Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 236 of 259
Found at i:73933201 original size:21 final size:21
Alignment explanation
Indices: 73933175--73933215 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
73933165 ACTTAGAGCG
73933175 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
73933196 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
73933216 GGAGCAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:73933668 original size:42 final size:43
Alignment explanation
Indices: 73933513--73933740 Score: 257
Period size: 43 Copynumber: 5.3 Consensus size: 43
73933503 ACTGGACAAA
* *
73933513 TTAGCGGCGTTTTTTAAAAAAGCGCCGTTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* * * * *
73933556 ATAGCGGCGTTTTTTATAAAAGCCCCACTAAAAGTACATGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* * * *
73933599 ATAGCGGCGTTTTTTAAAAAAGCGCCGCAAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* *
73933642 TTAGCGGCG-TTTTTATAAAAGCGCCGCTAAAGGT-CTTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCT
* * * *
73933684 TTGGCGGCG-TTTTTATAAGAGCGCCGCTAAAGGT-CTTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCT
73933726 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
73933741 GTGGTGCTGC
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.46
43 87 0.54
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCT
Found at i:73939278 original size:21 final size:21
Alignment explanation
Indices: 73939252--73939299 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
73939242 TCAACTTAAA
73939252 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGCGGGAG
73939273 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGCGGGAG
73939294 GCGGAG
1 GCGGAG
73939300 CAGAATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.23, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGCGGGAG
Found at i:73940011 original size:19 final size:19
Alignment explanation
Indices: 73939980--73940029 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
73939970 AATCTGTTTG
73939980 TAAAATCTA-ATTTAAATA-
1 TAAAATC-ACATTTAAATAC
73939998 TATAAATCACATTTTAAATAC
1 TA-AAATCACA-TTTAAATAC
73940019 TAAAATCACAT
1 TAAAATCACAT
73940030 ATAAGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 16 0.57
21 2 0.07
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCACATTTAAATAC
Found at i:73940013 original size:20 final size:20
Alignment explanation
Indices: 73939990--73940029 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
73939980 TAAAATCTAA
73939990 TTTAAATA-TATAAATCACAT
1 TTTAAATACTA-AAATCACAT
73940010 TTTAAATACTAAAATCACAT
1 TTTAAATACTAAAATCACAT
73940030 ATAAGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAATACTAAAATCACAT
Found at i:73943715 original size:23 final size:23
Alignment explanation
Indices: 73943669--73943711 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
73943659 ATCATAATTT
*
73943669 AAAATATATATTATAAATAAATA
1 AAAATATATATTAAAAATAAATA
*
73943692 AAAATAT-TTTTAAAAATAAA
1 AAAATATATATTAAAAATAAA
73943712 ATAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATATATTAAAAATAAATA
Found at i:73943729 original size:17 final size:17
Alignment explanation
Indices: 73943685--73943730 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
73943675 TATATTATAA
*
73943685 ATAAAT-AAAAATATTT
1 ATAAATAAAAAATAATT
*
73943701 TTAAA-AATAAAATAATT
1 ATAAATAA-AAAATAATT
73943718 ATAAATAAAAAAT
1 ATAAATAAAAAAT
73943731 GTTAAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.21
17 17 0.71
18 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAAAATAATT
Found at i:73943747 original size:31 final size:33
Alignment explanation
Indices: 73943676--73943750 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
73943666 TTTAAAATAT
*
73943676 ATATTATAA--ATAAATAAAAATATTTTTAAAA
1 ATATTATAATTATAAATAAAAATATTGTTAAAA
**
73943707 ATAAAATAATTATAAATAAAAA-A-TGTTAAAA
1 ATATTATAATTATAAATAAAAATATTGTTAAAA
*
73943738 GTATTATAATTAT
1 ATATTATAATTAT
73943751 TTAAAAATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 24 0.67
32 1 0.03
33 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
ATATTATAATTATAAATAAAAATATTGTTAAAA
Found at i:73945408 original size:5 final size:6
Alignment explanation
Indices: 73945392--73945416 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
73945382 ATGATTGAAA
73945392 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
73945417 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:73949767 original size:3 final size:3
Alignment explanation
Indices: 73949759--73949786 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73949749 TTGAAAGTTA
73949759 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
73949787 GGAATTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:73958758 original size:121 final size:120
Alignment explanation
Indices: 73958625--73958868 Score: 443
Period size: 121 Copynumber: 2.0 Consensus size: 120
73958615 GCACCAATGT
73958625 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
73958690 AAGAATCAAATATTCTATAAACCAAATCCTTCCATTAGCTTAACATCAACTTTGAC
66 AAGAATC-AATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
73958746 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
73958811 AAGTATCAATATTTTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
66 AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
73958866 CTT
1 CTT
73958869 AAATGCTTAG
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 48 0.40
121 71 0.60
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (120 bp):
CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
Found at i:73962617 original size:24 final size:24
Alignment explanation
Indices: 73962590--73962641 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73962580 TTAGTAAGTC
*
73962590 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
73962614 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
73962638 AAAT
1 AAAT
73962642 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:73964587 original size:24 final size:24
Alignment explanation
Indices: 73964560--73964611 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73964550 TTAGTAAGTC
*
73964560 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
73964584 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
73964608 AAAT
1 AAAT
73964612 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:73965556 original size:21 final size:22
Alignment explanation
Indices: 73965531--73965571 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
73965521 TTTTAATATA
*
73965531 TTTTAT-ATTATAAAATTAAAT
1 TTTTATCATTAAAAAATTAAAT
*
73965552 TTTTATCCTTAAAAAATTAA
1 TTTTATCATTAAAAAATTAA
73965572 CTATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTATCATTAAAAAATTAAAT
Found at i:73966738 original size:16 final size:16
Alignment explanation
Indices: 73966717--73966760 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
73966707 TCAAAAAAAG
*
73966717 ATATTTTTAATACAAC
1 ATATTTTTAATACAAA
*
73966733 ATATTTTTTATACAAA
1 ATATTTTTAATACAAA
*
73966749 ATTTTTTTAATA
1 ATATTTTTAATA
73966761 TCAATTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTTTAATACAAA
Found at i:73984057 original size:35 final size:35
Alignment explanation
Indices: 73984011--73984080 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
73984001 TCCTCTCTCC
73984011 ATACTCACCCAACCGAACTTTGTTTTATCTTACAG
1 ATACTCACCCAACCGAACTTTGTTTTATCTTACAG
*
73984046 ATACTCACCCAACCTAACTTTGTTTTATCTTACAG
1 ATACTCACCCAACCGAACTTTGTTTTATCTTACAG
73984081 TTGTTAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (35 bp):
ATACTCACCCAACCGAACTTTGTTTTATCTTACAG
Found at i:73993051 original size:21 final size:22
Alignment explanation
Indices: 73993022--73993068 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
73993012 CAGAAGGAGT
*
73993022 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
73993044 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
73993065 GAGT
1 GAGT
73993069 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:73999760 original size:28 final size:27
Alignment explanation
Indices: 73999722--73999797 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
73999712 CTTTCTTCCT
73999722 AAATTCTTAATCTTCAATTTTCAAT-CCC
1 AAATT-TTAAT-TTCAATTTTCAATACCC
* * *
73999750 CAATTTCTAATTTTATATTTTCAATATCC
1 AAATTT-TAATTTCA-ATTTTCAATACCC
73999779 AAATTTTAATTTTCAATTT
1 AAATTTTAA-TTTCAATTT
73999798 CAAACTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.10
28 24 0.62
29 11 0.28
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTTTAATTTCAATTTTCAATACCC
Found at i:73999774 original size:21 final size:20
Alignment explanation
Indices: 73999750--73999801 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
73999740 TTTCAATCCC
*
73999750 CAATTTCTAATTTTATATTTT
1 CAATTTCAAATTTTA-ATTTT
*
73999771 CAATATCCAAATTTTAATTTT
1 CAAT-TTCAAATTTTAATTTT
73999792 CAATTTCAAA
1 CAATTTCAAA
73999802 CTTTCAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 9 0.33
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
CAATTTCAAATTTTAATTTT
Found at i:73999861 original size:15 final size:16
Alignment explanation
Indices: 73999836--73999865 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
73999826 AAATATTTTT
73999836 TTTGCATTTTATTCTC
1 TTTGCATTTTATTCTC
73999852 TTTG-ATTTTATTCT
1 TTTGCATTTTATTCT
73999866 TTTCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGCATTTTATTCTC
Found at i:74001623 original size:7 final size:7
Alignment explanation
Indices: 74001611--74001637 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
74001601 GACGTCATCA
74001611 CCTTATC
1 CCTTATC
74001618 CCTTATC
1 CCTTATC
74001625 CCTTATC
1 CCTTATC
74001632 CCTTAT
1 CCTTAT
74001638 AGGGAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
CCTTATC
Found at i:74001951 original size:362 final size:359
Alignment explanation
Indices: 74001272--74001975 Score: 1300
Period size: 362 Copynumber: 2.0 Consensus size: 359
74001262 AGGAAAACAC
*
74001272 CCCTTATAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCCTG
1 CCCTTATAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCCTA
* *
74001337 CAATCGGGATTCCCAGAATAATTTTTTTTGCCTTTATATCCCACCTTATCCCTTATATAAACACC
66 CAATCGGGATTCCCAAAATAATTTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACACC
74001402 CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGTGT
131 CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGTGT
*
74001467 TGAAATTTTAAGGTTTAAAGATTTATTTCTCTCTCGCTTTGAGGGAGACGTAGTCATAGTTTTAA
196 TGAAATTTTAAGGTTTAAAGATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTTTAA
74001532 GTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATGTGA
261 GTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATGTGA
*
74001597 ATATGACGTCATCACCTTATCCCTTATCCCTTAT
326 ATATGACATCATCACCTTATCCCTTATCCCTTAT
74001631 CCCTTATAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCCTT
1 CCCTTATAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCC-T
*
74001696 ACAATCGGGATTCCCAAAATAATTTTTTTTGCCTTTATACCCCACCTTATCTCTTATATAAACAC
65 ACAATCGGGATTCCCAAAATAATTTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACAC
*
74001761 CCTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCTTTTTGTG
130 CCTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTC-ATTT-TG
74001826 TGTTGAAATTTTAAGGTTTAAAGATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTT
193 TGTTGAAATTTTAAGGTTTAAAGATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTT
*
74001891 TAAGTTGTGATTGAATTCATAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATG
258 TAAGTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATG
*
74001956 TGAATATGGCATCATCACCT
323 TGAATATGACATCATCACCT
74001976 CAGAAACCAA
Statistics
Matches: 333, Mismatches: 9, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
359 63 0.19
360 119 0.36
361 3 0.01
362 148 0.44
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (359 bp):
CCCTTATAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCCTA
CAATCGGGATTCCCAAAATAATTTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACACC
CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGTGT
TGAAATTTTAAGGTTTAAAGATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTTTAA
GTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATGTGA
ATATGACATCATCACCTTATCCCTTATCCCTTAT
Found at i:74002060 original size:20 final size:20
Alignment explanation
Indices: 74002023--74002138 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
74002013 TATATAACAG
74002023 TTTACCAAAACTTT-TAAGGA
1 TTTACCAAAA-TTTCTAAGGA
* * *
74002043 TTTATCAAAATATCTAAGAA
1 TTTACCAAAATTTCTAAGGA
** *
74002063 TTTACCAAAATTTCTATTGT
1 TTTACCAAAATTTCTAAGGA
* * *
74002083 TTTACCAATATATCTAA-TA
1 TTTACCAAAATTTCTAAGGA
* * *
74002102 GTTTATCAAATTTTCTAAAGA
1 -TTTACCAAAATTTCTAAGGA
74002123 TTTACCAAAATTTCTA
1 TTTACCAAAATTTCTA
74002139 TCCTTTTGCC
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.03
20 69 0.96
21 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAGGA
Found at i:74002096 original size:40 final size:40
Alignment explanation
Indices: 74002043--74002138 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
74002033 CTTTTAAGGA
*
74002043 TTTATCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
* * * * * ** *
74002083 TTTACCAATATATCTAATAGTTTATCAAATTTTCTAAAGA
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
*
74002123 TTTACCAAAATTTCTA
1 TTTACCAAAATATCTA
74002139 TCCTTTTGCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
Found at i:74002172 original size:60 final size:60
Alignment explanation
Indices: 74002062--74002180 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
74002052 ATATCTAAGA
** * * *
74002062 ATTTACCAAAATTTCTATTGTTTTACCAATATATCTAATAGTTTATCAAATTTTCTAAAG
1 ATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGACTTTACCAAATTTTCTAAAG
* * *
74002122 ATTTACCAAAATTTCTATCCTTTTGCCAATACT-TTTGAGACTTTACCAAATTTTCTAAA
1 ATTTACCAAAATTTCTATCCTTTTACCAATA-TATCTAAGACTTTACCAAATTTTCTAAA
74002181 TCTTATACCA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (60 bp):
ATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGACTTTACCAAATTTTCTAAAG
Found at i:74002244 original size:20 final size:20
Alignment explanation
Indices: 74002221--74002258 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74002211 TTTCTATAAT
74002221 TTTACCAAAATATCTAACAA
1 TTTACCAAAATATCTAACAA
* *
74002241 TTTACCAATATATTTAAC
1 TTTACCAAAATATCTAAC
74002259 GATTCTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTACCAAAATATCTAACAA
Found at i:74002420 original size:20 final size:20
Alignment explanation
Indices: 74002371--74002583 Score: 78
Period size: 20 Copynumber: 10.8 Consensus size: 20
74002361 AGACCAAGTC
74002371 CTAACAA-TTACCAAAAT-T
1 CTAACAATTTACCAAAATAT
** *
74002389 CCTATGAGTTTACCAAAATAT
1 -CTAACAATTTACCAAAATAT
* *
74002410 CTAACAATTTACCAAATTTT
1 CTAACAATTTACCAAAATAT
* * * *
74002430 CTATCAATTTTATCAATATTT
1 CTAACAA-TTTACCAAAATAT
* * * * ** *
74002451 ATGAGACTTTACCACTATTT
1 CTAACAATTTACCAAAATAT
74002471 CTAA-AGATTTACCAAAATAT
1 CTAACA-ATTTACCAAAATAT
* ***
74002491 CTAACGATTTACCGGTATAT
1 CTAACAATTTACCAAAATAT
* * * ** *
74002511 TTAATAAATTA-CAATTTTT
1 CTAACAATTTACCAAAATAT
* * *
74002530 TTAA-AGTTTTACCAAAACAT
1 CTAACA-ATTTACCAAAATAT
74002550 CTAACAATTTACCAAAATAT
1 CTAACAATTTACCAAAATAT
*
74002570 CTAAC-GTTTACCAA
1 CTAACAATTTACCAA
74002584 TATTTATGAG
Statistics
Matches: 139, Mismatches: 47, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
18 1 0.01
19 24 0.17
20 100 0.72
21 14 0.10
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAACAATTTACCAAAATAT
Found at i:74002754 original size:20 final size:20
Alignment explanation
Indices: 74002660--74002754 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
74002650 GTTTTAATCA
* *
74002660 TTACCAAAATTTCTATAA-AT
1 TTACCAATATATCTA-AAGAT
* **
74002680 TTACCAAAATATCTATGGATT
1 TTACCAATATATCTAAAGA-T
* **
74002701 TTA-CAATATATCGAACTAT
1 TTACCAATATATCTAAAGAT
* *
74002720 TTCCCAATATTTCTAAAGAT
1 TTACCAATATATCTAAAGAT
74002740 TTACCAATATATCTA
1 TTACCAATATATCTA
74002755 GCGACCAAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.05
20 50 0.88
21 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (20 bp):
TTACCAATATATCTAAAGAT
Found at i:74002907 original size:20 final size:20
Alignment explanation
Indices: 74002882--74003069 Score: 166
Period size: 20 Copynumber: 9.3 Consensus size: 20
74002872 TTTCTGACTG
**
74002882 TACCAAAATTTCTAACAATT
1 TACCAAAATTTCTATGAATT
* *
74002902 TACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTATGAATT
*
74002922 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
* *
74002943 TACCAAAATTTATGTGAATT
1 TACCAAAATTTCTATGAATT
* *
74002963 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
* *
74002983 TACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTATGAATT
*
74003003 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
**
74003024 TACCAAAA-TTAAAGTGAATT
1 TACCAAAATTTCTA-TGAATT
* *
74003044 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
74003064 TACCAA
1 TACCAA
74003070 TTTTTATATG
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 98 0.74
21 33 0.25
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (20 bp):
TACCAAAATTTCTATGAATT
Found at i:74002952 original size:61 final size:58
Alignment explanation
Indices: 74002882--74003069 Score: 178
Period size: 61 Copynumber: 3.1 Consensus size: 58
74002872 TTTCTGACTG
*
74002882 TACCAAAATTTCTAACAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTT
1 TACCAAAATTTCTAACAATTTACCAAAA-TTCTATGAATTTACCAATATTTCT-ATAA-TT
* *** * * * * *
74002943 TACCAAAATTTATGTGAATTTACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTAACAATTTACCAA-AATTCTATGAATTTACCAATATTTCTAT-AATT
* * **
74003003 TACCAATATTTCTAATAACTTTACCAAAATTAAAGTGAATTTACCAATATTTCTATCAATT
1 TACCAAAATTTCTAACAA-TTTACCAAAATTCTA-TGAATTTACCAATATTTCTAT-AATT
74003064 TACCAA
1 TACCAA
74003070 TTTTTATATG
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
60 21 0.21
61 78 0.78
62 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (58 bp):
TACCAAAATTTCTAACAATTTACCAAAATTCTATGAATTTACCAATATTTCTATAATT
Found at i:74002982 original size:81 final size:81
Alignment explanation
Indices: 74002882--74003069 Score: 340
Period size: 81 Copynumber: 2.3 Consensus size: 81
74002872 TTTCTGACTG
* *
74002882 TACCAAAATTTCTAACAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
* *
74002947 AAAATTTATGTGAATT
66 AAAATTAAAGTGAATT
74002963 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
74003028 AAAATTAAAGTGAATT
66 AAAATTAAAGTGAATT
74003044 TACCAATATTTCTATCAATTTACCAA
1 TACCAATATTTCTATCAATTTACCAA
74003070 TTTTTATATG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (81 bp):
TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
AAAATTAAAGTGAATT
Found at i:74014520 original size:18 final size:18
Alignment explanation
Indices: 74014497--74014589 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
74014487 CCCAACTACT
* *
74014497 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTACC
*
74014515 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
74014533 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
*
74014551 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
74014569 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
74014587 GTA
1 GTA
74014590 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:74014555 original size:36 final size:36
Alignment explanation
Indices: 74014497--74014589 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
74014487 CCCAACTACT
* *
74014497 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
* *
74014533 GTATACGTAAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
74014569 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
74014590 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:74030833 original size:25 final size:27
Alignment explanation
Indices: 74030795--74030848 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
74030785 TATGAGATTT
*
74030795 TTTTAATATATAAAATGAA-AAATTAAA
1 TTTTAATATAT-AAATAAATAAATTAAA
74030822 TTTT-ATA-ATAAATAAATAAATTAAA
1 TTTTAATATATAAATAAATAAATTAAA
74030847 TT
1 TT
74030849 ATTTAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
25 12 0.48
26 3 0.12
27 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTTAATATATAAATAAATAAATTAAA
Found at i:74031445 original size:29 final size:29
Alignment explanation
Indices: 74031395--74031454 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
74031385 ACTTAAATTT
** *
74031395 AACTATTTTTTTTCCTTATTTGATACTTA
1 AACTATTTTTTTTCAATATTTGATACCTA
74031424 AACTATTTTTTTGTCAAT-TTTGATACCTA
1 AACTATTTTTTT-TCAATATTTGATACCTA
74031453 AA
1 AA
74031455 ATTGTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.53
Consensus pattern (29 bp):
AACTATTTTTTTTCAATATTTGATACCTA
Found at i:74032487 original size:5 final size:5
Alignment explanation
Indices: 74032477--74032503 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
74032467 TTATATGTTT
74032477 CATCC CATCC CATCC CATCC CATCC CA
1 CATCC CATCC CATCC CATCC CATCC CA
74032504 CACTACCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.59, G:0.00, T:0.19
Consensus pattern (5 bp):
CATCC
Found at i:74049915 original size:44 final size:42
Alignment explanation
Indices: 74049820--74049920 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 42
74049810 ATATATGACA
74049820 AAGAAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAG-AAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
74049864 -AG-A-AAGAAAGAAACAGAGAGCAAAACGAAAGAGAAGGAAGG
1 AAGAAGAAGAAAGAAACAGAGAGCAAAACAAAACAG-A-GAAGG
74049905 AAGAAGAAGAAAGAAA
1 AAGAAGAAGAAAGAAA
74049921 AAGAAAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
39 25 0.50
40 4 0.08
41 5 0.10
42 3 0.06
43 3 0.06
44 10 0.20
ACGTcount: A:0.65, C:0.07, G:0.28, T:0.00
Consensus pattern (42 bp):
AAGAAGAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:74050845 original size:44 final size:45
Alignment explanation
Indices: 74050750--74050870 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 45
74050740 ACAGGACAGA
* *
74050750 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
74050796 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** *
74050840 ACAGGAATAATTCATGTAAGTCCATGTTAAA
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA
74050871 GACCTGGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.58
45 1 0.02
46 26 0.41
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:74053269 original size:13 final size:13
Alignment explanation
Indices: 74053253--74053280 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74053243 CGATTTCTTC
74053253 TGGGTATTCTATA
1 TGGGTATTCTATA
74053266 TGGGTATTCTATA
1 TGGGTATTCTATA
74053279 TG
1 TG
74053281 CTCTTTTATC
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:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:74055260 original size:8 final size:8
Alignment explanation
Indices: 74055247--74055278 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
74055237 TTATGTTTTA
74055247 TATTATAT
1 TATTATAT
74055255 TATTATAT
1 TATTATAT
74055263 TATTATAT
1 TATTATAT
74055271 TATTATAT
1 TATTATAT
74055279 ATATGACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:74055348 original size:40 final size:40
Alignment explanation
Indices: 74055291--74055386 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
74055281 ATGACAAAGA
74055291 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
74055332 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
74055372 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
74055387 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:74055942 original size:29 final size:30
Alignment explanation
Indices: 74055883--74055940 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
74055873 TCCGAGCCTT
*
74055883 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
74055913 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
74055941 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:74056368 original size:44 final size:45
Alignment explanation
Indices: 74056273--74056393 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 45
74056263 ACAGGACAGA
* *
74056273 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
74056319 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** *
74056363 ACAGGAATAATTCATGTAAGTCCATGTTAAA
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA
74056394 GACCTGGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.58
45 1 0.02
46 26 0.41
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:74058802 original size:13 final size:13
Alignment explanation
Indices: 74058786--74058813 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74058776 CGATTTCTTC
74058786 TGGGTATTCTATA
1 TGGGTATTCTATA
74058799 TGGGTATTCTATA
1 TGGGTATTCTATA
74058812 TG
1 TG
74058814 CTCTTTTATC
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:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:74060795 original size:8 final size:8
Alignment explanation
Indices: 74060782--74060813 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
74060772 TTATGTTTTA
74060782 TATTATAT
1 TATTATAT
74060790 TATTATAT
1 TATTATAT
74060798 TATTATAT
1 TATTATAT
74060806 TATTATAT
1 TATTATAT
74060814 ATATGACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:74060883 original size:40 final size:41
Alignment explanation
Indices: 74060827--74060906 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 41
74060817 TGACAAAGAA
74060827 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
*
74060868 AGAAAG-AAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
74060907 AAGGAAGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.84
41 6 0.16
ACGTcount: A:0.62, C:0.10, G:0.28, T:0.00
Consensus pattern (41 bp):
AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
Found at i:74061481 original size:29 final size:30
Alignment explanation
Indices: 74061422--74061479 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
74061412 TCCGAGCCTT
*
74061422 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
74061452 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
74061480 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:74061907 original size:44 final size:45
Alignment explanation
Indices: 74061812--74061932 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 45
74061802 ACAGGACAGA
* *
74061812 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
74061858 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** *
74061902 ACAGGAATAATTCATGTAAGTCCATGTTAAA
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA
74061933 GACCTGGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.58
45 1 0.02
46 26 0.41
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:74063402 original size:18 final size:18
Alignment explanation
Indices: 74063379--74063418 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
74063369 TATAAATTTA
*
74063379 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
74063397 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
74063415 AAAA
1 AAAA
74063419 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:74063538 original size:30 final size:30
Alignment explanation
Indices: 74063502--74063562 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
74063492 CTTAACAAGC
74063502 AATGTCTCTAAAATAATAACAAAATTAACA
1 AATGTCTCTAAAATAATAACAAAATTAACA
*
74063532 AATGTCTTTAAAATAATAACAAAATTAACA
1 AATGTCTCTAAAATAATAACAAAATTAACA
74063562 A
1 A
74063563 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
AATGTCTCTAAAATAATAACAAAATTAACA
Found at i:74065339 original size:25 final size:25
Alignment explanation
Indices: 74065314--74065362 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
74065304 AAACCAATTA
*
74065314 AAAT-TTTTTTAGTTTTTAAGTTTT
1 AAATCTTTTTTAGATTTTAAGTTTT
* *
74065338 AAATCTTTTTTGGATTTTAATTTTT
1 AAATCTTTTTTAGATTTTAAGTTTT
74065363 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (25 bp):
AAATCTTTTTTAGATTTTAAGTTTT
Found at i:74065959 original size:29 final size:30
Alignment explanation
Indices: 74065910--74065977 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
74065900 GGTTTCATTT
**
74065910 CAGTCACCTAACTT-TTGAAAA-TAACAAAA
1 CAGTCA-CTAACTTATAAAAAAGTAACAAAA
*
74065939 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAAC-TTATAAAAAAGTAACAAAA
74065970 CAGTCACT
1 CAGTCACT
74065978 GACTAATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.15
29 8 0.24
30 5 0.15
31 15 0.45
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22
Consensus pattern (30 bp):
CAGTCACTAACTTATAAAAAAGTAACAAAA
Found at i:74066127 original size:5 final size:6
Alignment explanation
Indices: 74066104--74066143 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
74066094 CCTTTAATAT
* * *
74066104 AGAAGA AGAAAA AGAAAA AGAAAA ATAAAA ATAAAA AGAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAA
74066144 GCAGCAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:74069340 original size:46 final size:46
Alignment explanation
Indices: 74069273--74069573 Score: 386
Period size: 46 Copynumber: 6.7 Consensus size: 46
74069263 TGGCAACCTG
*
74069273 TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
74069319 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
74069357 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* * *
74069403 TGTGTAAGACCATGGTTGCAAGATACCATGGCAACTTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
74069449 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * * *
74069495 AGAATAATACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
74069541 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
74069574 TCACGTCAAA
Statistics
Matches: 227, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 186 0.82
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:74069359 original size:84 final size:84
Alignment explanation
Indices: 74069224--74069529 Score: 459
Period size: 84 Copynumber: 3.5 Consensus size: 84
74069214 AGTATGCTCT
74069224 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
74069289 TGAAAGATACCATGGTAAC
66 TGAAAGATACCATGGCAAC
74069308 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
74069373 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
* *
74069392 CTGATATGAAATGTGTAAGACCATGGTTGCAAGATACCATGGCAACTTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-----CT--G-TGTGTAAG
74069457 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
74069484 GTGACATGAAAAGAATAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
74069530 ATGACAGAAA
Statistics
Matches: 204, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
84 128 0.63
89 1 0.00
91 1 0.00
92 74 0.36
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:74070721 original size:31 final size:31
Alignment explanation
Indices: 74070686--74070762 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
74070676 CGTAAAGGGA
74070686 CACACGCCCGTGTATGTGGGCCGTGTGGACT
1 CACACGCCCGTGTATGTGGGCCGTGTGGACT
*
74070717 CACACGCCCGTGTAGGTGGGCCGTGTGGACT
1 CACACGCCCGTGTATGTGGGCCGTGTGGACT
74070748 CACACGCCCGTGTAT
1 CACACGCCCGTGTAT
74070763 CTTGGGGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.21
Consensus pattern (31 bp):
CACACGCCCGTGTATGTGGGCCGTGTGGACT
Found at i:74071431 original size:9 final size:10
Alignment explanation
Indices: 74071409--74071436 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
74071399 ACGTATAACC
74071409 AAAATACTCA
1 AAAATACTCA
74071419 AAAATACTCA
1 AAAATACTCA
74071429 AAAATACT
1 AAAATACT
74071437 ATACATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATACTCA
Found at i:74073600 original size:9 final size:9
Alignment explanation
Indices: 74073588--74073612 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
74073578 CTGCTACTGC
74073588 TTCTTCTTA
1 TTCTTCTTA
74073597 TTCTTCTTA
1 TTCTTCTTA
74073606 TTCTTCT
1 TTCTTCT
74073613 CTGTTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (9 bp):
TTCTTCTTA
Found at i:74073805 original size:30 final size:31
Alignment explanation
Indices: 74073739--74073807 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
74073729 ACCGTTAGTC
* * *
74073739 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGCT
*
74073770 AGTGACTGTTTTGTTA-TTTTTCA-AAAGCT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGCT
74073799 AGGTGACTG
1 A-GTGACTG
74073808 AAATGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGCT
Found at i:74079110 original size:14 final size:14
Alignment explanation
Indices: 74079091--74079130 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
74079081 TTGATTGCCA
74079091 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
74079105 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
74079119 GGAAAATGTTTT
1 GTAAAATGTTTT
74079131 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:74079139 original size:20 final size:20
Alignment explanation
Indices: 74079114--74079153 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
74079104 CGTAAAATGA
*
74079114 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
74079134 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
74079154 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:74079143 original size:34 final size:35
Alignment explanation
Indices: 74079099--74079165 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
74079089 CAGTAAAATG
*
74079099 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
74079133 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
74079166 TTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:74079799 original size:18 final size:18
Alignment explanation
Indices: 74079778--74079816 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
74079768 GTTGTATCTT
74079778 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
74079796 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
74079814 TAA
1 TAA
74079817 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:74081516 original size:19 final size:19
Alignment explanation
Indices: 74081492--74081531 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
74081482 AAACCAAATC
74081492 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
74081511 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
74081530 AA
1 AA
74081532 CGAAACCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:74084517 original size:8 final size:8
Alignment explanation
Indices: 74084504--74084532 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74084494 TTATGTTTAG
74084504 TATATTAT
1 TATATTAT
74084512 TATATTAT
1 TATATTAT
74084520 TATATTAT
1 TATATTAT
74084528 TATAT
1 TATAT
74084533 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:74085868 original size:15 final size:15
Alignment explanation
Indices: 74085848--74085904 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
74085838 CGATGAATTT
74085848 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
74085863 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
74085878 ATTGAATTTATATTG
1 ATTGAATTTATATTG
74085893 ATTGAA-TTATAT
1 ATTGAATTTATAT
74085905 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:74086306 original size:23 final size:22
Alignment explanation
Indices: 74086276--74086383 Score: 114
Period size: 21 Copynumber: 5.0 Consensus size: 22
74086266 GCTTTATCGA
* *
74086276 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTA-T
*
74086299 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACCTCATGTGTCGTAT
74086320 TCAGGCACCTCATGTGTCGTA-
1 TCAGGCACCTCATGTGTCGTAT
*
74086341 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACCTCATGTGTCGTAT
* * * *
74086362 TTAGGCACTTTATGTATCGTAT
1 TCAGGCACCTCATGTGTCGTAT
74086384 ACTGATCAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
21 54 0.74
22 1 0.01
23 18 0.25
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (22 bp):
TCAGGCACCTCATGTGTCGTAT
Found at i:74086323 original size:21 final size:21
Alignment explanation
Indices: 74086288--74086369 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
74086278 AGGCACTTTA
74086288 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
74086311 TGTGTCGTATCAGGCACCTCA
1 TGTGTCGTATCAGGCACCTCG
74086332 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
74086353 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
74086370 TTTATGTATC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 46 0.84
23 9 0.16
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:74086338 original size:44 final size:43
Alignment explanation
Indices: 74086275--74086383 Score: 157
Period size: 42 Copynumber: 2.5 Consensus size: 43
74086265 GGCTTTATCG
74086275 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGGCACCTCGTGTGTCGT
* *
74086319 ATCAGGCACCTCATGTGTCGTA-TCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
* * *
74086361 TTTAGGCACTTTATGTATCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
74086384 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 37 0.65
44 20 0.35
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
Found at i:74086569 original size:19 final size:20
Alignment explanation
Indices: 74086545--74086587 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
74086535 ATGAAACGAG
74086545 AAATTTA-AT-TGAGAATTGA
1 AAATTTAGATATGA-AATTGA
74086564 AAATTTAGATATGAAATTGA
1 AAATTTAGATATGAAATTGA
74086584 AAAT
1 AAAT
74086588 ATGAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 12 0.55
21 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (20 bp):
AAATTTAGATATGAAATTGA
Found at i:74088273 original size:26 final size:26
Alignment explanation
Indices: 74088244--74088303 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
74088234 TCCCTTTGAA
* * *
74088244 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
74088270 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
74088298 ACATTC
1 TCATTC
74088304 TCAATACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:74091215 original size:130 final size:130
Alignment explanation
Indices: 74091081--74091344 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 130
74091071 CTTTATATTC
** *
74091081 TCACTCATGTTTAAAAAAATAC-TTAAAAACGAAGACGATATTCAATGTTTAGCGATTTGAGAAT
1 TCACTCACATTTAAAAAAAT-CTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAAT
* * * * * *
74091145 CGTGTCCTATCTTGCTGGGTTGCGTTTTTTCA-TTGATTCGAAACAATTGAAGATC-CCTTCGGA
65 CGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTG-TCCAAAACAATTGAAGATCTCC-TCGGA
74091208 ATT
128 ATT
*** * * * * * *
74091211 TCACTCACATTTTCTAAAATCTTTCAAAATGAAGGCGACGTTCGATGTTTGGCGATTTGAGAATC
1 TCACTCACATTTAAAAAAATCTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAATC
* *
74091276 GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAATAATTGAATATCTCCTCGGAATT
66 GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAACAATTGAAGATCTCCTCGGAATT
74091341 TCAC
1 TCAC
74091345 ACGTGTTTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 1 0.01
130 105 0.95
131 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TCACTCACATTTAAAAAAATCTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAATC
GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAACAATTGAAGATCTCCTCGGAATT
Found at i:74102307 original size:24 final size:24
Alignment explanation
Indices: 74102274--74102354 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
74102264 ATGCTGAAGA
*
74102274 TGCTCATCTACCTTGGTTGGAAAC
1 TGCTCCTCTACCTTGGTTGGAAAC
* *
74102298 TGCTCCTCTACTTTGGTAGGAAGA-
1 TGCTCCTCTACCTTGGTTGGAA-AC
* *
74102322 TCCT-CTGCTACCTTGGTTGGAACC
1 TGCTCCT-CTACCTTGGTTGGAAAC
74102346 TGCTCCTCT
1 TGCTCCTCT
74102355 TTCTTAGTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.04
24 40 0.89
25 3 0.07
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (24 bp):
TGCTCCTCTACCTTGGTTGGAAAC
Found at i:74106809 original size:69 final size:69
Alignment explanation
Indices: 74106696--74106834 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
74106686 GATAGGAAAA
*
74106696 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
74106761 GCTG
66 GCTG
*
74106765 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
74106830 GCTG
66 GCTG
74106834 A
1 A
74106835 TAGAGTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:74113250 original size:6 final size:6
Alignment explanation
Indices: 74113239--74113273 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
74113229 TTTTTTATTC
*
74113239 TTTTTA TTTTTA TTTTTA TTTTTA TATTTTG TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTT
74113274 ATAAAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:74114035 original size:12 final size:12
Alignment explanation
Indices: 74114018--74114042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74114008 TGGAGAATAG
74114018 ATTTAAAATTTT
1 ATTTAAAATTTT
74114030 ATTTAAAATTTT
1 ATTTAAAATTTT
74114042 A
1 A
74114043 AAAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTAAAATTTT
Found at i:74116452 original size:26 final size:28
Alignment explanation
Indices: 74116416--74116475 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
74116406 AATACTTTTC
* * *
74116416 ATTTAATTTTAATATATATA-TT-TAAA
1 ATTTTATTTTAATAAAAATATTTATAAA
*
74116442 ATTTTATTTTATTAAAAATATTTATAAA
1 ATTTTATTTTAATAAAAATATTTATAAA
74116470 ATTTTA
1 ATTTTA
74116476 CAAATATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.57
27 2 0.07
28 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTTATTTTAATAAAAATATTTATAAA
Found at i:74119411 original size:19 final size:20
Alignment explanation
Indices: 74119387--74119424 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
74119377 AAAGTATTAC
74119387 TAAATT-TATCATAA-AAATA
1 TAAATTCTAT-ATAAGAAATA
74119406 TAAATTCTATATAAGAAAT
1 TAAATTCTATATAAGAAAT
74119425 CAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TAAATTCTATATAAGAAATA
Found at i:74122317 original size:6 final size:6
Alignment explanation
Indices: 74122306--74122338 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
74122296 ATTAAGAAGC
74122306 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
74122339 CAAACTTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:74126224 original size:16 final size:15
Alignment explanation
Indices: 74126197--74126230 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
74126187 ATAAGAGATA
74126197 AATAATAAATAAAAG
1 AATAATAAATAAAAG
*
74126212 AATAATCAAATAAATG
1 AATAAT-AAATAAAAG
74126228 AAT
1 AAT
74126231 TAAATTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
AATAATAAATAAAAG
Found at i:74127249 original size:25 final size:25
Alignment explanation
Indices: 74127180--74127249 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
74127170 TTACTAAAAT
* *
74127180 TAGATTTGATAACATTTTTTTAAGG
1 TAGATTTGATAATACTTTTTTAAGG
* *
74127205 TAGTTTTGGTAATACATTTTTTAAGG
1 TAGATTTGATAATAC-TTTTTTAAGG
*
74127231 TAGAGTTGATAATACTTTT
1 TAGATTTGATAATACTTTT
74127250 AATTATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (25 bp):
TAGATTTGATAATACTTTTTTAAGG
Found at i:74127953 original size:30 final size:32
Alignment explanation
Indices: 74127899--74127965 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
74127889 TTTTTTAGCT
*
74127899 AAATTTGACACTCAACATTTTGAAAAAG-GTC
1 AAATTTGACACTCAACACTTTGAAAAAGAGTC
*
74127930 GAATTTGAC-CATCAAC-CTTTGAAAAAGAGTC
1 AAATTTGACAC-TCAACACTTTGAAAAAGAGTC
74127961 AAATT
1 AAATT
74127966 GATTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (32 bp):
AAATTTGACACTCAACACTTTGAAAAAGAGTC
Found at i:74128525 original size:44 final size:46
Alignment explanation
Indices: 74128471--74128556 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
74128461 AGTCAAAACC
**
74128471 TAAATATTAGAAAAAAATT-TAATTAATAAATTTTATGTATACATT
1 TAAATATTAGAAAAAAATTATAATTAATAAAACTTATGTATACATT
74128516 TAAAT-TTAGAAAAAAATTATAATTAATAAAACTTATGTATA
1 TAAATATTAGAAAAAAATTATAATTAATAAAACTTATGTATA
74128557 TCTTTTCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 13 0.34
45 25 0.66
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (46 bp):
TAAATATTAGAAAAAAATTATAATTAATAAAACTTATGTATACATT
Found at i:74128966 original size:26 final size:24
Alignment explanation
Indices: 74128936--74128985 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
74128926 ATAGAAAAAA
*
74128936 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
74128962 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
74128986 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:74130860 original size:31 final size:33
Alignment explanation
Indices: 74130806--74130880 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
74130796 ATAGTCTATA
* *
74130806 TTTTTA-TAATTTTTAAAGAGTTAAATTA-AAT
1 TTTTTATTATTTTTTAAAGAGTTAAAATATAAT
*
74130837 TTTTTATTATTTTTTAGAG-GTTAAAATATAAT
1 TTTTTATTATTTTTTAAAGAGTTAAAATATAAT
*
74130869 TTTATCATTATT
1 TTT-TTATTATT
74130881 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 14 0.38
32 16 0.43
33 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (33 bp):
TTTTTATTATTTTTTAAAGAGTTAAAATATAAT
Found at i:74130870 original size:32 final size:31
Alignment explanation
Indices: 74130806--74130880 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
74130796 ATAGTCTATA
* *
74130806 TTTTTATAATTTTTAAAGAGTTAAATTAAAT
1 TTTTTATTATTTTTAAAGAGTTAAAATAAAT
*
74130837 TTTTTATTATTTTT-TAGAGGTTAAAATATAAT
1 TTTTTATTATTTTTAAAGA-GTTAAAATA-AAT
*
74130869 TTTATCATTATT
1 TTT-TTATTATT
74130881 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 21 0.57
32 6 0.16
33 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (31 bp):
TTTTTATTATTTTTAAAGAGTTAAAATAAAT
Found at i:74131385 original size:31 final size:34
Alignment explanation
Indices: 74131347--74131418 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
74131337 CACTTTCAAG
*
74131347 TCAAACTT-AGC-TTTATTTATTTATTT-CTTTT
1 TCAAACTTGAGCTTTTATTTATTTATTTCCATTT
*
74131378 TCAAACTTGGCGCTTTTTATTTATTTATTTCCATTT
1 TCAAACTT-GAGC-TTTTATTTATTTATTTCCATTT
74131414 TCAAA
1 TCAAA
74131419 TCAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 8 0.24
33 2 0.06
35 15 0.44
36 9 0.26
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (34 bp):
TCAAACTTGAGCTTTTATTTATTTATTTCCATTT
Found at i:74131832 original size:30 final size:30
Alignment explanation
Indices: 74131798--74131859 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
74131788 CTTAACAAGT
*
74131798 AAATGCCTCTAAAATAATAACGAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
74131828 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
74131858 AA
1 AA
74131860 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:74145353 original size:21 final size:21
Alignment explanation
Indices: 74145324--74145364 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
74145314 TGCTGGACAG
74145324 GAGCCGGAATGAGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
74145345 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
74145365 TGTTGCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:74159258 original size:91 final size:90
Alignment explanation
Indices: 74159092--74159327 Score: 222
Period size: 91 Copynumber: 2.6 Consensus size: 90
74159082 CTCCTTGGTT
* ** * * * *
74159092 TTAATGAGTTCATAGCCCAAAGTTTGGGTGGTCCTGCTAAGACGGACTTTATGAATTCATCGAAT
1 TTAATGAGTTCATAACCCAGGGTTTGGGTGGTCCTACTAAGACGGACTTGATGAACTCATCAAAT
* * *
74159157 ATATAGGATGAAACTACTAGATGCTC
66 ATATAAGATG-AACCACTAAATGCTC
* * * *
74159183 TTAATGAGTTCATAACCCAGGGTTTGGGTGGCCCTATTAAGACGAACTTGATGAAC-CTATTAAA
1 TTAATGAGTTCATAACCCAGGGTTTGGGTGGTCCTACTAAGACGGACTTGATGAACTC-ATCAAA
* * *
74159247 TTTATAAGATGAGCCACTAAATGTTC
65 TATATAAGATGAACCACTAAATGCTC
* * * * * * * *
74159273 TTAATGAATTCATATCTCAGGTTTTCGGTGGTCCTAGTGAGACGGATTTGATGAA
1 TTAATGAGTTCATAACCCAGGGTTTGGGTGGTCCTACTAAGACGGACTTGATGAA
74159328 TTCACTGAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
90 57 0.49
91 60 0.51
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (90 bp):
TTAATGAGTTCATAACCCAGGGTTTGGGTGGTCCTACTAAGACGGACTTGATGAACTCATCAAAT
ATATAAGATGAACCACTAAATGCTC
Found at i:74159339 original size:90 final size:90
Alignment explanation
Indices: 74159092--74159339 Score: 207
Period size: 90 Copynumber: 2.7 Consensus size: 90
74159082 CTCCTTGGTT
* * ** *
74159092 TTAATGAGTTCATAGCCCAAAGTTTGGGTGGTCCT-GCTAAGACGGACTTT-ATGAATTCATCGA
1 TTAATGAATTCATAACCCAGGGTTTCGGTGGTCCTAG-TAAGACGGA-TTTGATGAATTCAT-GA
* * * *
74159155 ATATATAGGATGAAACTACTAGATGCTC
63 ATTTATAAGATGAAACCACTAAATGCTC
* * * * * * * *
74159183 TTAATGAGTTCATAACCCAGGGTTTGGGTGGCCCTATTAAGACGAACTTGATGAA-CCTATTAAA
1 TTAATGAATTCATAACCCAGGGTTTCGGTGGTCCTAGTAAGACGGATTTGATGAATTC-A-TGAA
* *
74159247 TTTATAAGATG-AGCCACTAAATGTTC
64 TTTATAAGATGAAACCACTAAATGCTC
* * * *
74159273 TTAATGAATTCATATCTCAGGTTTTCGGTGGTCCTAGTGAGACGGATTTGATGAATTCACTGAAT
1 TTAATGAATTCATAACCCAGGGTTTCGGTGGTCCTAGTAAGACGGATTTGATGAATTCA-TGAAT
74159338 TT
65 TT
74159340 TTAAATTGAA
Statistics
Matches: 124, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
90 66 0.53
91 57 0.46
92 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (90 bp):
TTAATGAATTCATAACCCAGGGTTTCGGTGGTCCTAGTAAGACGGATTTGATGAATTCATGAATT
TATAAGATGAAACCACTAAATGCTC
Found at i:74164583 original size:36 final size:37
Alignment explanation
Indices: 74164536--74164608 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
74164526 GCAAGAAAAA
74164536 CAATAGAATTGGCTGCCTGTTCC-GTTTTTTTTCTTT
1 CAATAGAATTGGCTGCCTGTTCCAGTTTTTTTTCTTT
* *
74164572 CAATAGAATTGGTTGCCTGTTCCATTTTTTTTTCTTT
1 CAATAGAATTGGCTGCCTGTTCCAGTTTTTTTTCTTT
74164609 TGTCCTTCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 22 0.65
37 12 0.35
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (37 bp):
CAATAGAATTGGCTGCCTGTTCCAGTTTTTTTTCTTT
Found at i:74166630 original size:11 final size:12
Alignment explanation
Indices: 74166612--74166637 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74166602 CTTGTGTTGA
74166612 GAAAAAAAAATT
1 GAAAAAAAAATT
74166624 GAAAAAAAAATT
1 GAAAAAAAAATT
74166636 GA
1 GA
74166638 TAAATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:74169729 original size:50 final size:50
Alignment explanation
Indices: 74169605--74169853 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
74169595 GATAATAACA
* * ** * *
74169605 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
74169656 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
74169706 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
74169756 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
74169811 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
74169854 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:74169782 original size:100 final size:104
Alignment explanation
Indices: 74169604--74169853 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
74169594 TGATAATAAC
**
74169604 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
74169669 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
74169706 -TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
74169769 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
74169811 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
74169854 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:74169969 original size:13 final size:13
Alignment explanation
Indices: 74169948--74169979 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
74169938 GCTTGGATCA
*
74169948 TCATCAAATAAAT
1 TCATAAAATAAAT
74169961 TCATAAAATAAAT
1 TCATAAAATAAAT
74169974 TCATAA
1 TCATAA
74169980 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:74170227 original size:29 final size:30
Alignment explanation
Indices: 74170189--74170248 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
74170179 GCCCTCGACT
*
74170189 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
* * *
74170218 CTAAACTTTTACATATTTACATTTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
74170248 C
1 C
74170249 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
CTAAACTTTTACAAAATTACAATTTTGCCC
Found at i:74173468 original size:12 final size:12
Alignment explanation
Indices: 74173451--74173484 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
74173441 CCAGCCGGCC
74173451 TATATTAATTTT
1 TATATTAATTTT
74173463 TATATT-ATTTT
1 TATATTAATTTT
74173474 TATA-TAATTTT
1 TATATTAATTTT
74173485 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:74181991 original size:16 final size:16
Alignment explanation
Indices: 74181970--74182000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74181960 GATATTTTAA
74181970 TATATTATATTAATAT
1 TATATTATATTAATAT
*
74181986 TATATTATGTTAATA
1 TATATTATATTAATA
74182001 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:74182097 original size:12 final size:12
Alignment explanation
Indices: 74182080--74182110 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
74182070 GAAGCAGGGG
74182080 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
74182092 AGAAAAAGGGAA
1 AGAAAAAGAGAA
74182104 AGAAAAA
1 AGAAAAA
74182111 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:74182870 original size:16 final size:16
Alignment explanation
Indices: 74182815--74182868 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
74182805 ATCAAATTGA
74182815 ATTGAATAAGTGAATT
1 ATTGAATAAGTGAATT
* *
74182831 ATGGAATATGTG-ATT
1 ATTGAATAAGTGAATT
74182846 ATTTGAA-AAGTGAATT
1 A-TTGAATAAGTGAATT
74182862 GATTGAA
1 -ATTGAA
74182869 AATAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 8 0.26
16 22 0.71
17 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (16 bp):
ATTGAATAAGTGAATT
Found at i:74197855 original size:39 final size:39
Alignment explanation
Indices: 74197807--74197885 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
74197797 ATATTTAAAA
74197807 TAATTAATGGTATTATAAAAATTGACATACTAAATTATT
1 TAATTAATGGTATTATAAAAATTGACATACTAAATTATT
* *
74197846 TAATTAATGGTATTATAAAAATTGACGTACTAATTTATT
1 TAATTAATGGTATTATAAAAATTGACATACTAAATTATT
74197885 T
1 T
74197886 TAAAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (39 bp):
TAATTAATGGTATTATAAAAATTGACATACTAAATTATT
Found at i:74207514 original size:23 final size:23
Alignment explanation
Indices: 74207487--74207531 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
74207477 CGCCACTCAT
74207487 ACTTAACAGAAATAGACAAAAAA
1 ACTTAACAGAAATAGACAAAAAA
74207510 ACTTAACAGAAATAGACAAAAA
1 ACTTAACAGAAATAGACAAAAA
74207532 CAAATCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.64, C:0.13, G:0.09, T:0.13
Consensus pattern (23 bp):
ACTTAACAGAAATAGACAAAAAA
Found at i:74211105 original size:16 final size:17
Alignment explanation
Indices: 74211086--74211117 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
74211076 TATTTATTTT
74211086 TTATATTT-ATAATATA
1 TTATATTTAATAATATA
74211102 TTATATTTAATAATAT
1 TTATATTTAATAATAT
74211118 GGAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATTTAATAATATA
Found at i:74217773 original size:9 final size:9
Alignment explanation
Indices: 74217744--74217802 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
74217734 TTTAAATGAT
74217744 ATTTTTATA
1 ATTTTTATA
*
74217753 AATTTTAT-
1 ATTTTTATA
*
74217761 TTTTTTAT-
1 ATTTTTATA
74217769 A-TTTTAT-
1 ATTTTTATA
74217776 ATTTTTATA
1 ATTTTTATA
74217785 TAGTTTTTATA
1 -A-TTTTTATA
74217796 ATTTTTA
1 ATTTTTA
74217803 CATTACCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.17
8 12 0.29
9 13 0.31
10 2 0.05
11 8 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTTTATA
Found at i:74217781 original size:15 final size:15
Alignment explanation
Indices: 74217742--74217785 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
74217732 GATTTAAATG
74217742 ATATTTTTATAAATTTT
1 ATATTTTTAT--ATTTT
*
74217759 ATTTTTTTATATTTT
1 ATATTTTTATATTTT
74217774 ATATTTTTATAT
1 ATATTTTTATAT
74217786 AGTTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 16 0.64
17 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTTTTATATTTT
Found at i:74217782 original size:8 final size:8
Alignment explanation
Indices: 74217742--74217785 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
74217732 GATTTAAATG
74217742 ATATTTTT
1 ATATTTTT
*
74217750 ATAAATTTT
1 AT-ATTTTT
*
74217759 ATTTTTTT
1 ATATTTTT
74217767 ATA-TTTT
1 ATATTTTT
74217774 ATATTTTT
1 ATATTTTT
74217782 ATAT
1 ATAT
74217786 AGTTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 7 0.23
8 16 0.53
9 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATATTTTT
Found at i:74217786 original size:17 final size:17
Alignment explanation
Indices: 74217742--74217802 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 17
74217732 GATTTAAATG
*
74217742 ATATTTTTATAAATTTT
1 ATATTTTTATATATTTT
74217759 AT-TTTTT-TATATTTT
1 ATATTTTTATATATTTT
74217774 ATATTTTTATATAGTTTTT
1 ATATTTTTATATA--TTTT
74217793 ATAATTTTTA
1 AT-ATTTTTA
74217803 CATTACCGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 9 0.24
16 10 0.26
17 6 0.16
19 6 0.16
20 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATATTTTTATATATTTT
Found at i:74218034 original size:16 final size:16
Alignment explanation
Indices: 74218013--74218080 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
74218003 TTTGGTTCGC
*
74218013 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
74218029 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
*
74218045 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
74218061 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
74218077 TGTA
1 TGTA
74218081 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:74218049 original size:32 final size:32
Alignment explanation
Indices: 74218013--74218080 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
74218003 TTTGGTTCGC
74218013 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
74218045 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
74218077 TGTA
1 TGTA
74218081 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGAATAGAGG
Found at i:74218120 original size:45 final size:41
Alignment explanation
Indices: 74218061--74218170 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
74218051 GGATTAGAGG
*
74218061 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
74218103 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
74218146 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
74218171 TAATAGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:74218343 original size:14 final size:15
Alignment explanation
Indices: 74218304--74218345 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
74218294 TTTTAACATA
*
74218304 ATTATTATTAAATAT
1 ATTATAATTAAATAT
74218319 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
74218333 A-TATAATTTAATA
1 ATTATAATTAAATA
74218346 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:74218654 original size:24 final size:27
Alignment explanation
Indices: 74218603--74218655 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
74218593 TATATGTAAT
*
74218603 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
74218630 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
74218654 AT
1 AT
74218656 GCAGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:74227430 original size:14 final size:14
Alignment explanation
Indices: 74227411--74227439 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74227401 TTGTTTCTCA
74227411 CTGTCATATGCTAC
1 CTGTCATATGCTAC
74227425 CTGTCATATGCTAC
1 CTGTCATATGCTAC
74227439 C
1 C
74227440 AACATTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (14 bp):
CTGTCATATGCTAC
Found at i:74244016 original size:27 final size:27
Alignment explanation
Indices: 74243978--74244033 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
74243968 CTACCTAAAG
74243978 TTAGCAAATTCCTAATATTCAGGTTCA
1 TTAGCAAATTCCTAATATTCAGGTTCA
74244005 TTAGCAAATTCCTAATATTCAGGTTCA
1 TTAGCAAATTCCTAATATTCAGGTTCA
74244032 TT
1 TT
74244034 TACATCAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (27 bp):
TTAGCAAATTCCTAATATTCAGGTTCA
Found at i:74250477 original size:11 final size:11
Alignment explanation
Indices: 74250456--74250486 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
74250446 TTTTAGTTAT
74250456 TTGATGATGAAA
1 TTGA-GATGAAA
74250468 TTGAGATGAAA
1 TTGAGATGAAA
74250479 TTGAGATG
1 TTGAGATG
74250487 TTAATGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (11 bp):
TTGAGATGAAA
Found at i:74250806 original size:13 final size:13
Alignment explanation
Indices: 74250777--74250812 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
74250767 TTAACTTAAG
74250777 TACCCAACCC-A-
1 TACCCAACCCAAT
74250788 -ACCCAACCCAAT
1 TACCCAACCCAAT
74250800 TACCCAACCCAAT
1 TACCCAACCCAAT
74250813 CATAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
13 12 0.55
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (13 bp):
TACCCAACCCAAT
Found at i:74250876 original size:5 final size:6
Alignment explanation
Indices: 74250837--74250883 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
74250827 ACAATTTAAT
*
74250837 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
74250884 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:74250884 original size:20 final size:20
Alignment explanation
Indices: 74250837--74250877 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74250827 ACAATTTAAT
**
74250837 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
74250857 AACTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
74250877 A
1 A
74250878 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:74250921 original size:9 final size:9
Alignment explanation
Indices: 74250903--74250979 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
74250893 TTTATACAAA
74250903 TAATTCGGT
1 TAATTCGGT
*
74250912 TAATTTGGT
1 TAATTCGGT
*
74250921 TAATTCAGT
1 TAATTCGGT
* *
74250930 TAATTTGGG
1 TAATTCGGT
*
74250939 TAATTCGGG
1 TAATTCGGT
74250948 TAATTCGGT
1 TAATTCGGT
**
74250957 TAATTCAAT
1 TAATTCGGT
74250966 TAATTCGGT
1 TAATTCGGT
74250975 TAATT
1 TAATT
74250980 TTATACTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Done.