alignment explanation
Indices: 5003903--5003929 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5003893 TTTTATGAGT
5003903 ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA
5003930 TAATATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:5003971 original size:14 final size:13
Alignment explanation
Indices: 5003948--5003983 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
5003938 GTTTTATATT
5003948 TATATTATACATA
1 TATATTATACATA
5003961 TATATTTATACATA
1 TATA-TTATACATA
*
5003975 TATAATATA
1 TATATTATA
5003984 TAAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATTATACATA
Found at i:5004085 original size:26 final size:28
Alignment explanation
Indices: 5004029--5004095 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
5004019 ATTAATTAAA
* * *
5004029 ATTAATATATATGTTTATTAAAATATAT
1 ATTAATATATATATTTATAAAAAAATAT
5004057 ATTAATATA-ATATTTATAAAAAAAT-T
1 ATTAATATATATATTTATAAAAAAATAT
5004083 ATTTAA-ATATATA
1 A-TTAATATATATA
5004096 AAATAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.15
27 20 0.59
28 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
ATTAATATATATATTTATAAAAAAATAT
Found at i:5004265 original size:24 final size:25
Alignment explanation
Indices: 5004220--5004266 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
5004210 TATTAAATAT
*
5004220 AAATATAAATATAATAAAATTTTGA
1 AAATATAAATATAAAAAAATTTTGA
5004245 AAAT-TAAA-ATAAAAAATATTTT
1 AAATATAAATATAAAAAA-ATTTT
5004267 ACTTTACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
AAATATAAATATAAAAAAATTTTGA
Found at i:5006412 original size:16 final size:17
Alignment explanation
Indices: 5006377--5006410 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5006367 TTTTTATATT
*
5006377 ATTTTAATATTAAATAA
1 ATTTTAATATAAAATAA
5006394 ATTTTAATATAAAATAA
1 ATTTTAATATAAAATAA
5006411 TTATATTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTAATATAAAATAA
Found at i:5006471 original size:18 final size:18
Alignment explanation
Indices: 5006424--5006462 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5006414 TATTTATTTC
**
5006424 ATAAAAATTTTTAAAAAT
1 ATAAAAATTAATAAAAAT
5006442 ATAAAAATTAATAAAAAT
1 ATAAAAATTAATAAAAAT
5006460 ATA
1 ATA
5006463 TAATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAAATTAATAAAAAT
Found at i:5010709 original size:97 final size:98
Alignment explanation
Indices: 5010528--5010717 Score: 265
Period size: 97 Copynumber: 1.9 Consensus size: 98
5010518 GCACAAATTT
* * * * **
5010528 GATGCTAACTAAAAGACGTGTATAAGAACCTTGTGTTTGTAGTACAAGTTTTGGACAATTGCTTA
1 GATGCTAACTAAAAGACATGTATAAGAACCTTCTGTTTGTAGTACAAGTTTGGGACAAATGCACA
5010593 TGTATGCAGAGGCCGAAGTCTTGTTTACCAGTA
66 TGTATGCAGAGGCCGAAGTCTTGTTTACCAGTA
* * * *
5010626 GATGCTAACTTAAAGACATTTATAAGTACCTTCTGTTT-TAGTACATGTTTGGGACAAATGCACA
1 GATGCTAACTAAAAGACATGTATAAGAACCTTCTGTTTGTAGTACAAGTTTGGGACAAATGCACA
* *
5010690 TGTATGCTGAGGCTGAAGTCTTGTTTAC
66 TGTATGCAGAGGCCGAAGTCTTGTTTAC
5010718 TATTACGTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
97 47 0.59
98 33 0.41
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (98 bp):
GATGCTAACTAAAAGACATGTATAAGAACCTTCTGTTTGTAGTACAAGTTTGGGACAAATGCACA
TGTATGCAGAGGCCGAAGTCTTGTTTACCAGTA
Found at i:5012439 original size:22 final size:21
Alignment explanation
Indices: 5012412--5012476 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 21
5012402 TGGGATGTTT
5012412 TAAAATTATATTTTTTAATATA
1 TAAAATTATATTTTTT-ATATA
* * *
5012434 TAAAATTTTTATATTTTATATT
1 TAAAA-TTATATTTTTTATATA
*
5012456 TGAAAATTA-ATTTTTTTTATA
1 T-AAAATTATATTTTTTATATA
5012477 AAGTTTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 9 0.26
22 12 0.35
23 13 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TAAAATTATATTTTTTATATA
Found at i:5015222 original size:7 final size:7
Alignment explanation
Indices: 5015212--5015236 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5015202 TCTTCTCCTT
5015212 CCATTTC
1 CCATTTC
5015219 CCATTTC
1 CCATTTC
5015226 CCATTTC
1 CCATTTC
5015233 CCAT
1 CCAT
5015237 CCAAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (7 bp):
CCATTTC
Found at i:5030465 original size:23 final size:22
Alignment explanation
Indices: 5030415--5030469 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
5030405 TATAAATCGG
5030415 TATTTA-TAAATTATATAAACT
1 TATTTATTAAATTATATAAACT
5030436 TAAATTTATTAAATTCATATATAA-T
1 T--ATTTATTAAATT-ATATA-AACT
5030461 TATTT-TTAA
1 TATTTATTAA
5030470 TTTTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.14
23 9 0.31
24 6 0.21
25 7 0.24
26 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTATTAAATTATATAAACT
Found at i:5030942 original size:15 final size:15
Alignment explanation
Indices: 5030922--5030951 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5030912 ACGTGTGAAA
5030922 CTTGACTTTCTTGGT
1 CTTGACTTTCTTGGT
5030937 CTTGACTTTCTTGGT
1 CTTGACTTTCTTGGT
5030952 TTAAGGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (15 bp):
CTTGACTTTCTTGGT
Found at i:5031176 original size:19 final size:20
Alignment explanation
Indices: 5031152--5031192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
5031142 AATAAGATAA
*
5031152 AAAAATTT-AAAGATAAATT
1 AAAAATTTAAAAGAAAAATT
5031171 AAAAATTTCAAAAGAAAAATT
1 AAAAATTT-AAAAGAAAAATT
5031192 A
1 A
5031193 TTGTAGAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATTTAAAAGAAAAATT
Found at i:5032980 original size:2 final size:2
Alignment explanation
Indices: 5032967--5033002 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5032957 GAAGTATGGC
* *
5032967 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5033003 GCCAAGACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:5037418 original size:19 final size:19
Alignment explanation
Indices: 5037373--5037431 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
5037363 CGGTTTGAAT
5037373 TTAAATTAAAATTTTATATG-
1 TTAAATT-AAATTTTAT-TGA
*
5037393 TTGAATTAAATTTTATTGA
1 TTAAATTAAATTTTATTGA
**
5037412 TTAAATTTGA-TTTATTGA
1 TTAAATTAAATTTTATTGA
5037430 TT
1 TT
5037432 TCTAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 12 0.35
19 16 0.47
20 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAAATTAAATTTTATTGA
Found at i:5037511 original size:21 final size:22
Alignment explanation
Indices: 5037471--5037511 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5037461 ATTATTTTAA
**
5037471 TATAAAAATATTATTTTTATTC
1 TATAAAAATATTATAATTATTC
5037493 TATAAAAAT-TTATAATTAT
1 TATAAAAATATTATAATTAT
5037512 ATAAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAAAAATATTATAATTATTC
Found at i:5037516 original size:18 final size:18
Alignment explanation
Indices: 5037493--5037533 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5037483 ATTTTTATTC
*
5037493 TATAAAAATTTATAAT-TA
1 TATAAAAA-TTAAAATATA
5037511 TATAAAAATTAAAATATA
1 TATAAAAATTAAAATATA
5037529 TATAA
1 TATAA
5037534 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAAAATTAAAATATA
Found at i:5037528 original size:16 final size:18
Alignment explanation
Indices: 5037493--5037530 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
5037483 ATTTTTATTC
*
5037493 TATAAAAATTTATAATTA
1 TATAAAAATTTATAAATA
5037511 TATAAAAA-TTA-AAATA
1 TATAAAAATTTATAAATA
5037527 TATA
1 TATA
5037531 TAATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAAAATTTATAAATA
Found at i:5043510 original size:19 final size:18
Alignment explanation
Indices: 5043488--5043524 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
5043478 ATTTTTAAGA
*
5043488 ATTATAAAAATCTTTTTTT
1 ATTA-AAAAATATTTTTTT
5043507 ATTAAAAAATATTTTTTT
1 ATTAAAAAATATTTTTTT
5043525 CATTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAAAAATATTTTTTT
Found at i:5043609 original size:22 final size:21
Alignment explanation
Indices: 5043575--5043615 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5043565 TTTTGTTTGA
5043575 TAAAAAATCAAGAATTAATATT
1 TAAAAAATCAAG-ATTAATATT
* *
5043597 TAAATAATTAAGATTAATA
1 TAAAAAATCAAGATTAATA
5043616 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
TAAAAAATCAAGATTAATATT
Found at i:5044512 original size:26 final size:27
Alignment explanation
Indices: 5044457--5044521 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
5044447 TTTGATTTGT
5044457 ATTTAAATAATTATCTAAAAATATTAA
1 ATTTAAATAATTATCTAAAAATATTAA
* *
5044484 ATTTAAATAATTATC-CAAAATATTTA
1 ATTTAAATAATTATCTAAAAATATTAA
5044510 ATTTAAATAATT
1 ATTTAAATAATT
5044522 TGTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTTAAATAATTATCTAAAAATATTAA
Found at i:5044529 original size:26 final size:26
Alignment explanation
Indices: 5044457--5044530 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
5044447 TTTGATTTGT
5044457 ATTTAAATAATTATCTAAAAATATTAA
1 ATTTAAATAATTAT-TAAAAATATTAA
** *
5044484 ATTTAAATAATTATCCAAAATATTTA
1 ATTTAAATAATTATTAAAAATATTAA
*
5044510 ATTTAAATAATTTGTTAAAAA
1 ATTTAAATAA-TTATTAAAAA
5044531 AATTTATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (26 bp):
ATTTAAATAATTATTAAAAATATTAA
Found at i:5044539 original size:26 final size:25
Alignment explanation
Indices: 5044456--5044539 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
5044446 TTTTGATTTG
*
5044456 TATTTAAATAATTATCTAAAAATATT
1 TATTTAAATAATT-TTTAAAAATATT
* * **
5044482 AAATTTAAATAATTATCCAAAATATT
1 -TATTTAAATAATTTTTAAAAATATT
*
5044508 TAATTTAAATAATTTGTTAAAAAAATT
1 T-ATTTAAATAATTT-TTAAAAATATT
5044535 TATTT
1 TATTT
5044540 GATAAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 24 0.53
27 21 0.47
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (25 bp):
TATTTAAATAATTTTTAAAAATATT
Found at i:5044746 original size:20 final size:21
Alignment explanation
Indices: 5044705--5044747 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
5044695 TTAGTTACTT
* *
5044705 AAATTTGAATTAATTTATTTA
1 AAATTTGAATTAATTAAATTA
5044726 AAATTT-AATTAATTAAATTA
1 AAATTTGAATTAATTAAATTA
5044746 AA
1 AA
5044748 TTAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATTTGAATTAATTAAATTA
Found at i:5044839 original size:12 final size:13
Alignment explanation
Indices: 5044812--5044842 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5044802 AAAATTTAAT
5044812 TTAATTTTTTCAA
1 TTAATTTTTTCAA
5044825 TTAATTTTTTC-A
1 TTAATTTTTTCAA
5044837 TTAATT
1 TTAATT
5044843 AAATAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATTTTTTCAA
Found at i:5044917 original size:13 final size:13
Alignment explanation
Indices: 5044896--5044960 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
5044886 AATTTTTATT
5044896 TTTTA-AATAAAA
1 TTTTATAATAAAA
5044908 TTTTATAATAAAA
1 TTTTATAATAAAA
*
5044921 TATTTAAATACTAAAA
1 T-TTT--ATAATAAAA
* *
5044937 TATTATATTAAAA
1 TTTTATAATAAAA
*
5044950 ATTT-TAATAAA
1 TTTTATAATAAA
5044961 TTAAAGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 11 0.26
13 18 0.42
14 3 0.07
15 2 0.05
16 9 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTTATAATAAAA
Found at i:5044935 original size:29 final size:28
Alignment explanation
Indices: 5044903--5044958 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
5044893 ATTTTTTAAA
*
5044903 TAAAATTTTATAATAAAATATTTAAATAC
1 TAAAATATTATAATAAAA-ATTTAAATAC
* *
5044932 TAAAATATTATATTAAAAATTTTAATA
1 TAAAATATTATAATAAAAATTTAAATA
5044959 AATTAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAAATATTATAATAAAAATTTAAATAC
Found at i:5045146 original size:14 final size:13
Alignment explanation
Indices: 5045127--5045160 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5045117 TTATTAATCA
5045127 AATTAAATCATTT
1 AATTAAATCATTT
*
5045140 GAATTAATTCATTT
1 -AATTAAATCATTT
5045154 AATTAAA
1 AATTAAA
5045161 ATCGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (13 bp):
AATTAAATCATTT
Found at i:5057095 original size:11 final size:12
Alignment explanation
Indices: 5057073--5057110 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
5057063 TAATTTATTT
5057073 AAATATAT-TAA
1 AAATATATATAA
5057084 AAAT-TATATAA
1 AAATATATATAA
5057095 AAATAATATATAA
1 AAAT-ATATATAA
5057108 AAA
1 AAA
5057111 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 11 0.46
13 10 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATATAA
Found at i:5057114 original size:14 final size:13
Alignment explanation
Indices: 5057074--5057110 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5057064 AATTTATTTA
5057074 AATATATTAAAAAT
1 AATATA-TAAAAAT
5057088 --TATATAAAAAT
1 AATATATAAAAAT
5057099 AATATATAAAAA
1 AATATATAAAAA
5057111 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.33
12 4 0.19
13 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:5062979 original size:26 final size:26
Alignment explanation
Indices: 5062950--5063000 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
5062940 TTTGATTATG
* *
5062950 ATTTATTTATTATTGTGAATATGTTT
1 ATTTATATATTATTGTAAATATGTTT
*
5062976 ATTTATATATTTTTGTAAATATGTT
1 ATTTATATATTATTGTAAATATGTT
5063001 GTTTAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (26 bp):
ATTTATATATTATTGTAAATATGTTT
Found at i:5062986 original size:23 final size:22
Alignment explanation
Indices: 5062937--5062987 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
5062927 TTGTTTAAAT
*
5062937 TTATTTGATTATGATTTATTTA
1 TTATTTGAATATGATTTATTTA
5062959 TTATTGTGAATATG-TTTATTTA
1 TTATT-TGAATATGATTTATTTA
5062981 TATATTT
1 T-TATTT
5062988 TTGTAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (22 bp):
TTATTTGAATATGATTTATTTA
Found at i:5065646 original size:3 final size:3
Alignment explanation
Indices: 5065638--5065670 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
5065628 AACTTTAACT
5065638 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
5065671 GGATCTAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5065875 original size:14 final size:16
Alignment explanation
Indices: 5065845--5065878 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
5065835 ATATGTATTT
5065845 TATTTATATAGTTATA
1 TATTTATATAGTTATA
5065861 TATTTAT-TA-TTATA
1 TATTTATATAGTTATA
5065875 TATT
1 TATT
5065879 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 2 0.11
16 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTTATATAGTTATA
Found at i:5066884 original size:27 final size:27
Alignment explanation
Indices: 5066834--5066903 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
5066824 TTAGATTAGA
*
5066834 TTTA-TTTAATTTTTTTTTATCTTTATC
1 TTTATTTTTATTTTTTTTTATCTTT-TC
5066861 -TTATTTTTATTTTTGTTTTA-CTTTTC
1 TTTATTTTTATTTTT-TTTTATCTTTTC
*
5066887 TTTATTTTT-TTTATTTT
1 TTTATTTTTATTTTTTTT
5066904 CACTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 3 0.08
26 9 0.24
27 21 0.55
28 5 0.13
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTATTTTTATTTTTTTTTATCTTTTC
Found at i:5067027 original size:62 final size:59
Alignment explanation
Indices: 5066942--5067283 Score: 431
Period size: 62 Copynumber: 5.7 Consensus size: 59
5066932 ATAAAAAAAT
*
5066942 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * ** *
5067001 AAAAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTTG
1 ---AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
** *
5067065 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* * *
5067125 AAAAAAAAAAAATTTTGAGGGAAAAGTTAAAAGTATCAATTTTCCTT-AAAATAAATTTTC
1 -AAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * **
5067185 AAAAAATAT-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
5067243 --AAAAAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
5067284 CTATACAAGA
Statistics
Matches: 248, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.02
57 55 0.22
58 18 0.07
59 7 0.03
60 10 0.04
61 72 0.29
62 73 0.29
63 3 0.01
64 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:5067060 original size:32 final size:32
Alignment explanation
Indices: 5067024--5067122 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
5067014 TTTTTGAGAA
5067024 AAAGTTGAAAGTATCAATTTTCCTTGGAAATC
1 AAAGTTGAAAGTATCAATTTTCCTTGGAAATC
** *
5067056 AAAGTTTTGAAA--AAAAATATTT--TT-GAGGA--
1 AAAG--TTGAAAGTATCAAT-TTTCCTTGGA-AATC
5067085 AAAGTTGAAAGTATCAATTTTCCTTGGAAATC
1 AAAGTTGAAAGTATCAATTTTCCTTGGAAATC
5067117 AAAGTT
1 AAAGTT
5067123 TCAAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 22
0.64 0.08 0.28
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 8 0.16
30 5 0.10
31 5 0.10
32 14 0.28
33 3 0.06
34 6 0.12
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (32 bp):
AAAGTTGAAAGTATCAATTTTCCTTGGAAATC
Found at i:5067080 original size:61 final size:59
Alignment explanation
Indices: 5066942--5067283 Score: 413
Period size: 61 Copynumber: 5.7 Consensus size: 59
5066932 ATAAAAAAAT
*
5066942 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT---A
* * ** *
5067004 AAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTTG
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTA
** *
5067065 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTA
* * * *
5067126 AAAAAAAAAAATTTTGAGGGAAAAGTTAAAAGTATCAATTTTCCTT-AAAATAAATTTTC
1 AAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
* * **
5067185 AAAAAATAT-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTT-
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
* *
5067242 -CAAAAAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
5067284 CTATACAAGA
Statistics
Matches: 247, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
56 6 0.02
57 55 0.22
58 17 0.07
59 10 0.04
60 3 0.01
61 76 0.31
62 73 0.30
63 3 0.01
64 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
Found at i:5070200 original size:26 final size:26
Alignment explanation
Indices: 5070145--5070200 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
5070135 CACAAAATTT
* **
5070145 TAAAAAATAAAATTTGATATATTTTT
1 TAAAAAATAAAATTTGATATAATTAA
*
5070171 TAAAAATATAAAATTTTA-ATAATTAA
1 TAAAAA-ATAAAATTTGATATAATTAA
5070197 TAAA
1 TAAA
5070201 TACTAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TAAAAAATAAAATTTGATATAATTAA
Found at i:5076984 original size:18 final size:17
Alignment explanation
Indices: 5076963--5076997 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5076953 GCTCCCCCAA
*
5076963 TTTAAAATTTTTAATTTG
1 TTTAAAAATTTT-ATTTG
5076981 TTTAAAAATTTTATTTG
1 TTTAAAAATTTTATTTG
5076998 GTGGAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTAAAAATTTTATTTG
Found at i:5077959 original size:23 final size:23
Alignment explanation
Indices: 5077915--5077961 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5077905 ACCAGATTCA
** *
5077915 TTCAAAATCATTCTTAAGATTGT
1 TTCAAAATCATTCACAACATTGT
*
5077938 TTCAAAATGATTCACAACATTGT
1 TTCAAAATCATTCACAACATTGT
5077961 T
1 T
5077962 GTCCCTCCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (23 bp):
TTCAAAATCATTCACAACATTGT
Found at i:5084834 original size:29 final size:29
Alignment explanation
Indices: 5084789--5084856 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
5084779 TTTTAATGTA
*
5084789 TTAATTTTCATAGAATTTAAGA-AAAAATT
1 TTAATTTTAATAGAA-TTAAGATAAAAATT
* * *
5084818 TTAATTTTAATATAATTAATATTAAAATT
1 TTAATTTTAATAGAATTAAGATAAAAATT
*
5084847 TAAATTTTAA
1 TTAATTTTAA
5084857 CTTTAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (29 bp):
TTAATTTTAATAGAATTAAGATAAAAATT
Found at i:5084869 original size:28 final size:28
Alignment explanation
Indices: 5084812--5084926 Score: 82
Period size: 29 Copynumber: 4.1 Consensus size: 28
5084802 AATTTAAGAA
* *
5084812 AAAATTTTAATTTTAATATAATTAATATT
1 AAAATTTAAATTTTAATATAA-TAAAATT
*
5084841 AAAATTTAAATTTTAACTTTAA-AAAATT
1 AAAATTTAAATTTTAA-TATAATAAAATT
*
5084869 -AAATTTAAAATTTT--T-T-ATACAATT
1 AAAATTT-AAATTTTAATATAATAAAATT
*
5084893 AAAATTTTATAATTTTTAATATCA-AAAATT
1 AAAA-TTTA-AA-TTTTAATATAATAAAATT
5084923 AAAA
1 AAAA
5084927 AAAATTTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
23 1 0.01
24 6 0.09
25 5 0.07
26 5 0.07
27 10 0.14
28 12 0.17
29 16 0.23
30 14 0.20
31 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
AAAATTTAAATTTTAATATAATAAAATT
Found at i:5084953 original size:16 final size:16
Alignment explanation
Indices: 5084916--5084954 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5084906 TTTTAATATC
*
5084916 AAAAATTAAAAAAAAT
1 AAAAAATAAAAAAAAT
**
5084932 TTAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
5084948 AAAAAAT
1 AAAAAAT
5084955 TTAGATGTTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:5095460 original size:19 final size:21
Alignment explanation
Indices: 5095436--5095482 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
5095426 AACTTACGAC
5095436 TTTAATTAAAATTTT-A-TAT
1 TTTAATTAAAATTTTAATTAT
*
5095455 TTTAA-T-ATATTTTAATTAT
1 TTTAATTAAAATTTTAATTAT
5095474 TTTAATTAA
1 TTTAATTAA
5095483 TAAAATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 13 0.57
20 1 0.04
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAATTAAAATTTTAATTAT
Found at i:5095465 original size:10 final size:10
Alignment explanation
Indices: 5095450--5095479 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5095440 ATTAAAATTT
5095450 TATATTTTAA
1 TATATTTTAA
5095460 TATATTTTAA
1 TATATTTTAA
5095470 T-TATTTTAA
1 TATATTTTAA
5095479 T
1 T
5095480 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:5095476 original size:9 final size:9
Alignment explanation
Indices: 5095452--5095481 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
5095442 TAAAATTTTA
5095452 TATTTTAAT
1 TATTTTAAT
5095461 ATATTTTAAT
1 -TATTTTAAT
5095471 TATTTTAAT
1 TATTTTAAT
5095480 TA
1 TA
5095482 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:5099880 original size:26 final size:28
Alignment explanation
Indices: 5099841--5099893 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
5099831 TAATAATAAA
5099841 ATTTATTATAATTATAATT-AAAAAAAC
1 ATTTATTATAATTATAATTGAAAAAAAC
*
5099868 ATTT-TTATAATTATGATTGAAAAAAA
1 ATTTATTATAATTATAATTGAAAAAAA
5099894 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (28 bp):
ATTTATTATAATTATAATTGAAAAAAAC
Found at i:5100244 original size:22 final size:22
Alignment explanation
Indices: 5100201--5100248 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
5100191 TTTTTTTATT
* *
5100201 GAAATTTCATATACGGATAATA
1 GAAATATCATATACGGAGAATA
* *
5100223 GAAATATCATATATGGGGAATA
1 GAAATATCATATACGGAGAATA
5100245 GAAA
1 GAAA
5100249 ATTAGAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (22 bp):
GAAATATCATATACGGAGAATA
Found at i:5103330 original size:32 final size:31
Alignment explanation
Indices: 5103283--5103360 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
5103273 GTAAGAGAAA
* *
5103283 TTGATTATAGAAAATAATTTTTATATTTTATAT
1 TTGATTTTA-AAAATAATTTTCAT-TTTTATAT
*
5103316 TTGATTTTAAAAATAATTTTCATTTTTATTT
1 TTGATTTTAAAAATAATTTTCATTTTTATAT
*
5103347 TTAATTTATAAAAA
1 TTGATTT-TAAAAA
5103361 ATATGGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.32
32 19 0.47
33 8 0.20
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (31 bp):
TTGATTTTAAAAATAATTTTCATTTTTATAT
Found at i:5103517 original size:94 final size:91
Alignment explanation
Indices: 5103398--5103572 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 91
5103388 CTATTTTAAC
* * * * * *
5103398 AAAATGACAAAAATGGAATTATGAGTTTATTCATGGACCGTAAATCAATCGGATCACCATTATAA
1 AAAATGACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATAA
*
5103463 TCATAAAAAATGTGTTTGATATATTTAG
66 CCAT-AAAAATGT-TTTGATATATTTAG
* *
5103491 AAAATGGACAAAAATGAAATTATGAGTTCATTCATGCATCATAAATCAATTGAACCACCATTATA
1 AAAAT-GACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATA
*
5103556 GCCATAAAAATGTTTTG
65 ACCATAAAAATGTTTTG
5103573 TCCATTTATG
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
92 4 0.06
93 13 0.18
94 54 0.76
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (91 bp):
AAAATGACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATAA
CCATAAAAATGTTTTGATATATTTAG
Found at i:5103780 original size:16 final size:18
Alignment explanation
Indices: 5103759--5103791 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5103749 TTGGATTCGA
5103759 TAATTT-TTTT-ATATTT
1 TAATTTATTTTAATATTT
5103775 TAATTTATTTTAATATT
1 TAATTTATTTTAATATT
5103792 ATATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TAATTTATTTTAATATTT
Found at i:5104026 original size:21 final size:20
Alignment explanation
Indices: 5104001--5104039 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5103991 ATTCAAAATT
5104001 TAATTTAAAAAAATATAAAAA
1 TAATTTAAAAAAAT-TAAAAA
*
5104022 TAATTTTAAAAAATTAAA
1 TAATTTAAAAAAATTAAA
5104040 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTTAAAAAAATTAAAAA
Found at i:5105814 original size:15 final size:15
Alignment explanation
Indices: 5105778--5105817 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
5105768 CCTCAGTTGG
*
5105778 CTTCTCAGCTGGCTT
1 CTTCTCGGCTGGCTT
5105793 CTTCTCGGCTGGCTT
1 CTTCTCGGCTGGCTT
*
5105808 TTTCTCGGCT
1 CTTCTCGGCT
5105818 TTTGGCGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.33, G:0.23, T:0.42
Consensus pattern (15 bp):
CTTCTCGGCTGGCTT
Found at i:5106504 original size:12 final size:13
Alignment explanation
Indices: 5106476--5106501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5106466 TTTATATATC
5106476 ATTTTAATATAAA
1 ATTTTAATATAAA
5106489 ATTTTAATATAAA
1 ATTTTAATATAAA
5106502 TTTATTATTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAATATAAA
Found at i:5109240 original size:33 final size:33
Alignment explanation
Indices: 5109203--5109283 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
5109193 TTGTACCATA
5109203 ATATCATGAGAATTTGGAAATTGTTTTATATAT
1 ATATCATGAGAATTTGGAAATTGTTTTATATAT
5109236 ATATCATGAGAATTTGGAAATTGTTTTATATAT
1 ATATCATGAGAATTTGGAAATTGTTTTATATAT
5109269 ATATCATGAGAATTT
1 ATATCATGAGAATTT
5109284 CTTTCTTTCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (33 bp):
ATATCATGAGAATTTGGAAATTGTTTTATATAT
Found at i:5111331 original size:13 final size:13
Alignment explanation
Indices: 5111308--5111346 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5111298 AAATCTAATT
*
5111308 TAAACTTAATATA
1 TAAATTTAATATA
* *
5111321 TATATTTAATATT
1 TAAATTTAATATA
5111334 TAAATTTAATATA
1 TAAATTTAATATA
5111347 AATTAAATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:5116330 original size:18 final size:17
Alignment explanation
Indices: 5116237--5116331 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 17
5116227 TATTATTTAT
5116237 TATTAT-TA-TTATGTA
1 TATTATATATTTATGTA
* *
5116252 T-TAATATATGTTATATA
1 TATTATATAT-TTATGTA
* * *
5116269 T-TTATTTATTTATTTT
1 TATTATATATTTATGTA
* *
5116285 TGTTA-ATATTTATGTG
1 TATTATATATTTATGTA
*
5116301 TATTTTATTATTTATGTA
1 TATTATA-TATTTATGTA
5116319 TATATATATATTT
1 TAT-TATATATTT
5116332 TTATCTTTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 17 0.28
17 17 0.28
18 17 0.28
19 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TATTATATATTTATGTA
Found at i:5116347 original size:15 final size:18
Alignment explanation
Indices: 5116327--5116366 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 18
5116317 TATATATATA
5116327 TATTTTTA-TC-TTTTT-
1 TATTTTTATTCATTTTTG
5116342 TA-TTTTATTCATTTTTG
1 TATTTTTATTCATTTTTG
5116359 TATTTTTA
1 TATTTTTA
5116367 CTTATCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 4 0.19
16 5 0.24
17 2 0.10
18 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (18 bp):
TATTTTTATTCATTTTTG
Found at i:5116947 original size:18 final size:18
Alignment explanation
Indices: 5116926--5116960 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5116916 ACTTCCGCGA
*
5116926 AATTTCCAGATTCCGGCG
1 AATTTCCAGAATCCGGCG
5116944 AATTTCCAGAATCCGGC
1 AATTTCCAGAATCCGGC
5116961 ACCGGTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (18 bp):
AATTTCCAGAATCCGGCG
Found at i:5117427 original size:1 final size:1
Alignment explanation
Indices: 5117371--5117410 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
5117361 TTTATTTTTT
5117371 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5117411 TAAATTTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5117496 original size:57 final size:56
Alignment explanation
Indices: 5117407--5117759 Score: 523
Period size: 57 Copynumber: 6.2 Consensus size: 56
5117397 AAAAAAAAAA
5117407 AAAATAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTT-C-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
5117465 AAAATAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
5117522 AGAAATAAATTTCCAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
1 A-AAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
5117578 AAAATAAATTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTC--AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
5117636 AGAAATAAATTTCAAAAAAAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTT
1 A-AAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
5117691 GAAAATCAAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCT
1 -AAAAT--AAA-TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
5117751 AAAAAAAAT
1 AAAATAAAT
5117760 CATTCTTTCC
Statistics
Matches: 274, Mismatches: 10, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
55 42 0.15
56 36 0.13
57 87 0.32
58 64 0.23
59 19 0.07
60 26 0.09
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (56 bp):
AAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:5117624 original size:114 final size:113
Alignment explanation
Indices: 5117408--5117748 Score: 562
Period size: 113 Copynumber: 3.0 Consensus size: 113
5117398 AAAAAAAAAA
5117408 AAATAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAA
1 AAATAAATTTCC--AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAA
*
5117473 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
63 TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
5117524 AAATAAATTTCCAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTT
1 AAATAAATTTCCAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTT
5117589 CAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
66 C-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
*
5117638 AAATAAATTT-CAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAA
1 AAATAAATTTCCAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT--AA
5117701 ATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
62 A-TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
5117749 CTAAAAAAAA
Statistics
Matches: 217, Mismatches: 2, Indels: 13
0.94 0.01 0.06
Matches are distributed among these distances:
112 7 0.03
113 75 0.35
114 74 0.34
115 42 0.19
116 15 0.07
117 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (113 bp):
AAATAAATTTCCAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTT
CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:5123014 original size:26 final size:28
Alignment explanation
Indices: 5122975--5123027 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
5122965 TAATAATAAA
5122975 ATTTATTATAATTATAATT-AAAAAAAC
1 ATTTATTATAATTATAATTGAAAAAAAC
*
5123002 ATTT-TTATAATTATGATTGAAAAAAA
1 ATTTATTATAATTATAATTGAAAAAAA
5123028 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (28 bp):
ATTTATTATAATTATAATTGAAAAAAAC
Found at i:5123377 original size:22 final size:22
Alignment explanation
Indices: 5123334--5123381 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
5123324 TTTTTTTATT
* *
5123334 GAAATTTCATATACGGATAATA
1 GAAATATCATATACGGAGAATA
* *
5123356 GAAATATCATATATGGGGAATA
1 GAAATATCATATACGGAGAATA
5123378 GAAA
1 GAAA
5123382 ATTAGAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (22 bp):
GAAATATCATATACGGAGAATA
Found at i:5126465 original size:32 final size:31
Alignment explanation
Indices: 5126418--5126495 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
5126408 TGTAGAGAAA
* *
5126418 TTGATTATAGAAAATAATTTTTATATTTTATAT
1 TTGATTTTA-AAAATAATTTTCAT-TTTTATAT
*
5126451 TTGATTTTAAAAATAATTTTCATTTTTATTT
1 TTGATTTTAAAAATAATTTTCATTTTTATAT
*
5126482 TTAATTTATAAAAA
1 TTGATTT-TAAAAA
5126496 ATATGGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.32
32 19 0.47
33 8 0.20
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (31 bp):
TTGATTTTAAAAATAATTTTCATTTTTATAT
Found at i:5126650 original size:93 final size:91
Alignment explanation
Indices: 5126533--5126706 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 91
5126523 CTATTTTAAC
* * * * *
5126533 AAAATGACAAAAATGGAATTATGAGTT-ATTCATGGACCGTAAATCAATCGGATCACCATTATAA
1 AAAATGACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATAA
*
5126597 TCATAAAAAATGTGTTTGATATATTTAG
66 CCAT-AAAAATGT-TTTGATATATTTAG
* *
5126625 AAAATGGACAAAAATGAAATTATGAGTTCATTCATGCATCATAAATCAATTGAACCACCATTATA
1 AAAAT-GACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATA
*
5126690 GCCATAAAAATGTTTTG
65 ACCATAAAAATGTTTTG
5126707 TCCATTTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
92 9 0.13
93 29 0.41
94 33 0.46
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (91 bp):
AAAATGACAAAAATGAAATTATGAGTTCATTCATGCACCATAAATCAATCGAACCACCATTATAA
CCATAAAAATGTTTTGATATATTTAG
Found at i:5126914 original size:16 final size:18
Alignment explanation
Indices: 5126893--5126925 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5126883 TTGGATTCGA
5126893 TAATTT-TTTT-ATATTT
1 TAATTTATTTTAATATTT
5126909 TAATTTATTTTAATATT
1 TAATTTATTTTAATATT
5126926 ATATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TAATTTATTTTAATATTT
Found at i:5127160 original size:21 final size:20
Alignment explanation
Indices: 5127135--5127173 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5127125 ATTCAAAATT
5127135 TAATTTAAAAAAATATAAAAA
1 TAATTTAAAAAAAT-TAAAAA
*
5127156 TAATTTTAAAAAATTAAA
1 TAATTTAAAAAAATTAAA
5127174 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTTAAAAAAATTAAAAA
Found at i:5128939 original size:15 final size:15
Alignment explanation
Indices: 5128903--5128942 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
5128893 CCTCAGTTGG
*
5128903 CTTCTCAGCTGGCTT
1 CTTCTCGGCTGGCTT
5128918 CTTCTCGGCTGGCTT
1 CTTCTCGGCTGGCTT
*
5128933 TTTCTCGGCT
1 CTTCTCGGCT
5128943 TTTGGCGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.33, G:0.23, T:0.42
Consensus pattern (15 bp):
CTTCTCGGCTGGCTT
Found at i:5129628 original size:12 final size:13
Alignment explanation
Indices: 5129600--5129625 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5129590 TTTATATATC
5129600 ATTTTAATATAAA
1 ATTTTAATATAAA
5129613 ATTTTAATATAAA
1 ATTTTAATATAAA
5129626 TTTATTATTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAATATAAA
Found at i:5130128 original size:1 final size:1
Alignment explanation
Indices: 5130122--5130155 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
5130112 TCGATATCAA
*
5130122 CCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
5130156 AACACCCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:5134443 original size:13 final size:13
Alignment explanation
Indices: 5134420--5134458 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5134410 AAATCTAATT
*
5134420 TAAACTTAATATA
1 TAAATTTAATATA
* *
5134433 TATATTTAATATT
1 TAAATTTAATATA
5134446 TAAATTTAATATA
1 TAAATTTAATATA
5134459 AATTAAATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:5139457 original size:17 final size:18
Alignment explanation
Indices: 5139435--5139476 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
5139425 TATATATATA
* *
5139435 TATTTTTA-TCTTTTTTT
1 TATTTTTATTCATTTTTG
5139452 TA-TTTTATTCATTTTTG
1 TATTTTTATTCATTTTTG
5139469 TATTTTTA
1 TATTTTTA
5139477 CTTATCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
18 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTTTTATTCATTTTTG
Found at i:5139893 original size:25 final size:24
Alignment explanation
Indices: 5139837--5139893 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
5139827 GTTCTAGGAG
*
5139837 TGAGAAAAAATTTTTAGAGATTTT
1 TGAGAAAAAATTTTTAGAAATTTT
* * *
5139861 TGGCGAAAAATTTTTCTGGAAATTTT
1 T-GAGAAAAAATTTT-TAGAAATTTT
5139887 TGAGAAA
1 TGAGAAA
5139894 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.62
26 9 0.35
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (24 bp):
TGAGAAAAAATTTTTAGAAATTTT
Done.