Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 49 of 378
Found at i:12197581 original size:18 final size:19
Alignment explanation
Indices: 12197558--12197596 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
12197548 TATTGCAATT
12197558 TAATTTTGT-TTTTA-TTAC
1 TAATTTT-TCTTTTATTTAC
12197576 TAATTTTTCTTTTATTTAC
1 TAATTTTTCTTTTATTTAC
12197595 TA
1 TA
12197597 CTGGCAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 12 0.63
19 6 0.32
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (19 bp):
TAATTTTTCTTTTATTTAC
Found at i:12201118 original size:35 final size:35
Alignment explanation
Indices: 12201067--12201137 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
12201057 GCTTTTTAGG
12201067 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
*
12201102 TCATGCTGGATTTTATAGAAGATTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
12201137 T
1 T
12201138 TTCTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (35 bp):
TCATACTGGATTTTATAGAAGATTTATTAAAGATT
Found at i:12210367 original size:22 final size:21
Alignment explanation
Indices: 12210335--12210375 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12210325 TCCCCTGTTC
*
12210335 TTCTCTGTTTCTTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
12210357 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
12210376 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:12212343 original size:20 final size:21
Alignment explanation
Indices: 12212318--12212361 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
12212308 ACACCTATTA
*
12212318 TTTATTTTTA-CTTTTTTTAT
1 TTTATTTTTATCTTTATTTAT
12212338 TTTATTTTTATCTTTATTTAT
1 TTTATTTTTATCTTTATTTAT
12212359 TTT
1 TTT
12212362 TTGAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTTTTATCTTTATTTAT
Found at i:12212353 original size:12 final size:12
Alignment explanation
Indices: 12212318--12212356 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
12212308 ACACCTATTA
12212318 TTTATTTTTA-C
1 TTTATTTTTATC
12212329 -TT-TTTTTAT-
1 TTTATTTTTATC
12212338 TTTATTTTTATC
1 TTTATTTTTATC
12212350 TTTATTT
1 TTTATTT
12212357 ATTTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 7 0.29
12 7 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:12216168 original size:14 final size:13
Alignment explanation
Indices: 12216148--12216184 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
12216138 AATATTTGTC
12216148 TTGTTCTTAATTA
1 TTGTTCTTAATTA
12216161 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
12216175 TTGTT-TTAAT
1 TTGTTCTTAAT
12216185 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:12223852 original size:46 final size:46
Alignment explanation
Indices: 12223792--12224111 Score: 471
Period size: 46 Copynumber: 7.0 Consensus size: 46
12223782 TTTGACATGA
* * * * * *
12223792 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
12223838 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
12223884 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
12223930 TGCCATGGTATCTCTCAACCATGGTCTTACAAATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12223976 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* **
12224022 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATATCAGCC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12224068 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12224112 AGAGCACACT
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 246 0.98
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:12225857 original size:25 final size:24
Alignment explanation
Indices: 12225829--12225904 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
12225819 GTCTTGTTCA
12225829 TTTCATATCATGTTGCCATAGTATC
1 TTTCATATCATG-TGCCATAGTATC
* * * * *
12225854 TTTCA-ACCATG-GTCTTA-CATA
1 TTTCATATCATGTGCCATAGTATC
*
12225875 TTTCATATCATGCTGCCATGGTATC
1 TTTCATATCATG-TGCCATAGTATC
12225900 TTTCA
1 TTTCA
12225905 ACCATGGTCT
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 7 0.19
22 9 0.25
24 8 0.22
25 12 0.33
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (24 bp):
TTTCATATCATGTGCCATAGTATC
Found at i:12225977 original size:46 final size:46
Alignment explanation
Indices: 12225750--12225976 Score: 321
Period size: 46 Copynumber: 4.9 Consensus size: 46
12225740 TTTGAGATGA
* * * * * *
12225750 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGC
*** *
12225796 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGC
* *
12225842 TGCCATAGTATCTTTCAACCATGGTCTTACATATTTCATATCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGC
*
12225888 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGC
12225934 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
12225977 GAGAGCACAC
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 161 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGC
Found at i:12231033 original size:46 final size:46
Alignment explanation
Indices: 12230973--12231245 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
12230963 TTTGAGATGA
* * * * * * *
12230973 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** * *
12231019 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
12231065 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
12231111 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
12231157 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
12231202 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12231246 AGAGCACACT
Statistics
Matches: 212, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
45 49 0.23
46 163 0.77
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:12235687 original size:3 final size:3
Alignment explanation
Indices: 12235679--12235710 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12235669 ATTTTAAGAG
12235679 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12235711 AACAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12235792 original size:16 final size:16
Alignment explanation
Indices: 12235771--12235809 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
12235761 GTATAAAAAT
12235771 ATATAAAAGAGAATGC
1 ATATAAAAGAGAATGC
12235787 ATATAAAAGAGAATGC
1 ATATAAAAGAGAATGC
12235803 ATATAAA
1 ATATAAA
12235810 GGAACAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (16 bp):
ATATAAAAGAGAATGC
Found at i:12239554 original size:2 final size:2
Alignment explanation
Indices: 12239547--12239600 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
12239537 CCGCAGTTCC
12239547 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
12239589 TA TA TA T- TA TA T
1 TA TA TA TA TA TA T
12239601 TAATTTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12240422 original size:21 final size:22
Alignment explanation
Indices: 12240398--12240443 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
12240388 ATTACACACG
*
12240398 TATGTGTATAAAAAT-TATAAA
1 TATGTATATAAAAATATATAAA
*
12240419 TATGTATTTAAAAATAATATAAA
1 TATGTATATAAAAAT-ATATAAA
12240442 TA
1 TA
12240444 ATAAAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
TATGTATATAAAAATATATAAA
Found at i:12247529 original size:16 final size:16
Alignment explanation
Indices: 12247505--12247538 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12247495 ATTACATACC
12247505 ATTGAATCATTCAGTT
1 ATTGAATCATTCAGTT
*
12247521 ATTGCATCATTCAGTT
1 ATTGAATCATTCAGTT
12247537 AT
1 AT
12247539 CTTTCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (16 bp):
ATTGAATCATTCAGTT
Found at i:12254582 original size:23 final size:21
Alignment explanation
Indices: 12254525--12254583 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
12254515 AAATATTAGT
*
12254525 TTATATAAAATATTTTAATTT
1 TTATATAAAATATTTTAATTA
* *
12254546 TTCATGTAAGAATATTTTTATTAA
1 TT-ATATAA-AATATTTTAATT-A
12254570 TTATATAATAATAT
1 TTATATAA-AATAT
12254584 ATATCTGACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 21 0.70
24 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATATAAAATATTTTAATTA
Found at i:12257631 original size:36 final size:34
Alignment explanation
Indices: 12257554--12257631 Score: 79
Period size: 36 Copynumber: 2.2 Consensus size: 34
12257544 TACAAATTAT
* *
12257554 ATAATATACAACAATATTTCATGCAAATATAACTTA
1 ATAATA-ACAACAAAATTTCATGCAAATATAAC-AA
12257590 A-AATAACAACATAAATTTCCATGCAAATATATA-AA
1 ATAATAACAACA-AAATTT-CATGCAAATATA-ACAA
12257625 ATAATAA
1 ATAATAA
12257632 ATGAAATAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
34 6 0.17
35 11 0.31
36 18 0.50
37 1 0.03
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (34 bp):
ATAATAACAACAAAATTTCATGCAAATATAACAA
Found at i:12257800 original size:17 final size:18
Alignment explanation
Indices: 12257767--12257803 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12257757 AAAGATAAGA
12257767 TTAAATACAAATAAAAAT
1 TTAAATACAAATAAAAAT
12257785 TTAAA-ACAATATAAAAAT
1 TTAAATACAA-ATAAAAAT
12257803 T
1 T
12257804 ATACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAATACAAATAAAAAT
Found at i:12258035 original size:29 final size:29
Alignment explanation
Indices: 12257976--12258045 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
12257966 ACATAGTGAT
*
12257976 AAATAA-ATAATAATATAATATATAATGA
1 AAATAATATAATAATAAAATATATAATGA
* *
12258004 AAATGATATAATGAATAAAATATAT-ATTA
1 AAATAATATAAT-AATAAAATATATAATGA
12258033 AAATAATATAATA
1 AAATAATATAATA
12258046 TATATATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.17
29 19 0.53
30 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATAATATAATAATAAAATATATAATGA
Found at i:12259711 original size:31 final size:31
Alignment explanation
Indices: 12259676--12259742 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
12259666 CAAGCTCGCG
12259676 GACTCAACTCTCAAGGCAAAGCCAAGGACCT
1 GACTCAACTCTCAAGGCAAAGCCAAGGACCT
12259707 GACTCAACTCTCAAGGCAAAGCCAAGGACCT
1 GACTCAACTCTCAAGGCAAAGCCAAGGACCT
*
12259738 AACTC
1 GACTC
12259743 GTAATGCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.13
Consensus pattern (31 bp):
GACTCAACTCTCAAGGCAAAGCCAAGGACCT
Found at i:12269050 original size:16 final size:16
Alignment explanation
Indices: 12269026--12269061 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12269016 TGTTTGCATA
* *
12269026 TTCTTTTTGTGGTTTT
1 TTCTATTTGTAGTTTT
12269042 TTCTATTTGTAGTTTT
1 TTCTATTTGTAGTTTT
12269058 TTCT
1 TTCT
12269062 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.08, G:0.14, T:0.72
Consensus pattern (16 bp):
TTCTATTTGTAGTTTT
Found at i:12277622 original size:13 final size:13
Alignment explanation
Indices: 12277606--12277638 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12277596 TTTAATTAAA
*
12277606 TTAGTTAATTAGT
1 TTAGATAATTAGT
12277619 TTAGATAATTAGT
1 TTAGATAATTAGT
12277632 TTA-ATAA
1 TTAGATAA
12277639 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:12283033 original size:6 final size:6
Alignment explanation
Indices: 12283022--12283107 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
12283012 AATCCTCCTA
* * * *
12283022 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TCTTAT TCTTAT TTTATTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* * * *
12283069 ATTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
12283108 CATTTTTCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
4 4 0.06
6 54 0.83
7 4 0.06
8 3 0.05
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:12283096 original size:32 final size:34
Alignment explanation
Indices: 12283024--12283101 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
12283014 TCCTCCTATT
*
12283024 TTATTTTTATTTTTATTTATTCTTATTCTTATTC
1 TTATTTTTATTTATATTTATTCTTATTCTTATTC
* *
12283058 TTA-TTTTATTTAT-TTTATTCTTATTTTTCTT-
1 TTATTTTTATTTATATTTATTCTTATTCTTATTC
12283089 TTGATTTTTATTT
1 TT-ATTTTTATTT
12283102 TCATTTCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 2 0.05
32 17 0.44
33 17 0.44
34 3 0.08
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (34 bp):
TTATTTTTATTTATATTTATTCTTATTCTTATTC
Found at i:12283098 original size:29 final size:26
Alignment explanation
Indices: 12283020--12283117 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 26
12283010 TGAATCCTCC
*
12283020 TATT-TTATTTTTATTTTTATTTATTCT
1 TATTCTTATTTTT-CTTTTATTTATT-T
* *
12283047 TATTCTTATTCTTATTTTATTTATTT
1 TATTCTTATTTTTCTTTTATTTATTT
12283073 TATTCTTATTTTTCTTTTGATTTTTATTT
1 TATTCTTATTTTTCTTTT-A--TTTATTT
*
12283102 TCATT-TCATTTTTCTT
1 T-ATTCTTATTTTTCTT
12283118 ATTTTGAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 17 0.28
27 16 0.26
28 7 0.11
29 18 0.30
30 3 0.05
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.74
Consensus pattern (26 bp):
TATTCTTATTTTTCTTTTATTTATTT
Found at i:12286021 original size:13 final size:13
Alignment explanation
Indices: 12286005--12286037 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12285995 TTTAATTAAA
*
12286005 TTAGTTAATTAGT
1 TTAGATAATTAGT
12286018 TTAGATAATTAGT
1 TTAGATAATTAGT
12286031 TTA-ATAA
1 TTAGATAA
12286038 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:12291048 original size:14 final size:14
Alignment explanation
Indices: 12291016--12291049 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12291006 TCATAACTTA
12291016 TATTATATACATAT
1 TATTATATACATAT
* *
12291030 AATTATATACATTT
1 TATTATATACATAT
12291044 TATTAT
1 TATTAT
12291050 TATAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATACATAT
Found at i:12293006 original size:26 final size:26
Alignment explanation
Indices: 12292977--12293084 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
12292967 TAGTACAAAT
12292977 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12293003 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12293029 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12293055 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12293081 TGAT
1 TGAT
12293085 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12300042 original size:26 final size:26
Alignment explanation
Indices: 12300013--12300120 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
12300003 TGGTACAAAT
12300013 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12300039 TGATAATGGATTAGGTAAATAG-TCCA
1 TGATAATGGGTTAGGTAAAT-GTTCCA
*
12300065 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12300091 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12300117 TGAT
1 TGAT
12300121 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.01
26 74 0.97
27 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12305065 original size:14 final size:14
Alignment explanation
Indices: 12305046--12305075 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12305036 AGGGCTAGAA
12305046 TAGCTAAAACATTT
1 TAGCTAAAACATTT
*
12305060 TAGCTAAAATATTT
1 TAGCTAAAACATTT
12305074 TA
1 TA
12305076 TTATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
TAGCTAAAACATTT
Found at i:12305293 original size:17 final size:18
Alignment explanation
Indices: 12305260--12305294 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12305250 TTGAATTCTA
12305260 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
12305278 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
12305295 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:12309464 original size:63 final size:62
Alignment explanation
Indices: 12309365--12309501 Score: 247
Period size: 63 Copynumber: 2.2 Consensus size: 62
12309355 AGAAATAAGA
*
12309365 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTG-TTGTTTTTTTATGT
12309428 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTGTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTGTTTTTTTATGT
*
12309490 GCATATTTTTTT
1 GCATATTATTTT
12309502 TCTTTTCTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 24 0.33
63 48 0.67
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.60
Consensus pattern (62 bp):
GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTGTTTTTTTATGT
Found at i:12312260 original size:19 final size:19
Alignment explanation
Indices: 12312209--12312267 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
12312199 TTTCTTTCCT
**
12312209 TTGCATT-CATCCCATGCA
1 TTGCATTGCATCATATGCA
12312227 TTTGCATTGCATCATATGCA
1 -TTGCATTGCATCATATGCA
*
12312247 TTGCATTGCATCATGTGCA
1 TTGCATTGCATCATATGCA
12312266 TT
1 TT
12312268 AGATTTTCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 27 0.75
20 9 0.25
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (19 bp):
TTGCATTGCATCATATGCA
Found at i:12316645 original size:275 final size:275
Alignment explanation
Indices: 12316175--12316877 Score: 1185
Period size: 275 Copynumber: 2.6 Consensus size: 275
12316165 CGGTGAATTC
* *
12316175 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATC-TATTTCCCTGAA
* *
12316240 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
65 ATTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
* * *
12316305 TCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGATAGCAAATCTTATT
130 TCGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATT
* *
12316370 TTCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATTTTATCTCTCTAAAGTTGCAGT
195 TTCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTACAGT
12316435 AGAGCAGGTCA-AAGTT
260 AGAGCAGGT-AGAAGTT
*
12316451 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTATTTCCCTGAAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTATTTCCCTGAAA
12316516 TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT
66 TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT
* * *
12316581 CGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGTGTAGACTGAAGATAGTAAATCTTATTT
131 CGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
*
12316646 TCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTACAGTA
196 TCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTACAGTA
12316711 GAGCAGGTAGAAGTT
261 GAGCAGGTAGAAGTT
* * * * *
12316726 AAAAGTCTTATCTCCTTGAAGTTACAGTGGAGTAGACTGAAGATAGTAAATCTATTTTCCT-AAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTATTTCCCTGAAA
12316790 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 -TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
12316855 TTGAAGTTACAAGTCTTATCTCC
130 TCGAAGTTACAAGTCTTATCTCC
12316878 TTGTGCTTAC
Statistics
Matches: 404, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
274 4 0.01
275 351 0.87
276 49 0.12
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (275 bp):
ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTATTTCCCTGAAA
TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT
CGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
TCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTACAGTA
GAGCAGGTAGAAGTT
Found at i:12316880 original size:137 final size:138
Alignment explanation
Indices: 12316175--12316877 Score: 1140
Period size: 138 Copynumber: 5.1 Consensus size: 138
12316165 CGGTGAATTC
* * *
12316175 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
*
12316240 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
12316305 TCGAAGTT
131 TCGAAGTT
* *
12316313 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGATAGCAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
* * *
12316378 GTTGCAGTGGAACAGATTAAAGCTAAATTACAGATTTTATCTCTCTAAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
12316443 TCAAAGTT
131 TCGAAGTT
* * *
12316451 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATC-TATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
*
12316515 ATTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
12316580 TCGAAGTT
131 TCGAAGTT
* * * *
12316588 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGTGTAGACTGAAGATAGTAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
* *
12316653 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
12316718 TAGAAGTT
131 TCGAAGTT
* * * * * *
12316726 AAAAGTCTTATCTCCTTGAAGTTACAGTGGAGTAGACTGAAGATAGTAAATC-TATTTTCCTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
12316790 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
12316855 TTGAAGTT
131 TCGAAGTT
12316863 ACAAGTCTTATCTCC
1 ACAAGTCTTATCTCC
12316878 TTGTGCTTAC
Statistics
Matches: 523, Mismatches: 41, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
137 220 0.42
138 303 0.58
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (138 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTT
Found at i:12317044 original size:88 final size:88
Alignment explanation
Indices: 12316890--12317079 Score: 283
Period size: 88 Copynumber: 2.2 Consensus size: 88
12316880 GTGCTTACAA
* * *
12316890 GGAGCAGATCGGAGACATAGCTGATTTGGCTTTCACGTGTTTACTTTGAAGCAGATCCAAGATGA
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAGATGA
12316955 TTTGGCATCTCTGTATTAGGCGG
66 TTTGGCATCTCTGTATTAGGCGG
*
12316978 GGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAGATGA
1 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAGATGA
** ** *
12317043 TTTGGGGTCTCTGTA-GCGGCAG
66 TTTGGCATCTCTGTATTAGGCGG
*
12317065 AGAGCAGATCGAAGA
1 GGAGCAGATCGAAGA
12317080 TAACAGATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 17 0.19
88 74 0.81
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (88 bp):
GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCAAGATGA
TTTGGCATCTCTGTATTAGGCGG
Found at i:12317098 original size:44 final size:44
Alignment explanation
Indices: 12317041--12317403 Score: 479
Period size: 44 Copynumber: 8.4 Consensus size: 44
12317031 AATCCAAGAT
* *
12317041 GATTTGGGGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
12317085 GATTTGGCATCTCTGTAGCGGTTGAGAGGAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
12317129 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
12317173 GATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
12317213 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
12317257 GATTTGGCATCTCTGTA---GCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
12317298 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * ** *
12317342 GATTTGGCGTCTCTGTATTGTCAAGAGAGCAGATTAAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGC-GGAGAGCAGATCGAAGATAACA
12317387 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
12317404 TTTACAGAGA
Statistics
Matches: 284, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
40 38 0.13
41 38 0.13
44 175 0.62
45 33 0.12
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:12317336 original size:125 final size:127
Alignment explanation
Indices: 12317041--12317403 Score: 444
Period size: 125 Copynumber: 2.8 Consensus size: 127
12317031 AATCCAAGAT
* *
12317041 GATTTGGGGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGG
** * * *
12317106 TTGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
63 CGGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTA--GGCGGAGAGCAGATCGAAGATAA
12317171 CA
126 CA
* *
12317173 GATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGG
*
12317237 AGAGCAGATCGAAAATAGCAGATTTGGCATCTCTGTA-GCGGAGAGCAGATCGAAGATAACA
66 AGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTAGGCGGAGAGCAGATCGAAGATAACA
* * ** *
12317298 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACGGATTTGGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A--GATTTGGCATCTCTGTAGCGG
* * * *
12317363 CAAGAGAGCAGAT-TAAAGATGACAGATTTGGCGTCTCTGTA
63 C-GGAGAGCAGATCGAAA-ATAACAGATTTGGCATCTCTGTA
12317404 TTTACAGAGA
Statistics
Matches: 203, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
125 61 0.30
128 55 0.27
129 21 0.10
130 30 0.15
132 36 0.18
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (127 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGG
AGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTAGGCGGAGAGCAGATCGAAGATAACA
Found at i:12317348 original size:169 final size:171
Alignment explanation
Indices: 12317026--12317358 Score: 544
Period size: 169 Copynumber: 2.0 Consensus size: 171
12317016 GTTTACATTG
** *
12317026 AAGCAAATCCAAGATGATTTGGGGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTG
1 AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACAGATTTG
*
12317091 GCATCTCTGTAGCGGTTGAGAGGAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
66 GCATCTCTGTAGCGG-TGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
12317156 GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGA
130 GCAAATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGA
* * * *
12317198 AAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAGCAGATTTG
1 AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACAGATTTG
12317263 GCATCTCTGTAGC-G-GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
66 GCATCTCTGTAGCGGTGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
12317326 CAAATCGAAGATAACGGATTTGGCGTCTCTGTA
131 CAAATCGAAGATAACAGATTTGGCATCTCTGTA
12317359 TTGTCAAGAG
Statistics
Matches: 150, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
169 78 0.52
171 1 0.01
172 71 0.47
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (171 bp):
AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACAGATTTG
GCATCTCTGTAGCGGTGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
CAAATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGA
Found at i:12317391 original size:45 final size:45
Alignment explanation
Indices: 12317236--12317432 Score: 187
Period size: 44 Copynumber: 4.5 Consensus size: 45
12317226 TGTAGCGGCG
* * *
12317236 GAGAGCAGATCGAAA-ATAGCAGATTTGGCATCTCTGTA--G-C-G
1 GAGAGCAGATC-AAAGATAACAGATTTGGCGTCTCTGTATTGTCAA
* ** * *
12317277 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-G
1 GAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAA
* * *
12317321 GAGAGCAAATCGAAGATAACGGATTTGGCGTCTCTGTATTGTCAA
1 GAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAA
* *
12317366 GAGAGCAGATTAAAGATGACAGATTTGGCGTCTCTGTATT-T-ACA
1 GAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCA-A
*
12317410 GAGAGCAGAT-AAAAATAACAGAT
1 GAGAGCAGATCAAAGATAACAGAT
12317433 CGGTGTTTCT
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.01
41 32 0.24
43 13 0.10
44 52 0.39
45 35 0.26
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAA
Found at i:12319012 original size:60 final size:55
Alignment explanation
Indices: 12318891--12319016 Score: 191
Period size: 55 Copynumber: 2.2 Consensus size: 55
12318881 AAGAAATAGA
12318891 GCATATTATTTTAGCATATAATCTTGATTTTTTGATATTTCGTTGTTTTTTTATGT
1 GCATATTA-TTTAGCATATAATCTTGATTTTTTGATATTTCGTTGTTTTTTTATGT
12318947 GCATATTATTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
1 GCATATTATTTAGCATATAATCTTG-ATT-TTTTGAT-ATTTCGTTG--TTTTTTTATGT
12319007 GCATA-TATTT
1 GCATATTATTT
12319017 TTTTTCTTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
55 17 0.26
56 11 0.17
57 7 0.11
58 9 0.14
59 5 0.08
60 16 0.25
ACGTcount: A:0.21, C:0.07, G:0.13, T:0.58
Consensus pattern (55 bp):
GCATATTATTTAGCATATAATCTTGATTTTTTGATATTTCGTTGTTTTTTTATGT
Found at i:12319073 original size:2 final size:2
Alignment explanation
Indices: 12319066--12319101 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
12319056 TATCTCTTAT
12319066 TA TA TA TA TA TA TA TA TA T- TA TA -A TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12319102 TAGGTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12322369 original size:2 final size:2
Alignment explanation
Indices: 12322362--12322401 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
12322352 TTACTTTTCC
12322362 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12322402 AATTTAGTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12322435 original size:32 final size:31
Alignment explanation
Indices: 12322399--12322470 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 31
12322389 ATATATATAT
12322399 ATAAATTTAGTGCTGTACTCCTGAGAAAGAAG
1 ATAAATTTA-TGCTGTACTCCTGAGAAAGAAG
*
12322431 ATAAATTTTATGTTGTACTCCTGAGAAAGAAG
1 ATAAA-TTTATGCTGTACTCCTGAGAAAGAAG
12322463 -TCAAATTT
1 AT-AAATTT
12322471 GTTCGTCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 4 0.11
32 29 0.78
33 4 0.11
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (31 bp):
ATAAATTTATGCTGTACTCCTGAGAAAGAAG
Found at i:12323661 original size:17 final size:18
Alignment explanation
Indices: 12323628--12323662 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12323618 TTGAATTCTA
12323628 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
12323646 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
12323663 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:12327941 original size:27 final size:27
Alignment explanation
Indices: 12327902--12327963 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
12327892 ATTTTCAACA
*
12327902 TTCATGTC-CCATGTACCCTTCTAATG
1 TTCATTTCTCCATGTACCCTTCTAATG
12327928 TTCATTTCTCCATGTACCCTTCTAATG
1 TTCATTTCTCCATGTACCCTTCTAATG
*
12327955 CTCATTTCT
1 TTCATTTCT
12327964 TACTTACCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.44
Consensus pattern (27 bp):
TTCATTTCTCCATGTACCCTTCTAATG
Found at i:12330918 original size:3 final size:3
Alignment explanation
Indices: 12330904--12331000 Score: 124
Period size: 3 Copynumber: 32.3 Consensus size: 3
12330894 ATATAGTAGA
* * * *
12330904 AAT AAT AGT AAT AAT -AT GAAC AAT AGT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
12330949 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12330997 AAT A
1 AAT A
12331001 TATGAGTTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
2 2 0.03
3 77 0.96
4 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12332690 original size:86 final size:86
Alignment explanation
Indices: 12332557--12333080 Score: 718
Period size: 87 Copynumber: 6.0 Consensus size: 86
12332547 AGTTTTTGAT
* * * * **
12332557 TTCAACCTGTTACCCTTCTGTTTAGGGGGTTAAGGCTCATCACCTTCGATCTGTTCCCTACTGCT
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGTTCCCTACTGCT
* *
12332622 TAGGGGGTTAAGATCTGTAAA
66 TAGGGAGATAAGATCTGTAAA
* *
12332643 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTCTACTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGTTC-CCTACTGC
*
12332708 TTAGGGAGACAAGATCTGT-AA
65 TTAGGGAGATAAGATCTGTAAA
12332729 TTCAACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCCCATCATT-TTCGATCCCT-TTCCCTAC
1 TTCAACCTGTTACCCTACTGCTT-AGGGGTTTAAGGCCCATC-TTCTTCGAT--CTGTTCCCTAC
*
12332791 TGCTTAGGGAGTTAAGATCTGTAAA
62 TGCTTAGGGAGATAAGATCTGTAAA
*
12332816 TTCAACCTGTTACCCTACTGCTTAGGGCTTTAAGGCCCATCTTCTTCGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTG-TTCCCTACTGC
* *
12332881 TTATGGTGATAAGATCTGTAAA
65 TTAGGGAGATAAGATCTGTAAA
* * *
12332903 TTCAACCTGCTACCCTACTGCTTAGGGGTTTAAGGCCTATCTTCTTCGATCTGTTTCCTTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTG-TTCCCTACTGC
*
12332968 TTAGGGTGATAAGATCTGTAAA
65 TTAGGGAGATAAGATCTGTAAA
* *
12332990 TTCAACCTGCTACCCTACTGCTTAGGGGTTTAAGGCCCAT-TGTTTTCGATCCAT-TTCCCTACT
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCT-TCTTCGAT-C-TGTTCCCTACT
*
12333053 GCTTAGGGAGTTAAGATCTGTAAA
63 GCTTAGGGAGATAAGATCTGTAAA
12333077 TTCA
1 TTCA
12333081 GCAATGTATT
Statistics
Matches: 396, Mismatches: 29, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
85 2 0.01
86 123 0.31
87 267 0.67
88 3 0.01
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (86 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGTTCCCTACTGCT
TAGGGAGATAAGATCTGTAAA
Found at i:12332805 original size:44 final size:43
Alignment explanation
Indices: 12332741--12332883 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 43
12332731 CAACCTGTTA
12332741 CCCTACTGCTTAAGGGGTTAAGGCCCATCATTTTCGATCCCTTT
1 CCCTACTGCTT-AGGGGTTAAGGCCCATCATTTTCGATCCCTTT
** ** ** *
12332785 CCCTACTGCTTAGGGAGTTAAGATCTGT-AAATTC-A-ACCTGTT
1 CCCTACTGCTTAGGG-GTTAAGGCCCATCATTTTCGATCCCT-TT
* **
12332827 ACCCTACTGCTTAGGGCTTTAAGGCCCATC-TTCTTCGATCTGTTT
1 -CCCTACTGCTTAGGG-GTTAAGGCCCATCATT-TTCGATCCCTTT
12332872 CCCTACTGCTTA
1 CCCTACTGCTTA
12332884 TGGTGATAAG
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
41 3 0.04
42 3 0.04
43 30 0.41
44 34 0.46
45 3 0.04
46 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGTTAAGGCCCATCATTTTCGATCCCTTT
Found at i:12332926 original size:43 final size:43
Alignment explanation
Indices: 12332607--12333016 Score: 240
Period size: 43 Copynumber: 9.5 Consensus size: 43
12332597 CACCTTCGAT
*
12332607 CTGTT-CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
* * *
12332649 CTGTTACCCTACTGCTTAGGG-GTTTAAGGCCCATCT-T--CTTCGAT
1 CTGTTACCCTACTGCTTAGGGTG-TTAA-G---ATCTGTAAATTCAAC
* **
12332693 CTGCTCTA--CTACTGCTTAGGGAGACAAGATCTGT-AATTCAAC
1 CTG-T-TACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
** ** ** *
12332735 CTGTTACCCTACTGCTTAAGGG-GTTAAGGCCCATCATTTTCGATCC
1 CTGTTACCCTACTGCTT-AGGGTGTTAAGATCTGT-AAATTC-A-AC
*
12332781 CT-TT-CCCTACTGCTTAGGGAGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
* * *
12332822 CTGTTACCCTACTGCTTAGGGCT-TTAAGGCCCATCT-T--CTTCGAT
1 CTGTTACCCTACTGCTTAGGG-TGTTAA-G---ATCTGTAAATTCAAC
* * *
12332866 CTGTTTCCCTACTGCTTATGGTGATAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
* ** * *** * *
12332909 CTGCTACCCTACTGCTTAGGG-GTTTAAGGCCTATCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGTG-TTAAGATCTGT-AAATTCAAC
* * *
12332953 CTGTTTCCTTACTGCTTAGGGTGATAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
*
12332996 CTGCTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
12333017 GTTTAAGGCC
Statistics
Matches: 274, Mismatches: 61, Indels: 65
0.69 0.15 0.16
Matches are distributed among these distances:
40 10 0.04
41 6 0.02
42 32 0.12
43 104 0.38
44 101 0.37
45 6 0.02
46 7 0.03
47 8 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAAC
Found at i:12345450 original size:3 final size:3
Alignment explanation
Indices: 12345442--12345510 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
12345432 AATAGTGGTG
12345442 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12345490 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
12345511 TATGAGTTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12347825 original size:44 final size:44
Alignment explanation
Indices: 12347776--12348105 Score: 302
Period size: 44 Copynumber: 7.3 Consensus size: 44
12347766 GGATTTGTCA
*
12347776 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTAG
* * * **
12347820 ATTCAATCTGTTCCACTACAACTTCA-AGGAGATAAGATTTATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTCGTAG
** * *
12347864 CTTCAATCTGCTTTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTC--G---T--AG
* * * * * *
12347915 CTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCG-TAG
* * *
12347960 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTAG
* * * *
12348004 CTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCGATAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCG-TAG
* * * * * *
12348049 CTACAATTTACTCCACTACAACTTCAGGGAGATAAGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTAG
12348093 CTTCAATCTGCTC
1 CTTCAATCTGCTC
12348106 TACCATACAG
Statistics
Matches: 230, Mismatches: 46, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
43 1 0.00
44 116 0.50
45 75 0.33
47 1 0.00
49 2 0.01
51 35 0.15
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTAG
Found at i:12347991 original size:140 final size:139
Alignment explanation
Indices: 12347787--12348044 Score: 372
Period size: 140 Copynumber: 1.8 Consensus size: 139
12347777 TTCAATCTGC
* *
12347787 TCCACTGCAACTTCAGAGAGATAAGATTAGTAGATTCAATCTGTTCCACTACAACTTCAAGGAGA
1 TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTGCTCCACTACAACTTCAAGGAGA
* * * *
12347852 TAAGATTTATAGCTTCAATCTGCTTTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAGCT
66 TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
12347917 TTAATATGT
131 TTAATATGT
* * ** * * *
12347926 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACTTCAGAGAAATAAGATTAG-TAGATTCAATCTGCTCCACTACAACTTCAAGGAG
* *
12347991 ATAAGATTTGTAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCG
65 ATAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCG
12348045 ATATCTACAA
Statistics
Matches: 103, Mismatches: 15, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
139 27 0.26
140 76 0.74
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (139 bp):
TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTGCTCCACTACAACTTCAAGGAGA
TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
TTAATATGT
Found at i:12348064 original size:89 final size:89
Alignment explanation
Indices: 12347933--12348108 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 89
12347923 TGTTCCACTG
* * * * * *
12347933 CAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
1 CAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTACAACTTCAGGGAGATAAGAT
12347998 TTGTAGCTTCAATCTACTCTACTA
66 TTGTAGCTTCAATCTACTCTACTA
* *
12348022 CAACTTCAGAGAGATAAGATTCGATATCTACAATTTACTCCACTACAACTTCAGGGAGATAAGAT
1 CAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTACAACTTCAGGGAGATAAGAT
*
12348087 TTGTAGCTTCAATCTGCTCTAC
66 TTGTAGCTTCAATCTACTCTAC
12348109 CATACAGCAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (89 bp):
CAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTACAACTTCAGGGAGATAAGAT
TTGTAGCTTCAATCTACTCTACTA
Found at i:12349373 original size:32 final size:32
Alignment explanation
Indices: 12349322--12349386 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
12349312 AAATATATGT
12349322 ATATAAATTCAATGCTGTACTCCTGAGAAAGA
1 ATATAAATTCAATGCTGTACTCCTGAGAAAGA
** *
12349354 ATATAAATTTTATGTTGTACTCCTGAGAAAGA
1 ATATAAATTCAATGCTGTACTCCTGAGAAAGA
12349386 A
1 A
12349387 GACAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (32 bp):
ATATAAATTCAATGCTGTACTCCTGAGAAAGA
Found at i:12352784 original size:21 final size:21
Alignment explanation
Indices: 12352759--12352801 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12352749 GCCTAATTAT
*
12352759 TTCAATAGTTAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
*
12352780 TTCAATTGATAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
12352801 T
1 T
12352802 AAATTCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
TTCAATAGATAGATTATTAGG
Found at i:12368666 original size:23 final size:22
Alignment explanation
Indices: 12368623--12368680 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12368613 AAAAGGTATC
* *
12368623 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12368644 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12368667 TGCATATCATATCT
1 TACAAATCATATCT
12368681 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12368683 original size:19 final size:19
Alignment explanation
Indices: 12368659--12368730 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
12368649 AATCATATCT
12368659 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12368678 TCTAAGATTGCAT-TTATA
1 TCTAAGATTGCATATCATA
12368696 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
12368713 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
12368731 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12369227 original size:17 final size:17
Alignment explanation
Indices: 12369193--12369238 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
12369183 GAGCTATCAT
*
12369193 CTTTGGTGA-CTTCGCAG
1 CTTTGGTGAGC-TCACAG
12369210 CTTTGGTGAGCTCACAG
1 CTTTGGTGAGCTCACAG
*
12369227 CTTTAGTGAGCT
1 CTTTGGTGAGCT
12369239 TGCATATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.15, C:0.22, G:0.28, T:0.35
Consensus pattern (17 bp):
CTTTGGTGAGCTCACAG
Found at i:12371034 original size:22 final size:22
Alignment explanation
Indices: 12371009--12371052 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12370999 ACATGAACAA
12371009 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
12371031 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
12371053 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (22 bp):
AGCAAGTGCAACCAAACACTCT
Found at i:12373284 original size:3 final size:3
Alignment explanation
Indices: 12373276--12373527 Score: 202
Period size: 3 Copynumber: 85.0 Consensus size: 3
12373266 ATAAACAAGA
* * * *
12373276 AAT AAT AAT AGT AA- AAA AAT AAT AGT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12373323 AGA- AAT AGA- AAT AGA- AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 A-AT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
12373368 AAT AAT GAA- AAT AAT AAT AAT AA- AAT AAGG AAT AAT AAT AAT AAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * *
12373413 AAC AAT AAT -AT AAAT AAT AA- AA- AAC AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12373456 AAT AAT GAT AGT AA- AAT AAT AGT AAT AAT AGAA AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* *
12373501 AGT AA- AATT AAT AAT AAT AGT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT
12373528 TAATTAATTA
Statistics
Matches: 201, Mismatches: 30, Indels: 36
0.75 0.11 0.13
Matches are distributed among these distances:
2 19 0.09
3 169 0.84
4 13 0.06
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12375033 original size:44 final size:45
Alignment explanation
Indices: 12374980--12375260 Score: 135
Period size: 45 Copynumber: 6.3 Consensus size: 45
12374970 CCAATATAAT
* *
12374980 TTCAGGGAG--AAGAGATTTGTAACTTCGATCTACTCCACTG-AATC
1 TTCAGGGAGATAAGA-ATTGGTAACTTCGACCTACTCCACTGCAA-C
* * *
12375024 TTCAAGGAGATAAGAATTGGTAATTTCGACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATTGGTAACTTCGACCTACTCCACTGCAAC
** * ** * *
12375069 TTCAGGGAGATAAGGTTTGTGT-ATTTTTATCTTACTCTACTGCAAC
1 TTCAGGGAGATAAGAATTG-GTAACTTCGA-CCTACTCCACTGCAAC
* * ** * * ** * ** *
12375115 TTCAGAGAGATAAGGATT-GTGGCTTCAATCTGTTCCAATATAAT
1 TTCAGGGAGATAAGAATTGGTAACTTCGACCTACTCCACTGCAAC
* * * * * *
12375159 TTTAAGGAG--AAGAGATTTGTAACTTCGATCTACTCTACTGGAAC
1 TTCAGGGAGATAAGA-ATTGGTAACTTCGACCTACTCCACTGCAAC
** * * ** *
12375203 TTCATAGAGGTAAGAATTGGTAATTTTAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATTGGTAACTTCGACCTACTCCACTGCAAC
12375248 TTCAGGGAGATAA
1 TTCAGGGAGATAA
12375261 AGTTTGTGTA
Statistics
Matches: 171, Mismatches: 56, Indels: 19
0.70 0.23 0.08
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 45 0.26
45 79 0.46
46 41 0.24
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (45 bp):
TTCAGGGAGATAAGAATTGGTAACTTCGACCTACTCCACTGCAAC
Found at i:12375117 original size:46 final size:46
Alignment explanation
Indices: 12375061--12375308 Score: 141
Period size: 46 Copynumber: 5.5 Consensus size: 46
12375051 GACCTGCTCC
* * *
12375061 ACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCTTACTCT
1 ACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTATCCTACTCT
* * ** ** *
12375107 ACTGCAACTTCAGAGAGATAAGGATTGTG-GCTTCAAT-CTGTTCC
1 ACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTATCCTACTCT
* ** * * * * **
12375151 AATATAATTTTA-AGGAGA-AGAGATTTGT-AACTTCGAT-CTACTCT
1 ACTGCAACTTCAGA-GAGATA-AGGTTTGTGTACTTTTATCCTACTCT
* * * ** * * * *
12375195 ACTGGAACTTCATAGAGGTAAGAATTG-GTAATTTTAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTATCCTACTCT
* * *
12375240 ACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTTTATCCTACTCT
1 ACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTATCCTACTCT
*
12375286 ACTGTAACTTCAGAGAGATAAGG
1 ACTGCAACTTCAGAGAGATAAGG
12375309 ATGGTGCTGC
Statistics
Matches: 144, Mismatches: 50, Indels: 16
0.69 0.24 0.08
Matches are distributed among these distances:
43 2 0.01
44 50 0.35
45 31 0.22
46 61 0.42
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (46 bp):
ACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTATCCTACTCT
Found at i:12375237 original size:179 final size:178
Alignment explanation
Indices: 12374968--12375374 Score: 593
Period size: 179 Copynumber: 2.3 Consensus size: 178
12374958 CTTCGATCCG
*
12374968 CTCCAATATAATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCACTGAATCTTCAAGGAG
1 CTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCACTGAATCTTCAAGGAG
* *
12375033 ATAAGAATTGGTAATTTCGACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTA
66 ATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTTTA
* * * **
12375098 TCTTACTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCAATCTG
131 TCCTACTCTACTGCAACTTCAGAGAGATAAGGATGGT-GCTGCAATCAA
* * *
12375147 TTCCAATATAATTTTAAGGAGAAGAGATTTGTAACTTCGATCTACTCTACTGGAA-CTTCATA-G
1 CTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCACT-GAATCTTCA-AGG
* *
12375210 AGGTAAGAATTGGTAATTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTT
64 AGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTT
* **
12375275 TATCCTACTCTACTGTAACTTCAGAGAGATAAGGATGGTGCTGCGGTCAA
129 TATCCTACTCTACTGCAACTTCAGAGAGATAAGGATGGTGCTGCAATCAA
* * * *
12375325 CTCTAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTATTCCAC
1 CTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
12375375 CGAAACTTTA
Statistics
Matches: 203, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
178 49 0.24
179 150 0.74
180 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (178 bp):
CTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCACTGAATCTTCAAGGAG
ATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTTTA
TCCTACTCTACTGCAACTTCAGAGAGATAAGGATGGTGCTGCAATCAA
Found at i:12375503 original size:89 final size:89
Alignment explanation
Indices: 12375410--12375574 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 89
12375400 CTATCTTCAG
* * * * * *
12375410 TCTACTTCAATGTAACTTTAGGGAAATAGGGCTGGTGGCTTTAATCTGCTCCACTGCAATTTCAA
1 TCTACTCCAATGTAACTTTAGGGAAATAAGGCTAGTGGCTTCAATCTGATCCACTGCAACTTCAA
12375475 GAAGATAAGATCCACCATCTTTGA
66 GAAGATAAGATCCACCATCTTTGA
* *
12375499 TCTACTCCACTGTAACTTTAGGGAGATAAGGCTAGTGGCTTCAATCTGATCCACTGCAACTTCAA
1 TCTACTCCAATGTAACTTTAGGGAAATAAGGCTAGTGGCTTCAATCTGATCCACTGCAACTTCAA
*
12375564 GGAGATAAGAT
66 GAAGATAAGAT
12375575 TCGCCATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (89 bp):
TCTACTCCAATGTAACTTTAGGGAAATAAGGCTAGTGGCTTCAATCTGATCCACTGCAACTTCAA
GAAGATAAGATCCACCATCTTTGA
Found at i:12375626 original size:54 final size:51
Alignment explanation
Indices: 12375536--12375920 Score: 207
Period size: 54 Copynumber: 7.8 Consensus size: 51
12375526 AAGGCTAGTG
* * *
12375536 GCTTCAATCTGATCCACTGCAACTTCAAGGAGATAAGATTCGCCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG-C-T-ATTTGTA
* * * * *
12375590 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTGTTTTTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTTGTA
* * * * *
12375641 G---T--T-TGCTCCGCTTCAATTTCAGGGAGATAAGA----C---TTGTG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTTGTA
* * *
12375679 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTC-GC-T-ATTTGTA
* *
12375733 GCTTTAATCTGTTCCACTGCAACTTCAGGGATATAAGA----C---TTGTG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTTGTA
* *
12375777 GCTTCAATC--TACCACTGCAACTTCAGGGAGATAAGATTCGTCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG-C-T-ATTTGTA
* * *
12375829 GCTTTACTCTGTTCCACTCCGCTGCAACTTTAGGGAGATAAGA----CT-TATG--
1 GCTTTAATCTGTTCCA-----CTGCAACTTCAGGGAGATAAGATTCGCTATTTGTA
* * *
12375878 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTCGC
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGC
12375921 CATGATGACT
Statistics
Matches: 255, Mismatches: 39, Indels: 80
0.68 0.10 0.21
Matches are distributed among these distances:
38 4 0.02
41 1 0.00
42 25 0.10
43 1 0.00
44 58 0.23
45 23 0.09
46 1 0.00
47 1 0.00
48 2 0.01
49 15 0.06
51 9 0.04
52 12 0.05
53 2 0.01
54 80 0.31
59 21 0.08
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (51 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTTGTA
Found at i:12375671 original size:45 final size:44
Alignment explanation
Indices: 12375583--12375914 Score: 173
Period size: 44 Copynumber: 7.0 Consensus size: 44
12375573 ATTCGCCATA
* * * * *
12375583 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAG
1 ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * * * *
12375627 ATTTGCTGTTTTTAGTTTGCTCCGCTTCAATTTCAGGGAGATAAG
1 ATTTG-TGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
12375672 ACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
12375716 ATTCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGATATAAG
1 ----------ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
12375770 ACTTGTGGCTTCAATCT--ACCACTGCAACTTCAGGGAGATAAGATTCG
1 ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G
* * * * *
12375817 TCATAATTTGTAGCTTTACTCTGTTCCACTCCGCTGCAACTTTAGGGAGATAAG
1 -----ATTTGTGGCTTCAATCTGCTCCA-----CTGCAACTTCAGGGAGATAAG
* *
12375871 ACTTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
12375915 TTTCGCCATG
Statistics
Matches: 217, Mismatches: 43, Indels: 56
0.69 0.14 0.18
Matches are distributed among these distances:
42 20 0.09
43 1 0.00
44 71 0.33
45 32 0.15
47 1 0.00
49 17 0.08
52 13 0.06
54 43 0.20
57 1 0.00
58 1 0.00
59 17 0.08
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
ATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:12375824 original size:96 final size:98
Alignment explanation
Indices: 12375658--12375923 Score: 392
Period size: 96 Copynumber: 2.7 Consensus size: 98
12375648 CCGCTTCAAT
*
12375658 TTCAGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACC
1 TTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGATTCGCC
12375723 ATAATTTGTAGCTTTAATCTGTTCCA-CTGCAAC
65 ATAATTTGTAGCTTTAATCTGTTCCACCTGCAAC
* * *
12375756 TTCAGGGATATAAGACTTGTGGCTTCAATCT-ACCACTGCAACTTCAGGGAGATAAGATTCGTCA
1 TTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA
*
12375820 TAATTTGTAGCTTTACTCTGTTCCACTCCGCTGCAAC
66 TAATTTGTAGCTTTAATCTGTTCCA---C-CTGCAAC
* * *
12375857 TTTAGGGAGATAAGACTTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTCGCC
1 TTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGATTCGCC
12375922 AT
65 AT
12375924 GATGACTTAA
Statistics
Matches: 150, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
96 54 0.36
98 30 0.20
101 35 0.23
103 31 0.21
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (98 bp):
TTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA
TAATTTGTAGCTTTAATCTGTTCCACCTGCAAC
Found at i:12376378 original size:46 final size:46
Alignment explanation
Indices: 12376315--12376456 Score: 169
Period size: 46 Copynumber: 3.1 Consensus size: 46
12376305 ATTTGTGGTT
*
12376315 TCTTCCATCCA-CTCCACTGCAACTCAAGGGTATAAGATTTGTATCA
1 TCTTCAATCCATC-CCACTGCAACTCAAGGGTATAAGATTTGTATCA
* * * * *
12376361 TCTTCAATCTATCCCACTGCAACTCAGGGGTATGAGATTTCTATCG
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* * * * *
12376407 TCTTCAATCCATCCCATTTCAACTCAAGGGTACAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
12376453 TCTT
1 TCTT
12376457 TAATTCACTG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 79 0.99
47 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
Found at i:12376944 original size:53 final size:53
Alignment explanation
Indices: 12376863--12376963 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
12376853 AGCATAGCTT
*
12376863 GAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAACTC
1 GAAATGAATAAGTTAATCAAAAACAGCAAATGCAATAAGAAGGAAATTAACTC
* *
12376916 GAAATGAATAAGTTAATCAAAAATAGCAAATGTAATAAGAAGGAAATT
1 GAAATGAATAAGTTAATCAAAAACAGCAAATGCAATAAGAAGGAAATT
12376964 GATTGAAAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (53 bp):
GAAATGAATAAGTTAATCAAAAACAGCAAATGCAATAAGAAGGAAATTAACTC
Found at i:12376946 original size:26 final size:27
Alignment explanation
Indices: 12376864--12376954 Score: 66
Period size: 26 Copynumber: 3.4 Consensus size: 27
12376854 GCATAGCTTG
* *
12376864 AAATG-AATAAGTTAATCAAAGACAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
** *
12376890 AAATGCAATAAG--AAGGAAATTAACTCG-
1 AAATGCAATAAGTTAATCAAA--AA-TAGC
12376917 AAATG-AATAAGTTAATCAAAAATAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
*
12376943 AAATGTAATAAG
1 AAATGCAATAAG
12376955 AAGGAAATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.14
26 18 0.37
27 18 0.37
28 6 0.12
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGCAATAAGTTAATCAAAAATAGC
Found at i:12380726 original size:19 final size:20
Alignment explanation
Indices: 12380702--12380746 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
12380692 TTGTGACATT
*
12380702 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
12380721 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
12380741 -AATGCA
1 CAATGCA
12380747 AAAAGAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:12382697 original size:3 final size:3
Alignment explanation
Indices: 12382689--12382992 Score: 252
Period size: 3 Copynumber: 102.7 Consensus size: 3
12382679 ATAAACAAGA
* * * *
12382689 AAT AAT AAT AGT AA- AA- AAT AGT AAT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12382735 AGT AAT AGA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
12382780 AAT AGT AAT AAT AAT GAA- AAT AAT AAT AAT AA- AAT AAGG AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * * * *
12382825 AAC AAT AAC AAC AAT AAT -AT AAAT AAT AA- AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
12382868 AAT AAT AAT AAT AAT GAT AGT AAT AAT AAT AGT AAT AAT AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* ** * *
12382914 AAT AGT AAT TGT AAT AAT AAT AAT AAT AAT AGT AAT AAT AA- ATT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* **
12382962 AACT ACT TTT AAT AAT AA- AAT AAT AA- AAT AA
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12382993 CTAAAAAAAA
Statistics
Matches: 241, Mismatches: 45, Indels: 30
0.76 0.14 0.09
Matches are distributed among these distances:
2 20 0.08
3 207 0.86
4 14 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12393126 original size:40 final size:40
Alignment explanation
Indices: 12393019--12393186 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
12393009 CGGGATTTAA
* * * * * *
12393019 CCGGATACAACCACAAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * ** * * * *
12393059 CTGGATTTGGTAACTTGCACCATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
12393099 CCGGATATAA-CAACTCGCACGAATGCCTTCTGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
12393139 CCGGACATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
12393179 CCGGATAT
1 CCGGATAT
12393187 CATTCAAATG
Statistics
Matches: 98, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12397716 original size:76 final size:76
Alignment explanation
Indices: 12397576--12397729 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 76
12397566 TTTAAGGTTT
**
12397576 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATGTATCTTTGTTGATAAATA
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
12397641 AACAAGTTTTG
66 AACAAGTTTTG
*
12397652 TACCATTGATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAAATCAATCTTTGTTGA-AAAT
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAG-AAATCAATCTTTGTTGATAAAT
*
12397716 AAATAAGTTTTG
65 AAACAAGTTTTG
12397728 TA
1 TA
12397730 AAGTGATTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 58 0.79
77 15 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (76 bp):
TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
AACAAGTTTTG
Found at i:12409494 original size:23 final size:23
Alignment explanation
Indices: 12409411--12409498 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 23
12409401 ACCTGATCAG
* *
12409411 AATACGACACATAAAGTG-CTTA
1 AATACGACACACAAAGTGCCTGA
* *
12409433 AA-ACGGCACACGAAGTGCCTG-
1 AATACGACACACAAAGTGCCTGA
* * *
12409454 -ATACGACACACGAGGTGCCAGA
1 AATACGACACACAAAGTGCCTGA
*
12409476 AATACGACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
12409499 TCAGTAAAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.55
22 4 0.08
23 18 0.35
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:12418197 original size:13 final size:13
Alignment explanation
Indices: 12418179--12418204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12418169 CCTAAGGATG
12418179 AAATAAAATAAAA
1 AAATAAAATAAAA
12418192 AAATAAAATAAAA
1 AAATAAAATAAAA
12418205 TAAAAGGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:12421404 original size:25 final size:25
Alignment explanation
Indices: 12421375--12421422 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12421365 TTATAACATG
* * *
12421375 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
12421400 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
12421423 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:12421506 original size:11 final size:11
Alignment explanation
Indices: 12421470--12421525 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
12421460 CATGGTATGT
12421470 ATGATATGCAC
1 ATGATATGCAC
* *
12421481 ATGACATG--T
1 ATGATATGCAC
12421490 ATGATATGCAC
1 ATGATATGCAC
*
12421501 ATGATATG--T
1 ATGATATGCAC
12421510 ATGATATGCAC
1 ATGATATGCAC
12421521 ATGAT
1 ATGAT
12421526 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:12421525 original size:20 final size:20
Alignment explanation
Indices: 12421459--12421525 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
12421449 ATTTTGATAA
*
12421459 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
12421479 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
12421499 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12421519 ACATGAT
1 ACATGAT
12421526 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12421605 original size:23 final size:23
Alignment explanation
Indices: 12421575--12421742 Score: 264
Period size: 23 Copynumber: 7.1 Consensus size: 23
12421565 AGGAAGTGAA
12421575 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
12421598 AAAGGGCTTATGCCCCAGTTATCTT
1 AAAGGGCTTATGCCCCAGTTA--TT
*
12421623 AAAAGGGCTTATGCCCCAGTTATA
1 -AAAGGGCTTATGCCCCAGTTATT
*
12421647 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
*
12421670 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
12421693 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
12421716 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
12421740 AAA
1 AAA
12421743 AGAGGCTAGG
Statistics
Matches: 136, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
23 90 0.66
24 23 0.17
25 2 0.01
26 21 0.15
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:12421989 original size:30 final size:30
Alignment explanation
Indices: 12421955--12422017 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
12421945 CGTTTACAGT
12421955 AAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
**
12421985 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
12422015 AAA
1 AAA
12422018 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:12429622 original size:11 final size:11
Alignment explanation
Indices: 12429586--12429641 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
12429576 CATGGTATGT
12429586 ATGATATGCAC
1 ATGATATGCAC
* *
12429597 ATGACATG--T
1 ATGATATGCAC
12429606 ATGATATGCAC
1 ATGATATGCAC
*
12429617 ATGATATG--T
1 ATGATATGCAC
12429626 ATGATATGCAC
1 ATGATATGCAC
12429637 ATGAT
1 ATGAT
12429642 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:12429641 original size:20 final size:20
Alignment explanation
Indices: 12429575--12429641 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
12429565 ATTTTGATAA
*
12429575 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
12429595 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
12429615 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12429635 ACATGAT
1 ACATGAT
12429642 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12429721 original size:23 final size:23
Alignment explanation
Indices: 12429691--12429854 Score: 251
Period size: 23 Copynumber: 7.1 Consensus size: 23
12429681 AGGAAGTGAA
12429691 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
12429714 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
12429738 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
*
12429761 AAAGGGCTTATG-CCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
12429783 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
12429806 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
12429828 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
12429852 AAA
1 AAA
12429855 AGAGGCTAGG
Statistics
Matches: 131, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
22 30 0.23
23 69 0.53
24 32 0.24
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:12429854 original size:46 final size:46
Alignment explanation
Indices: 12429690--12429854 Score: 287
Period size: 45 Copynumber: 3.6 Consensus size: 46
12429680 GAGGAAGTGA
12429690 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATC
*
12429737 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATC
*
12429783 AAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATC
*
12429828 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
12429855 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
45 43 0.38
46 35 0.31
47 35 0.31
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATC
Found at i:12430103 original size:31 final size:31
Alignment explanation
Indices: 12430068--12430128 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
12430058 CGTTTACAGT
12430068 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
12430099 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
12430129 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:12441213 original size:29 final size:28
Alignment explanation
Indices: 12441163--12441220 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
12441153 AACTTTGGAG
*
12441163 TTGGTTGACATCCAGTTCACAAGAAGGT
1 TTGGTTGACATCCAGTTCACAAAAAGGT
12441191 TTGGTTGACATACCAGTTCACAAAAAGGT
1 TTGGTTGACAT-CCAGTTCACAAAAAGGT
12441220 T
1 T
12441221 ATTGGAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (28 bp):
TTGGTTGACATCCAGTTCACAAAAAGGT
Found at i:12442128 original size:8 final size:8
Alignment explanation
Indices: 12442115--12442149 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
12442105 TTTAAGTAAA
*
12442115 TATTTTAT
1 TATTATAT
*
12442123 TATTTTAT
1 TATTATAT
12442131 TATTATAT
1 TATTATAT
12442139 TATTATAT
1 TATTATAT
12442147 TAT
1 TAT
12442150 ATCAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATAT
Found at i:12446269 original size:130 final size:128
Alignment explanation
Indices: 12446119--12446401 Score: 458
Period size: 130 Copynumber: 2.2 Consensus size: 128
12446109 AAAAACGCCA
* * *
12446119 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
* *
12446184 GCGTTTGTGGTAAAAAGCGGCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCAG
66 GCGTTTGTGG-AAAAAGAGGCGCTAAAAGTCATGGC-TTTAGCGGCGTTTGTGGGAAAAGCGCAG
12446249 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
1 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
* * * *
12446314 GCGTTTGTGGGAAAAGAGTCGCTAAAAGTCATGGCTTTAGCGGCGTTTTTGGGAAAAGCGCCG
66 GCGTTTGTGGAAAAAGAGGCGCTAAAAGTCATGGCTTTAGCGGCGTTTGTGGGAAAAGCGCAG
*
12446377 CTAAAAGTCACGTCTTTTAGCGGCG
1 CTAAAAGTCACGGCTTTTAGCGGCG
12446402 CTTTTTCTAC
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
128 50 0.35
129 21 0.15
130 72 0.50
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (128 bp):
CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
GCGTTTGTGGAAAAAGAGGCGCTAAAAGTCATGGCTTTAGCGGCGTTTGTGGGAAAAGCGCAG
Found at i:12446423 original size:43 final size:43
Alignment explanation
Indices: 12446109--12446401 Score: 435
Period size: 43 Copynumber: 6.8 Consensus size: 43
12446099 TTTATTGAAA
* * *
12446109 AAAAACGCCACTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
* * *
12446152 AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGTA
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGG-G
* * *
12446196 AAAAGCGGCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
*
12446239 AAAAGCGCAGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
12446282 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
* * * *
12446325 AAAAGAGTCGCTAAAAGTCATGGC-TTTAGCGGCGTTTTTGGG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
*
12446367 AAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCG
12446402 CTTTTTCTAC
Statistics
Matches: 226, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
42 37 0.16
43 150 0.66
44 39 0.17
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
Found at i:12446423 original size:85 final size:86
Alignment explanation
Indices: 12446109--12446401 Score: 444
Period size: 87 Copynumber: 3.4 Consensus size: 86
12446099 TTTATTGAAA
* * * *
12446109 AAAAACGCCACTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAAGTCATG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
*
12446174 GCTTTTAGCGGCGTTTGTGGTA
66 GCTTTTAGCGGCGTTTGTGG-G
* * * * *
12446196 AAAAGCGGCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCAGCTAAAAGTCACG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
12446261 GCTTTTAGCGGCGTTTGTGGG
66 GCTTTTAGCGGCGTTTGTGGG
* *
12446282 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGTCGCTAAAAGTCATG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
*
12446347 GC-TTTAGCGGCGTTTTTGGG
66 GCTTTTAGCGGCGTTTGTGGG
*
12446367 AAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCG
12446402 CTTTTTCTAC
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 51 0.27
86 60 0.32
87 77 0.41
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
GCTTTTAGCGGCGTTTGTGGG
Found at i:12446552 original size:32 final size:31
Alignment explanation
Indices: 12446475--12446554 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
12446465 CTTCCTGCAT
* * *
12446475 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * * *
12446506 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
12446537 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
12446555 ATTAATTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:12451125 original size:9 final size:9
Alignment explanation
Indices: 12451113--12451171 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
12451103 TCCGTAAGTT
*
12451113 GTTATGTAC
1 GTTATGTAA
* *
12451122 GTTATATGA
1 GTTATGTAA
12451131 GTTATGTAA
1 GTTATGTAA
*
12451140 ATTATGTAA
1 GTTATGTAA
*
12451149 GTTATGTGA
1 GTTATGTAA
12451158 GTTATGTAA
1 GTTATGTAA
12451167 GTTAT
1 GTTAT
12451172 TTTTTAAGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:12451145 original size:27 final size:27
Alignment explanation
Indices: 12451114--12451171 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
12451104 CCGTAAGTTG
*
12451114 TTATGTACGTTATATGAGTTATGTAAA
1 TTATGTAAGTTATATGAGTTATGTAAA
* *
12451141 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATATGAGTTATGTAAA
12451168 TTAT
1 TTAT
12451172 TTTTTAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATGAGTTATGTAAA
Found at i:12451593 original size:241 final size:241
Alignment explanation
Indices: 12451170--12451843 Score: 1296
Period size: 241 Copynumber: 2.8 Consensus size: 241
12451160 TATGTAAGTT
*
12451170 ATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
12451235 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
12451300 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
*
12451365 TTCAATAGTAAATGATCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
12451411 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
12451476 CGATATAAGGCAACCCGTCAGGTTTCCATCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
12451541 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
12451606 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
12451652 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
12451717 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTT-AAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
*
12451781 GGTTGGAGAGAGGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
12451844 ATTAATTCAT
Statistics
Matches: 428, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
240 68 0.16
241 360 0.84
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:12451910 original size:33 final size:33
Alignment explanation
Indices: 12451868--12451934 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
12451858 ATTCATACTT
* *
12451868 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAATAGCAAAGAG
*
12451901 AAGAACATACGCATTGGAACTAATAGCAAAGAG
1 AAGAACATACGCATTGGAACCAATAGCAAAGAG
12451934 A
1 A
12451935 TCCAAAGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAATAGCAAAGAG
Found at i:12455190 original size:40 final size:40
Alignment explanation
Indices: 12455068--12455177 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 40
12455058 TAAATTACTT
* *
12455068 TTTTGCGGCATTTTTATCATAAATGCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
*
12455108 TTTTGCGGCGTTTTTAT-ATAAACTCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
12455147 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
12455178 ATGTTTGACT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 37 0.57
40 28 0.43
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
Found at i:12455216 original size:22 final size:20
Alignment explanation
Indices: 12455189--12455245 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
12455179 TGTTTGACTT
12455189 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
12455210 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
12455231 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
12455246 TTAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:12455614 original size:15 final size:14
Alignment explanation
Indices: 12455594--12455641 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
12455584 AATCATACAA
12455594 CATAACCCTTAAACC
1 CATAACCCTT-AACC
*
12455609 CATAACCCCTAACC
1 CATAACCCTTAACC
*
12455623 CAT-ACCCCTAACC
1 CATAACCCTTAACC
*
12455636 CCTAAC
1 CATAAC
12455642 ACCTAAACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 9 0.30
15 9 0.30
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.17
Consensus pattern (14 bp):
CATAACCCTTAACC
Found at i:12455631 original size:13 final size:14
Alignment explanation
Indices: 12455594--12455647 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
12455584 AATCATACAA
*
12455594 CATAACCCTTAAACC
1 CATAACCCCT-AACC
12455609 CATAACCCCTAACC
1 CATAACCCCTAACC
12455623 CAT-ACCCCTAACC
1 CATAACCCCTAACC
* *
12455636 CCTAACACCTAA
1 CATAACCCCTAA
12455648 ACCTTAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.34
14 14 0.40
15 9 0.26
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (14 bp):
CATAACCCCTAACC
Found at i:12455660 original size:14 final size:14
Alignment explanation
Indices: 12455645--12455704 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
12455635 CCCTAACACC
*
12455645 TAAACCTTAAACCC
1 TAAACCTTAAACCA
**
12455659 TAGCCCTTAAACCA
1 TAAACCTTAAACCA
12455673 TAAA-CTATAAACCA
1 TAAACCT-TAAACCA
* *
12455687 TAATCCATAAACCTA
1 TAAACCTTAAACC-A
12455702 TAA
1 TAA
12455705 TCCATAATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.06
14 29 0.81
15 5 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:12455676 original size:7 final size:7
Alignment explanation
Indices: 12455666--12455716 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
12455656 CCCTAGCCCT
12455666 TAAACCA
1 TAAACCA
*
12455673 TAAACTA
1 TAAACCA
12455680 TAAACCA
1 TAAACCA
*
12455687 TAATCCA
1 TAAACCA
12455694 TAAACCTA
1 TAAACC-A
*
12455702 TAATCCA
1 TAAACCA
*
12455709 TAATCCA
1 TAAACCA
12455716 T
1 T
12455717 GCACCTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:12455706 original size:15 final size:14
Alignment explanation
Indices: 12455666--12455716 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
12455656 CCCTAGCCCT
* *
12455666 TAAACCATAAACTA
1 TAAACCATAATCCA
12455680 TAAACCATAATCCA
1 TAAACCATAATCCA
12455694 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
*
12455709 TAATCCAT
1 TAAACCAT
12455717 GCACCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:12455722 original size:22 final size:22
Alignment explanation
Indices: 12455670--12455716 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
12455660 AGCCCTTAAA
12455670 CCATAAA-CTATAAACCATAAT
1 CCATAAACCTATAAACCATAAT
*
12455691 CCATAAACCTATAATCCATAAT
1 CCATAAACCTATAAACCATAAT
12455713 CCAT
1 CCAT
12455717 GCACCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
CCATAAACCTATAAACCATAAT
Found at i:12456038 original size:24 final size:24
Alignment explanation
Indices: 12456010--12456058 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12456000 CCAAAATAAC
*
12456010 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
12456034 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
12456058 A
1 A
12456059 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:12457531 original size:21 final size:21
Alignment explanation
Indices: 12457502--12457552 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
12457492 GTAACTATAT
*
12457502 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
12457523 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
12457544 TAGTCAGTT
1 TAGTCAGTT
12457553 GCTAATCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:12457563 original size:21 final size:21
Alignment explanation
Indices: 12457502--12457566 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
12457492 GTAACTATAT
* * *
12457502 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
* *
12457523 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
12457544 TAGTCAGTT-GCTAATCTGTTA
1 TAGTCAGTTAG-TAATCTGTTA
12457565 TA
1 TA
12457567 AAGCATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTAATCTGTTA
Found at i:12461684 original size:28 final size:28
Alignment explanation
Indices: 12461644--12461699 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12461634 GATTGGGCAA
12461644 GCTCACTTGAAGATCGTAAGTCTACTTC
1 GCTCACTTGAAGATCGTAAGTCTACTTC
12461672 GCTCACTTGAAGATCGTAAGTCTACTTC
1 GCTCACTTGAAGATCGTAAGTCTACTTC
12461700 CGGATTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
GCTCACTTGAAGATCGTAAGTCTACTTC
Found at i:12462183 original size:21 final size:21
Alignment explanation
Indices: 12462154--12462204 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
12462144 GTAACTATAT
*
12462154 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
12462175 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
12462196 TAGTCAGTT
1 TAGTCAGTT
12462205 GCTAATCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:12462215 original size:21 final size:21
Alignment explanation
Indices: 12462154--12462218 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
12462144 GTAACTATAT
* * *
12462154 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
* *
12462175 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
12462196 TAGTCAGTT-GCTAATCTGTTA
1 TAGTCAGTTAG-TAATCTGTTA
12462217 TA
1 TA
12462219 AAGCATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTAATCTGTTA
Found at i:12466728 original size:13 final size:13
Alignment explanation
Indices: 12466710--12466736 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12466700 ACAAATCACA
12466710 AGAATTAATGCAC
1 AGAATTAATGCAC
12466723 AGAATTAATGCAC
1 AGAATTAATGCAC
12466736 A
1 A
12466737 AGCTAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAATTAATGCAC
Found at i:12468103 original size:22 final size:22
Alignment explanation
Indices: 12468077--12468134 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
12468067 AATTTATGGA
*
12468077 TTACAATACAATTCGTGGTATT
1 TTACAATACAATTCGTAGTATT
* *
12468099 TTACAATACAGTTTGTAGTATT
1 TTACAATACAATTCGTAGTATT
*
12468121 TTACAACACAATTC
1 TTACAATACAATTC
12468135 ATTTCTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (22 bp):
TTACAATACAATTCGTAGTATT
Found at i:12470857 original size:32 final size:32
Alignment explanation
Indices: 12470800--12470862 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
12470790 TAGTTGGTTA
* *
12470800 CCAATTTTAGTTTGGGACTGTGATACCAACAC
1 CCAATTTTAGTTTAGGACTGTGATACAAACAC
*
12470832 CCAATTTTAGTTTAGGAGTAG-GATACAAACA
1 CCAATTTTAGTTTAGGACT-GTGATACAAACA
12470863 AAGAATACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (32 bp):
CCAATTTTAGTTTAGGACTGTGATACAAACAC
Found at i:12473302 original size:8 final size:8
Alignment explanation
Indices: 12473278--12473307 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
12473268 TCCTGTTCTT
12473278 TTTCTTTA
1 TTTCTTTA
12473286 TTT-TTTA
1 TTTCTTTA
12473293 TTTCTTTA
1 TTTCTTTA
12473301 TTTCTTT
1 TTTCTTT
12473308 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTTA
Found at i:12473344 original size:8 final size:8
Alignment explanation
Indices: 12473326--12473370 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
12473316 ATTATATACT
*
12473326 TTATTTTA
1 TTATTATA
*
12473334 TTATTACA
1 TTATTATA
12473342 TTACATTATA
1 TT--ATTATA
12473352 TTATTATA
1 TTATTATA
12473360 TTATTATA
1 TTATTATA
12473368 TTA
1 TTA
12473371 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:12481094 original size:16 final size:16
Alignment explanation
Indices: 12481041--12481106 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 16
12481031 ATCTCTTTTA
12481041 TATTTTATTATATACTT
1 TATTTTATTAT-TACTT
12481058 TATTTTATTATTACTTCACTT
1 TA--TT-TTATTA-TT-ACTT
12481079 TATTTTATTATTACTT
1 TATTTTATTATTACTT
*
12481095 TATATTA-TATTA
1 TATTTTATTATTA
12481107 ATTTCTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.12
16 10 0.23
17 4 0.09
18 6 0.14
19 4 0.09
20 7 0.16
21 7 0.16
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATTATTACTT
Found at i:12481102 original size:21 final size:21
Alignment explanation
Indices: 12481054--12481094 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
12481044 TTTATTATAT
12481054 ACTTTATTTTATTATTACTTC
1 ACTTTATTTTATTATTACTTC
12481075 ACTTTATTTTATTATTACTT
1 ACTTTATTTTATTATTACTT
12481095 TATATTATAT
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:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ACTTTATTTTATTATTACTTC
Found at i:12484721 original size:21 final size:22
Alignment explanation
Indices: 12484677--12484730 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
12484667 TCACAAAAAT
*
12484677 AATTTGAAAATGACCCCATAAA
1 AATTTGAAAAGGACCCCATAAA
*
12484699 AATTTGAAAAGGA-TCCATCAAA
1 AATTTGAAAAGGACCCCAT-AAA
*
12484721 ATTTTGAAAA
1 AATTTGAAAA
12484731 AAGAACTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAGGACCCCATAAA
Found at i:12485022 original size:18 final size:18
Alignment explanation
Indices: 12484999--12485033 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12484989 TTAGTTTTTT
12484999 TTTTTTATTGAATGATTC
1 TTTTTTATTGAATGATTC
*
12485017 TTTTTTTTTGAATGATT
1 TTTTTTATTGAATGATT
12485034 TTGAGACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTTTATTGAATGATTC
Done.