Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 4 of 163
Found at i:1007371 original size:26 final size:26
Alignment explanation
Indices: 1007342--1007397 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
1007332 AACACTCAAA
*
1007342 TTTTAAACCA-AACTTTTCAAAAGCAC
1 TTTTAAA-CAGAACTTTTCAAAAACAC
** *
1007368 TTTTCCACAGCACTTTTCAAAAACAC
1 TTTTAAACAGAACTTTTCAAAAACAC
1007394 TTTT
1 TTTT
1007398 CAAAAGCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAACAC
Found at i:1008231 original size:20 final size:20
Alignment explanation
Indices: 1008202--1008239 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1008192 ATAAACAAAA
1008202 TATAAATTTATAATTTTTCT
1 TATAAATTTATAATTTTTCT
*
1008222 TATAATTTTATAATTTTT
1 TATAAATTTATAATTTTT
1008240 TAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TATAAATTTATAATTTTTCT
Found at i:1008246 original size:20 final size:20
Alignment explanation
Indices: 1008203--1008250 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1008193 TAAACAAAAT
* *
1008203 ATAAATTTATAATTTTTCTT
1 ATAATTTTATAATTTTTCTA
1008223 ATAATTTTATAATTTTT-TAA
1 ATAATTTTATAATTTTTCT-A
1008243 ATAATTTT
1 ATAATTTT
1008251 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATTTTATAATTTTTCTA
Found at i:1010727 original size:98 final size:98
Alignment explanation
Indices: 1010621--1010804 Score: 350
Period size: 98 Copynumber: 1.9 Consensus size: 98
1010611 ACTTTAAAAT
*
1010621 TTATCCAAGATTTAAGAAATCACCCCCAATACGTTAGGGAACGATTCCTCTAAAATCCCAAACTC
1 TTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACGATTCCTCTAAAATCCCAAACTC
1010686 GGAATATGTCCTTTACTTCAAAAGAACATCCAC
66 GGAATATGTCCTTTACTTCAAAAGAACATCCAC
*
1010719 TTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTCTAAAATCCCAAACTC
1 TTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACGATTCCTCTAAAATCCCAAACTC
1010784 GGAATATGTCCTTTACTTCAA
66 GGAATATGTCCTTTACTTCAA
1010805 GAAATATTCA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 84 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (98 bp):
TTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACGATTCCTCTAAAATCCCAAACTC
GGAATATGTCCTTTACTTCAAAAGAACATCCAC
Found at i:1011519 original size:112 final size:113
Alignment explanation
Indices: 1011320--1011526 Score: 285
Period size: 112 Copynumber: 1.8 Consensus size: 113
1011310 ATAAAGAAAA
* *
1011320 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACGTACATATATATGT
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATAT
* * * *
1011385 AAGTTAATAAATATAGACCATAAAGATAATGACTGCATATATGTGTAT
66 AAGGTAACAAATATACACCATAAACATAATGACTGCATATATGTGTAT
* * *
1011433 ATATATATATAAATTAT-AAAATATGTATAGAAAGTAT-A-GTATATATACGTACATATATATAT
1 ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATAT
*
1011495 AAGGTAACAAATAGATACATCATAAACATAAT
66 AAGGTAACAAAT--ATACACCATAAACATAAT
1011527 AATTACGCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
110 32 0.39
111 1 0.01
112 33 0.40
113 16 0.20
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (113 bp):
ATATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATAT
AAGGTAACAAATATACACCATAAACATAATGACTGCATATATGTGTAT
Found at i:1014715 original size:35 final size:38
Alignment explanation
Indices: 1014642--1014715 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
1014632 CACATGTGCT
* *
1014642 ACAATCTGGAGTTGACTTAAATATATTTAGTGGGGCCC
1 ACAATCTCGAGTTGACTTAAATATATTTAGTGGAGCCC
1014680 ACAATCTCGAGTTGACTT-AA-AT-TTTAGTGGAGCCC
1 ACAATCTCGAGTTGACTTAAATATATTTAGTGGAGCCC
1014715 A
1 A
1014716 TCGTTCTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 13 0.38
36 2 0.06
37 2 0.06
38 17 0.50
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (38 bp):
ACAATCTCGAGTTGACTTAAATATATTTAGTGGAGCCC
Found at i:1017157 original size:13 final size:13
Alignment explanation
Indices: 1017125--1017149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1017115 ATAAAATATT
1017125 TTTATAATTTGTG
1 TTTATAATTTGTG
1017138 TTTATAATTTGT
1 TTTATAATTTGT
1017150 TTATATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTATAATTTGTG
Found at i:1020354 original size:29 final size:30
Alignment explanation
Indices: 1020322--1020380 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
1020312 TTGCATGCAT
* *
1020322 AATTGCAC-TAATTTAAAGTTCATGTATAC
1 AATTGCACATAAATTAAAATTCATGTATAC
1020351 AATTGCACATTAAATTAAAATTCATGTATA
1 AATTGCACA-TAAATTAAAATTCATGTATA
1020381 ATTTTAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTGCACATAAATTAAAATTCATGTATAC
Found at i:1020383 original size:29 final size:27
Alignment explanation
Indices: 1020315--1020383 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
1020305 TATAGTTTTG
* * *
1020315 CATGCATAATTGCACTAATTTAAAGTT
1 CATGTATAATTGCACTAAATTAAAATT
1020342 CATGTATACAATTGCACATTAAATTAAAATT
1 CATGTAT--AATTGCAC--TAAATTAAAATT
1020373 CATGTATAATT
1 CATGTATAATT
1020384 TTAAGACTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
29 12 0.34
31 17 0.49
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
CATGTATAATTGCACTAAATTAAAATT
Found at i:1023635 original size:22 final size:22
Alignment explanation
Indices: 1023610--1023655 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1023600 TAAAGAAAAA
1023610 ATGGATTTGATTACATCAATTT
1 ATGGATTTGATTACATCAATTT
1023632 ATGGATTTGATTACATCAATTT
1 ATGGATTTGATTACATCAATTT
1023654 AT
1 AT
1023656 TCTTTATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (22 bp):
ATGGATTTGATTACATCAATTT
Found at i:1024523 original size:13 final size:13
Alignment explanation
Indices: 1024507--1024531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1024497 ATAAAATATT
1024507 TTTATAATTTGTG
1 TTTATAATTTGTG
1024520 TTTATAATTTGT
1 TTTATAATTTGT
1024532 TGATATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTATAATTTGTG
Found at i:1027154 original size:14 final size:14
Alignment explanation
Indices: 1027134--1027171 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1027124 ATGATTTGAA
1027134 AATTTTATATT-AT
1 AATTTTATATTAAT
*
1027147 AATATTTAAATTAAT
1 AAT-TTTATATTAAT
1027162 AATTTTATAT
1 AATTTTATAT
1027172 ATTTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 13 0.62
15 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTATATTAAT
Found at i:1030785 original size:26 final size:26
Alignment explanation
Indices: 1030756--1030816 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
1030746 GCAAATAATT
**
1030756 AATTTTTAATATTTTTAAAAAT-TAAA
1 AATTTTTAA-ATTAATAAAAATATAAA
*
1030782 AATTATTGAAATTAATAAAAATATAAA
1 AATT-TTTAAATTAATAAAAATATAAA
1030809 AATATTTT
1 AAT-TTTT
1030817 TAGAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 14 0.50
27 13 0.46
28 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATTAATAAAAATATAAA
Found at i:1036785 original size:21 final size:21
Alignment explanation
Indices: 1036759--1036810 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 21
1036749 CCTAAATCTA
*
1036759 TAATAAATAAAATATAATTCT
1 TAATAAATAAAATATAATTAT
*
1036780 TAAT-AATATAAT-TAATTAT
1 TAATAAATAAAATATAATTAT
1036799 T--TAAATAAAATA
1 TAATAAATAAAATA
1036811 GTTCAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 7 0.27
20 7 0.27
21 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAATAAAATATAATTAT
Found at i:1042099 original size:12 final size:12
Alignment explanation
Indices: 1042084--1042118 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1042074 TTTAAAATAC
1042084 TTTTATTTTTAT
1 TTTTATTTTTAT
1042096 TTTTATTTTTAT
1 TTTTATTTTTAT
1042108 TTTTATTTTTA
1 TTTTATTTTTA
1042119 AAATAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:1042105 original size:18 final size:18
Alignment explanation
Indices: 1042084--1042118 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1042074 TTTAAAATAC
1042084 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATTTTTAT
1042102 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
1042119 AAATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAT
Found at i:1045423 original size:12 final size:12
Alignment explanation
Indices: 1045385--1045439 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
1045375 AGGGTTGAGT
*
1045385 AGAAAATCAGTAA
1 AGAAACTCAGT-A
1045398 AGAAACT-AGTA
1 AGAAACTCAGTA
1045409 AG-AACTCAGTAA
1 AGAAACTCAGT-A
1045421 AGAAACT-AGTA
1 AGAAACTCAGTA
1045432 AG-AACTCA
1 AGAAACTCA
1045440 CATGATGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 8 0.22
11 10 0.27
12 9 0.24
13 10 0.27
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (12 bp):
AGAAACTCAGTA
Found at i:1045436 original size:23 final size:23
Alignment explanation
Indices: 1045391--1045439 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1045381 GAGTAGAAAA
1045391 TCAGTAAAGAAACTAGTAAGAAC
1 TCAGTAAAGAAACTAGTAAGAAC
1045414 TCAGTAAAGAAACTAGTAAGAAC
1 TCAGTAAAGAAACTAGTAAGAAC
1045437 TCA
1 TCA
1045440 CATGATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (23 bp):
TCAGTAAAGAAACTAGTAAGAAC
Found at i:1045768 original size:24 final size:25
Alignment explanation
Indices: 1045736--1045783 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1045726 CTTGGCAAAT
1045736 AGGGAAACCA-ATCTTAGAAGATTG
1 AGGGAAACCATATCTTAGAAGATTG
* * *
1045760 AGGGGAACCATGTCTTATAAGATT
1 AGGGAAACCATATCTTAGAAGATT
1045784 AGGTTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (25 bp):
AGGGAAACCATATCTTAGAAGATTG
Found at i:1058528 original size:3 final size:3
Alignment explanation
Indices: 1058520--1058545 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1058510 TTCATAAATC
1058520 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1058546 TCAGGCCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1060848 original size:2 final size:2
Alignment explanation
Indices: 1060841--1060870 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1060831 AATTAAAGTG
1060841 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1060871 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1063824 original size:13 final size:13
Alignment explanation
Indices: 1063808--1063860 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
1063798 TTTAAACCAA
1063808 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
1063821 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
1063834 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
1063847 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1063860 A
1 A
1063861 TCGCCAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1063826 original size:26 final size:26
Alignment explanation
Indices: 1063797--1063852 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
1063787 AACACTCAAA
*
1063797 TTTTAAACCA-AACTTTTCAAAAGCAC
1 TTTTAAA-CAGAACTTTTCAAAAACAC
** *
1063823 TTTTCCACAGCACTTTTCAAAAACAC
1 TTTTAAACAGAACTTTTCAAAAACAC
1063849 TTTT
1 TTTT
1063853 CAAAAGCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAACAC
Found at i:1064651 original size:20 final size:20
Alignment explanation
Indices: 1064628--1064665 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1064618 TAATAAAAAA
1064628 TATAAATTTATAATTTTTCT
1 TATAAATTTATAATTTTTCT
*
1064648 TATAATTTTATAATTTTT
1 TATAAATTTATAATTTTT
1064666 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TATAAATTTATAATTTTTCT
Found at i:1065772 original size:18 final size:18
Alignment explanation
Indices: 1065749--1065785 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1065739 TGAGTTTTCG
1065749 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
1065767 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
1065785 A
1 A
1065786 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:1073393 original size:13 final size:13
Alignment explanation
Indices: 1073361--1073385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1073351 ATAAAATATC
1073361 TTTATAATTTGTA
1 TTTATAATTTGTA
1073374 TTTATAATTTGT
1 TTTATAATTTGT
1073386 TTATATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTATAATTTGTA
Found at i:1073557 original size:8 final size:8
Alignment explanation
Indices: 1073541--1073575 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
1073531 TGTTATTTAC
*
1073541 TAAAATGT
1 TAAATTGT
1073549 TAAATTGT
1 TAAATTGT
1073557 TAAATTGT
1 TAAATTGT
1073565 TAAATTGT
1 TAAATTGT
1073573 TAA
1 TAA
1073576 CACATAGTAC
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:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (8 bp):
TAAATTGT
Found at i:1075589 original size:23 final size:23
Alignment explanation
Indices: 1075561--1075654 Score: 97
Period size: 23 Copynumber: 4.3 Consensus size: 23
1075551 AGTGTATCCT
1075561 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
1075584 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* *
1075603 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTC
1075626 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
1075649 TTCATA
1 TTCATA
1075655 ATTTTTCATA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
22 4 0.07
23 37 0.69
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:1087199 original size:43 final size:43
Alignment explanation
Indices: 1087124--1087205 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
1087114 GCGGCGTTTA
*
1087124 TACCAACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTT
1 TACCAACAAACGCCGCTAAAGAACAGGATCTTTAGCGGCACTT
* * *
1087167 TACCCACAAACGCCGCTAAAAGTAC-GGTTCTTTAGCGGC
1 TACCAACAAACGCCGCT-AAAGAACAGGATCTTTAGCGGC
1087206 GTTTATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
TACCAACAAACGCCGCTAAAGAACAGGATCTTTAGCGGCACTT
Found at i:1095378 original size:28 final size:28
Alignment explanation
Indices: 1095338--1095395 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1095328 GACAAGAAGA
*
1095338 CATAGTTCAGACTAAGGAGAAAATATAT
1 CATAGTCCAGACTAAGGAGAAAATATAT
1095366 CATAGTCCAGACTAAGGAGAAAATATAT
1 CATAGTCCAGACTAAGGAGAAAATATAT
1095394 CA
1 CA
1095396 GCACTAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (28 bp):
CATAGTCCAGACTAAGGAGAAAATATAT
Found at i:1100228 original size:25 final size:25
Alignment explanation
Indices: 1100200--1100249 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1100190 ATAATGTTTT
1100200 TTTGCATTAATTACATAAAATAAAA
1 TTTGCATTAATTACATAAAATAAAA
*
1100225 TTTGTATTAATTACATAAAATAAAA
1 TTTGCATTAATTACATAAAATAAAA
1100250 CTATAGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (25 bp):
TTTGCATTAATTACATAAAATAAAA
Found at i:1100352 original size:28 final size:28
Alignment explanation
Indices: 1100277--1100355 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
1100267 TATGTTAAGA
*
1100277 ATATTTTAATTATGATTTGA-AAATTTT
1 ATATTTTAATTATGATTTAATAAATTTT
* * *
1100304 ATATTATAATATTTGAATTAATAAATTTAT
1 ATATTTTAAT-TATGATTTAATAAATTT-T
1100334 ATATTTTAATTAT-ATTTAATAA
1 ATATTTTAATTATGATTTAATAA
1100356 TTCATACAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 9 0.21
28 15 0.36
29 8 0.19
30 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
ATATTTTAATTATGATTTAATAAATTTT
Found at i:1112335 original size:18 final size:18
Alignment explanation
Indices: 1112312--1112347 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1112302 CGTATATATA
1112312 TATATAAGCAATAATAAT
1 TATATAAGCAATAATAAT
1112330 TATATAAGCAATAATAAT
1 TATATAAGCAATAATAAT
1112348 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
TATATAAGCAATAATAAT
Found at i:1113683 original size:132 final size:133
Alignment explanation
Indices: 1113446--1113707 Score: 517
Period size: 132 Copynumber: 2.0 Consensus size: 133
1113436 TTGGTTTGGG
1113446 CTCCGGGTTAGGGCTGGTTTTGTAATTGGGTTTAATGCTGTAATAGACTGGGTTATTTGTTAGTG
1 CTCCGGGTTAGGGCTGGTTTTGTAATTGGGTTTAATGCTGTAATAGACTGGGTTATTTGTTAGTG
1113511 GGCCGGGCAGAAATTGGGTCTGTACAATATTAATTGATTTGCACCTCAACTATTT-AATACAAAA
66 GGCCGGGCAGAAATTGGGTCTGTACAATATTAATTGATTTGCACCTCAACTATTTAAATACAAAA
1113575 ATT
131 ATT
1113578 CTCCGGGTTAGGGCTGGTTTTGTAATTGGGTTTAATGCTGTAATAGACTGGGTTATTTGTTAGTG
1 CTCCGGGTTAGGGCTGGTTTTGTAATTGGGTTTAATGCTGTAATAGACTGGGTTATTTGTTAGTG
1113643 GGCCGGGCAGAAATTGGGTCTGTACAATATTAATTGATTTGCACCTCAACTATTTAAATACAAAA
66 GGCCGGGCAGAAATTGGGTCTGTACAATATTAATTGATTTGCACCTCAACTATTTAAATACAAAA
1113708 GTTCAAGCTA
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 120 0.93
133 9 0.07
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (133 bp):
CTCCGGGTTAGGGCTGGTTTTGTAATTGGGTTTAATGCTGTAATAGACTGGGTTATTTGTTAGTG
GGCCGGGCAGAAATTGGGTCTGTACAATATTAATTGATTTGCACCTCAACTATTTAAATACAAAA
ATT
Found at i:1115198 original size:26 final size:25
Alignment explanation
Indices: 1115158--1115207 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
1115148 TATTGGAGAA
*
1115158 AGTAATTTAGACTTTAGTCAATTAAG
1 AGTAAATTAGACTTTAGTC-ATTAAG
*
1115184 AGTAAATTAGGCTTTAGTCATTAA
1 AGTAAATTAGACTTTAGTCATTAA
1115208 TTATATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (25 bp):
AGTAAATTAGACTTTAGTCATTAAG
Found at i:1115881 original size:2 final size:2
Alignment explanation
Indices: 1115869--1115903 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
1115859 ACTTTTTCTA
1115869 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1115904 TCAGTACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1116644 original size:21 final size:21
Alignment explanation
Indices: 1116618--1116676 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1116608 AAGTTAAAAA
1116618 AAGCTCGTAAGAGCTGAACAG
1 AAGCTCGTAAGAGCTGAACAG
* *
1116639 AAGCTCGTAAGAGCTTAATAG
1 AAGCTCGTAAGAGCTGAACAG
*
1116660 AAGCTCATAAGAGCTGA
1 AAGCTCGTAAGAGCTGA
1116677 TCCACCCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
AAGCTCGTAAGAGCTGAACAG
Found at i:1116672 original size:42 final size:39
Alignment explanation
Indices: 1116595--1116676 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 39
1116585 GTACATCGTT
*
1116595 AACAGAAGCTCGAAAGTTAAAAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGAAAGTTAAAAAAAGCTCATAAGAGCTG
* *
1116634 AACAGAAGCTCGTAAGAGCTTAATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCG-AA-AG-TTAAAAAAAGCTCATAAGAGCTG
1116676 A
1 A
1116677 TCCACCCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.32
40 2 0.05
41 2 0.05
42 21 0.57
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (39 bp):
AACAGAAGCTCGAAAGTTAAAAAAAGCTCATAAGAGCTG
Found at i:1118848 original size:12 final size:13
Alignment explanation
Indices: 1118831--1118870 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
1118821 TGCAAACATT
1118831 AAAAAGAAAA-AA
1 AAAAAGAAAAGAA
1118843 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
1118856 AGAAAGAAATAGAA
1 AAAAAGAAA-AGAA
1118870 A
1 A
1118871 GGGAGAAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.40
13 10 0.40
14 5 0.20
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:1118854 original size:17 final size:19
Alignment explanation
Indices: 1118832--1118870 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
1118822 GCAAACATTA
1118832 AAAAGAAA-AAA-AAAAAG
1 AAAAGAAAGAAAGAAAAAG
*
1118849 AAAAGAAAGAAAGAAATAG
1 AAAAGAAAGAAAGAAAAAG
1118868 AAA
1 AAA
1118871 GGGAGAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAGAAAGAAAGAAAAAG
Found at i:1118877 original size:14 final size:13
Alignment explanation
Indices: 1118833--1118871 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1118823 CAAACATTAA
*
1118833 AAAGAAAA-AAAA
1 AAAGAAAAGAAAG
1118845 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
1118858 AAAGAAATAGAAAG
1 AAAGAAA-AGAAAG
1118872 GGAGAAGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 10 0.42
14 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:1120018 original size:18 final size:18
Alignment explanation
Indices: 1119995--1120045 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
1119985 GAGAAGTCAA
*
1119995 AGATGAGAAATGAATTTG
1 AGATGAGAAATGAATATG
1120013 AGATGAGAAATGAAATATG
1 AGATGAGAAATG-AATATG
*
1120032 AAATGATGAAATGA
1 AGATGA-GAAATGA
1120046 GATGTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
19 11 0.38
20 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:1122028 original size:6 final size:6
Alignment explanation
Indices: 1122017--1122050 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1122007 TAGATCATAA
*
1122017 TTTTCT TTTTCT TTTTCT TTTTTT CTTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT TTT
1122051 ACAGGATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:1133192 original size:18 final size:18
Alignment explanation
Indices: 1133169--1133203 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1133159 TTTATAATAC
*
1133169 TATATATTATGTTATTTT
1 TATATATTATGTAATTTT
1133187 TATATATTATGTAATTT
1 TATATATTATGTAATTT
1133204 AGAACACTAA
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:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:1133686 original size:22 final size:23
Alignment explanation
Indices: 1133630--1133687 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
1133620 CGGCACGTTT
* * *
1133630 TTAATTAAAATTAAAATTATTTTT
1 TTAA-TAAAATTAAAACTATATTG
1133654 TTAATAAAATTAAAACTA-ATTG
1 TTAATAAAATTAAAACTATATTG
*
1133676 TTAGTAAAATTA
1 TTAATAAAATTA
1133688 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 13 0.43
24 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
TTAATAAAATTAAAACTATATTG
Found at i:1133746 original size:66 final size:67
Alignment explanation
Indices: 1133676--1133818 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
1133666 AAACTAATTG
*
1133676 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
1133740 GA
66 GA
*
1133742 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1133807 TGA
65 TGA
1133810 TTAGTAAAA
1 TTAGTAAAA
1133819 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:1133772 original size:9 final size:9
Alignment explanation
Indices: 1133760--1133787 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1133750 TTTATCAAAT
1133760 TATTAATTG
1 TATTAATTG
1133769 TATTAATTG
1 TATTAATTG
1133778 TATTAATTG
1 TATTAATTG
1133787 T
1 T
1133788 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:1135955 original size:64 final size:64
Alignment explanation
Indices: 1135881--1136010 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
1135871 CAATCCGTTC
1135881 TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACGTAAATTGTA
1 TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACGTAAATTGTA
* *
1135945 TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACGTCATTTGTA
1 TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACGTAAATTGTA
1136009 TC
1 TC
1136011 ATTTTTCTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (64 bp):
TCCTTTAATCCTCAACATTTATTGGGGTAGGATTGTATGAGACAGTAACGTTACGTAAATTGTA
Found at i:1138438 original size:33 final size:33
Alignment explanation
Indices: 1138395--1138474 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
1138385 CAGTCATCAT
*
1138395 AGCTCGTATCCACCTTAGTAGTCCGCACCTTCC
1 AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
* * *
1138428 GGCTCGTATCCACCTCAGTATTCCGCTCCTTCC
1 AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
1138461 AGC-CTGTATCCACC
1 AGCTC-GTATCCACC
1138475 GCTGTACTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.16, C:0.41, G:0.15, T:0.28
Consensus pattern (33 bp):
AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
Found at i:1139197 original size:27 final size:27
Alignment explanation
Indices: 1139133--1139217 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
1139123 GTTGTGGGCC
1139133 CCACCATTGGCGTCTCTCAACAT-GGCA
1 CCACCATTGGCGTCTCTCAA-ATAGGCA
* * * *
1139160 CAACTAGTGGCGTCTCTCAAATAGGCT
1 CCACCATTGGCGTCTCTCAAATAGGCA
* * * *
1139187 CCACCATTGGCGCCTCTGAGATAGGCG
1 CCACCATTGGCGTCTCTCAAATAGGCA
1139214 CCAC
1 CCAC
1139218 TACTCTTGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
CCACCATTGGCGTCTCTCAAATAGGCA
Found at i:1139342 original size:51 final size:51
Alignment explanation
Indices: 1139285--1139394 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
1139275 TTATTAAAAG
1139285 AAAAAAATTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATTA
1 AAAAAAATTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATTA
* * *
1139336 AAAAAAATTAATATAAAATATTCATTGGCGCCTTTCAGATAGGCTCCATTA
1 AAAAAAATTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATTA
1139387 AAAAAAAT
1 AAAAAAAT
1139395 ATCATTTCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (51 bp):
AAAAAAATTAATATAAAAAATTCATTGGCGCCTATCAGATAGGCGCCATTA
Found at i:1143853 original size:32 final size:30
Alignment explanation
Indices: 1143776--1143853 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
1143766 TTTACAAAAT
*
1143776 AGTCACTAAATTATTCAAAAAATTTTATTTA
1 AGTCACT-AACTATTCAAAAAATTTTATTTA
* **
1143807 AGTCATTGAACTATTCAAAAGTTTTTTATTTA
1 AGTCACT-AACTATTCAAAA-AATTTTATTTA
1143839 AGTCACTAAGCTATT
1 AGTCACTAA-CTATT
1143854 AAATTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 19 0.49
32 20 0.51
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (30 bp):
AGTCACTAACTATTCAAAAAATTTTATTTA
Found at i:1144472 original size:16 final size:17
Alignment explanation
Indices: 1144449--1144493 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1144439 AATGCTTCAA
* *
1144449 TCTCTCCTTTCCCTTTC
1 TCTCTCCTTCCCCTCTC
1144466 T-TCTCCTTCCCCTCTC
1 TCTCTCCTTCCCCTCTC
*
1144482 TCTCTCCCTCCC
1 TCTCTCCTTCCC
1144494 TTCCATAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCTCCTTCCCCTCTC
Found at i:1144882 original size:1 final size:1
Alignment explanation
Indices: 1144876--1144943 Score: 109
Period size: 1 Copynumber: 68.0 Consensus size: 1
1144866 TCTCTGTTTG
** *
1144876 TTTTTTTTTTTTTTTTTTTTTTTGGTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1144941 TTT
1 TTT
1144944 GGTGTATGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (1 bp):
T
Found at i:1144917 original size:36 final size:37
Alignment explanation
Indices: 1144859--1144934 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 37
1144849 TATATTTCAA
1144859 TTTGGTTTCTCTGTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTGGTTTCTCTGTTTGTTTTTTTTTTTTTTTTTTTT
* *
1144896 TTTGGTTT-TTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTGGTTTCTCTGTTTGTTTTTTTTTTTTTTTTTTTT
1144932 TTT
1 TTT
1144935 TTTTTTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (37 bp):
TTTGGTTTCTCTGTTTGTTTTTTTTTTTTTTTTTTTT
Found at i:1148550 original size:11 final size:10
Alignment explanation
Indices: 1148523--1148555 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
1148513 TATTCGAATT
1148523 TAATTT-AAA
1 TAATTTAAAA
1148532 TAATTTAAAA
1 TAATTTAAAA
1148542 TATATTTAAAA
1 TA-ATTTAAAA
1148553 TAA
1 TAA
1148556 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTTAAAA
Found at i:1150174 original size:3 final size:3
Alignment explanation
Indices: 1150119--1150159 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
1150109 CTTTGCATAT
* *
1150119 TTA TTA TTA TTA TCA TTA TTA TT- TTA TTT TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1150160 CATCCTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1150281 original size:25 final size:25
Alignment explanation
Indices: 1150248--1150296 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1150238 TTTTTGAGTT
* *
1150248 ATCATTGTCATTCTCATTATTATTC
1 ATCAATGTCATTATCATTATTATTC
1150273 ATCAATGTCATTATCATTATTATT
1 ATCAATGTCATTATCATTATTATT
1150297 ATAGCTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (25 bp):
ATCAATGTCATTATCATTATTATTC
Found at i:1150375 original size:16 final size:17
Alignment explanation
Indices: 1150339--1150385 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1150329 CCATCGCTAC
*
1150339 TATTATTTTATTTCT--
1 TATTATTTTATTTGTAA
1150354 TATTA-TTTATTTGTAA
1 TATTATTTTATTTGTAA
1150370 TATTATTTTATTTGTA
1 TATTATTTTATTTGTA
1150386 CTCATATAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 5 0.18
17 10 0.36
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (17 bp):
TATTATTTTATTTGTAA
Found at i:1151913 original size:19 final size:20
Alignment explanation
Indices: 1151869--1151914 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1151859 ACAAGTAAAT
*
1151869 TTAATAATTAATAATTTTAA
1 TTAATATTTAATAATTTTAA
**
1151889 AAAATATTTAATAA-TTTAA
1 TTAATATTTAATAATTTTAA
1151908 TTAATAT
1 TTAATAT
1151915 AGTTTTAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATATTTAATAATTTTAA
Found at i:1152492 original size:73 final size:73
Alignment explanation
Indices: 1152368--1152586 Score: 402
Period size: 73 Copynumber: 3.0 Consensus size: 73
1152358 AGGGCTTTTC
* * * *
1152368 TTGATGGCGGCAAGATGTAATCGCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1 TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1152433 ATTTTGTT
66 ATTTTGTT
1152441 TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1 TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1152506 ATTTTGTT
66 ATTTTGTT
1152514 TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1 TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
1152579 ATTTTGTT
66 ATTTTGTT
1152587 CCCGAGCTAG
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 142 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.39
Consensus pattern (73 bp):
TTGAGGGCGGCAAGATTTAGTCTCATATGAGTTTTTGTGAGAGTTTCATGGTAACTATGTAGAGA
ATTTTGTT
Found at i:1155787 original size:22 final size:21
Alignment explanation
Indices: 1155761--1155805 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1155751 CTTTTGAAGT
1155761 AATTAA-TATAAATTATTTATAA
1 AATTAATTATAAA-TATTT-TAA
*
1155783 AATTAATTATACATATTTTAA
1 AATTAATTATAAATATTTTAA
1155804 AA
1 AA
1155806 AACTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAATTATAAATATTTTAA
Found at i:1164328 original size:21 final size:21
Alignment explanation
Indices: 1164304--1164356 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
1164294 CCAAATTGGA
*
1164304 AAAAGTTAACATTTATTTTTT
1 AAAAGTTAACATTTATTGTTT
*
1164325 AAAA-TATATCATTTATTGTTT
1 AAAAGT-TAACATTTATTGTTT
1164346 AATAGAGTTAA
1 AA-A-AGTTAA
1164357 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 1 0.04
23 3 0.12
24 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (21 bp):
AAAAGTTAACATTTATTGTTT
Found at i:1168197 original size:21 final size:21
Alignment explanation
Indices: 1168173--1168212 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1168163 TATTTATTGT
1168173 TTAAAAAAATCATTTTTTTGC
1 TTAAAAAAATCATTTTTTTGC
* * *
1168194 TTAACAAAGTTATTTTTTT
1 TTAAAAAAATCATTTTTTT
1168213 TAAAGATGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (21 bp):
TTAAAAAAATCATTTTTTTGC
Found at i:1173766 original size:14 final size:15
Alignment explanation
Indices: 1173741--1173769 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1173731 ATATTCAATT
1173741 ATTATCTCTATTAAA
1 ATTATCTCTATTAAA
1173756 ATTAT-TCTATTAAA
1 ATTATCTCTATTAAA
1173770 TTTACTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATCTCTATTAAA
Found at i:1176150 original size:20 final size:20
Alignment explanation
Indices: 1176109--1176155 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1176099 AAATTACAAA
*
1176109 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
*
1176129 AAAAATTCAAAAT-GTTTATT
1 AAAAATTCAAAATAATTT-TT
1176149 AAAAATT
1 AAAAATT
1176156 TCCAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:1176153 original size:21 final size:21
Alignment explanation
Indices: 1176108--1176163 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
1176098 AAAATTACAA
*
1176108 AAAAAAATCAAAATAATTTTT
1 AAAAAATTCAAAATAATTTTT
*
1176129 -AAAAATTCAAAAT-GTTTATT
1 AAAAAATTCAAAATAATTT-TT
*
1176149 AAAAATTTCCAAAAT
1 AAAAAATT-CAAAAT
1176164 TTAGATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 6 0.21
22 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTT
Found at i:1176397 original size:22 final size:22
Alignment explanation
Indices: 1176355--1176399 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1176345 TATAATAAGA
**
1176355 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAATAATT
1176377 TTTTAATTTAAC-TCGAATAATT
1 TTTTAATTTAACAT-GAATAATT
1176399 T
1 T
1176400 CACTCGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:1177443 original size:16 final size:16
Alignment explanation
Indices: 1177422--1177453 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1177412 TACTTGAAGG
1177422 GTTATTATTCTAGAAA
1 GTTATTATTCTAGAAA
1177438 GTTATTATTCTAGAAA
1 GTTATTATTCTAGAAA
1177454 ATTTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTATTATTCTAGAAA
Found at i:1183241 original size:2 final size:2
Alignment explanation
Indices: 1183234--1183259 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1183224 TCCAACTAAC
1183234 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
1183260 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1183310 original size:2 final size:2
Alignment explanation
Indices: 1183259--1183301 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1183249 GTGTGTGTGT
1183259 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1183301 G
1 G
1183302 TGGGAGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1193741 original size:16 final size:17
Alignment explanation
Indices: 1193711--1193742 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1193701 AATCAATTGA
1193711 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
1193728 AAATTAAT-TTTTTAA
1 AAATTAATATTTTTAA
1193743 ACACGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTAATATTTTTAAT
Found at i:1197590 original size:751 final size:753
Alignment explanation
Indices: 1196149--1197652 Score: 2994
Period size: 751 Copynumber: 2.0 Consensus size: 753
1196139 TCTCTTCTAC
1196149 TCACATTTGTATTTTTTATTTCATATTGTTTTAAGTTTTTTTATTTTTAATTAATATTTTTAATA
1 TCACATTTGTATTTTTTATTTCATATTGTTTTAAGTTTTTTTATTTTTAATTAATATTTTTAATA
1196214 CATTAGTTTTTTTTTGTCAGATGGTTAGATAATTGTGATTTCATCTTTGAATCTTAGATTCAATT
66 CATTAGTTTTTTTTTGTCAGATGGTTAGATAATTGTGATTTCATCTTTGAATCTTAGATTCAATT
1196279 CTTCTTACAAACATTTTAATATGTTTTTTTTATTTCACATTGTTTTAAACTTTTTTTATTTTTAA
131 CTTCTTACAAACATTTTAATATGTTTTTTTTATTTCACATTGTTTTAAACTTTTTTTATTTTTAA
1196344 TTAATGTTTATAATTAATAAATATATTTTTTATTATTTTTAATTCATCATTTTAATTAATAACCA
196 TTAATGTTTATAATTAATAAATATATTTTTTATTATTTTTAATTCATCATTTTAATTAATAACCA
1196409 TTTTATTTGTAAAATCAAATAATTATTGCAAATATCATTATTTTTATATGTGTAATATTTATTTT
261 TTTTATTTGTAAAATCAAATAATTATTGCAAATATCATTATTTTTATATGTGTAATATTTATTTT
1196474 TCAGTCTATATTAGAAATCACCATACCCATAATATATGCGGAGAAATTAAAATTTTGACATATGA
326 TCAGTCTATATTAGAAATCACCATACCCATAATATATGCGGAGAAATTAAAATTTTGACATATGA
1196539 ATATTATATATAAAATATATATAAGAATTTGATGATGTTTTTTAAAAATAATTACATATTTGTTA
391 ATATTATATATAAAATATATATAAGAATTTGATGATGTTTTTTAAAAATAATTACATATTTGTTA
1196604 TTTGATTTTATAAATAAAAGAGTTATTAATTAAAAATAAAATAAAATAACTTGAAAATAATATAT
456 TTTGATTTTATAAATAAAAGAGTTATTAATTAAAAATAAAATAAAATAACTTGAAAATAATATAT
1196669 TTATTAATTATAAACATTAATTAAAAAAACAGTTTGAAACAACATGAAATAAAAAATATATATTA
521 TTATTAATTATAAACATTAATTAAAAAAACAGTTTGAAACAACATGAAATAAAAAATATATATTA
1196734 AAAAGCTTATAAAAGGAATTGAACTTGAGACTTAAAAGATGAAATCACAATTATCTAACTATCTA
586 AAAAGCTTATAAAAGGAATTGAACTTGAGACTTAAAAGATGAAATCACAATTATCTAACTATCTA
1196799 ACCAAAAAAACAAACATGTTAAAAATATTAATTAAAAAAAACTTGAAACAACATGAAATAAAAAA
651 ACCAAAAAAACAAACATGTTAAAAATATTAATTAAAAAAAACTTGAAACAACATGAAATAAAAAA
1196864 TACAATGTGAGTAGGAGAGGGATCG-A-CCGGAACTCA
716 TACAATGTGAGTAGGAGAGGGATCGAACCCGGAACTCA
1196900 TCACATTTGTATTTTTTATTTCATATTGTTTTAAGTTTTTTTATTTTTAATTAATATTTTTAATA
1 TCACATTTGTATTTTTTATTTCATATTGTTTTAAGTTTTTTTATTTTTAATTAATATTTTTAATA
1196965 CATTAGTTTTTTTTTGTCAGATGGTTAGATAATTGTGATTTCATCTTTGAATCTTAGATTCAATT
66 CATTAGTTTTTTTTTGTCAGATGGTTAGATAATTGTGATTTCATCTTTGAATCTTAGATTCAATT
1197030 CTTCTTACAAACATTTTAATATGTTTTTTTTATTTCACATTGTTTTAAACTTTTTTTATTTTTAA
131 CTTCTTACAAACATTTTAATATGTTTTTTTTATTTCACATTGTTTTAAACTTTTTTTATTTTTAA
1197095 TTAATGTTTATAATTAATAAATATATTTTTTATTATTTTTAATTCATCATTTTAATTAATAACCA
196 TTAATGTTTATAATTAATAAATATATTTTTTATTATTTTTAATTCATCATTTTAATTAATAACCA
1197160 TTTTATTTGTAAAATCAAATAATTATTGCAAATATCATTATTTTTATATGTGTAATATTTATTTT
261 TTTTATTTGTAAAATCAAATAATTATTGCAAATATCATTATTTTTATATGTGTAATATTTATTTT
1197225 TCAGTCTATATTAGAAATCACCATACCCATAATATATGCGGAGAAATTAAAATTTTGACATATGA
326 TCAGTCTATATTAGAAATCACCATACCCATAATATATGCGGAGAAATTAAAATTTTGACATATGA
1197290 ATATTATATATAAAATATATATAAGAATTTGATGATGTTTTTTAAAAATAATTACATATTTGTTA
391 ATATTATATATAAAATATATATAAGAATTTGATGATGTTTTTTAAAAATAATTACATATTTGTTA
1197355 TTTGATTTTATAAATAAAAGAGTTATTAATTAAAAATAAAATAAAATAACTTGAAAATAATATAT
456 TTTGATTTTATAAATAAAAGAGTTATTAATTAAAAATAAAATAAAATAACTTGAAAATAATATAT
1197420 TTATTAATTATAAACATTAATTAAAAAAACAGTTTGAAACAACATGAAATAAAAAATATATATTA
521 TTATTAATTATAAACATTAATTAAAAAAACAGTTTGAAACAACATGAAATAAAAAATATATATTA
1197485 AAAAGCTTATAAAAGGAATTGAACTTGAGACTTAAAAGATGAAATCACAATTATCTAACTATCTA
586 AAAAGCTTATAAAAGGAATTGAACTTGAGACTTAAAAGATGAAATCACAATTATCTAACTATCTA
1197550 ACCAAAAAAACAAACATGTTAAAAATATTAATTAAAAAAAACTTGAAACAACATGAAATAAAAAA
651 ACCAAAAAAACAAACATGTTAAAAATATTAATTAAAAAAAACTTGAAACAACATGAAATAAAAAA
1197615 TACAATGTGAGTAGGAGAGGGATCGAACCCGGAACTCA
716 TACAATGTGAGTAGGAGAGGGATCGAACCCGGAACTCA
1197653 AAGACAAAAA
Statistics
Matches: 751, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
751 740 0.99
752 1 0.00
753 10 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (753 bp):
TCACATTTGTATTTTTTATTTCATATTGTTTTAAGTTTTTTTATTTTTAATTAATATTTTTAATA
CATTAGTTTTTTTTTGTCAGATGGTTAGATAATTGTGATTTCATCTTTGAATCTTAGATTCAATT
CTTCTTACAAACATTTTAATATGTTTTTTTTATTTCACATTGTTTTAAACTTTTTTTATTTTTAA
TTAATGTTTATAATTAATAAATATATTTTTTATTATTTTTAATTCATCATTTTAATTAATAACCA
TTTTATTTGTAAAATCAAATAATTATTGCAAATATCATTATTTTTATATGTGTAATATTTATTTT
TCAGTCTATATTAGAAATCACCATACCCATAATATATGCGGAGAAATTAAAATTTTGACATATGA
ATATTATATATAAAATATATATAAGAATTTGATGATGTTTTTTAAAAATAATTACATATTTGTTA
TTTGATTTTATAAATAAAAGAGTTATTAATTAAAAATAAAATAAAATAACTTGAAAATAATATAT
TTATTAATTATAAACATTAATTAAAAAAACAGTTTGAAACAACATGAAATAAAAAATATATATTA
AAAAGCTTATAAAAGGAATTGAACTTGAGACTTAAAAGATGAAATCACAATTATCTAACTATCTA
ACCAAAAAAACAAACATGTTAAAAATATTAATTAAAAAAAACTTGAAACAACATGAAATAAAAAA
TACAATGTGAGTAGGAGAGGGATCGAACCCGGAACTCA
Found at i:1199824 original size:20 final size:20
Alignment explanation
Indices: 1199801--1199841 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1199791 ATTATTACTG
*
1199801 AATTACTGAATCTCTTACAA
1 AATTACTAAATCTCTTACAA
* *
1199821 AATTATTAAATTTCTTACAA
1 AATTACTAAATCTCTTACAA
1199841 A
1 A
1199842 TTTGTAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTACTAAATCTCTTACAA
Found at i:1199960 original size:19 final size:19
Alignment explanation
Indices: 1199933--1199993 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1199923 AATATTATTG
1199933 GAATC-CTTACAAATTACT
1 GAATCACTTACAAATTACT
* * *
1199951 GCA-CATCTTAAAAATTATT
1 GAATCA-CTTACAAATTACT
1199970 GAATCACTTACAAAATTACT
1 GAATCACTTAC-AAATTACT
1199990 GAAT
1 GAAT
1199994 TTCTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.52
20 13 0.39
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (19 bp):
GAATCACTTACAAATTACT
Found at i:1199986 original size:20 final size:20
Alignment explanation
Indices: 1199933--1200009 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
1199923 AATATTATTG
1199933 GAATC-CTTAC-AAATTACT
1 GAATCACTTACAAAATTACT
* *
1199951 GCA-CATCTTA-AAAATTATT
1 GAATCA-CTTACAAAATTACT
1199970 GAATCACTTACAAAATTACT
1 GAATCACTTACAAAATTACT
** *
1199990 GAATTTCTTTCAAAATTACT
1 GAATCACTTACAAAATTACT
1200010 AATGTTTACC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 17 0.36
20 27 0.57
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATCACTTACAAAATTACT
Found at i:1200056 original size:76 final size:77
Alignment explanation
Indices: 1199962--1200145 Score: 246
Period size: 76 Copynumber: 2.4 Consensus size: 77
1199952 CACATCTTAA
* ** *
1199962 AAATTATTGAATCACTTACAAAATTACTGAATTTCTT-TCAAAATTACTAATGTTTACCTAGTTT
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTAT-AAAATTACTAATACTTACCTAATTT
*
1200026 GTTATAACATTGT
65 CTTATAACATTGT
** *
1200039 AAATT-TTGAATCTCTTACAAAATTTTTGAATTTCTTATAAAATTACTAATACTTACTTAATTTC
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
**
1200103 TTATAATTTTGT
66 TTATAACATTGT
*
1200115 AAATTATTGAATCTCTTACCAAATTACTGAA
1 AAATTATTGAATCTCTTACAAAATTACTGAA
1200146 AAATTTACAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
76 64 0.70
77 28 0.30
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (77 bp):
AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
TTATAACATTGT
Found at i:1200065 original size:20 final size:20
Alignment explanation
Indices: 1200042--1200082 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1200032 ACATTGTAAA
1200042 TTTTGAATCTCTTACAAAAT
1 TTTTGAATCTCTTACAAAAT
* *
1200062 TTTTGAATTTCTTATAAAAT
1 TTTTGAATCTCTTACAAAAT
1200082 T
1 T
1200083 ACTAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTGAATCTCTTACAAAAT
Found at i:1201249 original size:17 final size:17
Alignment explanation
Indices: 1201212--1201259 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
1201202 GAATTTAGAA
*
1201212 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
1201228 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
1201245 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
1201260 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:1209327 original size:20 final size:20
Alignment explanation
Indices: 1209304--1209344 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1209294 ATTATTACTG
*
1209304 AATTACTGAATCTCTTACAA
1 AATTACTAAATCTCTTACAA
* *
1209324 AATTATTAAATTTCTTACAA
1 AATTACTAAATCTCTTACAA
1209344 A
1 A
1209345 TTTGTAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTACTAAATCTCTTACAA
Found at i:1209463 original size:19 final size:19
Alignment explanation
Indices: 1209436--1209496 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1209426 AATATTATTG
1209436 GAATC-CTTACAAATTACT
1 GAATCACTTACAAATTACT
* * *
1209454 GCA-CATCTTAAAAATTATT
1 GAATCA-CTTACAAATTACT
1209473 GAATCACTTACAAAATTACT
1 GAATCACTTAC-AAATTACT
1209493 GAAT
1 GAAT
1209497 TTCTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.52
20 13 0.39
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (19 bp):
GAATCACTTACAAATTACT
Found at i:1209489 original size:20 final size:20
Alignment explanation
Indices: 1209436--1209512 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
1209426 AATATTATTG
1209436 GAATC-CTTAC-AAATTACT
1 GAATCACTTACAAAATTACT
* *
1209454 GCA-CATCTTA-AAAATTATT
1 GAATCA-CTTACAAAATTACT
1209473 GAATCACTTACAAAATTACT
1 GAATCACTTACAAAATTACT
** *
1209493 GAATTTCTTTCAAAATTACT
1 GAATCACTTACAAAATTACT
1209513 AATGTTTACC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 17 0.36
20 27 0.57
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATCACTTACAAAATTACT
Found at i:1209559 original size:76 final size:77
Alignment explanation
Indices: 1209465--1209648 Score: 246
Period size: 76 Copynumber: 2.4 Consensus size: 77
1209455 CACATCTTAA
* ** *
1209465 AAATTATTGAATCACTTACAAAATTACTGAATTTCTT-TCAAAATTACTAATGTTTACCTAGTTT
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTAT-AAAATTACTAATACTTACCTAATTT
*
1209529 GTTATAACATTGT
65 CTTATAACATTGT
** *
1209542 AAATT-TTGAATCTCTTACAAAATTTTTGAATTTCTTATAAAATTACTAATACTTACTTAATTTC
1 AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
**
1209606 TTATAATTTTGT
66 TTATAACATTGT
*
1209618 AAATTATTGAATCTCTTACCAAATTACTGAA
1 AAATTATTGAATCTCTTACAAAATTACTGAA
1209649 AAATTTACAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
76 64 0.70
77 28 0.30
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (77 bp):
AAATTATTGAATCTCTTACAAAATTACTGAATTTCTTATAAAATTACTAATACTTACCTAATTTC
TTATAACATTGT
Found at i:1209568 original size:20 final size:20
Alignment explanation
Indices: 1209545--1209585 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1209535 ACATTGTAAA
1209545 TTTTGAATCTCTTACAAAAT
1 TTTTGAATCTCTTACAAAAT
* *
1209565 TTTTGAATTTCTTATAAAAT
1 TTTTGAATCTCTTACAAAAT
1209585 T
1 T
1209586 ACTAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTGAATCTCTTACAAAAT
Found at i:1210752 original size:17 final size:17
Alignment explanation
Indices: 1210715--1210762 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
1210705 GAATTTAGAA
*
1210715 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
1210731 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
1210748 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
1210763 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:1212057 original size:46 final size:46
Alignment explanation
Indices: 1211989--1212173 Score: 259
Period size: 46 Copynumber: 4.0 Consensus size: 46
1211979 CATGGCAAAG
*
1211989 TGTGAAAAGTAGGTATGATATTTCGAT-AAGGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAA-GAAAACCATACTGAGT
*
1212035 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATACTGAGT
* *
1212081 TGTGAAAAGTAGGTATGGTGTTTC-AGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TGAAGAAAACCATACTGAGT
* * *
1212127 TGGGAAAAGTAGGTATGGTATTCCCG-TGAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATT-TCGATGAAGAAAACCATACTGAGT
1212173 T
1 T
1212174 ATAGCAATGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
45 1 0.01
46 122 0.97
47 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.27
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATACTGAGT
Found at i:1217018 original size:46 final size:46
Alignment explanation
Indices: 1216962--1217146 Score: 275
Period size: 46 Copynumber: 4.0 Consensus size: 46
1216952 ACATTGTTAT
* * *
1216962 AACTCGGTATGGTTTTCTTCA-CGGGAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATC-GAAATACCATACCTACTTTTCAC
* * *
1217008 AACTCAGTATGGCTTTCTTTA-CTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTTATC-GAAATACCATACCTACTTTTCAC
1217054 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
*
1217100 AACTCAGTATGGTTTTCCTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1217146 A
1 A
1217147 CTTTGCCATG
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 126 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
Found at i:1219512 original size:30 final size:30
Alignment explanation
Indices: 1219441--1219512 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
1219431 AGGGAGAAGG
* * *
1219441 ATGGAAAATGGCAGCTCCGTTAAGTTTGTA
1 ATGGAAAATGGTAGCTCCGCTAAGTTTATA
* * *
1219471 ACGGAAAATGGTAGCTCTGCTACGTTTATA
1 ATGGAAAATGGTAGCTCCGCTAAGTTTATA
1219501 ATGGAAAATGGT
1 ATGGAAAATGGT
1219513 TAGTGGTGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGGAAAATGGTAGCTCCGCTAAGTTTATA
Found at i:1221423 original size:46 final size:45
Alignment explanation
Indices: 1221317--1221549 Score: 243
Period size: 46 Copynumber: 5.6 Consensus size: 45
1221307 CGTAAGATCT
*
1221317 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
1221360 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
1221406 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
1221443 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----CA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* *
1221479 CTTATCACTTTTTCACTTGATCACATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
1221525 CTTATCACTTTGTCTCTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
1221550 AGTACTCAAA
Statistics
Matches: 165, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
36 27 0.16
37 35 0.21
38 2 0.01
39 1 0.01
40 3 0.02
42 3 0.02
43 9 0.05
44 5 0.03
45 21 0.13
46 59 0.36
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:1221444 original size:37 final size:37
Alignment explanation
Indices: 1221403--1221513 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
1221393 GCTGAAGCTA
1221403 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
* *
1221440 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
* *
1221477 -CACTTATCACTTTTTCACTTGATCACATAAGTGTAG
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1221513 C
1 C
1221514 TAAAGCTACC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 33 0.49
37 35 0.51
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (37 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:1221488 original size:36 final size:36
Alignment explanation
Indices: 1221404--1221513 Score: 175
Period size: 36 Copynumber: 3.0 Consensus size: 36
1221394 CTGAAGCTAC
1221404 CACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAG
* *
1221440 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 -CACTTATCACTTTATCACTTGATCAGATAAGTGTAG
* *
1221477 CACTTATCACTTTTTCACTTGATCACATAAGTGTAG
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1221513 C
1 C
1221514 TAAAGCTACC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 34 0.50
37 34 0.50
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:1228437 original size:19 final size:20
Alignment explanation
Indices: 1228400--1228438 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1228390 TAAATCACAT
*
1228400 TAGAGTTAAAAGTTGAATTA
1 TAGAGTTAAAAGTTAAATTA
*
1228420 TAGA-TTAAAATTTAAATTA
1 TAGAGTTAAAAGTTAAATTA
1228439 AAGGCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
TAGAGTTAAAAGTTAAATTA
Found at i:1229494 original size:2 final size:2
Alignment explanation
Indices: 1229487--1229520 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1229477 GATGAAATGA
1229487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1229521 GTGATAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1232828 original size:22 final size:23
Alignment explanation
Indices: 1232803--1232847 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1232793 GTTTATTTTC
1232803 TTAATTTAT-TAAATAATATATT
1 TTAATTTATATAAATAATATATT
* *
1232825 TTAATTTATATAATTCATATATT
1 TTAATTTATATAAATAATATATT
1232848 ATTCGAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTTATATAAATAATATATT
Found at i:1232918 original size:17 final size:17
Alignment explanation
Indices: 1232898--1232942 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1232888 CAATTTAAAT
*
1232898 TATAAAATATAATTTAA
1 TATAAAATATAATATAA
1232915 TAT-AAATATAAATATAA
1 TATAAAATAT-AATATAA
*
1232932 TAAAAAATATA
1 TATAAAATATA
1232943 TTATTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAATATAA
Found at i:1234379 original size:19 final size:20
Alignment explanation
Indices: 1234341--1234379 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1234331 AACTCTTTTT
1234341 TTTTTCCTTGAATTTTCAGGA
1 TTTTTCCTTGAA-TTTCAGGA
*
1234362 TTTTTCTTTGAA-TTCAGG
1 TTTTTCCTTGAATTTCAGG
1234380 TTACTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTTTCCTTGAATTTCAGGA
Found at i:1244652 original size:19 final size:21
Alignment explanation
Indices: 1244604--1244650 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
1244594 CCTATTTTAC
1244604 TTTTATATCAACCACTTTCTCCA
1 TTTT-TAT-AACCACTTTCTCCA
*
1244627 TTTTTATAACCA-TTTCTCTA
1 TTTTTATAACCACTTTCTCCA
1244647 TTTT
1 TTTT
1244651 ATTTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
21 5 0.22
22 3 0.13
23 4 0.17
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTATAACCACTTTCTCCA
Found at i:1248036 original size:29 final size:29
Alignment explanation
Indices: 1247993--1248050 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1247983 TATTTAGATA
1247993 ATTTTATTTTCCAAATCAACCATATCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
* *
1248022 ATTTTATTTTTCAAATCAACCATTTCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
1248051 TCTTTCTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTATTTTCCAAATCAACCATATCTCT
Found at i:1250601 original size:180 final size:174
Alignment explanation
Indices: 1250301--1250644 Score: 458
Period size: 180 Copynumber: 1.9 Consensus size: 174
1250291 TGCATCTAAT
* * *
1250301 AATCCAAAGACAAATTAAGGATACAAGTAGGCACTAGTAAGCAAATACAATCAATGACTAATCAG
1 AATCCAAAGACAAATCAAGGATACAAGTAGACACTAGTAAGCAAATACAATAAATGACTAATCAG
*
1250366 CAATACCAAGGATCATTCTATAATGAATAATCATATAGTCAAGTCACTACTTGAATTGAATGACA
66 CAATACCAAGGATCATTCTATAATGAATAATCATATAATCAAGTCACTACTTGAATTGAATGA-A
* * * *
1250431 TCTACCAACATTAAGGGTCAGCATACCAACGAAAAGGAGAAAAAA
130 TCTACCAACATTAAGGATCAACATACAAAAGAAAAGGAGAAAAAA
* **
1250476 AATCCAAA-ATCAAATCAAGGATACAAGTAGACACTAGTAAGTAAACTTGATATAAATGACGACT
1 AATCCAAAGA-CAAATCAAGGATACAAGTAGACACTAGTAAGCAAA-TACA-ATAAAT---GACT
** * *
1250540 AATCAGCAATGTCAAGGATCGTTCTA-AGATGAATAATCATATAATCAAGTCACTTCTTGAATTG
60 AATCAGCAATACCAAGGATCATTCTATA-ATGAATAATCATATAATCAAGTCACTACTTGAATTG
*
1250604 AATGAATCTCCCAACATTAAGGATCAACATACAAAAGAAAA
124 AATGAATCTACCAACATTAAGGATCAACATACAAAAGAAAA
1250645 TCCAAAAGCA
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
174 1 0.01
175 40 0.27
176 2 0.01
177 5 0.03
179 32 0.22
180 66 0.45
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (174 bp):
AATCCAAAGACAAATCAAGGATACAAGTAGACACTAGTAAGCAAATACAATAAATGACTAATCAG
CAATACCAAGGATCATTCTATAATGAATAATCATATAATCAAGTCACTACTTGAATTGAATGAAT
CTACCAACATTAAGGATCAACATACAAAAGAAAAGGAGAAAAAA
Found at i:1255348 original size:20 final size:20
Alignment explanation
Indices: 1255323--1255364 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1255313 AGGAACGAAG
1255323 AAAATGAAAAACAAAAGTAA
1 AAAATGAAAAACAAAAGTAA
1255343 AAAATGAAAAACAAAAGTAA
1 AAAATGAAAAACAAAAGTAA
1255363 AA
1 AA
1255365 GAACTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.76, C:0.05, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAATGAAAAACAAAAGTAA
Found at i:1257377 original size:25 final size:25
Alignment explanation
Indices: 1257332--1257380 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1257322 NNNNNNNNNN
*
1257332 TAAAAAATTATAATATATATAAATA
1 TAAAAAATTAAAATATATATAAATA
*
1257357 TAAAAAATATAAAAT-TTTATAAAT
1 TAAAAAAT-TAAAATATATATAAAT
1257381 TTGTAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAAATTAAAATATATATAAATA
Found at i:1257796 original size:31 final size:31
Alignment explanation
Indices: 1257732--1257796 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
1257722 TTCAAAATTC
* ** *
1257732 AAAAAGTATAGTGATTAAAAAGGACCAATTT
1 AAAAAGTATAGTGACTAAAAACAACCAACTT
* *
1257763 AAAAAGTATAGTGACTAAAAACAATCACCTT
1 AAAAAGTATAGTGACTAAAAACAACCAACTT
1257794 AAA
1 AAA
1257797 TTATAGAGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAAAGTATAGTGACTAAAAACAACCAACTT
Found at i:1260884 original size:21 final size:20
Alignment explanation
Indices: 1260830--1260887 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 20
1260820 TAGACCCAAT
1260830 GTGAGCAGGAGAGTCAAC-A
1 GTGAGCAGGAGAGTCAACAA
* * * *
1260849 -TTAGGATGAGGGTCAACAA
1 GTGAGCAGGAGAGTCAACAA
1260868 CGTGAGCAGGAGAGTCAACA
1 -GTGAGCAGGAGAGTCAACA
1260888 TTGAGATGAG
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
18 13 0.46
19 1 0.04
21 14 0.50
ACGTcount: A:0.36, C:0.16, G:0.34, T:0.14
Consensus pattern (20 bp):
GTGAGCAGGAGAGTCAACAA
Found at i:1260898 original size:18 final size:18
Alignment explanation
Indices: 1260838--1260904 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
1260828 ATGTGAGCAG
1260838 GAGAGTCAACATT-AGGAT
1 GAGAGTCAACATTGA-GAT
* * *
1260856 GAGGGTCAACAACGTGAGCAG
1 GAGAGTCAAC-A-TTGAG-AT
1260877 GAGAGTCAACATTGAGAT
1 GAGAGTCAACATTGAGAT
*
1260895 GAGAATCAAC
1 GAGAGTCAAC
1260905 TATCGGTAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 19 0.50
19 5 0.13
20 3 0.08
21 11 0.29
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.16
Consensus pattern (18 bp):
GAGAGTCAACATTGAGAT
Found at i:1260904 original size:39 final size:39
Alignment explanation
Indices: 1260830--1260904 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
1260820 TAGACCCAAT
**
1260830 GTGAGCAGGAGAGTCAACATTAGGATGAGGGTCAACAAC
1 GTGAGCAGGAGAGTCAACATTAGGATGAGAATCAACAAC
1260869 GTGAGCAGGAGAGTCAACATT-GAGATGAGAATCAAC
1 GTGAGCAGGAGAGTCAACATTAG-GATGAGAATCAAC
1260905 TATCGGTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.16
Consensus pattern (39 bp):
GTGAGCAGGAGAGTCAACATTAGGATGAGAATCAACAAC
Found at i:1263500 original size:10 final size:10
Alignment explanation
Indices: 1263485--1263512 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1263475 ACCATAACAG
1263485 CTAACTGATA
1 CTAACTGATA
1263495 CTAACTGATA
1 CTAACTGATA
1263505 CTAACTGA
1 CTAACTGA
1263513 CTAACTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (10 bp):
CTAACTGATA
Found at i:1263585 original size:10 final size:10
Alignment explanation
Indices: 1263570--1263597 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1263560 TTATGCTGCT
1263570 GTTTTGTTTA
1 GTTTTGTTTA
1263580 GTTTTGTTTA
1 GTTTTGTTTA
1263590 GTTTTGTT
1 GTTTTGTT
1263598 ACTTCAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.21, T:0.71
Consensus pattern (10 bp):
GTTTTGTTTA
Found at i:1266084 original size:15 final size:15
Alignment explanation
Indices: 1266064--1266114 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1266054 ACAAAAAGAT
1266064 AATGTAAGTGACTAA
1 AATGTAAGTGACTAA
* * *
1266079 AATGTAA--CATTTTA
1 AATGTAAGTGA-CTAA
1266093 AATGTAAGTGACTAA
1 AATGTAAGTGACTAA
1266108 AATGTAA
1 AATGTAA
1266115 TTTGAAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 16 0.59
16 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (15 bp):
AATGTAAGTGACTAA
Found at i:1270346 original size:20 final size:20
Alignment explanation
Indices: 1270321--1270361 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1270311 ATTTTCCATT
1270321 TCCTCGAAGGGCAGCTAAAG
1 TCCTCGAAGGGCAGCTAAAG
1270341 TCCTCGAAGGGCAGCTAAAG
1 TCCTCGAAGGGCAGCTAAAG
1270361 T
1 T
1270362 GGTCTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.17
Consensus pattern (20 bp):
TCCTCGAAGGGCAGCTAAAG
Found at i:1284014 original size:20 final size:19
Alignment explanation
Indices: 1283982--1284019 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1283972 AAATTGTTTA
1283982 AAATATAAAAAATTAAAAAT
1 AAATATAAAAAA-TAAAAAT
1284002 AAATA-AAAGAAATAAAAA
1 AAATATAAA-AAATAAAAA
1284020 GGAATTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATATAAAAAATAAAAAT
Found at i:1287260 original size:2 final size:2
Alignment explanation
Indices: 1287253--1287281 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1287243 TATGTTTTTC
1287253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1287282 CCTATATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1287806 original size:20 final size:20
Alignment explanation
Indices: 1287778--1287816 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1287768 CTCTTTTAGC
1287778 TTTCATCTTCT-TTTTCATCT
1 TTTCATCTT-TGTTTTCATCT
*
1287798 TTTCTTCTTTGTTTTCATC
1 TTTCATCTTTGTTTTCATC
1287817 CCCAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTCATCTTTGTTTTCATCT
Found at i:1293310 original size:31 final size:31
Alignment explanation
Indices: 1293231--1293311 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
1293221 AACTATGAAA
1293231 ATTTTTAATTTTATCACT-ATCGTTTTAGATC
1 ATTTTT-ATTTTATCACTCATCGTTTTAGATC
* *
1293262 ATTTCTATTTTGGTCACTCATC-TTTTAGATC
1 ATTTTTATTTT-ATCACTCATCGTTTTAGATC
*
1293293 GTTTTTATTTTATTCACTC
1 ATTTTTATTTTA-TCACTC
1293312 TTCATTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
30 5 0.12
31 34 0.81
32 3 0.07
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (31 bp):
ATTTTTATTTTATCACTCATCGTTTTAGATC
Found at i:1294024 original size:25 final size:26
Alignment explanation
Indices: 1293996--1294066 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
1293986 GAAACTATAT
*
1293996 AAATATATATTTTAAAATATA-AAGG
1 AAATATAAATTTTAAAATATATAAGG
* * *
1294021 AAATTATAAATTATAAAA-ATATATGT
1 AAA-TATAAATTTTAAAATATATAAGG
*
1294047 AAATAAAAATTTTAAAATAT
1 AAATATAAATTTTAAAATAT
1294067 TACAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 18 0.49
26 19 0.51
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAATATAAATTTTAAAATATATAAGG
Found at i:1294109 original size:249 final size:252
Alignment explanation
Indices: 1293745--1294234 Score: 907
Period size: 249 Copynumber: 2.0 Consensus size: 252
1293735 TATGAAATTT
*
1293745 ATATATATTATTAAAATATAACAGAAATTATAAATTATAAAAATATATGTAACTAAAAAAATTAA
1 ATATATATTATTAAAATATAACAGAAATTATAAATTATAAAAATATATGTAAATAAAAAAATTAA
1293810 AAATATTACAAAAAAAATCTAAAATTCAAGTTGGAAAAATTGAAAACCTAGAAAATTTACACATT
66 AAATATTAC-AAAAAAATCTAAAATTCAAGTTGGAAAAATTGAAAACCTAGAAAATTTACACATT
1293875 TTTCTAAATATATTGCAAACAAATTAGATGAAGATAAATTATATAATAAATTTTATACTTAGAGA
130 TTTCTAAATATATTGCAAACAAATTAGATGAAGATAAATTATATAATAAATTTTATACTTAGAGA
1293940 TGAGTGCAAATTATTACACGATTTTTCAAGTTAACAAGAATGCAAAGAAACTATATAA
195 TGAGTGCAAATTATTACACGATTTTTCAAGTTAACAAGAATGCAAAGAAACTATATAA
* *
1293998 ATATATATT-TTAAAATATAA-AGGAAATTATAAATTATAAAAATATATGTAAAT-AAAAATTTT
1 ATATATATTATTAAAATATAACA-GAAATTATAAATTATAAAAATATATGTAAATAAAAAAATTA
1294060 AAAATATTAC-AAAAAATCTAAAATTCAAGTTGGAAAAATTGAAAACCTAGAAAATTTACACATT
65 AAAATATTACAAAAAAATCTAAAATTCAAGTTGGAAAAATTGAAAACCTAGAAAATTTACACATT
1294124 TTTCTAAATATATTGCAAACAAATTAGATGAAGATAAATTATATAATAAATTTTATACTTAGAGA
130 TTTCTAAATATATTGCAAACAAATTAGATGAAGATAAATTATATAATAAATTTTATACTTAGAGA
1294189 TGAGTGCAAATTATTACACGATTTTTCAAGTTAACAAGAATGCAAA
195 TGAGTGCAAATTATTACACGATTTTTCAAGTTAACAAGAATGCAAA
1294235 AGATGATGAT
Statistics
Matches: 233, Mismatches: 3, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
249 165 0.71
251 18 0.08
252 41 0.18
253 9 0.04
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (252 bp):
ATATATATTATTAAAATATAACAGAAATTATAAATTATAAAAATATATGTAAATAAAAAAATTAA
AAATATTACAAAAAAATCTAAAATTCAAGTTGGAAAAATTGAAAACCTAGAAAATTTACACATTT
TTCTAAATATATTGCAAACAAATTAGATGAAGATAAATTATATAATAAATTTTATACTTAGAGAT
GAGTGCAAATTATTACACGATTTTTCAAGTTAACAAGAATGCAAAGAAACTATATAA
Found at i:1294686 original size:31 final size:31
Alignment explanation
Indices: 1294650--1294716 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
1294640 ATTTAACGGA
* *
1294650 GAGTGACCAAAATAGAAACAATCTAAAGTGT
1 GAGTGACCAAAATAGAAACAATATAAAATGT
*
1294681 GAGTGACCAAAATAGAAATAATATAAAATGT
1 GAGTGACCAAAATAGAAACAATATAAAATGT
*
1294712 AAGTG
1 GAGTG
1294717 GCTAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAACAATATAAAATGT
Found at i:1302942 original size:26 final size:26
Alignment explanation
Indices: 1302889--1302945 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1302879 AATTTTAAAG
* * *
1302889 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATACATTTTGATTGTT
1302915 TATTTTTAAAATACAATTTTGA-TGTT
1 TATTTTTAAAATAC-ATTTTGATTGTT
1302941 TATTT
1 TATTT
1302946 AAAAAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TATTTTTAAAATACATTTTGATTGTT
Found at i:1303243 original size:28 final size:27
Alignment explanation
Indices: 1303212--1303265 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
1303202 GCGCGGTATT
1303212 GATT-AATAATATATAACAACTAAAAAGG
1 GATTGAATAA-ATATAACAAC-AAAAAGG
* *
1303240 GATTGCATAAATGTAACAACAAAAAG
1 GATTGAATAAATATAACAACAAAAAG
1303266 AAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (27 bp):
GATTGAATAAATATAACAACAAAAAGG
Found at i:1304016 original size:33 final size:33
Alignment explanation
Indices: 1303979--1304050 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1303969 AAATAAAATT
*
1303979 TAAAATTCTTTTATTATCAAATAAATTTCTTAA
1 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
1304012 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
1 TAAAATTCTTTTATTATCAAATAAAATTCTTAA
1304045 TGAAAA
1 T-AAAA
1304051 AATAAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 33 0.89
34 4 0.11
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.44
Consensus pattern (33 bp):
TAAAATTCTTTTATTATCAAATAAAATTCTTAA
Found at i:1322883 original size:7 final size:7
Alignment explanation
Indices: 1322871--1323372 Score: 531
Period size: 7 Copynumber: 69.1 Consensus size: 7
1322861 NNNNNNNNNN
1322871 CTAAACC
1 CTAAACC
1322878 CTAAACC
1 CTAAACC
*
1322885 CTAAAAC
1 CTAAACC
1322892 CTAAACC
1 CTAAACC
1322899 CTAAACC
1 CTAAACC
1322906 CTAAAAACC
1 CT--AAACC
*
1322915 CTAAGCC
1 CTAAACC
*
1322922 CTAAGCC
1 CTAAACC
*
1322929 CTAAGCC
1 CTAAACC
*
1322936 CTAAGCC
1 CTAAACC
1322943 CTAAAACC
1 CT-AAACC
*
1322951 CTAAGCC
1 CTAAACC
1322958 CTAAAACC
1 CT-AAACC
*
1322966 CTAAGCC
1 CTAAACC
1322973 CTAAAAACC
1 CT--AAACC
*
1322982 CTAAGCC
1 CTAAACC
1322989 CTAAAAACC
1 CT--AAACC
1322998 CTAAAACC
1 CT-AAACC
1323006 CTAAACC
1 CTAAACC
*
1323013 CTAGACC
1 CTAAACC
1323020 CTAAACC
1 CTAAACC
*
1323027 CTAGACC
1 CTAAACC
1323034 CTAAACC
1 CTAAACC
*
1323041 CTAGACC
1 CTAAACC
1323048 CTAAACC
1 CTAAACC
1323055 CTAAACC
1 CTAAACC
*
1323062 CAAAACC
1 CTAAACC
1323069 C--AACC
1 CTAAACC
1323074 CTAAACC
1 CTAAACC
*
1323081 CAAAACC
1 CTAAACC
1323088 CTAAACC
1 CTAAACC
1323095 CTAAACC
1 CTAAACC
1323102 CTAAACC
1 CTAAACC
1323109 CTAAAACC
1 CT-AAACC
1323117 CTAAACC
1 CTAAACC
1323124 CTAAAACC
1 CT-AAACC
*
1323132 CTAAACA
1 CTAAACC
*
1323139 CTAAAAC
1 CTAAACC
1323146 CTAAACC
1 CTAAACC
1323153 CTAAACC
1 CTAAACC
*
1323160 ATAAACC
1 CTAAACC
1323167 CTAAAACC
1 CT-AAACC
1323175 CTAAACC
1 CTAAACC
*
1323182 CGAAACC
1 CTAAACC
*
1323189 CCAAACCC
1 CTAAA-CC
*
1323197 CTAACCC
1 CTAAACC
1323204 CTAAACC
1 CTAAACC
* *
1323211 CTTAGCC
1 CTAAACC
*
1323218 CTTAACC
1 CTAAACC
*
1323225 CTTAACC
1 CTAAACC
1323232 CTAAAACC
1 CT-AAACC
*
1323240 CTTAATCC
1 C-TAAACC
1323248 CTAAACC
1 CTAAACC
1323255 CTAAAACC
1 CT-AAACC
*
1323263 CTTAACC
1 CTAAACC
*
1323270 CTAGACC
1 CTAAACC
*
1323277 CTAGACC
1 CTAAACC
*
1323284 CCAAACC
1 CTAAACC
*
1323291 CCAAACC
1 CTAAACC
*
1323298 TTAAACC
1 CTAAACC
*
1323305 CAAAACC
1 CTAAACC
1323312 CTAAACC
1 CTAAACC
1323319 CTACAACC
1 CTA-AACC
1323327 CTAAACC
1 CTAAACC
1323334 CTACAACC
1 CTA-AACC
1323342 CTACAACC
1 CTA-AACC
1323350 CTAAAACC
1 CT-AAACC
1323358 CTAAACC
1 CTAAACC
1323365 CTAAACC
1 CTAAACC
1323372 C
1 C
1323373 ATTTCAAGAT
Statistics
Matches: 429, Mismatches: 46, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
5 5 0.01
7 313 0.73
8 90 0.21
9 21 0.05
ACGTcount: A:0.42, C:0.42, G:0.03, T:0.14
Consensus pattern (7 bp):
CTAAACC
Done.