Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 60 of 325
Found at i:21724974 original size:22 final size:22
Alignment explanation
Indices: 21724856--21724997 Score: 71
Period size: 22 Copynumber: 6.4 Consensus size: 22
21724846 TTAAAAGAAT
*
21724856 ATATACATAAT-ATAATATTAAGAA
1 ATATA-ATAATAATAA-A-TAATAA
* *
21724880 AAATAATAATAACAAA-AA-AA
1 ATATAATAATAATAAATAATAA
* * * *
21724900 CTATTAATAATACTATATAATAT
1 ATA-TAATAATAATAAATAATAA
*
21724923 ATATAAGTATTAAGTAAA-AAT-A
1 ATATAA-TAATAA-TAAATAATAA
**
21724945 ATACTAATGCTAATAAATAATAA
1 ATA-TAATAATAATAAATAATAA
*
21724968 ATATAATAATAAT-AGTAATAAA
1 ATATAATAATAATAAATAAT-AA
21724990 ATATAATA
1 ATATAATA
21724998 GTATACATAT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
20 3 0.03
21 21 0.23
22 33 0.37
23 23 0.26
24 10 0.11
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATAATAATAATAAATAATAA
Found at i:21726838 original size:90 final size:89
Alignment explanation
Indices: 21726733--21727002 Score: 300
Period size: 90 Copynumber: 3.1 Consensus size: 89
21726723 TTGATTTTGA
* * *
21726733 TGAAAAACAGAAATTAAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGAG
1 TGAAAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
** * *
21726798 TTGATTTTTTTTTTGAAACATAATT
66 TTGATTTTTTTTACG-AACAGAAAT
* * * * *
21726823 TGAAGAACAGAAATTAAAATTACCTCAACGCGTCTTGAGGCTCAACTCACCTTTCGCAATATGAG
1 TGAAAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
21726888 TTGA---TTTTGACGAACGGAAAT
66 TTGATTTTTTTTACGAACAGAAAT
* * * **
21726909 TAAAAAACAGAAATTGAAAATACCTCACCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTAAAAATACCTCA--ACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
21726974 AGTTGATTTTTTTT--GAACAGAAAT
64 AGTTGATTTTTTTTACGAACAGAAAT
21726998 T-AAAA
1 TGAAAA
21727003 TTACTTCAAC
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
86 29 0.19
87 5 0.03
88 40 0.27
89 10 0.07
90 61 0.41
91 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (89 bp):
TGAAAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTTACGAACAGAAAT
Found at i:21727025 original size:161 final size:157
Alignment explanation
Indices: 21726827--21727141 Score: 479
Period size: 161 Copynumber: 2.0 Consensus size: 157
21726817 ATAATTTGAA
*
21726827 GAACAGAAATTAAAATTACCTCAACGCGTCTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
1 GAACAGAAATTAAAATTACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
21726892 -TTTTGACGAACGGAAATTAAAAAACAGAAATTGAAAATACCTCACCATGTGAGCTGAGGCTCAA
66 TTTTTGA-AAAC-AAAAATAAAAAACAGAAATTGAAAATACCTCACCATGT---CCGAGGCTCAA
21726956 CTCACCTCTCGCAATATGAGTTGATTTTTTTT
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTT
* *
21726988 GAACAGAAATTAAAATTACTTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 GAACAGAAATTAAAATTACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
21727053 TTTTTGAAAACAAAAATAAAAAATAGAAATTGAAAATACCTCAGCATGTCCGAGGTTCAACTCAT
66 TTTTTGAAAACAAAAATAAAAAACAGAAATTGAAAATACCTCACCATGTCCGAGGCTCAACTCAC
21727118 CTCTCGCAATATGAGTTGATTTTT
131 CTCTCGCAATATGAGTTGATTTTT
21727142 GAAAGACAGA
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
157 37 0.26
160 34 0.24
161 65 0.46
162 6 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (157 bp):
GAACAGAAATTAAAATTACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAACAAAAATAAAAAACAGAAATTGAAAATACCTCACCATGTCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTT
Found at i:21750292 original size:120 final size:122
Alignment explanation
Indices: 21750155--21750470 Score: 363
Period size: 129 Copynumber: 2.5 Consensus size: 122
21750145 GTTCAACGAA
* * * * *
21750155 AAATCGAAACCCAGCACGGTAGAGCACGATTCCTCGAATTTCCAAACATTGAACATTACCTT-GA
1 AAATCGAAACCTAGCACGATAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCG-
*
21750219 TTTAG-AAAA-C-ACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGG
64 TTTAGAAAAATCTACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGG
* * *
21750275 AAATCGAAACCTAGCACGATAGGGCACTATTCCCCGAATTGCCAAACATCAAACATCACCTTCGT
1 AAATCGAAACCTAGCACGATAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTACCTTCGT
* *
21750340 TTTGAAAAATCTTTAGAGACGAGTGAAATTTCGAAGGAATATTCGATTATTTTGAACAAACGGG
65 TTAGAAAAATC--T----ACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGG
* * * *
21750404 AAATTGCAA-CTCAGCACGATAGGGTACGATTTCCCGAATTGCCAAACATCGAACATTGCCTTCG
1 AAATCGAAACCT-AGCACGATAGGGCACGA-TTCCCGAATTGCCAAACATCGAACATTACCTTCG
21750468 TTT
64 TTT
21750471 TTAAAGAATT
Statistics
Matches: 165, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
120 55 0.33
121 7 0.04
122 1 0.01
128 2 0.01
129 98 0.59
130 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (122 bp):
AAATCGAAACCTAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTT
TAGAAAAATCTACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGG
Found at i:21750459 original size:129 final size:129
Alignment explanation
Indices: 21750229--21750471 Score: 380
Period size: 129 Copynumber: 1.9 Consensus size: 129
21750219 TTTAGAAAAC
*
21750229 ACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATCGAAACCTAGCACGA
1 ACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCTAGCACGA
*
21750294 TAGGGCACTATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAG
66 TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAG
* * *
21750358 ACGAGTGAAATTTCGAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAA-CTCAGCACG
1 ACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCT-AGCACG
* * * **
21750422 ATAGGGTACGATTTCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT
65 ATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTT
21750472 TAAAGAATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
128 2 0.02
129 101 0.98
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (129 bp):
ACGAGTGAAATTTCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCTAGCACGA
TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATCACCTTCGTTTTGAAAAATCTTTAGAG
Found at i:21754488 original size:17 final size:17
Alignment explanation
Indices: 21754468--21754503 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
21754458 TAATTAACTT
21754468 AATTAAATTAATT-TCTC
1 AATTAAATT-ATTGTCTC
21754485 AATTAAATTATTGTCTC
1 AATTAAATTATTGTCTC
21754502 AA
1 AA
21754504 CCCAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTAAATTATTGTCTC
Found at i:21755979 original size:29 final size:30
Alignment explanation
Indices: 21755944--21756001 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
21755934 ATGGCACATG
*
21755944 GCACATGCATTAA-TTCCTAGGGACATATT
1 GCACATGCATTAATTTCCAAGGGACATATT
*
21755973 GCACATGCATTAATTTCGAAGGGACATAT
1 GCACATGCATTAATTTCCAAGGGACATAT
21756002 CTATTCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (30 bp):
GCACATGCATTAATTTCCAAGGGACATATT
Found at i:21758236 original size:23 final size:23
Alignment explanation
Indices: 21758209--21758259 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
21758199 AAACATATAA
21758209 TTAATATAAATGTTTTTAATATT
1 TTAATATAAATGTTTTTAATATT
21758232 TTAATATAAATGTTTTTAATATT
1 TTAATATAAATGTTTTTAATATT
21758255 TTAAT
1 TTAAT
21758260 CAATAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAATATAAATGTTTTTAATATT
Found at i:21765671 original size:34 final size:34
Alignment explanation
Indices: 21765633--21765700 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
21765623 TTTAAAAGGT
21765633 TAAATCAGGTTTTTATCATTCTTGGCGGTCAAAG
1 TAAATCAGGTTTTTATCATTCTTGGCGGTCAAAG
21765667 TAAATCAGGTTTTTATCATTCTTGGCGGTCAAAG
1 TAAATCAGGTTTTTATCATTCTTGGCGGTCAAAG
21765701 GTTAAATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (34 bp):
TAAATCAGGTTTTTATCATTCTTGGCGGTCAAAG
Found at i:21767075 original size:48 final size:48
Alignment explanation
Indices: 21766921--21767068 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
21766911 ATATATACAC
* **
21766921 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
21766969 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
21767017 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
21767065 ATCT
1 ATCT
21767069 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:21772160 original size:10 final size:10
Alignment explanation
Indices: 21772145--21772176 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21772135 TAAAGACAAT
21772145 TAATTAAAGA
1 TAATTAAAGA
21772155 TAATTAAAGA
1 TAATTAAAGA
21772165 TAATTAAA-A
1 TAATTAAAGA
21772174 TAA
1 TAA
21772177 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:21772202 original size:27 final size:26
Alignment explanation
Indices: 21772172--21772233 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
21772162 AGATAATTAA
21772172 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
21772199 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
21772226 AATAAAAT
1 AATAAAAT
21772234 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:21773812 original size:15 final size:14
Alignment explanation
Indices: 21773792--21773877 Score: 95
Period size: 15 Copynumber: 6.0 Consensus size: 14
21773782 TTAATATCTG
21773792 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
21773807 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
21773822 AAAATAAT-AAGAT
1 AAAATAATAAAAAT
21773835 AAAATAAATAAAAAT
1 AAAAT-AATAAAAAT
*
21773850 AAAATAAAATAAAAT
1 AAAATAATA-AAAAT
*
21773865 AAAA-ATTAAAAAT
1 AAAATAATAAAAAT
21773878 GGGTTGCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
13 12 0.19
14 10 0.16
15 41 0.65
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:21773827 original size:5 final size:5
Alignment explanation
Indices: 21773804--21773868 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
21773794 AATAATAAAT
* *
21773804 AATAA AATAA TAA-AT AATAA AAT-- AATAA GATAA AAT-A AATAAA AATAA
1 AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA
21773852 AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AA
21773869 ATTAAAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 35 0.70
6 6 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:21773836 original size:20 final size:20
Alignment explanation
Indices: 21773797--21773867 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 20
21773787 ATCTGAAAAT
21773797 AATAAATAATAAAATAATAAA
1 AATAAATAATAAAATAAT-AA
* *
21773818 TAATAAAATAATAAGATAAAATA
1 -AAT-AAATAATAAAATAATA-A
21773841 AATAAA-AATAAAATAAAATAA
1 AATAAATAATAAAAT--AATAA
21773862 AATAAA
1 AATAAA
21773868 AATTAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.17
21 10 0.24
22 10 0.24
23 14 0.34
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (20 bp):
AATAAATAATAAAATAATAA
Found at i:21773869 original size:11 final size:11
Alignment explanation
Indices: 21773797--21773875 Score: 76
Period size: 10 Copynumber: 7.2 Consensus size: 11
21773787 ATCTGAAAAT
21773797 AATAAATAATAA
1 AATAAA-AATAA
21773809 AATAATAAATAA
1 AATAA-AAATAA
*
21773821 TAA-AATAATAA
1 -AATAAAAATAA
*
21773832 GAT-AAAAT-A
1 AATAAAAATAA
21773841 AATAAAAATAA
1 AATAAAAATAA
21773852 AAT-AAAATAA
1 AATAAAAATAA
21773862 AATAAAAATTAA
1 AATAAAAA-TAA
21773874 AA
1 AA
21773876 ATGGGTTGCC
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
9 3 0.05
10 20 0.36
11 13 0.23
12 17 0.30
13 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:21773874 original size:28 final size:27
Alignment explanation
Indices: 21773804--21773877 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 27
21773794 AATAATAAAT
*
21773804 AATAAAATAATAAATAATAAA-ATAATAA
1 AATAAAATAA-AAATAA-AAATAAAATAA
*
21773832 GATAAAAT--AAATAAAAATAAAATAA
1 AATAAAATAAAAATAAAAATAAAATAA
21773857 AATAAAATAAAAATTAAAAAT
1 AATAAAATAAAAA-TAAAAAT
21773878 GGGTTGCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.08
25 19 0.49
27 3 0.08
28 14 0.36
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (27 bp):
AATAAAATAAAAATAAAAATAAAATAA
Found at i:21777609 original size:10 final size:10
Alignment explanation
Indices: 21777594--21777625 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21777584 TAAATATAAT
21777594 TAATTAAAGA
1 TAATTAAAGA
21777604 TAATTAAAGA
1 TAATTAAAGA
21777614 TAATTAAA-A
1 TAATTAAAGA
21777623 TAA
1 TAA
21777626 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:21777651 original size:27 final size:26
Alignment explanation
Indices: 21777621--21777682 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
21777611 AGATAATTAA
21777621 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
21777648 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
21777675 AATAAAAT
1 AATAAAAT
21777683 GGAGCCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:21783113 original size:30 final size:31
Alignment explanation
Indices: 21783077--21783142 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
21783067 TCACGTCTTG
*
21783077 TAATGAATGCT-ATATCATTTAGATATTATA-
1 TAATGAATG-TAATAACATTTAGATATTATAT
21783107 TAATGAATGTAATAACATTTAGATATTATAT
1 TAATGAATGTAATAACATTTAGATATTATAT
21783138 TAATG
1 TAATG
21783143 TAGCAGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 1 0.03
30 27 0.82
31 5 0.15
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (31 bp):
TAATGAATGTAATAACATTTAGATATTATAT
Found at i:21796774 original size:2 final size:2
Alignment explanation
Indices: 21796769--21796794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21796759 TATTGCTCAT
21796769 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
21796795 ATCCTGTGCA
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:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21799709 original size:137 final size:137
Alignment explanation
Indices: 21799463--21799739 Score: 554
Period size: 137 Copynumber: 2.0 Consensus size: 137
21799453 CAAATCAGGT
21799463 GATGGGCTGATAGCTACATGGTTTTTAGCATATATGGAGCTTGCTCACTTTGAACGAACGATTAA
1 GATGGGCTGATAGCTACATGGTTTTTAGCATATATGGAGCTTGCTCACTTTGAACGAACGATTAA
21799528 ATTCTCCCTTTTTGTTGTTTCTGCCTGGAAATACAAATTTGTGATGTCCTGATTCATTTGATTGG
66 ATTCTCCCTTTTTGTTGTTTCTGCCTGGAAATACAAATTTGTGATGTCCTGATTCATTTGATTGG
21799593 GAGTACG
131 GAGTACG
21799600 GATGGGCTGATAGCTACATGGTTTTTAGCATATATGGAGCTTGCTCACTTTGAACGAACGATTAA
1 GATGGGCTGATAGCTACATGGTTTTTAGCATATATGGAGCTTGCTCACTTTGAACGAACGATTAA
21799665 ATTCTCCCTTTTTGTTGTTTCTGCCTGGAAATACAAATTTGTGATGTCCTGATTCATTTGATTGG
66 ATTCTCCCTTTTTGTTGTTTCTGCCTGGAAATACAAATTTGTGATGTCCTGATTCATTTGATTGG
21799730 GAGTACG
131 GAGTACG
21799737 GAT
1 GAT
21799740 TTAAAAAGTT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (137 bp):
GATGGGCTGATAGCTACATGGTTTTTAGCATATATGGAGCTTGCTCACTTTGAACGAACGATTAA
ATTCTCCCTTTTTGTTGTTTCTGCCTGGAAATACAAATTTGTGATGTCCTGATTCATTTGATTGG
GAGTACG
Found at i:21800422 original size:62 final size:62
Alignment explanation
Indices: 21800325--21800447 Score: 246
Period size: 62 Copynumber: 2.0 Consensus size: 62
21800315 CATTTCTTCC
21800325 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
1 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
21800387 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTG
1 TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTG
21800448 CCTTTATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (62 bp):
TCCTCCTAGGAAAAATCAAGCAGAAACTAGTATTGCTATGCATTGTTCTTTGTTGTCGTTGA
Found at i:21801867 original size:22 final size:21
Alignment explanation
Indices: 21801818--21801867 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
21801808 CATCATTCTT
* *
21801818 AAATTATTTATAATGTTTCAA
1 AAATTATTTACAATGATTCAA
* *
21801839 TAGTTATTTACAAGTGATTCAA
1 AAATTATTTACAA-TGATTCAA
21801861 AAATTAT
1 AAATTAT
21801868 GTCATTTGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (21 bp):
AAATTATTTACAATGATTCAA
Found at i:21806208 original size:10 final size:11
Alignment explanation
Indices: 21806192--21806233 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21806182 TGACCTTTCT
21806192 AAGGTATGGG-
1 AAGGTATGGGC
*
21806202 TAGGTATGGGC
1 AAGGTATGGGC
*
21806213 AAGGTATGGGA
1 AAGGTATGGGC
*
21806224 AAGGAATGGG
1 AAGGTATGGG
21806234 GTATATTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGC
Found at i:21806863 original size:20 final size:20
Alignment explanation
Indices: 21806847--21806921 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
21806837 TTGTTTTCTG
*
21806847 TTTAAATCGATTCTTTTCTGT
1 TTTAAATCGATTCTTTT-TGA
*
21806868 TTTAAATCGATTATTTATTG-
1 TTTAAATCGATTCTTT-TTGA
* * * *
21806888 TTTGAATTGATTCATCTTGA
1 TTTAAATCGATTCTTTTTGA
21806908 TTTAAATCGATTCT
1 TTTAAATCGATTCT
21806922 CTATGGATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.07
20 22 0.51
21 17 0.40
22 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTAAATCGATTCTTTTTGA
Found at i:21815271 original size:4 final size:4
Alignment explanation
Indices: 21815264--21815298 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
21815254 ATATATATAT
* *
21815264 TATG TATG TATG TATG TATG CATG TATG TCTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
21815299 ACCTGAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:21815605 original size:2 final size:2
Alignment explanation
Indices: 21815598--21815640 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
21815588 CTGTCTTTTA
*
21815598 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21815640 A
1 A
21815641 TCAAATGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21821429 original size:22 final size:21
Alignment explanation
Indices: 21821413--21821460 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
21821403 GGATTGATTA
21821413 GGATATTTTATACGATTTTATG
1 GGATATTTTATACGATTTTA-G
21821435 GGATATTTTATGA-GATTTTAAG
1 GGATATTTTAT-ACGATTTT-AG
21821457 GGAT
1 GGAT
21821461 TGATTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (21 bp):
GGATATTTTATACGATTTTAG
Found at i:21822669 original size:39 final size:38
Alignment explanation
Indices: 21822651--21822797 Score: 204
Period size: 39 Copynumber: 3.8 Consensus size: 38
21822641 CCACGGCAAG
* *
21822651 GGCTAGATCTCATTATATTACCCTAGTATCTGCAATAA
1 GGCTAGATCTCATTATATTACCCTAGAATCTGCAACAA
*
21822689 GGCTAAATCTCATTATATTACCCCTAGAATCTGCAACAA
1 GGCTAGATCTCATTATATTA-CCCTAGAATCTGCAACAA
* * *
21822728 GGCTAGATCTCGTTATATTACTCGAGAATCTGCAACAAA
1 GGCTAGATCTCATTATATTACCCTAGAATCTGCAAC-AA
* *
21822767 TGCTAGATCTCATTATATTACCTTAGAATCT
1 GGCTAGATCTCATTATATTACCCTAGAATCT
21822798 ATAATAGATT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 33 0.35
39 62 0.65
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
GGCTAGATCTCATTATATTACCCTAGAATCTGCAACAA
Found at i:21822732 original size:77 final size:77
Alignment explanation
Indices: 21822651--21822797 Score: 206
Period size: 77 Copynumber: 1.9 Consensus size: 77
21822641 CCACGGCAAG
* * *
21822651 GGCTAGATCTCATTATATTACCCTAGTATCTGCAA-TAAGGCTAAATCTCATTATATTACCCCTA
1 GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTA-CCCTA
21822715 GAATCTGCAACAA
65 GAATCTGCAACAA
* * * * *
21822728 GGCTAGATCTCGTTATATTACTCGAGAATCTGCAACAAATGCTAGATCTCATTATATTACCTTAG
1 GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTACCCTAG
21822793 AATCT
66 AATCT
21822798 ATAATAGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 41 0.67
78 20 0.33
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (77 bp):
GGCTAGATCTCATTATATTACCCGAGAATCTGCAACAAAGGCTAAATCTCATTATATTACCCTAG
AATCTGCAACAA
Found at i:21822822 original size:78 final size:77
Alignment explanation
Indices: 21822625--21822798 Score: 199
Period size: 77 Copynumber: 2.3 Consensus size: 77
21822615 ACCTATGTCA
* * ** * * *
21822625 TATATTA-CCCAAGAATCCACGGCAAGGGCTAGATCTCATTATATTACCCTAGTATCTGCAATAA
1 TATATTACCCCTAGAATCTACAACAA-GGCTAGATCTCATTATATTACCCGAGAATCTGCAAAAA
21822689 GGCTAAATCTCAT
65 GGCTAAATCTCAT
* * *
21822702 TATATTACCCCTAGAATCTGCAACAAGGCTAGATCTCGTTATATTACTCGAGAATCTGCAACAAA
1 TATATTACCCCTAGAATCTACAACAAGGCTAGATCTCATTATATTACCCGAGAATCTGCAA-AAA
* *
21822767 TGCTAGATCTCAT
65 GGCTAAATCTCAT
*
21822780 TATATTA-CCTTAGAATCTA
1 TATATTACCCCTAGAATCTA
21822799 TAATAGATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 48 0.59
78 33 0.41
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (77 bp):
TATATTACCCCTAGAATCTACAACAAGGCTAGATCTCATTATATTACCCGAGAATCTGCAAAAAG
GCTAAATCTCAT
Found at i:21825720 original size:19 final size:19
Alignment explanation
Indices: 21825696--21825732 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21825686 TATTTTTATA
21825696 TTATTAA-ATTATATTATTG
1 TTATTAATA-TATATTATTG
21825715 TTATTAATATATATTATT
1 TTATTAATATATATTATT
21825733 AATCCTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATTAATATATATTATTG
Found at i:21827648 original size:21 final size:20
Alignment explanation
Indices: 21827610--21827666 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
21827600 TCTTACAATA
21827610 TTTAATAATTTTTT-ATAATT
1 TTTAA-AATTTTTTAATAATT
*
21827630 TTCTAAATTTTTTTAATAATT
1 TT-TAAAATTTTTTAATAATT
*
21827651 TTTAAAACTTTTTAAT
1 TTTAAAATTTTTTAAT
21827667 TAAAATTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAAATTTTTTAATAATT
Found at i:21827654 original size:10 final size:10
Alignment explanation
Indices: 21827610--21827666 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
21827600 TCTTACAATA
21827610 TTTAATAATT
1 TTTAATAATT
*
21827620 TTTTATAATT
1 TTTAATAATT
*
21827630 TTCTAA-ATTTT
1 TT-TAATA-ATT
21827641 TTTAATAATT
1 TTTAATAATT
21827651 TTTAA-AACTT
1 TTTAATAA-TT
21827661 TTTAAT
1 TTTAAT
21827667 TAAAATTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
9 2 0.05
10 29 0.76
11 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATAATT
Found at i:21827662 original size:20 final size:21
Alignment explanation
Indices: 21827618--21827666 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21827608 TATTTAATAA
* **
21827618 TTTTTTATAATTTTCTAAATT
1 TTTTTAATAATTTTCTAAAAC
21827639 TTTTTAATAATTTT-TAAAAC
1 TTTTTAATAATTTTCTAAAAC
21827659 TTTTTAAT
1 TTTTTAAT
21827667 TAAAATTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATAATTTTCTAAAAC
Found at i:21838896 original size:21 final size:21
Alignment explanation
Indices: 21838872--21838913 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21838862 AAACCTTGAA
*
21838872 TTTTC-CTTTTTGTCTTCTTTC
1 TTTTCTCTTTTTCT-TTCTTTC
21838893 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCTCTTTTTCTTTCTTTC
21838914 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTCTCTTTTTCTTTCTTTC
Found at i:21839151 original size:3 final size:3
Alignment explanation
Indices: 21839125--21839211 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
21839115 TTATTTAATT
* * *
21839125 TAA TAA T-A TAA T-A TCAA TTA -AA TAA TAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
21839168 TAA TTA -AA T-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA
21839211 T
1 T
21839212 TTAATATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.17
3 48 0.75
4 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:21839171 original size:21 final size:19
Alignment explanation
Indices: 21839145--21839211 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
21839135 ATATCAATTA
21839145 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
21839166 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
21839185 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
21839203 AATAATAAT
1 AATAATAAT
21839212 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:21847073 original size:20 final size:20
Alignment explanation
Indices: 21847048--21847086 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21847038 TTTTTTTAGG
21847048 ATTA-TTTTATTTTAATATTT
1 ATTATTTTTA-TTTAATATTT
21847068 ATTATTTTTATTTAATATT
1 ATTATTTTTATTTAATATT
21847087 ATTTGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTATTTTTATTTAATATTT
Found at i:21848816 original size:19 final size:20
Alignment explanation
Indices: 21848788--21848827 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21848778 TGTGTGTTCT
* *
21848788 TTTTTTCTTT-CATTCTTTC
1 TTTTTACTTTGCAATCTTTC
21848807 TTTTTACTTTGCAATCTTTC
1 TTTTTACTTTGCAATCTTTC
21848827 T
1 T
21848828 ATATTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTACTTTGCAATCTTTC
Found at i:21849910 original size:21 final size:21
Alignment explanation
Indices: 21849880--21849919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21849870 AAATATTTCA
* *
21849880 TTTTAATATTTTTAATTTTAT
1 TTTTAATATTATCAATTTTAT
*
21849901 TTTTACTATTATCAATTTT
1 TTTTAATATTATCAATTTT
21849920 CGAATTTATG
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:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATATTATCAATTTTAT
Found at i:21853940 original size:26 final size:25
Alignment explanation
Indices: 21853905--21853953 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
21853895 ACCCCTAAGC
21853905 CATCAATGCTATACAAAATATTGAA
1 CATCAATGCTATACAAAATATTGAA
21853930 CATCATATGCTATACAAAATATTG
1 CATCA-ATGCTATACAAAATATTG
21853954 TAATCAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
CATCAATGCTATACAAAATATTGAA
Found at i:21856709 original size:31 final size:32
Alignment explanation
Indices: 21856659--21856728 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
21856649 AGTGATTGGA
*
21856659 TTATTCAAAAGTTTTTTATTTAAGTGACAAGG
1 TTATTAAAAAGTTTTTTATTTAAGTGACAAGG
21856691 TTATTAAAAAG-TTTTTATTTAAGTGACAAGG
1 TTATTAAAAAGTTTTTTATTTAAGTGACAAGG
21856722 TTATTAA
1 TTATTAA
21856729 GTTTTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 27 0.73
32 10 0.27
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.44
Consensus pattern (32 bp):
TTATTAAAAAGTTTTTTATTTAAGTGACAAGG
Found at i:21857480 original size:23 final size:24
Alignment explanation
Indices: 21857449--21857494 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
21857439 ATTTTAAAAA
*
21857449 TTAAAT-AAATTTTTTTAATTTTT
1 TTAAATAAAATATTTTTAATTTTT
* *
21857472 TTAACTAAAATATTTTTCATTTT
1 TTAAATAAAATATTTTTAATTTT
21857495 GAATGGAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TTAAATAAAATATTTTTAATTTTT
Found at i:21863806 original size:14 final size:14
Alignment explanation
Indices: 21863787--21863816 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21863777 ATTGAGTTAG
21863787 TATTAAAGTTTTGT
1 TATTAAAGTTTTGT
21863801 TATTAAAGTTTTGT
1 TATTAAAGTTTTGT
21863815 TA
1 TA
21863817 GAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (14 bp):
TATTAAAGTTTTGT
Found at i:21865908 original size:30 final size:31
Alignment explanation
Indices: 21865884--21865942 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
21865874 GTAAATACTT
*
21865884 AAAATTTGAGGGACTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
21865914 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
21865943 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:21866189 original size:23 final size:22
Alignment explanation
Indices: 21866163--21866222 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
21866153 TTTAATTAGA
21866163 TAATTATTATTTATTTAATATTT
1 TAATTA-TATTTATTTAATATTT
* *
21866186 TAATAAGATATTTA-TTATTATTT
1 TAAT--TATATTTATTTAATATTT
21866209 T-ATTAT-TTTATTTA
1 TAATTATATTTATTTA
21866223 GTATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
22 2 0.06
23 13 0.42
24 6 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATATTTATTTAATATTT
Found at i:21866195 original size:31 final size:31
Alignment explanation
Indices: 21866153--21866218 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
21866143 TTTATAGTTA
*
21866153 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
* *
21866184 TTTAATAAGATATTTATTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
21866215 TTTA
1 TTTA
21866219 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:21873143 original size:46 final size:46
Alignment explanation
Indices: 21873091--21873314 Score: 272
Period size: 46 Copynumber: 4.8 Consensus size: 46
21873081 AATATTTGGG
*
21873091 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
21873137 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * * * * *
21873183 CGTCTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
* *
21873230 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
21873276 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21873315 GCGGGTTACA
Statistics
Matches: 148, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 114 0.77
47 32 0.22
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:21873254 original size:93 final size:93
Alignment explanation
Indices: 21873137--21873307 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
21873127 TGGATGCGAA
** *
21873137 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
*
21873202 GAGTTCGAGTTCGTGAAATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
* * *
21873230 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
21873295 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
21873308 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:21879887 original size:19 final size:21
Alignment explanation
Indices: 21879865--21879910 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
21879855 ATTGTTTGAA
21879865 AAATAATTTAC-T-TGTACAT
1 AAATAATTTACTTGTGTACAT
*
21879884 AAATAATTTGCTTGTGTACAT
1 AAATAATTTACTTGTGTACAT
21879905 AAATAA
1 AAATAA
21879911 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.42
20 1 0.04
21 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
AAATAATTTACTTGTGTACAT
Found at i:21879912 original size:4 final size:4
Alignment explanation
Indices: 21879903--21879927 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21879893 GCTTGTGTAC
21879903 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
21879928 GGCTCAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:21884594 original size:3 final size:3
Alignment explanation
Indices: 21884576--21884632 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
21884566 ATATAATACC
* * * *
21884576 AAT AGT AAT AAT -AT AAT AAT GAC AA- AAGT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
21884620 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
21884633 TCAATAATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:21891476 original size:16 final size:17
Alignment explanation
Indices: 21891451--21891500 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
21891441 TTTTCTTACT
21891451 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
21891467 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
21891483 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
21891500 T
1 T
21891501 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:21891648 original size:3 final size:3
Alignment explanation
Indices: 21891640--21891664 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21891630 AGTAAAAAGA
21891640 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21891665 CAGCTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21895342 original size:6 final size:6
Alignment explanation
Indices: 21895307--21895356 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
21895297 CAAGGAGAAG
* *
21895307 AGAAAA AG-AAT AGAATAGA AGAAAA TGAAAA AGAAAA AGAAAA A-AAAA
1 AGAAAA AGAAAA AGAA-A-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
21895355 AG
1 AG
21895357 GAAAGGAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
5 9 0.25
6 21 0.58
7 2 0.06
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (6 bp):
AGAAAA
Found at i:21919082 original size:11 final size:11
Alignment explanation
Indices: 21919066--21919098 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21919056 TCTAGAATTT
21919066 TCTTCATTTTC
1 TCTTCATTTTC
21919077 TCTTCATTTTC
1 TCTTCATTTTC
21919088 T-TCTCATTTTC
1 TCT-TCATTTTC
21919099 ATCTGCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 1 0.05
11 20 0.95
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTCATTTTC
Found at i:21922468 original size:14 final size:14
Alignment explanation
Indices: 21922451--21922480 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21922441 ATTATTGATG
*
21922451 TTATTATTTTTTTA
1 TTATTATTATTTTA
21922465 TTATTATTATTTTA
1 TTATTATTATTTTA
21922479 TT
1 TT
21922481 TCTACTCTTG
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:21922691 original size:22 final size:23
Alignment explanation
Indices: 21922666--21922711 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21922656 CAACCAAATC
21922666 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21922688 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21922711 A
1 A
21922712 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21928549 original size:34 final size:34
Alignment explanation
Indices: 21928511--21928578 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
21928501 AAGTTAGTCT
21928511 TTAAGGCATTTTTATTTGAGTTTTGATCTTTGTA
1 TTAAGGCATTTTTATTTGAGTTTTGATCTTTGTA
21928545 TTAAGGCATTTTTATTTGAGTTTTGATCTTTGTA
1 TTAAGGCATTTTTATTTGAGTTTTGATCTTTGTA
21928579 CTGGACCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.56
Consensus pattern (34 bp):
TTAAGGCATTTTTATTTGAGTTTTGATCTTTGTA
Found at i:21944120 original size:26 final size:26
Alignment explanation
Indices: 21944083--21944166 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21944073 TGATACAAAT
* *
21944083 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21944109 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21944135 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21944161 TGATAA
1 TGATAA
21944167 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:21950571 original size:18 final size:20
Alignment explanation
Indices: 21950548--21950584 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
21950538 AGTTACCTGC
21950548 ATGAAGAA-GGA-GAAGGAA
1 ATGAAGAATGGATGAAGGAA
21950566 ATGAAGAATGGATGAAGGA
1 ATGAAGAATGGATGAAGGA
21950585 GAATTGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.38, T:0.11
Consensus pattern (20 bp):
ATGAAGAATGGATGAAGGAA
Found at i:21950946 original size:20 final size:18
Alignment explanation
Indices: 21950914--21950955 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
21950904 ATTATTAATT
*
21950914 AATTAATTTAATTAGATA
1 AATTAATTTAATTAAATA
21950932 AATTAATTTTCAATTAAATA
1 AATTAA-TTT-AATTAAATA
21950952 AATT
1 AATT
21950956 TCTCAACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTAATTTAATTAAATA
Found at i:21952030 original size:9 final size:9
Alignment explanation
Indices: 21952018--21952086 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 9
21952008 TATATTATTT
21952018 AAATATAAA
1 AAATATAAA
21952027 AAATTATATATA
1 AAA-TATA-A-A
21952039 AAATATATAA
1 AAATATA-AA
21952049 ATAAT-TCAAA
1 A-AATAT-AAA
21952059 AAATATAAA
1 AAATATAAA
** *
21952068 ATTTTTAAA
1 AAATATAAA
21952077 AAATATAAA
1 AAATATAAA
21952086 A
1 A
21952087 TTTTAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 22 0.46
10 11 0.23
11 11 0.23
12 4 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATATAAA
Found at i:21952088 original size:18 final size:17
Alignment explanation
Indices: 21952037--21952094 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
21952027 AAATTATATA
* *
21952037 TAAAATATATAAATAATT
1 TAAAAAATATAAA-ATTT
*
21952055 CAAAAAATATAAAATTTT
1 TAAAAAATATAAAA-TTT
21952073 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
21952090 TAAAA
1 TAAAA
21952095 TATGTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.26
18 26 0.74
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:21952408 original size:65 final size:65
Alignment explanation
Indices: 21952333--21952459 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 65
21952323 AATTTGACCA
* *
21952333 TTTTTCAATTTTTATATAATATTTT-ATTTTTTAAAATCTATATTTATATATTTTAGAATTTTTA
1 TTTTTCAATTTTTATATAATATTTTGATTTTTT-AAATCTATAATTACATATTTTAGAATTTTTA
21952397 T
65 T
* *
21952398 TTTTTCAATTTTTATGTAATATTTTGATTTTTTAAATTTATAATTACATATTTTAGAATTTT
1 TTTTTCAATTTTTATATAATATTTTGATTTTTTAAATCTATAATTACATATTTTAGAATTTT
21952460 GGGTTGAAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
65 50 0.88
66 7 0.12
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (65 bp):
TTTTTCAATTTTTATATAATATTTTGATTTTTTAAATCTATAATTACATATTTTAGAATTTTTAT
Found at i:21952448 original size:29 final size:28
Alignment explanation
Indices: 21952390--21952451 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
21952380 ATATTTTAGA
* * *
21952390 ATTTTTATTTTTTCAATTTTTATGTAAT
1 ATTTTGATTTTTTAAATTTTAATGTAAT
21952418 ATTTTGATTTTTTAAATTTATAAT-TACAT
1 ATTTTGATTTTTTAAATTT-TAATGTA-AT
21952447 ATTTT
1 ATTTT
21952452 AGAATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
ATTTTGATTTTTTAAATTTTAATGTAAT
Found at i:21953040 original size:31 final size:31
Alignment explanation
Indices: 21952962--21953054 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 31
21952952 AAAAACCTTA
* * * * **
21952962 AATATGATAACAAATTATTTTTAAATAATTT
1 AATATAATAATAAATGATATTTAAATAAAAT
* * *
21952993 AATATAGTGATTAATGATATTTAAATAAAAT
1 AATATAATAATAAATGATATTTAAATAAAAT
21953024 AATATAATAATAAATGAAATATTTAACATAA
1 AATATAATAATAAATG--ATATTTAA-ATAA
21953055 TGAAACATAA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
31 35 0.74
33 8 0.17
34 4 0.09
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (31 bp):
AATATAATAATAAATGATATTTAAATAAAAT
Found at i:21956281 original size:49 final size:49
Alignment explanation
Indices: 21956226--21956320 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
21956216 ATATATTTAT
* *
21956226 AGGTTGAAA-ACCCTTATTCTAATCAATGTCAAATAGAAACAGTGTAATA
1 AGGTTGAAACA-CCTTATTCTAATCAATATCAAATAAAAACAGTGTAATA
*
21956275 AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAAGAGTGTA
1 AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAACAGTGTA
21956321 CTTCTATACG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (49 bp):
AGGTTGAAACACCTTATTCTAATCAATATCAAATAAAAACAGTGTAATA
Found at i:21956571 original size:120 final size:120
Alignment explanation
Indices: 21956358--21956599 Score: 400
Period size: 120 Copynumber: 2.0 Consensus size: 120
21956348 TTGGCCTTCG
* *
21956358 CCCCCACAGATCCCCTTATTTTGTCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
1 CCCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
*
21956423 CTCTAACAATTTCCTCCTTAACACGAATTCTCAACGAACAAGTTCTCCATCC-CTT
66 CTCTAACAATTTCCTCCTTAACAAGAATTCTCAACGAACAAGTTCTCCA-CCTCTT
*
21956478 CCCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCATACAA
1 CCCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
21956543 CTCTAACAATCTT-CTCCTTGAA-AAGAATTCTCAACGAACAAGTTCTCCACCTCTT
66 CTCTAACAAT-TTCCTCCTT-AACAAGAATTCTCAACGAACAAGTTCTCCACCTCTT
21956598 CC
1 CC
21956600 ACAAAACCCC
Statistics
Matches: 115, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
119 2 0.02
120 109 0.95
121 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (120 bp):
CCCCCACAGATCCCCCTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
CTCTAACAATTTCCTCCTTAACAAGAATTCTCAACGAACAAGTTCTCCACCTCTT
Found at i:21958662 original size:29 final size:28
Alignment explanation
Indices: 21958629--21958684 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
21958619 TGCGAGTTAT
* *
21958629 ACTGATTTGGGTTCGGGCTATGAATATCG
1 ACTGATTTGGCTTCAGGCTATG-ATATCG
21958658 ACTGATTTGGCTTCAGGCTATGATATC
1 ACTGATTTGGCTTCAGGCTATGATATC
21958685 AGTATTTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (28 bp):
ACTGATTTGGCTTCAGGCTATGATATCG
Found at i:21967599 original size:32 final size:31
Alignment explanation
Indices: 21967563--21967629 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
21967553 TCACTTAATT
* *
21967563 AAAAAGATTATAATTTAGGATTTAAATTATTC
1 AAAAA-ATTATAATTTAGGAATTAAACTATTC
* * *
21967595 AAAAAATTTTATTTTAGTAATTAAACTATTC
1 AAAAAATTATAATTTAGGAATTAAACTATTC
21967626 AAAA
1 AAAA
21967630 GTTTTTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (31 bp):
AAAAAATTATAATTTAGGAATTAAACTATTC
Found at i:21970057 original size:6 final size:6
Alignment explanation
Indices: 21970046--21970073 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21970036 AATAAAATAA
21970046 TTATCT TTATCT TTATCT TTATCT TTAT
1 TTATCT TTATCT TTATCT TTATCT TTAT
21970074 ATTATATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATCT
Found at i:21970096 original size:24 final size:24
Alignment explanation
Indices: 21970063--21970141 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
21970053 TATCTTTATC
21970063 TTTATCTTTATATTATATTACAATA
1 TTTAT-TTTATATTATATTACAATA
*
21970088 TTTATTTTAT-TT-T-TT---ATC
1 TTTATTTTATATTATATTACAATA
*
21970106 TTTATTTTTATATTATATTACAGTA
1 TTTA-TTTTATATTATATTACAATA
* *
21970131 TTGAATTTATA
1 TTTATTTTATA
21970142 GATTTAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
18 6 0.14
19 6 0.14
20 2 0.05
21 3 0.07
22 3 0.07
23 2 0.05
24 11 0.26
25 9 0.21
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTATTTTATATTATATTACAATA
Found at i:21970140 original size:43 final size:43
Alignment explanation
Indices: 21970057--21970140 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
21970047 TATCTTTATC
* *
21970057 TTTATCTTTATCTTTATATTATATTACAATATTTATTTTATTT
1 TTTATCTTTATCTTTATATTATATTACAATATTGAATTTATTT
* *
21970100 TTTATCTTTATTTTTATATTATATTACAGTATTGAATTTAT
1 TTTATCTTTATCTTTATATTATATTACAATATTGAATTTAT
21970141 AGATTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (43 bp):
TTTATCTTTATCTTTATATTATATTACAATATTGAATTTATTT
Found at i:21975088 original size:46 final size:46
Alignment explanation
Indices: 21975012--21975271 Score: 310
Period size: 46 Copynumber: 5.6 Consensus size: 46
21975002 TGATGTCATA
* * * *
21975012 GTATCTTTCAACTATAGT-TTCACTCGTTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTT-ACTCATTTTCTGTCACGTTGCCATG
* * * * *
21975058 GTATCTTTCAACCATGGTTTTATTCATTTTCCCGTCATGTTGCCATA
1 GTATCTTTCAACCATGGTCTTACTCATTTT-CTGTCACGTTGCCATG
*
21975105 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACGTTGCCATG
* * *
21975151 GTATCTTTCAACCATGGTCTTATTCATTTTATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATG
* * *
21975197 GTATCTTTCAACCATGGTCTAACACA-TTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACGTTGCCATG
*
21975243 GTATCTTTCAACCATGGTCTTACACATTT
1 GTATCTTTCAACCATGGTCTTACTCATTT
21975272 CATATCAGGT
Statistics
Matches: 188, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
45 4 0.02
46 139 0.74
47 45 0.24
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATG
Found at i:21975167 original size:93 final size:92
Alignment explanation
Indices: 21975008--21975300 Score: 349
Period size: 92 Copynumber: 3.2 Consensus size: 92
21974998 GACATGATGT
* * * *
21975008 CATAGTATCTTTCAACTATAGT-TTCACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
1 CATAGTATCTTTCAACCATGGTCTT-ACTC-ATTTCATGTCACGTTGCCATGGTATCTTTCAACC
* * * *
21975071 ATGGTTTTATTCATTTTCCCGTCATGTTGC
64 ATGGTCTTATTCATTTT-ACATCACGTTGC
*
21975101 CATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCAT
*
21975166 GGTCTTATTCATTTTATATCACGTTGC
66 GGTCTTATTCATTTTACATCACGTTGC
* * * *
21975193 CATGGTATCTTTCAACCATGGTCTAACACATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCAT
** * * * *
21975258 GGTCTTACACATTTCATATCAGGTTGT
66 GGTCTTATTCATTTTACATCACGTTGC
21975285 CATTA-TATCTTTCAAC
1 CA-TAGTATCTTTCAAC
21975301 TATTATCTTA
Statistics
Matches: 177, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
92 107 0.60
93 68 0.38
94 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (92 bp):
CATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCAT
GGTCTTATTCATTTTACATCACGTTGC
Found at i:21975325 original size:46 final size:46
Alignment explanation
Indices: 21975049--21975325 Score: 338
Period size: 46 Copynumber: 6.0 Consensus size: 46
21975039 TTTCTGTCAT
* ** *** *
21975049 GTTGCCATGGTATCTTTCAACCATGGTTTTATTCATTTTCCCGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
* * *
21975096 GTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** * *
21975142 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* *
21975188 GTTGCCATGGTATCTTTCAACCATGGTCTAACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
21975234 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* ** * ** *
21975280 GTTGTCATTATATCTTTCAACTATTATCTTACACATTCCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
21975326 AGAGCACACT
Statistics
Matches: 206, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
46 174 0.84
47 32 0.16
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:21981806 original size:94 final size:96
Alignment explanation
Indices: 21981708--21981920 Score: 286
Period size: 101 Copynumber: 2.2 Consensus size: 96
21981698 ACACTGATCA
* *
21981708 CATTTATCACTTGTTACTGATCAGATAAGTGTAGCTAAAGCT-AC-CACTTATCACTTGTCATTG
1 CATTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTCACTCACTTATCACTTGTCATTG
21981771 ATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 ATCAGATAAGAGTAGCTAAGCTACCACTTAT
* * *
21981802 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCT--CAC---TCACTTATCACTTGT
21981867 CATTGATCAGATAAGAGTAGCTAAGCTACCACTTATGT
61 CATTGATCAGATAAGAGTAGCTAAGCTACCACTTA--T
* *
21981905 CACTTATCACTGATCA
1 CATTTATCACTTATCA
21981921 GAAGTACTCA
Statistics
Matches: 102, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
94 37 0.36
97 2 0.02
101 49 0.48
103 14 0.14
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (96 bp):
CATTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTCACTCACTTATCACTTGTCATTG
ATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:21981812 original size:50 final size:50
Alignment explanation
Indices: 21981752--21981915 Score: 247
Period size: 51 Copynumber: 3.2 Consensus size: 50
21981742 CTAAAGCTAC
21981752 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
1 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
* * * * * *
21981802 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCT-AAGCTACCACTTAT
21981853 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCTAAGCTACCACTTATGT
1 CACTTATCACTTGTCATTGATCAGATAAGAGTAGCTAAGCTACCACTTA--T
21981905 CACTTATCACT
1 CACTTATCACT
21981916 GATCAGAAGT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
50 43 0.43
51 44 0.44
52 12 0.12
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
CACTTATCACTTGTCATTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:21984654 original size:62 final size:62
Alignment explanation
Indices: 21984553--21984707 Score: 213
Period size: 62 Copynumber: 2.5 Consensus size: 62
21984543 GGAATTGACG
* * * *
21984553 GTAAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGT
1 GTAAAAAGGATCTAGCACGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
* *
21984615 GTAAAAAGGATCTAGCATGGACGGGTGATCCTATTCTGATATAGCCCTCCCAAAGAATACGT
1 GTAAAAAGGATCTAGCACGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
* * *
21984677 GTAAAATA-GATTTAGCCCGGACGGGTAATCC
1 GTAAAA-AGGATCTAGCACGGACGGGTGATCC
21984708 GAATTAGGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 81 0.99
63 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (62 bp):
GTAAAAAGGATCTAGCACGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATACGT
Found at i:21984951 original size:38 final size:39
Alignment explanation
Indices: 21984901--21985071 Score: 182
Period size: 46 Copynumber: 4.1 Consensus size: 39
21984891 CTGATATGAA
21984901 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
21984940 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
21984985 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
21985024 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTG
21985070 AT
1 AT
21985072 AGAAAATGAG
Statistics
Matches: 114, Mismatches: 3, Indels: 25
0.80 0.02 0.18
Matches are distributed among these distances:
38 36 0.32
39 1 0.01
41 4 0.04
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.60
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:21985007 original size:46 final size:46
Alignment explanation
Indices: 21984943--21985110 Score: 230
Period size: 46 Copynumber: 3.7 Consensus size: 46
21984933 CAACCTGTGT
* * *
21984943 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
* * *
21984989 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
21985035 ATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * *
21985081 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
21985111 TCACGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 107 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:21987276 original size:51 final size:51
Alignment explanation
Indices: 21987217--21987319 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
21987207 TAAGGTTGCT
21987217 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
1 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
21987268 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
1 TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
21987319 T
1 T
21987320 ATAAACATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.30
Consensus pattern (51 bp):
TGACCAAATGATTAATGAATGAATAACCTTAAACATGATTTTAATCAAACA
Found at i:21989737 original size:3 final size:3
Alignment explanation
Indices: 21989729--21989769 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
21989719 TTAAGGAGAC
* *
21989729 GGT GGT GGT GGT GGT GGT GGT GGT GGT TGT GGT TGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
21989770 CGCTTATTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (3 bp):
GGT
Found at i:21994191 original size:25 final size:23
Alignment explanation
Indices: 21994139--21994193 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
21994129 TATAAATAGT
21994139 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
21994162 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
21994187 AATAGTG
1 AATAGTG
21994194 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:21994605 original size:29 final size:28
Alignment explanation
Indices: 21994530--21994623 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 28
21994520 ATATATGTAC
21994530 ATAATATAG--TTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* * *
21994556 GATAACAT-GTA-GAAATTATATATATATAA
1 -ATAATATAGTATTAAA--ATATATACATAA
21994585 ATAATATAGTATTAAAGATATATACATAAA
1 ATAATATAGTATTAAA-ATATATACAT-AA
*
21994615 ATAGTATAG
1 ATAATATAG
21994624 AAATATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
26 1 0.02
27 9 0.17
28 6 0.12
29 23 0.44
30 13 0.25
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:21994631 original size:55 final size:55
Alignment explanation
Indices: 21994519--21994634 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
21994509 ACATAATATT
* * * *
21994519 TATATATGTACATAATATAGTTAAAATATATACATAAGATAACATGTAGAAATTA
1 TATATATATAAATAATATAGTTAAAATATATACATAAAATAACATATAGAAATTA
*
21994574 TATATATATAAATAATATAGTATTAAAGATATATACATAAAAT-A-GTATAGAAA-TA
1 TATATATATAAATAATATAG--TTAAA-ATATATACATAAAATAACATATAGAAATTA
21994629 TATATA
1 TATATA
21994635 CGTAATATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
55 26 0.49
56 7 0.13
57 6 0.11
58 14 0.26
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (55 bp):
TATATATATAAATAATATAGTTAAAATATATACATAAAATAACATATAGAAATTA
Found at i:21996054 original size:14 final size:14
Alignment explanation
Indices: 21996035--21996083 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
21996025 GAGTTGATTT
21996035 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
21996049 TTGAAAAACAGAAA
1 TTGAAAAGCAGAAA
21996063 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
21996077 TTGAAAA
1 TTGAAAA
21996084 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.16
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:21996123 original size:101 final size:100
Alignment explanation
Indices: 21995961--21996155 Score: 356
Period size: 101 Copynumber: 1.9 Consensus size: 100
21995951 AAAAATATAG
21995961 ATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 ATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
21996026 AGTTGATTTTTGA-AAAGCAGAAATTGAAAAACAGAA
66 AGTTGA-TTTTGACAAA-CAGAAATTGAAAAACAGAA
*
21996062 ATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 ATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
21996127 AGTTGATTTTGACAAACAGAAATTGAAAA
66 AGTTGATTTTGACAAACAGAAATTGAAAA
21996156 TACCTCAGCA
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
100 19 0.21
101 73 0.79
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (100 bp):
ATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTGACAAACAGAAATTGAAAAACAGAA
Found at i:21996195 original size:74 final size:72
Alignment explanation
Indices: 21996063--21996210 Score: 237
Period size: 74 Copynumber: 2.0 Consensus size: 72
21996053 AAAACAGAAA
*
21996063 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
21996128 GTTGATT
66 GTTGATT
21996135 TTGACAAA-CAGAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGA-AAAGCAGAAATTGAAAATACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
21996198 ATGAGTTGATT
62 ATGAGTTGATT
21996209 TT
1 TT
21996211 TTTTGAAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
72 26 0.37
73 3 0.04
74 40 0.56
75 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (72 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:21996232 original size:14 final size:14
Alignment explanation
Indices: 21996213--21996247 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21996203 TTGATTTTTT
*
21996213 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
*
21996227 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
21996241 TTGAAAA
1 TTGAAAA
21996248 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:21996299 original size:90 final size:89
Alignment explanation
Indices: 21996135--21996593 Score: 606
Period size: 90 Copynumber: 5.2 Consensus size: 89
21996125 TGAGTTGATT
*
21996135 TTGACAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
21996200 GAGTTGATTTTTTTTGAAAAATATAAA
65 GAGTTGA--TTTTTTGAAAAATATAAA
** ** *
21996227 TTGAAAAGTAGAAATTGAAAATACCTCAGCA-TGCCCCGATGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
21996291 AGTTGATTTTTTG-AAAA-AT--A
66 AGTTGATTTTTTGAAAAATATAAA
* *
21996311 -T---AAACAGAAATT-AAAATTACCTTAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
** * *
21996369 TGAGTTGA--TTTTGACGAACAGAAA
64 TGAGTTGATTTTTTGAAAAATATAAA
*
21996393 TTGAAAAACAGAAATTGAAAATACCTCAACATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
21996458 GAGTTGATTTTTTGAAAAATATAAA
65 GAGTTGATTTTTTGAAAAATATAAA
**
21996483 TTGAAAAGTAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
21996548 GAGTTGA-TTTTTGAAAAATATAAA
65 GAGTTGATTTTTTGAAAAATATAAA
21996572 TTGAAAAAACAGAAATTGAAAA
1 TTG-AAAAACAGAAATTGAAAA
21996594 GCAGAAATTA
Statistics
Matches: 323, Mismatches: 26, Indels: 38
0.83 0.07 0.10
Matches are distributed among these distances:
78 5 0.02
79 8 0.02
80 52 0.16
82 1 0.00
83 2 0.01
84 1 0.00
86 20 0.06
87 8 0.02
88 43 0.13
89 22 0.07
90 133 0.41
92 28 0.09
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAAAATATAAA
Found at i:21996402 original size:14 final size:14
Alignment explanation
Indices: 21996385--21996413 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21996375 GATTTTGACG
21996385 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21996399 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21996413 A
1 A
21996414 TACCTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:21996488 original size:14 final size:14
Alignment explanation
Indices: 21996469--21996503 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21996459 AGTTGATTTT
*
21996469 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
*
21996483 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
21996497 TTGAAAA
1 TTGAAAA
21996504 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:21996577 original size:14 final size:14
Alignment explanation
Indices: 21996558--21996620 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
21996548 GAGTTGATTT
* *
21996558 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
21996572 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
21996587 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
21996601 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
21996614 TTGAAAA
1 TTGAAAA
21996621 GACCTCAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:21996593 original size:13 final size:13
Alignment explanation
Indices: 21996577--21996620 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
21996567 ATAAATTGAA
21996577 AAAACAGAAATTG
1 AAAACAGAAATTG
*
21996590 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
21996604 AAAACAGAATTTG
1 AAAACAGAAATTG
21996617 AAAA
1 AAAA
21996621 GACCTCAGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:21996771 original size:14 final size:14
Alignment explanation
Indices: 21996752--21996786 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21996742 GTTGATTCTT
* *
21996752 TTGAAAAGTAGAAA
1 TTGAAAAGCAAAAA
21996766 TTGAAAAGCAAAAA
1 TTGAAAAGCAAAAA
21996780 TTGAAAA
1 TTGAAAA
21996787 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:21996832 original size:89 final size:89
Alignment explanation
Indices: 21996675--21997027 Score: 419
Period size: 89 Copynumber: 4.1 Consensus size: 89
21996665 GAGTTGATTT
** *
21996675 TTGAAAAGCAGAAATTGAAAACGCCTCAATGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTC-A-GCGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
21996740 GAGTTGATTCTTTTGAAAAGTAGAAA
64 GAGTTGATTCTTTTGAAAAGTAGAAA
* * *
21996766 TTGAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
21996831 GTTGA-T-TTTTGAAAAGCAGAAA
66 GTTGATTCTTTTGAAAAGTAGAAA
* ** *
21996853 TTGAAAA-C---------ACAT-CAGC-GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
21996906 GTTGATTCTTTTGAAAAGTAGAAA
66 GTTGATTCTTTTGAAAAGTAGAAA
* * *
21996930 TTGAAAAGCAGAAATTGAAAATACTTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
21996995 GTTGATTTTTTTGATAAAAATAGAAT
66 GTTGATTCTTTTG--AAAAGTAGAAA
21997021 TTGAAAA
1 TTGAAAA
21997028 TACCTCAGCG
Statistics
Matches: 223, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
75 39 0.17
76 3 0.01
77 25 0.11
78 1 0.00
86 1 0.00
87 25 0.11
88 3 0.01
89 85 0.38
90 1 0.00
91 40 0.18
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (89 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTCTTTTGAAAAGTAGAAA
Found at i:21996935 original size:14 final size:14
Alignment explanation
Indices: 21996916--21996950 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
21996906 GTTGATTCTT
*
21996916 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
21996930 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
21996944 TTGAAAA
1 TTGAAAA
21996951 TACTTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:21997019 original size:91 final size:90
Alignment explanation
Indices: 21996839--21997027 Score: 290
Period size: 91 Copynumber: 2.1 Consensus size: 90
21996829 GAGTTGATTT
21996839 TTGAAAAGCAGAAATTGAAAACACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAACACATCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATAT
*
21996904 GAGTTGATTCTTTTGAAAAGTAGAAA
65 GAGTTGATTCTTTTGAAAAATAGAAA
* * *
21996930 TTGAAAAGCAGAAATTGAAAATACTTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAAAAGCAGAAATTGAAAACACATCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
21996994 AGTTGATTTTTTTGATAAAAATAGAAT
66 AGTTGATTCTTTTG--AAAAATAGAAA
21997021 TTGAAAA
1 TTGAAAA
21997028 TACCTCAGCG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
89 42 0.47
91 48 0.53
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (90 bp):
TTGAAAAGCAGAAATTGAAAACACATCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTCTTTTGAAAAATAGAAA
Found at i:21997106 original size:13 final size:13
Alignment explanation
Indices: 21997088--21997112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21997078 TTTGACGAAT
21997088 AGAAATTGAAAAC
1 AGAAATTGAAAAC
21997101 AGAAATTGAAAA
1 AGAAATTGAAAA
21997113 TACTCAGCAC
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTGAAAAC
Found at i:21997221 original size:86 final size:82
Alignment explanation
Indices: 21996839--21997270 Score: 319
Period size: 86 Copynumber: 5.1 Consensus size: 82
21996829 GAGTTGATTT
* * *
21996839 TTGAAAAGCAGAAATTGAAAACACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCATGT---CCGAGGCTCAACTCACCTCTCGCAATAT
21996904 GAGTTGATTCTTTTGAAAAGTAGAAA
62 GAGTTGA---TTTTGAAAA--AGAAA
* * *
21996930 TTGAAAAGCAGAAATTGAAAATACTTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATGTGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCATGT-CCGAGGCTCAACTCACCTCTCGCAATATGA
***
21996995 GTTGATTTT---TTTG--A
64 GTTGATTTTGAAAAAGAAA
* * * ** ** *
21997009 -TAAAAATAGAATTTGAAAATACCT-CAGC-GTGT-CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAGAAATTG-AAA-A--TACCTCAGCATGTCCGAGGCTCAACTCACCTCTCGCAATAT
*
21997070 GAGTTGATTTTGACGAATAGAAA
62 GAGTTGATTTTGA--AAAAGAAA
*
21997093 TTGAAAACAGAAATTGAAAATA-CTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGCA--TG-TCCGAGGCTCAACTCACCTCTCGCAATATG
*
21997157 AGTTGGATTTTTGAAAAATAAA
63 AGTT-GA-TTTTGAAAAAGAAA
** **
21997179 TTGACAAAC-GAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATG
1 TTGA-AAACAG-AAATTGAAAATACCTCAGCATGTC-CGAGGCTCAACTCACCTCTCGCAATATG
*
21997243 AGTTAAATTTTGAAAACAGAAA
63 AGTT-GATTTTGAAAA-AGAAA
21997265 TTGAAA
1 TTGAAA
21997271 TTACCTCAAC
Statistics
Matches: 282, Mismatches: 34, Indels: 56
0.76 0.09 0.15
Matches are distributed among these distances:
77 45 0.16
78 8 0.03
79 5 0.02
80 2 0.01
81 4 0.01
82 3 0.01
83 1 0.00
84 5 0.02
85 24 0.09
86 87 0.31
87 18 0.06
88 13 0.05
89 35 0.12
91 32 0.11
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (82 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCATGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTGAAAAAGAAA
Found at i:21997307 original size:72 final size:72
Alignment explanation
Indices: 21997190--21998653 Score: 1968
Period size: 72 Copynumber: 20.0 Consensus size: 72
21997180 TGACAAACGA
* * * *
21997190 AAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997255 AAAACAG
66 AAAACAG
* *
21997262 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997327 AAAACAG
66 AAAACAG
* *
21997334 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997399 AAAACAG
66 AAAACAG
* * * * *
21997406 AAATTGAAATTACCTCAACGTGTCTTGAGGATCAACTCATTTATCGCAATATGAGCTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTT
21997471 TGAAAGACAG
64 TGAAA-ACAG
* * * ** *
21997481 AAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
21997545 TTTGAAAACAG
62 TTTGAAAACAG
21997556 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997621 AAAACAG
66 AAAACAG
* * ***
21997628 AAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997693 AAAACAG
66 AAAACAG
*
21997700 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTT
21997765 CGAAAGACAG
65 -GAAA-ACAG
* * ** *
21997775 AAATTGAAAATACCTCAACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAAC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
21997839 TTGAAAACAG
63 TTGAAAACAG
*
21997849 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997914 AAAACAG
66 AAAACAG
* ***
21997921 AAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21997986 AAAACAG
66 AAAACAG
* *
21997993 AAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTT
21998058 TGAAAGAC--
64 TGAAA-ACAG
* * * ** *
21998066 AAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
21998130 TTGAAAACAG
63 TTGAAAACAG
*
21998140 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGCTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21998205 AAAACAG
66 AAAACAG
* ***
21998212 AAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21998277 AAAACAG
66 AAAACAG
* *
21998284 AAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTT
21998349 TGAAAGACAG
64 TGAAA-ACAG
* * * ** *
21998359 AAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
21998423 TTGAAAACAA
63 TTGAAAACAG
*
21998433 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21998498 AAAACAG
66 AAAACAG
* ** * ** * *
21998505 AAATTGAAATTACCTCAACGTGTCCCGAGGCTCAACTTACCTCTCGCAATATGAATTAAATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-----
*
21998570 TTTTTGAAAAATAG
61 -TTTTG-AAAACAG
* * *
21998584 AAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
21998649 AAAAC
66 AAAAC
21998654 GGAAGTAACA
Statistics
Matches: 1238, Mismatches: 117, Indels: 74
0.87 0.08 0.05
Matches are distributed among these distances:
71 3 0.00
72 764 0.62
73 69 0.06
74 88 0.07
75 135 0.11
76 16 0.01
77 100 0.08
78 8 0.01
79 55 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACAG
Found at i:21997997 original size:293 final size:293
Alignment explanation
Indices: 21997190--21998647 Score: 2476
Period size: 293 Copynumber: 5.0 Consensus size: 293
21997180 TGACAAACGA
** ** * *
21997190 AAATTGAAAATACCTCAGCATGT---CTTAAGGCTCAACTCATTTCTCGCAATATGAGTTAAATT
1 AAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
21997252 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAG
65 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*** *
21997317 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTA
130 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCA
* *
21997382 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGATCAACTCATT
195 ATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
* *
21997447 TATCGCAATATGAGCTGATTTTTTTGAAAGACAG
260 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAG
21997481 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
21997546 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
21997611 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCATTTCTCGCA
130 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCA
21997676 ATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
195 ATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
*
21997741 TCTCGCAATATGAGTTGATTTTTTCGAAAGACAG
260 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAG
*
21997775 AAATTGAAAATACCTCAACATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
21997840 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCATTTCTCGCAATATGAGT
66 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
21997905 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
131 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
*
21997970 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTT
196 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
21998035 CTCGCAATATGAGTTGATTTTTTTGAAAGAC--
261 CTCGCAATATGAGTTGATTTTTTTGAAAGACAG
21998066 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
21998131 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGC
66 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
21998196 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
131 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
*
21998261 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCATTT
196 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
21998326 CTCGCAATATGAGTTGATTTTTTTGAAAGACAG
261 CTCGCAATATGAGTTGATTTTTTTGAAAGACAG
21998359 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
21998424 TGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGT
66 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * **
21998489 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCGAGGCTCAACTTACCTCTCGCAA
131 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
* * * * * *
21998554 TATGAATTAAATTTTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAA
196 TATGAGTTGAA------TTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
*
21998619 CTCATTTCTCGCAATATGAGTTGAATTTT
254 CTCATTTCTCGCAATATGAGTTGATTTTT
21998648 GAAAACGGAA
Statistics
Matches: 1111, Mismatches: 43, Indels: 17
0.95 0.04 0.01
Matches are distributed among these distances:
291 309 0.28
293 452 0.41
294 280 0.25
299 5 0.00
300 65 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (293 bp):
AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCCAAGGCTCAACTCATTTCTCGCAA
TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
CTCGCAATATGAGTTGATTTTTTTGAAAGACAG
Found at i:22010526 original size:25 final size:23
Alignment explanation
Indices: 22010474--22010528 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
22010464 TATAAATAGT
22010474 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
22010497 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
22010522 AATAGTG
1 AATAGTG
22010529 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:22010678 original size:37 final size:35
Alignment explanation
Indices: 22010633--22010702 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
22010623 ATAATATTAA
22010633 ATAAAAT-AATAAGTGATAAT-AGTGAAAATAATAGGT
1 ATAAAATAAAT-A-TGATAATGA-TGAAAATAATAGGT
22010669 ATAATAATAAATATGATAATGTATGAAAATAATA
1 ATAA-AATAAATATGATAATG-ATGAAAATAATA
22010703 CTATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 11 0.37
37 15 0.50
38 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (35 bp):
ATAAAATAAATATGATAATGATGAAAATAATAGGT
Found at i:22010884 original size:25 final size:25
Alignment explanation
Indices: 22010851--22010995 Score: 107
Period size: 25 Copynumber: 5.7 Consensus size: 25
22010841 TAATATTTAT
*
22010851 ATATGTACATAATATAGTGTTAAAA
1 ATATATACATAATATAGTGTTAAAA
*
22010876 ATACATACATAATATA--GTT-AAA
1 ATATATACATAATATAGTGTTAAAA
* * *
22010898 ATATATACATAAGATAACATGTAGAAAA
1 ATATATACATAATAT-A-GTGT-TAAAA
* * *
22010926 TATATATAAATAATATAGTATTAAAC
1 -ATATATACATAATATAGTGTTAAAA
* * *
22010952 ATATATACATAAAATAGTATAGAAAA
1 ATATATACATAATATAGTGT-TAAAA
*
22010978 TATATATACGTAATATAG
1 -ATATATACATAATATAG
22010996 AATTTAGAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
22 16 0.17
23 4 0.04
25 32 0.34
26 8 0.09
27 17 0.18
28 4 0.04
29 13 0.14
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (25 bp):
ATATATACATAATATAGTGTTAAAA
Found at i:22010961 original size:54 final size:49
Alignment explanation
Indices: 22010884--22010995 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 49
22010874 AAATACATAC
* *
22010884 ATAATATAGTTAAAATATATACATAAGATAACATGTAGAAAATATATATAA
1 ATAATATAGTTAAAATATATACATAAAAT-A-ATATAGAAAATATATATAA
* *
22010935 ATAATATAGTATTAAACATATATACATAAAATAGTATAGAAAATATATATAC
1 ATAATATAG--TTAAA-ATATATACATAAAATAATATAGAAAATATATATAA
*
22010987 GTAATATAG
1 ATAATATAG
22010996 AATTTAGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
51 9 0.17
52 24 0.45
53 6 0.11
54 14 0.26
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.32
Consensus pattern (49 bp):
ATAATATAGTTAAAATATATACATAAAATAATATAGAAAATATATATAA
Found at i:22010967 original size:27 final size:27
Alignment explanation
Indices: 22010861--22010983 Score: 79
Period size: 27 Copynumber: 4.8 Consensus size: 27
22010851 ATATGTACAT
* *
22010861 AATATAGTGTTAAAAATACATACAT--
1 AATATAGTATTAAAAATATATACATAA
22010886 AATATAG--TT-AAAATATATACATAA
1 AATATAGTATTAAAAATATATACATAA
* * *
22010910 GATA-A-CATGTAGAAAATATATATA-AA
1 AATATAGTAT-TA-AAAATATATACATAA
*
22010936 TAATATAGTATTAAACATATATACAT-A
1 -AATATAGTATTAAAAATATATACATAA
22010963 AA-ATAGTA-TAGAAAATATATA
1 AATATAGTATTA-AAAATATATA
22010984 TACGTAATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
22 12 0.15
23 3 0.04
24 6 0.08
25 23 0.29
26 4 0.05
27 25 0.32
28 3 0.04
29 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (27 bp):
AATATAGTATTAAAAATATATACATAA
Found at i:22011058 original size:23 final size:25
Alignment explanation
Indices: 22011015--22011060 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22011005 TATACCTAAT
22011015 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
22011040 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
22011061 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:22013173 original size:19 final size:19
Alignment explanation
Indices: 22013151--22013199 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
22013141 ATTTAATTAA
* *
22013151 TTTTTTAGAATTTAAATTT
1 TTTTTTAAAATATAAATTT
**
22013170 TTTTAAAAAATATAAATTTT
1 TTTTTTAAAATATAAA-TTT
22013190 TTTTTTAAAA
1 TTTTTTAAAA
22013200 ATTATAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAAAATATAAATTT
Found at i:22014825 original size:17 final size:17
Alignment explanation
Indices: 22014803--22014867 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
22014793 TATTTCTAAT
22014803 TAATTTTTAAAAATTTA
1 TAATTTTTAAAAATTTA
* *
22014820 TAATTTTTTTATAATTTTA
1 TAA--TTTTTAAAAATTTA
*
22014839 TACTTTTTAATAAATTT-
1 TAATTTTTAA-AAATTTA
22014856 TAATTTTTAAAA
1 TAATTTTTAAAA
22014868 TAATTAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
16 2 0.05
17 18 0.46
18 5 0.13
19 14 0.36
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTTTAAAAATTTA
Found at i:22014830 original size:19 final size:19
Alignment explanation
Indices: 22014806--22014863 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
22014796 TTCTAATTAA
22014806 TTTTTAAAAATTTATAATT
1 TTTTTAAAAATTTATAATT
* * *
22014825 TTTTTATAATTTTAT-A-C
1 TTTTTAAAAATTTATAATT
22014842 TTTTTAATAAATTT-TAATT
1 TTTTTAA-AAATTTATAATT
22014861 TTT
1 TTT
22014864 AAAATAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 16 0.53
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAAAAATTTATAATT
Found at i:22014872 original size:18 final size:16
Alignment explanation
Indices: 22014802--22014867 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 16
22014792 ATATTTCTAA
22014802 TTAATTTTTAAAAATT
1 TTAATTTTTAAAAATT
* *
22014818 TATAATTTTTTTATAATT
1 T-TAA-TTTTTAAAAATT
22014836 TTATACTTTTTAATAAATT
1 TTA-A-TTTTTAA-AAATT
22014855 TTAATTTTTAAAA
1 TTAATTTTTAAAA
22014868 TAATTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.07
17 12 0.29
18 19 0.46
19 7 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTTTAAAAATT
Found at i:22017581 original size:14 final size:15
Alignment explanation
Indices: 22017557--22017585 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22017547 TAGGATTCTC
22017557 AAAACATAAAAAAAT
1 AAAACATAAAAAAAT
22017572 AAAA-ATAAAAAAAT
1 AAAACATAAAAAAAT
22017586 TCTTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAACATAAAAAAAT
Found at i:22022728 original size:14 final size:14
Alignment explanation
Indices: 22022711--22022756 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
22022701 AATGTGATAT
*
22022711 TAAAAATATATACA
1 TAAAAATATATAAA
22022725 TAAAAATATAATAAA
1 TAAAAATAT-ATAAA
*
22022740 TAAATATATATATAA
1 TAAAAATATATA-AA
22022755 TA
1 TA
22022757 TAATATATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAATATATAAA
Found at i:22022754 original size:27 final size:27
Alignment explanation
Indices: 22022714--22022793 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
22022704 GTGATATTAA
*
22022714 AAATATATACATAAAAATATAATAAAT
1 AAATATATATATAAAAATATAATAAAT
**
22022741 AAATATATATATAATATAATAT-ATGCAT
1 AAATATATATATAA-A-AATATAATAAAT
22022769 -AATATAGTAT-TAAAAATATATATAA
1 AAATATA-TATATAAAAATATA-ATAA
22022794 TACATACACA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 24 0.56
28 8 0.19
29 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (27 bp):
AAATATATATATAAAAATATAATAAAT
Found at i:22022761 original size:16 final size:15
Alignment explanation
Indices: 22022714--22022772 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 15
22022704 GTGATATTAA
22022714 AAATATATACATAA-
1 AAATATATACATAAT
*
22022728 AAATATA-ATA-AAT
1 AAATATATACATAAT
*
22022741 AAATATATATATAAT
1 AAATATATACATAAT
*
22022756 ATAATATATGCATAAT
1 A-AATATATACATAAT
22022772 A
1 A
22022773 TAGTATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 10 0.26
15 4 0.11
16 13 0.34
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (15 bp):
AAATATATACATAAT
Done.