Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 5 of 27
Found at i:594014 original size:51 final size:52
Alignment explanation
Indices: 593928--594028 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 52
593918 GTCAGTCTCA
* * *
593928 AATTTTATTTGAATTTAAAAAATTAATTTAAATTTAAA-TTCAAATTTAATCT
1 AATTTAATTTGAATTTAAAAAA-TAAATTAAATTTAAATTTAAAATTTAATCT
593980 AATTTAATTT-AATTTTAAAAAA-AAATTAATATTTAAATTTAAAATTTAA
1 AATTTAATTTGAA-TTTAAAAAATAAATTAA-ATTTAAATTTAAAATTTAA
594029 ATATTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 6 0.14
51 9 0.21
52 28 0.65
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (52 bp):
AATTTAATTTGAATTTAAAAAATAAATTAAATTTAAATTTAAAATTTAATCT
Found at i:594021 original size:13 final size:14
Alignment explanation
Indices: 594004--594036 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
593994 TTAAAAAAAA
*
594004 ATTAATATTTAAAT
1 ATTAAAATTTAAAT
594018 -TTAAAATTTAAAT
1 ATTAAAATTTAAAT
594031 ATTAAA
1 ATTAAA
594037 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTAAAATTTAAAT
Found at i:594053 original size:6 final size:6
Alignment explanation
Indices: 593952--594043 Score: 66
Period size: 6 Copynumber: 15.5 Consensus size: 6
593942 TTAAAAAATT
* * *
593952 AATTTA AATTTA AATTCA AATTT- AATCT- AATTT- AATTTA ATTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
** * *
593997 AA-AAA AAATTA ATATTTA AATTTAA AATTTA AATATTA AATTAA AAT
1 AATTTA AATTTA A-ATTTA AATTT-A AATTTA AAT-TTA AATTTA AAT
594044 AATTTAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 16 0.23
6 36 0.52
7 17 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:594105 original size:14 final size:14
Alignment explanation
Indices: 594086--594130 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
594076 AAAATCAAAT
594086 AATTTAAATATTTA
1 AATTTAAATATTTA
*
594100 ATTTTAAA-ATTTA
1 AATTTAAATATTTA
594113 AATTTAAATCATTTA
1 AATTTAAAT-ATTTA
594128 AAT
1 AAT
594131 ATCAAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 7 0.26
15 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTAAATATTTA
Found at i:594141 original size:28 final size:27
Alignment explanation
Indices: 594086--594173 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
594076 AAAATCAAAT
* * *
594086 AATTTAAATATTTAATTTTAAAATTTA
1 AATTTAAATATTTAAATATAAAACTTA
*
594113 AATTTAAATCATTTAAATATCAAACTTA
1 AATTTAAAT-ATTTAAATATAAAACTTA
594141 AATTATATAA-ATTTAAAATATTCAAAACTTA
1 AATT-TA-AATATTT-AAATA-T-AAAACTTA
594172 AA
1 AA
594174 ATAATTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.18
28 22 0.44
29 7 0.14
30 3 0.06
31 9 0.18
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTTAAATATTTAAATATAAAACTTA
Found at i:594530 original size:2 final size:2
Alignment explanation
Indices: 594523--594569 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
594513 GCATTTCCTG
594523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
594565 TA TA T
1 TA TA T
594570 TATTCTGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:594735 original size:34 final size:34
Alignment explanation
Indices: 594673--594895 Score: 254
Period size: 34 Copynumber: 6.6 Consensus size: 34
594663 GACATATTAA
* * *
594673 TGTTGATTAAAT-AGTGATTTGATAGTTTATCAT
1 TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
* *
594706 TGTTGATTAAATGAGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
* * * *
594740 TGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
**
594774 TGTTGATTAAATGAGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
* * * *
594808 TATTGATTAAATGGGTGTTTTGGTGGCTTACCAT
1 TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
* * *
594842 TGTTGACTAAATG-GTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGAGT-GATTTGGTAGCTTACCAT
594876 TGTTGATTAAATG-GTGATTT
1 TGTTGATTAAATGAGTGATTT
594896 TTACCAAACC
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
33 19 0.12
34 143 0.88
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.42
Consensus pattern (34 bp):
TGTTGATTAAATGAGTGATTTGGTAGCTTACCAT
Found at i:594865 original size:102 final size:102
Alignment explanation
Indices: 594673--594888 Score: 308
Period size: 102 Copynumber: 2.1 Consensus size: 102
594663 GACATATTAA
** * * * *
594673 TGTTGATTAAAT-AGTGATTTGATAGTTTATCATTGTTGATTAAATGAGTGATTTGGTGGTTTAC
1 TGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTAC
594737 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
66 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
* * *
594774 TGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGTTTTGGTGGCTTAC
1 TGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTAC
* * * *
594839 CATTGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
66 CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
594876 TGTTGATTAAATG
1 TGTTGATTAAATG
594889 GTGATTTTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 12 0.12
102 89 0.88
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (102 bp):
TGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTAC
CATTGTTAACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:599445 original size:102 final size:101
Alignment explanation
Indices: 599301--599516 Score: 292
Period size: 102 Copynumber: 2.1 Consensus size: 101
599291 TGGGAGAATC
** * * * *
599301 GTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCCA
1 GTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCA
*
599366 TTGTTGACTAAATGAG-AGATTTGGTA-GCTTACCGTT
66 TTGTTGACTAAATG-GTAGATTTGGTATG-TTACCATT
**
599402 GTTGATTAAATGAGAAATTTGGTAGCTTATTATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 GTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
* *
599467 ATTGTTTACTAAATGGTAGATTTGGTATGTTGCCATT
65 ATTGTTGACTAAATGGTAGATTTGGTATGTTACCATT
599504 GTTGATTAAATGG
1 GTTGATTAAATGG
599517 TGGTTTTTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 14 0.14
102 86 0.85
103 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (101 bp):
GTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACCA
TTGTTGACTAAATGGTAGATTTGGTATGTTACCATT
Found at i:599517 original size:34 final size:33
Alignment explanation
Indices: 599301--599518 Score: 231
Period size: 34 Copynumber: 6.5 Consensus size: 33
599291 TGGGAGAATC
*
599301 GTTGATTAAATGGTGATTTGGTAGTTTACCATT
1 GTTGATTAAATGGTGATTTGGTAGCTTACCATT
* * *
599334 GTTGATTAAATGGGTGATTTGGTGGTTTGCCATT
1 GTTGATTAAAT-GGTGATTTGGTAGCTTACCATT
* * *
599368 GTTGACTAAATGAGAGATTTGGTAGCTTACCGTT
1 GTTGATTAAATG-GTGATTTGGTAGCTTACCATT
** **
599402 GTTGATTAAATGAGAAATTTGGTAGCTTATTATT
1 GTTGATTAAATG-GTGATTTGGTAGCTTACCATT
* *
599436 ATTGATTAAATGGGTGATTTGGTGGCTTACCATT
1 GTTGATTAAAT-GGTGATTTGGTAGCTTACCATT
* * *
599470 GTTTACTAAATGGTAGATTTGGTATG-TTGCCATT
1 GTTGATTAAATGGT-GATTTGGTA-GCTTACCATT
599504 GTTGATTAAATGGTG
1 GTTGATTAAATGGTG
599519 GTTTTTACCA
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
33 16 0.10
34 136 0.88
35 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (33 bp):
GTTGATTAAATGGTGATTTGGTAGCTTACCATT
Found at i:599990 original size:2 final size:2
Alignment explanation
Indices: 599983--600025 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
599973 ATATTTTTGC
599983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
600024 AT
1 AT
600026 TTTCTATGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:601020 original size:31 final size:31
Alignment explanation
Indices: 600984--601043 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
600974 ATTAACCGTC
* *
600984 AATCGTCAATTAAATCTAAATTAAATTTACT
1 AATCGTCAATCAAATCAAAATTAAATTTACT
* *
601015 AATCGTCAGTCAAATCAAAATTTAATTTA
1 AATCGTCAATCAAATCAAAATTAAATTTA
601044 ATTTATGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (31 bp):
AATCGTCAATCAAATCAAAATTAAATTTACT
Found at i:603193 original size:2 final size:2
Alignment explanation
Indices: 603186--603213 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
603176 AGGAATTTAC
603186 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
603214 GATAATTTTA
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:603302 original size:28 final size:27
Alignment explanation
Indices: 603253--603306 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
603243 AATTTAAGTT
**
603253 TATATATTTTTATAATTTTTTATATTG
1 TATATATTTTTATAACATTTTATATTG
*
603280 TATATATTTGTTATTACATTTTATATT
1 TATATATTT-TTATAACATTTTATATT
603307 TTATTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATATATTTTTATAACATTTTATATTG
Found at i:604984 original size:50 final size:50
Alignment explanation
Indices: 604909--605137 Score: 386
Period size: 50 Copynumber: 4.6 Consensus size: 50
604899 GCCACATTTA
*
604909 TCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCACCTCTCTCTATTG
1 TCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
* *
604959 TCAAAGGTTGGTGAAGAATCGTCAACAATAATAGCCACATCTCTCTATTG
1 TCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
*
605009 TCAAAGGTTGGTAAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
1 TCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
* *
605059 TCAAAGGTTGGTGAAGAATCGTCAACAATTACGGCCACCTCTCTCTATTG
1 TCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
* *
605109 TCAAAGGTTGGTGAAGGATAGTCAACAAT
1 TCAAAGGTTGGTGAAGAATCGTCAACAAT
605138 GGCAACAACT
Statistics
Matches: 168, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 168 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (50 bp):
TCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTATTG
Found at i:609762 original size:50 final size:50
Alignment explanation
Indices: 609531--609748 Score: 305
Period size: 50 Copynumber: 4.4 Consensus size: 50
609521 AAGGTCACAT
*
609531 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGACCATCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCATCTCTCTCTA
609581 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGATCACAT-T-TCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGA-C-CATCTCTCTCTA
* * *
609631 TTATCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCATCTCTCTCTA
* * * * * *
609681 TTATCAAAGGTTGGTGAAAAATCGTCAACAATTACGATCATCTCTCTTTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCATCTCTCTCTA
*
609731 TTGTCAAAAGTTGGTGAA
1 TTGTCAAAGGTTGGTGAA
609749 AGATAATCAA
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
48 2 0.01
49 2 0.01
50 142 0.94
51 2 0.01
52 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCATCTCTCTCTA
Found at i:610016 original size:14 final size:15
Alignment explanation
Indices: 609987--610020 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
609977 AATTTGTTAA
*
609987 TAATTTAATTTTTAT
1 TAATTTAATATTTAT
610002 TAATTT-ATATTTAT
1 TAATTTAATATTTAT
610016 TAATT
1 TAATT
610021 AAATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTAATATTTAT
Found at i:610021 original size:18 final size:16
Alignment explanation
Indices: 609976--610027 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
609966 TGAAGATTAA
609976 TAATTTGTTAA-TAATT
1 TAATTT-TTAATTAATT
609992 TAATTTTT-ATTAATT
1 TAATTTTTAATTAATT
*
610007 TATATTTATTAATTAAAT
1 TA-ATTT-TTAATTAATT
610025 TAA
1 TAA
610028 ATAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.03
15 9 0.29
16 10 0.32
17 3 0.10
18 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TAATTTTTAATTAATT
Found at i:610378 original size:22 final size:22
Alignment explanation
Indices: 610350--610393 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
610340 TTAATGTTTG
610350 TTAATTATTTATAAACATATTT
1 TTAATTATTTATAAACATATTT
**
610372 TTAATTATTTATGGACATATTT
1 TTAATTATTTATAAACATATTT
610394 AATTAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TTAATTATTTATAAACATATTT
Found at i:610535 original size:14 final size:14
Alignment explanation
Indices: 610518--610572 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
610508 AAAAATTCTT
*
610518 AACAAAAATAAATG
1 AACAAAAATAAATA
610532 AAC-AAAATAAATTTA
1 AACAAAAATAAA--TA
610547 AA-AATAAATAAATA
1 AACAA-AAATAAATA
*
610561 AACACAAATAAA
1 AACAAAAATAAA
610573 AACTTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 8 0.24
14 14 0.41
15 5 0.15
16 7 0.21
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (14 bp):
AACAAAAATAAATA
Found at i:619472 original size:15 final size:15
Alignment explanation
Indices: 619443--619486 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
619433 ATCAAATCAT
*
619443 TATTTATTTAATAAAA
1 TATTT-TTTATTAAAA
619459 TATTTTTTATTAAAAA
1 TATTTTTTATT-AAAA
619475 TATTTTTT-TTAA
1 TATTTTTTATTAA
619487 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 7 0.27
16 17 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTTTATTAAAA
Found at i:619474 original size:16 final size:15
Alignment explanation
Indices: 619455--619486 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
619445 TTTATTTAAT
619455 AAAATATTTTTTATTA
1 AAAATATTTTTT-TTA
619471 AAAATATTTTTTTTA
1 AAAATATTTTTTTTA
619486 A
1 A
619487 TATTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAAATATTTTTTTTA
Found at i:619668 original size:30 final size:30
Alignment explanation
Indices: 619634--619690 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
619624 ATTTTGATAT
*
619634 AATAAATCAAA-AATAATATAAATTTAATTA
1 AATAAATCAAATAA-AAAATAAATTTAATTA
*
619664 AATAAATTAAATAAAAAATAAATTTAA
1 AATAAATCAAATAAAAAATAAATTTAA
619691 AAATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (30 bp):
AATAAATCAAATAAAAAATAAATTTAATTA
Found at i:620256 original size:21 final size:23
Alignment explanation
Indices: 620208--620256 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
620198 TATGTATTGT
*
620208 TATTTATATTTATTTTAATATTA
1 TATTTATAATTATTTTAATATTA
620231 TATTT-TAATTATTTT-ATATTA
1 TATTTATAATTATTTTAATATTA
620252 TATTT
1 TATTT
620257 GAGTTGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.44
22 9 0.36
23 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATAATTATTTTAATATTA
Found at i:621699 original size:16 final size:15
Alignment explanation
Indices: 621673--621734 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
621663 TATGTATATT
*
621673 TTTATTAAATATTTA
1 TTTATTTAATATTTA
621688 TTATATTTAATATTTA
1 TT-TATTTAATATTTA
*
621704 TTTAATATTAA-AATTA
1 TTT-AT-TTAATATTTA
*
621720 TTTAATTAATATTTA
1 TTTATTTAATATTTA
621735 AATTATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.10
15 8 0.21
16 23 0.59
17 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATTTAATATTTA
Found at i:621705 original size:20 final size:19
Alignment explanation
Indices: 621682--621742 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
621672 TTTTATTAAA
621682 TATTTATTATATTTAATATT
1 TATTTATTATATTTAA-ATT
*
621702 TATTTA--ATA-TTAAAAT
1 TATTTATTATATTTAAATT
621718 TATTTAATTAATATTTAAA-T
1 TATTT-ATT-ATATTTAAATT
621738 TATTT
1 TATTT
621743 TTAATTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 7 0.20
17 5 0.14
18 3 0.09
20 15 0.43
21 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTATTATATTTAAATT
Found at i:621734 original size:11 final size:11
Alignment explanation
Indices: 621694--621761 Score: 54
Period size: 11 Copynumber: 6.2 Consensus size: 11
621684 TTTATTATAT
*
621694 TTAATATTTAT
1 TTAATATTTAA
621705 TTAATA-TTAA
1 TTAATATTTAA
621715 --AATTATTTAA
1 TTAA-TATTTAA
621725 TTAATATTTAAA
1 TTAATATTT-AA
*
621737 TT-ATTTTTAA
1 TTAATATTTAA
621747 TTAAATAATTTAA
1 TT-AAT-ATTTAA
621760 TT
1 TT
621762 TAACTAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 11 0.24
11 16 0.35
12 8 0.17
13 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATATTTAA
Found at i:622548 original size:17 final size:16
Alignment explanation
Indices: 622526--622584 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
622516 TCACTTGGTG
622526 TAATTATTACAGTGATT
1 TAATTATTA-AGTGATT
*
622543 TAATTATTATAGTGATA
1 TAATTATTA-AGTGATT
*
622560 AAATTATTAAGGTGATT
1 TAATTATTAA-GTGATT
*
622577 TGATTATT
1 TAATTATT
622585 GATAATTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 1 0.03
17 34 0.97
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (16 bp):
TAATTATTAAGTGATT
Found at i:623786 original size:102 final size:103
Alignment explanation
Indices: 623667--623865 Score: 278
Period size: 103 Copynumber: 1.9 Consensus size: 103
623657 ATTCATTATA
*
623667 TGTAATATAATATATTAATTTTATCTCAGCA-C-CATTAATTGAA-TTTAATATAATATATTAAT
1 TGTAATATAATATATTAATTTTATCTCA--ATCTCATTAATTGAATTTTAAAATAATATATTAAT
* *
623729 TTTATTAATGACTTTTTAAATTACATTTTAATTTATTGTG
64 TTCATTAATGACTTTTTAAATTAAATTTTAATTTATTGTG
* * *
623769 TGTAATATAATATATTAATTTTATCTCAATCTCTTTCATTGAATTTTAAAATTATATATTAATTT
1 TGTAATATAATATATTAATTTTATCTCAATCTCATTAATTGAATTTTAAAATAATATATTAATTT
* * *
623834 CATTAATTATTTTTTGAATTAAATTTTAATTT
66 CATTAATGACTTTTTAAATTAAATTTTAATTT
623866 TTTTAGTAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
100 1 0.01
101 1 0.01
102 37 0.44
103 46 0.54
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.52
Consensus pattern (103 bp):
TGTAATATAATATATTAATTTTATCTCAATCTCATTAATTGAATTTTAAAATAATATATTAATTT
CATTAATGACTTTTTAAATTAAATTTTAATTTATTGTG
Found at i:624960 original size:72 final size:72
Alignment explanation
Indices: 624884--625101 Score: 289
Period size: 72 Copynumber: 3.0 Consensus size: 72
624874 ATACATAATA
** *
624884 AATAATTATTAATTATTAAAATATATTTATATTAACTAATAAAATATAAATAAAATTATATTTAT
1 AATAATTAAAAATTATTAAATTATATTTATATTAACTAATAAAATATAAATAAAATTATATTTAT
*
624949 TTTAAAT
66 ATTAAAT
* *
624956 AATAATTAAAAATTATTAAATTGTATTTATTTTAAAC-AATAAAATATAAATAAAATTATATTTA
1 AATAATTAAAAATTATTAAATTATATTTATATT-AACTAATAAAATATAAATAAAATTATATTTA
* *
625020 TGTTGAAT
65 TATTAAAT
* *
625028 AAT-ATTAAAAATTATTATATTTATATTTATATTTAA-TAATAAAATATATATTAAAATTATATT
1 AATAATTAAAAATTATTA-AATTATATTTATA-TTAACTAATAAAATATA-AATAAAATTATATT
625091 TATATTAAAT
63 TATATTAAAT
625101 A
1 A
625102 CTATTATATT
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
71 14 0.11
72 87 0.68
73 27 0.21
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (72 bp):
AATAATTAAAAATTATTAAATTATATTTATATTAACTAATAAAATATAAATAAAATTATATTTAT
ATTAAAT
Found at i:624983 original size:37 final size:37
Alignment explanation
Indices: 624884--625109 Score: 177
Period size: 37 Copynumber: 6.3 Consensus size: 37
624874 ATACATAATA
* * * *
624884 AATAATTATTAATTATTAAAATATATTTATATTAACT
1 AATAATTATAAATTATTAAATTATATTTATTTTAAAT
*
624921 AATAAAATATAAA-TA--AAATTATATTTATTTTAAAT
1 AAT-AATTATAAATTATTAAATTATATTTATTTTAAAT
* * *
624956 AATAATTAAAAATTATTAAATTGTATTTATTTTAAAC
1 AATAATTATAAATTATTAAATTATATTTATTTTAAAT
* * *
624993 AATAAAATATAAA-TA--AAATTATATTTATGTTGAAT
1 AAT-AATTATAAATTATTAAATTATATTTATTTTAAAT
* *
625028 AAT-ATTAAAAATTATTATATTTATATTTATATTT-AAT
1 AATAATTATAAATTATTA-AATTATATTTAT-TTTAAAT
* * *
625065 AATAA-AATATA-TATTAAAATTATATTTATATTAAAT
1 AATAATTATAAATTATT-AAATTATATTTATTTTAAAT
*
625101 ACT-ATTATA
1 AATAATTATA
625110 TTAAAATATA
Statistics
Matches: 149, Mismatches: 26, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
33 6 0.04
34 9 0.06
35 44 0.30
36 24 0.16
37 49 0.33
38 17 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (37 bp):
AATAATTATAAATTATTAAATTATATTTATTTTAAAT
Found at i:626492 original size:26 final size:23
Alignment explanation
Indices: 626417--626498 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 23
626407 ATAATATATA
626417 ATTTTAATAAA-TTAATTATTTAT
1 ATTTT-ATAAATTTAATTATTTAT
*
626440 A-TTTATAAATTTAAATATTTAAAT
1 ATTTTATAAATTTAATTATTT--AT
626464 ATTTTATTAAATTTATATTATTTATT
1 ATTTTA-TAAATTTA-ATTATTTA-T
*
626490 ATTATATAA
1 ATTTTATAA
626499 TAATAATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
21 5 0.10
22 12 0.24
23 1 0.02
24 3 0.06
25 8 0.16
26 14 0.29
27 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTATAAATTTAATTATTTAT
Found at i:626511 original size:47 final size:45
Alignment explanation
Indices: 626380--626508 Score: 110
Period size: 47 Copynumber: 2.9 Consensus size: 45
626370 TAAAATATAA
* *
626380 AATAAATTT-TTTTATTTA-A-TATAT-ATAATAATATATAATTTT
1 AATAAATTTATATTATTTATATTATATAATAATAATAAAT-ATTTT
*
626422 AATAAA-TTA-ATTATTTATATT-TATAAATTTAAATATTTAAATATTTT
1 AATAAATTTATATTATTTATATTATAT-AA--T-AATA-ATAAATATTTT
*
626469 ATTAAATTTATATTATTTATTATTATATAATAATAATAAA
1 AATAAATTTATATTATTTA-TATTATATAATAATAATAAA
626509 ATAATAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
41 9 0.13
42 10 0.14
43 1 0.01
44 1 0.01
46 5 0.07
47 18 0.26
48 8 0.12
49 8 0.12
50 6 0.09
51 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (45 bp):
AATAAATTTATATTATTTATATTATATAATAATAATAAATATTTT
Found at i:627010 original size:13 final size:13
Alignment explanation
Indices: 626992--627019 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
626982 TCTTTTAAGA
626992 TTATATATATATT
1 TTATATATATATT
627005 TTATATATATATT
1 TTATATATATATT
627018 TT
1 TT
627020 TAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATATATATT
Found at i:630691 original size:22 final size:23
Alignment explanation
Indices: 630659--630701 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
630649 ATAAAATTAA
*
630659 ATTTAAGTTAA-AATTTTAAATG
1 ATTTAACTTAATAATTTTAAATG
*
630681 ATTTAACTTAATTATTTTAAA
1 ATTTAACTTAATAATTTTAAA
630702 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (23 bp):
ATTTAACTTAATAATTTTAAATG
Found at i:630701 original size:31 final size:32
Alignment explanation
Indices: 630666--630753 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 32
630656 TAAATTTAAG
* *
630666 TTAAAATTTTAAATGATTTAACTT-AATTATT
1 TTAAAATTTTAAATAATTTAAATTCAATTATT
630697 TTAAAA--TTAAATTAATTTAAATTCGAATTATT
1 TTAAAATTTTAAA-TAATTTAAATTC-AATTATT
*
630729 TT-AAATTATTAAATAAGTATAAATT
1 TTAAAATT-TTAAATAA-TTTAAATT
630754 ATTCATTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
29 5 0.11
30 9 0.19
31 9 0.19
32 9 0.19
33 3 0.06
34 12 0.26
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
TTAAAATTTTAAATAATTTAAATTCAATTATT
Found at i:630715 original size:16 final size:16
Alignment explanation
Indices: 630650--630717 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
630640 TATTGAGTTA
*
630650 TAAAATTAAATTTAAGT
1 TAAAATTAAA-TTAATT
*
630667 TAAAATTTTAAA-TGATT
1 TAAAA--TTAAATTAATT
* *
630684 T-AACTT-AATTATTT
1 TAAAATTAAATTAATT
630698 TAAAATTAAATTAATT
1 TAAAATTAAATTAATT
630714 TAAA
1 TAAA
630718 TTCGAATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
13 2 0.05
14 6 0.15
15 4 0.10
16 13 0.33
17 9 0.23
19 5 0.13
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (16 bp):
TAAAATTAAATTAATT
Found at i:638734 original size:8 final size:7
Alignment explanation
Indices: 638716--638807 Score: 66
Period size: 8 Copynumber: 12.7 Consensus size: 7
638706 TCGATGCATC
638716 ATTTTAT
1 ATTTTAT
638723 ATTTTA-
1 ATTTTAT
*
638729 ATATT-T
1 ATTTTAT
638735 -TTTTAT
1 ATTTTAT
638741 ATTTATAT
1 ATTT-TAT
638749 AAATTTTAAT
1 --ATTTT-AT
638759 ATATTTAT
1 AT-TTTAT
638767 ATATTTAT
1 AT-TTTAT
638775 ATTGTTAT
1 ATT-TTAT
*
638783 ATTTTAA
1 ATTTTAT
*
638790 ATATTAT
1 ATTTTAT
638797 A-TTTAT
1 ATTTTAT
638803 ATTTT
1 ATTTT
638808 TATCAAATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
5 3 0.04
6 10 0.14
7 22 0.32
8 24 0.35
9 4 0.06
10 6 0.09
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (7 bp):
ATTTTAT
Found at i:638810 original size:14 final size:14
Alignment explanation
Indices: 638758--638810 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
638748 TAAATTTTAA
*
638758 TATATTTATATATT
1 TATATTTTTATATT
*
638772 TATATTGTTATATT
1 TATATTTTTATATT
* *
638786 T-TAAATATTATATT
1 TAT-ATTTTTATATT
638800 TATATTTTTAT
1 TATATTTTTAT
638811 CAAATTATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TATATTTTTATATT
Found at i:638810 original size:28 final size:28
Alignment explanation
Indices: 638717--638810 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 28
638707 CGATGCATCA
*
638717 TTTTATATTTT-AATATT-TTTTTATAT
1 TTTTATATTTTAAATATTATATTTATAT
*
638743 TTATATAAATTTTAATATATTTATATATTTATAT
1 TT-T-TATATTTTAA-ATA--T-TATATTTATAT
*
638777 TGTTATATTTTAAATATTATATTTATAT
1 TTTTATATTTTAAATATTATATTTATAT
638805 TTTTAT
1 TTTTAT
638811 CAAATTATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
26 2 0.04
27 1 0.02
28 23 0.42
29 2 0.04
30 3 0.05
31 3 0.05
32 10 0.18
33 2 0.04
34 9 0.16
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTATATTTTAAATATTATATTTATAT
Found at i:639308 original size:25 final size:26
Alignment explanation
Indices: 639266--639316 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
639256 TAAAATTTTT
**
639266 ATAATAAAATTATGATTTAAATTTAA
1 ATAATAAAATTAAAATTTAAATTTAA
*
639292 ATAA-AAAATTAAAATTTAATTTTAA
1 ATAATAAAATTAAAATTTAAATTTAA
639317 GTCATGGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATAATAAAATTAAAATTTAAATTTAA
Found at i:646441 original size:20 final size:20
Alignment explanation
Indices: 646382--646451 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
646372 TAACAATTAC
*
646382 AAATT-AAAAT-TTTTTTAA
1 AAATTAAAAATATTTTATAA
**
646400 TAAATTATAAAATATCAATATAA
1 -AAATTA-AAAATAT-TTTATAA
646423 AAATTAAAAATATTTTATAA
1 AAATTAAAAATATTTTATAA
*
646443 ATATTAAAA
1 AAATTAAAA
646452 TTTAAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.12
20 13 0.32
21 12 0.29
22 7 0.17
23 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTAAAAATATTTTATAA
Found at i:646723 original size:24 final size:25
Alignment explanation
Indices: 646696--646743 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
646686 TTTACTTTTG
646696 ATATAAATAT-ATTTTAATAATTTA
1 ATATAAATATAATTTTAATAATTTA
646720 ATATAAATATAATTTTAATAATTT
1 ATATAAATATAATTTTAATAATTT
646744 TTAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATAAATATAATTTTAATAATTTA
Found at i:649997 original size:15 final size:15
Alignment explanation
Indices: 649979--650008 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
649969 TTGGATTAAA
649979 ATTTGATTTATTATT
1 ATTTGATTTATTATT
649994 ATTTGATTTATTATT
1 ATTTGATTTATTATT
650009 TATTAATATA
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:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTGATTTATTATT
Found at i:651634 original size:12 final size:11
Alignment explanation
Indices: 651615--651652 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
651605 ACTCTTATAG
651615 TAATAATTTTT
1 TAATAATTTTT
*
651626 TATATAA-TTTG
1 TA-ATAATTTTT
651637 TAATAATTTTT
1 TAATAATTTTT
651648 TAATA
1 TAATA
651653 TGAACAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
TAATAATTTTT
Found at i:652957 original size:20 final size:20
Alignment explanation
Indices: 652934--652989 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
652924 TTTTTTTTTA
652934 TTATA-ATTATATTTAAAATT
1 TTATATATTATATTT-AAATT
*
652954 TTATATATT-TATATAAATT
1 TTATATATTATATTTAAATT
652973 TTAATATATTAATATTT
1 TT-ATATATT-ATATTT
652990 TTATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.23
20 16 0.53
21 3 0.10
22 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATTATATTTAAATT
Found at i:652973 original size:26 final size:25
Alignment explanation
Indices: 652944--652999 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
652934 TTATAATTAT
*
652944 ATTTAAAATTTTATATATTTATATAA
1 ATTTAAAATATTA-ATATTTATATAA
* * *
652970 ATTTTAATATATTAATATTTTTATTA
1 A-TTTAAAATATTAATATTTATATAA
652996 ATTT
1 ATTT
653000 TAATATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 3 0.12
26 12 0.48
27 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTAAAATATTAATATTTATATAA
Found at i:653000 original size:26 final size:26
Alignment explanation
Indices: 652957--653016 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
652947 TAAAATTTTA
*
652957 TATATTTATATAAATTTTAATAT-AT
1 TATATTTTTATAAATTTTAATATAAT
*
652982 TAATATTTTTATTAATTTTAATATAAT
1 T-ATATTTTTATAAATTTTAATATAAT
653009 TATATTTT
1 TATATTTT
653017 ATTTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.03
26 27 0.87
27 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTTTTATAAATTTTAATATAAT
Found at i:653037 original size:15 final size:15
Alignment explanation
Indices: 652929--653040 Score: 62
Period size: 16 Copynumber: 7.8 Consensus size: 15
652919 TATATTTTTT
652929 TTTTATTATAATTATA
1 TTTTATTAT-ATTATA
** *
652945 -TTTAAAATTTTATA
1 TTTTATTATATTATA
652959 TATTTA-TATA--A-A
1 T-TTTATTATATTATA
*
652971 TTTTAATATATTA-A
1 TTTTATTATATTATA
*
652985 TATT-TT-TATTA-A
1 TTTTATTATATTATA
*
652997 TTTTAATATAATTATA
1 TTTTATTAT-ATTATA
*
653013 TTTTATTTATATTATT
1 TTTTA-TTATATTATA
653029 TTTTATTATATT
1 TTTTATTATATT
653041 TGTAATAGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.05
12 15 0.20
13 3 0.04
14 11 0.15
15 19 0.25
16 20 0.27
17 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATTATATTATA
Found at i:653509 original size:23 final size:19
Alignment explanation
Indices: 653487--653526 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
653477 TTCTCCTGAT
653487 TTTTACCTTCTTTTTTGTTTGA
1 TTTT-CCTT-TTTTTT-TTTGA
653509 TTTTCCTTTTTTTTTTTG
1 TTTTCCTTTTTTTTTTTG
653527 GGTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 4 0.22
22 4 0.22
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTTCCTTTTTTTTTTTGA
Found at i:653940 original size:2 final size:2
Alignment explanation
Indices: 653933--653975 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
653923 CCATGCAATA
653933 AT AT AT AT AT AT AT AT -T 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
653974 AT
1 AT
653976 TTACTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:662796 original size:21 final size:20
Alignment explanation
Indices: 662771--662837 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
662761 TAATGTATAA
662771 TAAATATAATAATTTAATATT
1 TAAAT-TAATAATTTAATATT
*
662792 TAAATTAATAAATTTAAAATT
1 TAAATTAAT-AATTTAATATT
*
662813 AAAATTAAATAATTATAATTATT
1 TAAATT-AATAATT-TAA-TATT
662836 TA
1 TA
662838 TGCAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 4 0.11
21 24 0.63
22 6 0.16
23 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAATAATTTAATATT
Found at i:662880 original size:16 final size:18
Alignment explanation
Indices: 662858--662900 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
662848 GAATATTTTT
662858 AAATATAATAAA-AA-TA
1 AAATATAATAAATAATTA
* *
662874 CAATATAAAAAATAATTA
1 AAATATAATAAATAATTA
662892 AAATATAAT
1 AAATATAAT
662901 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 9 0.43
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATATAATAAATAATTA
Found at i:662894 original size:23 final size:23
Alignment explanation
Indices: 662862--662928 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
662852 ATTTTTAAAT
*
662862 ATAATAAAAATACAATATAAAAA
1 ATAATTAAAATACAATATAAAAA
* *
662885 ATAATTAAAATATAATTTAAAAA
1 ATAATTAAAATACAATATAAAAA
*
662908 ATAA-TAAGAATACTATATAAA
1 ATAATTAA-AATACAATATAAA
662929 TATGTCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (23 bp):
ATAATTAAAATACAATATAAAAA
Found at i:662906 original size:12 final size:12
Alignment explanation
Indices: 662858--662912 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
662848 GAATATTTTT
*
662858 AAATATAA-TAA
1 AAATATAATTTA
* *
662869 AAATACAATATA
1 AAATATAATTTA
*
662881 AAAAATAA-TTA
1 AAATATAATTTA
662892 AAATATAATTTA
1 AAATATAATTTA
*
662904 AAAAATAAT
1 AAATATAAT
662913 AAGAATACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:665082 original size:15 final size:16
Alignment explanation
Indices: 665062--665097 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
665052 AAATAAGTAA
665062 ATTAA-TAAAATTTAT
1 ATTAATTAAAATTTAT
*
665077 ATTAATTAAAATTTGT
1 ATTAATTAAAATTTAT
665093 ATTAA
1 ATTAA
665098 CATGTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTAATTAAAATTTAT
Found at i:666018 original size:2 final size:2
Alignment explanation
Indices: 666011--666037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
666001 GATGTTGTTT
666011 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
666038 TTTTCAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:666152 original size:40 final size:39
Alignment explanation
Indices: 666082--666158 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
666072 ATTTTCATCC
* * * *
666082 TTTAAATTTATTTTTTTCGTCTACTGTCTTTTAAAAATAT
1 TTTAAATTTATTTATTTCATCAACTATC-TTTAAAAATAT
666122 TTTAAATTTATTTATTTCATCAA-TCATCTTTAAAAAT
1 TTTAAATTTATTTATTTCATCAACT-ATCTTTAAAAAT
666159 TTAATAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 10 0.31
40 22 0.69
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (39 bp):
TTTAAATTTATTTATTTCATCAACTATCTTTAAAAATAT
Found at i:666656 original size:2 final size:2
Alignment explanation
Indices: 666649--666689 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
666639 TCACAACTCG
666649 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
666690 GTGTGTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:667211 original size:3 final size:3
Alignment explanation
Indices: 667203--667231 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
667193 GGGCTAAGGA
667203 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
667232 AAGCACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:668527 original size:35 final size:34
Alignment explanation
Indices: 668470--668539 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 34
668460 TGCTGCTGCT
*
668470 ATATGTATGTGTATATATATATATTTACACACAC
1 ATATGTATGTATATATATATATATTTACACACAC
668504 ATATGTAGTGTATATATATATATATTTACACACAC
1 ATATGTA-TGTATATATATATATATTTACACACAC
668539 A
1 A
668540 CACTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 7 0.21
35 27 0.79
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (34 bp):
ATATGTATGTATATATATATATATTTACACACAC
Found at i:676253 original size:17 final size:17
Alignment explanation
Indices: 676231--676286 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
676221 AATTAGACTC
* *
676231 ATATTTGATATAAATAT
1 ATATTTAATAAAAATAT
676248 ATATTTAATAAAAATAT
1 ATATTTAATAAAAATAT
*
676265 -TTTTTAA-AAAAAT-T
1 ATATTTAATAAAAATAT
676279 ATATTTAA
1 ATATTTAA
676287 AATATCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 12 0.35
16 6 0.18
17 15 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATATTTAATAAAAATAT
Found at i:676287 original size:15 final size:15
Alignment explanation
Indices: 676242--676288 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
676232 TATTTGATAT
676242 AAATATATATTTAATAA
1 AAAT-TATATTTAA-AA
*
676259 AAA-TATTTTTTAAAA
1 AAATTA-TATTTAAAA
676274 AAATTATATTTAAAA
1 AAATTATATTTAAAA
676289 TATCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 15 0.58
16 8 0.31
17 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTATATTTAAAA
Found at i:676333 original size:24 final size:24
Alignment explanation
Indices: 676293--676352 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
676283 TTAAAATATC
* *
676293 ATATTATTATAATTATGTTTTAA-T
1 ATATTTTTA-AATTATGTTATAATT
676317 ATATTTTTAAATATATGTTATAATT
1 ATATTTTTAAAT-TATGTTATAATT
*
676342 ATAATTTTAAA
1 ATATTTTTAAA
676353 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 17 0.55
25 11 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (24 bp):
ATATTTTTAAATTATGTTATAATT
Found at i:676350 original size:25 final size:24
Alignment explanation
Indices: 676306--676352 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
676296 TTATTATAAT
* *
676306 TATGTTTTAATATATTTTTAAATA
1 TATGTTATAATATAATTTTAAATA
676330 TATGTTATAATTATAATTTTAAA
1 TATGTTATAA-TATAATTTTAAA
676353 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TATGTTATAATATAATTTTAAATA
Found at i:678167 original size:26 final size:26
Alignment explanation
Indices: 678137--678189 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
678127 TTTATGTTTG
678137 ATTTTTGATTTTTTCATTTTTCTTTA
1 ATTTTTGATTTTTTCATTTTTCTTTA
*
678163 ATTTTTTATTTTTTCATTTTTCTTTA
1 ATTTTTGATTTTTTCATTTTTCTTTA
678189 A
1 A
678190 CTAATTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.74
Consensus pattern (26 bp):
ATTTTTGATTTTTTCATTTTTCTTTA
Found at i:678238 original size:22 final size:23
Alignment explanation
Indices: 678201--678248 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
678191 TAATTTCATT
* * *
678201 ATAACTAATT-TTTTAAATAATA
1 ATAACTAATTAATTAAAATAAAA
678223 ATAACTAATTAATTAAAATAAAA
1 ATAACTAATTAATTAAAATAAAA
678246 ATA
1 ATA
678249 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAACTAATTAATTAAAATAAAA
Found at i:678342 original size:16 final size:16
Alignment explanation
Indices: 678321--678361 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
678311 CATGCATTTG
678321 AATTATAATATAACTT
1 AATTATAATATAACTT
* *
678337 AATTATAATTTAATTT
1 AATTATAATATAACTT
*
678353 AATAATAAT
1 AATTATAAT
678362 TAAAGATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTATAATATAACTT
Found at i:678563 original size:25 final size:26
Alignment explanation
Indices: 678514--678572 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 26
678504 TAATTATATT
*
678514 TTTTATTAAATCTTAAAAAAATAAATA
1 TTTT-TTAAATATTAAAAAAATAAATA
678541 TTTTTTAAATATT-AAAAAATAAATA
1 TTTTTTAAATATTAAAAAAATAAATA
678566 TATTTTT
1 T-TTTTT
678573 CAGATTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 13 0.43
26 13 0.43
27 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTTTTAAATATTAAAAAAATAAATA
Found at i:678579 original size:25 final size:25
Alignment explanation
Indices: 678529--678580 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
678519 TTAAATCTTA
*
678529 AAAAAATAAATATTTTTTAAATATT
1 AAAAAATAAATATTTTTTAAAGATT
*
678554 AAAAAATAAATATATTTTT-CAGATT
1 AAAAAATAAATAT-TTTTTAAAGATT
678579 AA
1 AA
678581 CGTCTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAAAATAAATATTTTTTAAAGATT
Found at i:678922 original size:23 final size:25
Alignment explanation
Indices: 678874--678923 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
678864 TAGCTCGGTT
*
678874 AAAAACTTAAAATATTTAATATAAC
1 AAAAACTTAAAATAATTAATATAAC
*
678899 AAAAA-TTTAAATAATT-ATATAAC
1 AAAAACTTAAAATAATTAATATAAC
678922 AA
1 AA
678924 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAACTTAAAATAATTAATATAAC
Found at i:678931 original size:23 final size:23
Alignment explanation
Indices: 678883--678961 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
678873 TAAAAACTTA
* *
678883 AAATATTTAATATAACAA-AAATTT
1 AAATAATT-ATATAACAATTAA-TT
678907 AAATAATTATATAACAATTAATT
1 AAATAATTATATAACAATTAATT
* *
678930 AAATATTTAAATAA-ATATATAAATT
1 AAATAATTATATAACA-AT-T-AATT
678955 AAATAAT
1 AAATAAT
678962 AATTATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 25 0.54
24 10 0.22
25 10 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATAATTATATAACAATTAATT
Found at i:678963 original size:12 final size:13
Alignment explanation
Indices: 678926--678963 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
678916 TATAACAATT
*
678926 AATTAAATATTTA
1 AATTAAATATATA
678939 AA-TAAATATATA
1 AATTAAATATATA
678951 AATTAAATA-ATA
1 AATTAAATATATA
678963 A
1 A
678964 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTAAATATATA
Found at i:679038 original size:31 final size:31
Alignment explanation
Indices: 679003--679062 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
678993 TAAAATATAT
679003 AAAAATAATTATTAAT-ATATTTTTATATTAA
1 AAAAAT-ATTATTAATAATATTTTTATATTAA
* *
679034 AAAAATATTTTTAATAATATTTTTTTATT
1 AAAAATATTATTAATAATATTTTTATATT
679063 TCATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
AAAAATATTATTAATAATATTTTTATATTAA
Found at i:679071 original size:3 final size:3
Alignment explanation
Indices: 679065--679090 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
679055 TTTTTATTTC
679065 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
679091 GATATCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:679159 original size:21 final size:21
Alignment explanation
Indices: 679135--679178 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
679125 TTAACTTCAC
*
679135 TACTAAAATATTTAATTTTAT
1 TACTAAAATAATTAATTTTAT
* *
679156 TACTATAATAATTATTTTTAT
1 TACTAAAATAATTAATTTTAT
679177 TA
1 TA
679179 TTACTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TACTAAAATAATTAATTTTAT
Found at i:679556 original size:14 final size:15
Alignment explanation
Indices: 679536--679572 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
679526 ATTATATTAA
679536 ATAATTTTAAAATTT
1 ATAATTTTAAAATTT
*
679551 -TAATTTTAATATTT
1 ATAATTTTAAAATTT
679565 ATAATTTT
1 ATAATTTT
679573 TTTTTGACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATAATTTTAAAATTT
Found at i:681812 original size:14 final size:15
Alignment explanation
Indices: 681786--681818 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
681776 TTTATTTTAT
681786 AAAT-TTAATTATAA
1 AAATATTAATTATAA
681800 AAATATTAA-TATAA
1 AAATATTAATTATAA
681814 AAATA
1 AAATA
681819 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTAATTATAA
Found at i:691982 original size:2 final size:2
Alignment explanation
Indices: 691977--692001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
691967 TATACATATA
691977 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
692002 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:693984 original size:2 final size:2
Alignment explanation
Indices: 693977--694019 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
693967 TACCTTTTAC
693977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
694019 T
1 T
694020 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:698810 original size:15 final size:16
Alignment explanation
Indices: 698792--698823 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
698782 TAATAATTTT
698792 TTTTAAAAAAA-TAAC
1 TTTTAAAAAAATTAAC
698807 TTTTAAAAAAATTAAC
1 TTTTAAAAAAATTAAC
698823 T
1 T
698824 ACTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTTAAAAAAATTAAC
Found at i:699318 original size:14 final size:14
Alignment explanation
Indices: 699281--699324 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
699271 GAATGACTAG
699281 TTAAT-TATTATTT
1 TTAATATATTATTT
* * *
699294 TTAAAAAATTATAT
1 TTAATATATTATTT
699308 TTAATATATTATTT
1 TTAATATATTATTT
699322 TTA
1 TTA
699325 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATATATTATTT
Found at i:699665 original size:15 final size:16
Alignment explanation
Indices: 699600--699669 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
699590 TTTAATTCAA
699600 TAAA-AATAATATATT
1 TAAATAATAATATATT
* *
699615 TAATATAAAAGATATTTT
1 TAA-ATAATA-ATATATT
699633 TAAA-AATAATA-A-T
1 TAAATAATAATATATT
699646 TAAATAATAAT-TATT
1 TAAATAATAATATATT
699661 TAAATAATA
1 TAAATAATA
699670 TCTATAGACA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
13 5 0.11
14 7 0.16
15 16 0.36
16 4 0.09
17 4 0.09
18 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (16 bp):
TAAATAATAATATATT
Found at i:704612 original size:19 final size:20
Alignment explanation
Indices: 704575--704614 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
704565 ATATTAGCTC
* *
704575 AATTAAAAATATTATATAAA
1 AATTAAAAATATAAAATAAA
704595 AATT-AAAATATAAAATAAA
1 AATTAAAAATATAAAATAAA
704614 A
1 A
704615 GCATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTAAAAATATAAAATAAA
Found at i:705279 original size:29 final size:28
Alignment explanation
Indices: 705241--705300 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
705231 TAAAATGTTA
*
705241 AAAAATATATATTTTATAATTAAATTTAAAT
1 AAAAATAT-TA-TTTA-AATAAAATTTAAAT
705272 AAAAATATTATTTAAATAATAATTTAAAT
1 AAAAATATTATTTAAATAA-AATTTAAAT
705301 TAAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 4 0.15
29 13 0.48
30 2 0.07
31 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAATATTATTTAAATAAAATTTAAAT
Found at i:705303 original size:17 final size:17
Alignment explanation
Indices: 705256--705317 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
705246 TATATATTTT
705256 ATAA-TTAAATTTAAATA
1 ATAATTTAAA-TTAAATA
* *
705273 AAAATATT-ATTTAAATA
1 ATAAT-TTAAATTAAATA
705290 ATAATTTAAATTAAAT-
1 ATAATTTAAATTAAATA
705306 -TAATTTAAATTA
1 ATAATTTAAATTA
705318 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
17 21 0.55
18 1 0.03
19 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATTTAAATTAAATA
Found at i:706018 original size:8 final size:9
Alignment explanation
Indices: 705970--706033 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
705960 AATAATTAAA
705970 AAAATATAT
1 AAAATATAT
705979 AAAATATAT
1 AAAATATAT
*
705988 -AAATACGAT
1 AAAATA-TAT
705997 ATAAATATAT
1 A-AAATATAT
*
706007 AAAAATATAA
1 -AAAATATAT
706017 AAAATTTATAT
1 AAAA--TATAT
706028 AAAATA
1 AAAATA
706034 AATTATTAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 5 0.11
9 17 0.38
10 9 0.20
11 14 0.31
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:706370 original size:32 final size:28
Alignment explanation
Indices: 706339--706424 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 28
706329 ACTTATATAT
706339 TATTTAT-ATATTTTATTATATTATAATTA
1 TATTTATAATATTTTA-TAT-TTATAATTA
706368 TATTTATAATATTTTATATTTAT-A-TA
1 TATTTATAATATTTTATATTTATAATTA
* *
706394 AATTT-TAATATATTAATAATTTAT-ATTA
1 TATTTATAATAT-TTTAT-ATTTATAATTA
706422 TAT
1 TAT
706425 AAATTTTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
25 6 0.12
26 10 0.20
27 8 0.16
28 8 0.16
29 10 0.20
30 8 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTTATAATATTTTATATTTATAATTA
Found at i:706438 original size:16 final size:17
Alignment explanation
Indices: 706334--706432 Score: 79
Period size: 16 Copynumber: 6.1 Consensus size: 17
706324 TATGTACTTA
*
706334 TATATTAT-TTATATATT
1 TATATTATATAATAT-TT
* *
706351 T-TATTATATTATA-AT
1 TATATTATATAATATTT
706366 TATATT-TATAATATTT
1 TATATTATATAATATTT
706382 TATATTTATATAA-ATTT
1 TATA-TTATATAATATTT
*
706399 TA-A-TATATTAATAATT
1 TATATTATA-TAATATTT
706415 TATATTATATAA-ATTT
1 TATATTATATAATATTT
706431 TA
1 TA
706433 AGTTATTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.06
15 11 0.16
16 26 0.38
17 18 0.26
18 9 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATATAATATTT
Found at i:706505 original size:8 final size:9
Alignment explanation
Indices: 706483--706512 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
706473 ATGACATTAA
706483 ATTTTTATT
1 ATTTTTATT
706492 ATTTTTATT
1 ATTTTTATT
*
706501 ATTTTTAAT
1 ATTTTTATT
706510 ATT
1 ATT
706513 ATCAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
ATTTTTATT
Found at i:706642 original size:25 final size:24
Alignment explanation
Indices: 706584--706642 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
706574 TATATTATAA
* **
706584 ATATAATATAATATTTTAAATATT
1 ATATTATATAATATAATAAATATT
706608 A-ATTAAATATAATATAATAATATATT
1 ATATT--ATATAATATAATAA-ATATT
706634 ATATTATAT
1 ATATTATAT
706643 TTTTTGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 2 0.07
24 1 0.04
25 16 0.57
26 6 0.21
27 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTATATAATATAATAAATATT
Found at i:708661 original size:12 final size:12
Alignment explanation
Indices: 708640--708677 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
708630 TTTTATATTA
708640 ATATTT-AATAT
1 ATATTTAAATAT
708651 ATATTTAAATAT
1 ATATTTAAATAT
*
708663 AAATTTAAATAT
1 ATATTTAAATAT
708675 ATA
1 ATA
708678 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAAATAT
Found at i:709213 original size:9 final size:10
Alignment explanation
Indices: 709190--709215 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
709180 TTATTAAGAT
709190 TTTTTAATTA
1 TTTTTAATTA
709200 TTTTTAATTA
1 TTTTTAATTA
709210 TTTTTA
1 TTTTTA
709216 TTCTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTAATTA
Found at i:709729 original size:15 final size:15
Alignment explanation
Indices: 709706--709762 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
709696 TCATATCACC
*
709706 TATATTTATTATTAT
1 TATAATTATTATTAT
*
709721 TATAATTATTA-TAA
1 TATAATTATTATTAT
709735 TATAATTAATTAATTAAT
1 TATAATT-ATT-ATT-AT
709753 ATATAATTAT
1 -TATAATTAT
709763 AAACAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 9 0.26
15 13 0.38
16 1 0.03
17 1 0.03
18 3 0.09
19 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATAATTATTATTAT
Found at i:709795 original size:12 final size:12
Alignment explanation
Indices: 709778--709825 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
709768 AAAATTTTAC
709778 AAATAAAATATA
1 AAATAAAATATA
*
709790 AAAT-AAATTTAA
1 AAATAAAATAT-A
*
709802 AAATAAATAAATA
1 AAATAAA-ATATA
709815 AAATAAAATAT
1 AAATAAAATAT
709826 TTATTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 12 0.41
13 10 0.34
14 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAAAATATA
Found at i:709797 original size:25 final size:25
Alignment explanation
Indices: 709773--709821 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
709763 AAACAAAAAT
*
709773 TTTACAAATAAA-ATATAAAATAAA
1 TTTAAAAATAAATATATAAAATAAA
*
709797 TTTAAAAATAAATAAATAAAATAAA
1 TTTAAAAATAAATATATAAAATAAA
709822 ATATTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
TTTAAAAATAAATATATAAAATAAA
Found at i:710210 original size:14 final size:13
Alignment explanation
Indices: 710176--710213 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
710166 TTAAATTTTT
710176 AATAAATATAA-A
1 AATAAATATAATA
710188 AAT-AATATAATA
1 AATAAATATAATA
710200 AATAAATTATAATA
1 AATAAA-TATAATA
710214 TATTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 7 0.30
13 2 0.09
14 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATATAATA
Found at i:710213 original size:19 final size:19
Alignment explanation
Indices: 710175--710226 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
710165 GTTAAATTTT
*
710175 TAATAAATATAAAAATAATA
1 TAATAAATA-AATAATAATA
*
710195 TAATAAATAAATTATAATA
1 TAATAAATAAATAATAATA
* *
710214 TATTTAATAAATA
1 TAATAAATAAATA
710227 TATTATATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATAAATAAATAATAATA
Found at i:710226 original size:35 final size:35
Alignment explanation
Indices: 710187--710258 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
710177 ATAAATATAA
710187 AAATAATATAATAAATAA-ATTATAATATATTTAAT
1 AAAT-ATATAATAAATAACATTATAATATATTTAAT
* ** * *
710222 AAATATATTATATCTAACATTTTAATTTATTTAAT
1 AAATATATAATAAATAACATTATAATATATTTAAT
710257 AA
1 AA
710259 TTTATATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 10 0.32
35 21 0.68
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (35 bp):
AAATATATAATAAATAACATTATAATATATTTAAT
Found at i:710267 original size:18 final size:18
Alignment explanation
Indices: 710200--710269 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
710190 TAATATAATA
* *
710200 AATAAATTATAATATATTT
1 AATAATTTAT-ATTTATTT
* *
710219 AATAA-ATATATTATATCT
1 AATAATTTATATT-TATTT
* *
710237 AACATTTTA-ATTTATTT
1 AATAATTTATATTTATTT
710254 AATAATTTATATTTAT
1 AATAATTTATATTTAT
710270 ATTTATATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
17 13 0.33
18 19 0.49
19 7 0.18
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AATAATTTATATTTATTT
Found at i:711212 original size:22 final size:22
Alignment explanation
Indices: 711187--711251 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
711177 TTATTTTTAA
711187 ATTTTTATTATTTTAAATATAT
1 ATTTTTATTATTTTAAATATAT
*
711209 ATTTTTAATATTTT-AATAT-T
1 ATTTTTATTATTTTAAATATAT
*
711229 -TTATTATT-TTTTACAATA-AT
1 ATTTTTATTATTTTA-AATATAT
711249 ATT
1 ATT
711252 AAATATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 4 0.11
19 6 0.17
20 6 0.17
21 7 0.19
22 13 0.36
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTATTATTTTAAATATAT
Found at i:711583 original size:23 final size:22
Alignment explanation
Indices: 711557--711604 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
711547 ATAAAAATAA
711557 TAATAAATATGAAATAATATATT
1 TAATAAATATGAAAT-ATATATT
* * *
711580 TAATATATATTAAATTTATATT
1 TAATAAATATGAAATATATATT
711602 TAA
1 TAA
711605 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TAATAAATATGAAATATATATT
Found at i:719065 original size:16 final size:15
Alignment explanation
Indices: 719027--719089 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
719017 CAGTCTCGGG
*
719027 TTCGAGTTCTCTCGAA
1 TTCGAGTTCTTTCG-A
*
719043 TTTGAGTTCTTTCAGA
1 TTCGAGTTCTTTC-GA
*
719059 TTCGAGTTTTTTCGGA
1 TTCGAGTTCTTTC-GA
*
719075 TTCGAATTCTTTCGA
1 TTCGAGTTCTTTCGA
719090 GTTCAGACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 2 0.05
16 36 0.92
17 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.46
Consensus pattern (15 bp):
TTCGAGTTCTTTCGA
Found at i:719105 original size:16 final size:16
Alignment explanation
Indices: 719086--719144 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
719076 TCGAATTCTT
* *
719086 TCGAGTTCAGACTTTC
1 TCGAGTTCAAACTATC
719102 TCGAGTTCAAACTATC
1 TCGAGTTCAAACTATC
* *
719118 TCGAGTTCGAACTATT
1 TCGAGTTCAAACTATC
*
719134 TCGAATTCAAA
1 TCGAGTTCAAA
719145 TAATTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (16 bp):
TCGAGTTCAAACTATC
Found at i:719471 original size:15 final size:15
Alignment explanation
Indices: 719427--719481 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
719417 AATTTCTTTT
719427 ATTA-TTTTTTAAAA
1 ATTATTTTTTTAAAA
**
719441 A-TATAATTTTAGAAA
1 ATTATTTTTTTA-AAA
719456 ATTATTTTTTTAAAA
1 ATTATTTTTTTAAAA
719471 ATCT-TTTTTTT
1 AT-TATTTTTTT
719482 TTGAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 6 0.18
15 16 0.48
16 9 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTATTTTTTTAAAA
Found at i:719482 original size:16 final size:16
Alignment explanation
Indices: 719427--719489 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
719417 AATTTCTTTT
719427 ATTA-TTTTTTA-AAA
1 ATTATTTTTTTAGAAA
**
719441 A-TATAATTTTAGAAA
1 ATTATTTTTTTAGAAA
719456 ATTATTTTTTTA-AAA
1 ATTATTTTTTTAGAAA
* *
719471 ATCTTTTTTTTTTGAAA
1 AT-TATTTTTTTAGAAA
719488 AT
1 AT
719490 AAAGATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 2 0.05
14 6 0.16
15 9 0.24
16 16 0.42
17 5 0.13
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTATTTTTTTAGAAA
Found at i:719746 original size:24 final size:22
Alignment explanation
Indices: 719688--719759 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 22
719678 AATACTATAT
* *
719688 TAAATTAATATTAAATAGTTAAAA
1 TAAATT-ATATTATAT-TTTAAAA
*
719712 TAAATTTTATT-TATTATTAAAA
1 TAAATTATATTATATT-TTAAAA
719734 TATTAATTATATTACTATTTTAAAA
1 TA--AATTATATTA-TATTTTAAAA
719759 T
1 T
719760 TTTTAAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 10 0.26
23 4 0.10
24 14 0.36
25 7 0.18
26 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TAAATTATATTATATTTTAAAA
Found at i:720832 original size:24 final size:23
Alignment explanation
Indices: 720800--720857 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
720790 AATTTAAAAT
*
720800 ATTACTTAAAAAAATAAATATTAA
1 ATTATTTAAAAAAATAAATATT-A
** *
720824 ATTATTTAAATTAATTAATATTA
1 ATTATTTAAAAAAATAAATATTA
*
720847 ATTTTTTAAAA
1 ATTATTTAAAA
720858 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTATTTAAAAAAATAAATATTA
Found at i:722929 original size:18 final size:17
Alignment explanation
Indices: 722893--722925 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
722883 ATAAACATCA
722893 AATATAAATATATATTT
1 AATATAAATATATATTT
722910 AATATAAA-ATATATTT
1 AATATAAATATATATTT
722926 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAAATATATATTT
Found at i:722981 original size:17 final size:17
Alignment explanation
Indices: 722899--722982 Score: 53
Period size: 17 Copynumber: 4.7 Consensus size: 17
722889 ATCAAATATA
**
722899 AATATATATTTAATATAA
1 AATATATA-TTAATATTT
*
722917 AATATATTTTTAA-ATTT
1 AATATA-TATTAATATTT
** * *
722934 TTTATATATTTAAAAATT
1 AATATATA-TTAATATTT
722952 ATATATTATATTAATATTT
1 A-ATA-TATATTAATATTT
722971 AATATATATTAA
1 AATATATATTAA
722983 ATATAATTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
16 1 0.02
17 18 0.36
18 16 0.32
19 11 0.22
20 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATATATTAATATTT
Found at i:723244 original size:23 final size:23
Alignment explanation
Indices: 723217--723283 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
723207 TTGTTACATC
*
723217 TAAATAAATTTTAAATTTATATT
1 TAAATATATTTTAAATTTATATT
** *
723240 TAAATATATTTTTGATTAATATT
1 TAAATATATTTTAAATTTATATT
723263 T-AATATATTTTATAATTTATA
1 TAAATATATTTTA-AATTTATA
723284 AAAAAGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 10 0.28
23 26 0.72
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TAAATATATTTTAAATTTATATT
Found at i:723547 original size:30 final size:31
Alignment explanation
Indices: 723511--723570 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
723501 TAATTTTTAG
*
723511 TTTTAATTT-TATTCAAATAATTTTTATAAA
1 TTTTAATTTATATTCAAATAAATTTTATAAA
*
723541 TTTTAATTTATATTTAAATAAATTTTATAA
1 TTTTAATTTATATTCAAATAAATTTTATAA
723571 TTAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTAATTTATATTCAAATAAATTTTATAAA
Found at i:723569 original size:17 final size:17
Alignment explanation
Indices: 723547--723607 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
723537 TAAATTTTAA
723547 TTTATATTTAAATAAAT
1 TTTATATTTAAATAAAT
*
723564 TTTATAATTAAAT-AAT
1 TTTATATTTAAATAAAT
*
723580 TTTTTATTTAATATAAAT
1 TTTATATTTAA-ATAAAT
*
723598 ATT-TATTTAA
1 TTTATATTTAA
723608 GCGTGAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.32
17 21 0.55
18 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATATTTAAATAAAT
Found at i:723598 original size:21 final size:20
Alignment explanation
Indices: 723568--723606 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
723558 ATAAATTTTA
723568 TAATTAAATAATTT-TTTATT
1 TAATTAAAT-ATTTATTTATT
723588 TAATATAAATATTTATTTA
1 TAAT-TAAATATTTATTTA
723607 AGCGTGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTAAATATTTATTTATT
Found at i:723687 original size:2 final size:2
Alignment explanation
Indices: 723680--723707 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
723670 GTCGTTTCGC
723680 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
723708 TTCCTTCTTC
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:725788 original size:186 final size:183
Alignment explanation
Indices: 725429--725799 Score: 607
Period size: 186 Copynumber: 2.0 Consensus size: 183
725419 GGGGGGAATT
* * *
725429 GACTCGATTTGATTGAACTATTCAGTGTTTGAACCAAAGTAACCAGAGCTTTCCTCTTATGTTCT
1 GACTCGATTTGATTGAACTATTCAGTGTTTGAAACAAAGTAACCAGAGCTTTCCTCATATGTTAT
*
725494 TCTAGTCCAACCCTGCTTTTCGGCTGATTTTGGATTTTTGTTTTCATTAAATCAGTACTATGGGC
66 TCTAGTCCAACCCTACTTTTCGGCTGATTTTGGATTTTTGTTTTCATTAAATCAGTACTATGGGC
* * *
725559 CATAATGTCATATGTTGGATTCACTGTTTGTATATTAAAGGACTAGGAAAGAA
131 CAGAATGTCATATGTTGGATTCACTGTATGAATATTAAAGGACTAGGAAAGAA
*
725612 GACTCGATTTGATTGAACTATTCAGTGTTTGAAACAAAGTGACCAGAGCTTTCCTCATAGTGTTA
1 GACTCGATTTGATTGAACTATTCAGTGTTTGAAACAAAGTAACCAGAGCTTTCCTCATA-TGTTA
* *
725677 TTCTAGTCCAACTCTACTTTTCGGCTGATTTTGGATTTTTGTTTTCATTAAGTCAGAGTACTATG
65 TTCTAGTCCAACCCTACTTTTCGGCTGATTTTGGATTTTTGTTTTCATTAAATC--AGTACTATG
* *
725742 GGCCAGAATGTCATATGTTGGATTCACTGTATGAATGTTAAAGGACTGGGAAAGAA
128 GGCCAGAATGTCATATGTTGGATTCACTGTATGAATATTAAAGGACTAGGAAAGAA
725798 GA
1 GA
725800 TAACTGATTA
Statistics
Matches: 173, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
183 56 0.32
184 55 0.32
186 62 0.36
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (183 bp):
GACTCGATTTGATTGAACTATTCAGTGTTTGAAACAAAGTAACCAGAGCTTTCCTCATATGTTAT
TCTAGTCCAACCCTACTTTTCGGCTGATTTTGGATTTTTGTTTTCATTAAATCAGTACTATGGGC
CAGAATGTCATATGTTGGATTCACTGTATGAATATTAAAGGACTAGGAAAGAA
Found at i:733835 original size:13 final size:13
Alignment explanation
Indices: 733813--733837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
733803 TTAAATAGAT
733813 TGATTAAATTAAG
1 TGATTAAATTAAG
733826 TGATTAAATTAA
1 TGATTAAATTAA
733838 TTAAATCGAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TGATTAAATTAAG
Found at i:735039 original size:2 final size:2
Alignment explanation
Indices: 735032--735080 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
735022 TAAATACTAG
735032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
735074 TA TA TA T
1 TA TA TA T
735081 CGTGAATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:735261 original size:127 final size:123
Alignment explanation
Indices: 735129--735533 Score: 389
Period size: 127 Copynumber: 3.2 Consensus size: 123
735119 ATATTTATTA
* *
735129 TTATTAAAATTAATATTTATTATTATGTGCATTCACGTATGAATATTCATTATTAAATTACCTAT
1 TTATTAAAATTAATATTTATTATTATGTG--TTCA--TATAAATATTCATTATTAAATTATCTAT
** * *
735194 ATTATGAATCACCTTTCATACTGTTTTACTTTTTATCTATTTCTTTATTGTTATTGAAGTTT
62 ATTATGAATCACCTTTCATACTGTACTACTTTTTATTTATTTCTTTATTATTATTGAAGTTT
* * * * *
735256 TTATTAAAATTAATATTTAATATTATGTTTTTATATTAAA-ATTAATATTAGTACAACTATATGT
1 TTATTAAAATTAATATTTATTATTATGTGTTCATA-TAAATATT--CATTATTA-AA-T-TA---
* * * * * * * ** *
735320 TTATATATTATGAATCATCTCTCATATTGTACTACTTTATATTTATATCTTTACTAACATTGAAA
57 -TCTATATTATGAATCACCTTTCATACTGTACTACTTTTTATTTATTTCTTTATTATTATTGAAG
735385 TTT
121 TTT
* *
735388 TTATTAAAATTAATATTTATTATCATATGTGTTGATATATAAATATTCATTATTAAATTATCGAT
1 TTATTAAAATTAATATTTATTAT--TATGTGTT--CATATAAATATTCATTATTAAATTATCTAT
* * * *
735453 ATTATGAATCACCTTTTATACTGTACTACCTTTTATTTAATTCTCTATTATTATTGAAGTTT
62 ATTATGAATCACCTTTCATACTGTACTACTTTTTATTTATTTCTTTATTATTATTGAAGTTT
*
735515 TTATTAAAATCAATATTTA
1 TTATTAAAATTAATATTTA
735534 ATATCACATT
Statistics
Matches: 222, Mismatches: 41, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
123 5 0.02
124 3 0.01
125 9 0.04
126 2 0.01
127 98 0.44
128 2 0.01
131 2 0.01
132 75 0.34
133 2 0.01
134 13 0.06
135 4 0.02
136 7 0.03
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (123 bp):
TTATTAAAATTAATATTTATTATTATGTGTTCATATAAATATTCATTATTAAATTATCTATATTA
TGAATCACCTTTCATACTGTACTACTTTTTATTTATTTCTTTATTATTATTGAAGTTT
Found at i:735349 original size:247 final size:248
Alignment explanation
Indices: 735074--735558 Score: 620
Period size: 259 Copynumber: 1.9 Consensus size: 248
735064 TATATATATA
* *
735074 TATATATCGTGAATCATCTTTCATATTGTACTACTTTATATTTATA-TA-T-TT-ATTATTATTA
1 TATATATCATGAATCATCTCTCATATTGTACTACTTTATATTTATATTACTATTAATTATTATTA
* * *
735135 AAATTAATATTTATTAT-TATGTGCATTCACGTATGAATATTCATTATTAAATTACCTATATTAT
66 AAATTAATATTTATTATATATGTG--TTCACATATAAATATTCATTATTAAATTACCGATATTAT
** * * * *
735199 GAATCACCTTTCATACTGTTTTACTTTTTATCTATTTCTTTATTGTTATTGAAGTTTTTATTAAA
129 GAATCACCTTTCATACTGTACTACCTTTTATCTAATTCTCTATTATTATTGAAGTTTTTATTAAA
* * **
735264 ATTAATATTTAATATTATGTTTTTATATTAAAATTAATATTAGTACAACTATATGTT
194 ATCAATATTTAATATCA-CATTTT-TATTAAAATTAATATTAGTACAACTATATGTT
*
735321 TATATATTATGAATCATCTCTCATATTGTACTACTTTATATTTATATCTTTACTAACATTGAAAT
1 TATATATCATGAATCATCTCTCATATTGTACTACTTTATATTTATA---TTACT---ATT--AAT
* * * *
735386 TTTTATTAAAATTAATATTTATTATCATATGTGTTGATATATAAATATTCATTATTAAATTATCG
58 TATTATTAAAATTAATATTTATTAT-ATATGTGTTCACATATAAATATTCATTATTAAATTACCG
* *
735451 ATATTATGAATCACCTTTTATACTGTACTACCTTTTATTTAATTCTCTATTATTATTGAAGTTTT
122 ATATTATGAATCACCTTTCATACTGTACTACCTTTTATCTAATTCTCTATTATTATTGAAGTTTT
735516 TATTAAAATCAATATTTAATATCACATTTTTATTAAAATTAAT
187 TATTAAAATCAATATTTAATATCACATTTTTATTAAAATTAAT
735559 GTTTAATATC
Statistics
Matches: 202, Mismatches: 22, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
247 43 0.21
251 2 0.01
252 1 0.00
256 2 0.01
257 13 0.06
258 4 0.02
259 131 0.65
261 6 0.03
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.51
Consensus pattern (248 bp):
TATATATCATGAATCATCTCTCATATTGTACTACTTTATATTTATATTACTATTAATTATTATTA
AAATTAATATTTATTATATATGTGTTCACATATAAATATTCATTATTAAATTACCGATATTATGA
ATCACCTTTCATACTGTACTACCTTTTATCTAATTCTCTATTATTATTGAAGTTTTTATTAAAAT
CAATATTTAATATCACATTTTTATTAAAATTAATATTAGTACAACTATATGTT
Done.