Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 85 of 211
Found at i:23030189 original size:18 final size:18
Alignment explanation
Indices: 23030165--23030208 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23030155 TGTCATTCGT
23030165 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
23030182 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
23030201 TTTCAAAA
1 TTTCAAAA
23030209 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:23033273 original size:28 final size:28
Alignment explanation
Indices: 23033231--23033293 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
23033221 TAAAGAGTTA
23033231 ATGATATCTTCTCATTGGCATTATGTTG
1 ATGATATCTTCTCATTGGCATTATGTTG
*
23033259 ATGATATCCTT-TCATTGGCATTGTGTTG
1 ATGATAT-CTTCTCATTGGCATTATGTTG
23033287 ATTGATA
1 A-TGATA
23033294 AATATGAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (28 bp):
ATGATATCTTCTCATTGGCATTATGTTG
Found at i:23034199 original size:20 final size:20
Alignment explanation
Indices: 23034174--23034221 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
23034164 ACACATATTC
23034174 TCATACTTATGCTAAATATA
1 TCATACTTATGCTAAATATA
23034194 TCATACTTATGCTAAATATA
1 TCATACTTATGCTAAATATA
23034214 TCATACTT
1 TCATACTT
23034222 TCTCAATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (20 bp):
TCATACTTATGCTAAATATA
Found at i:23037980 original size:13 final size:14
Alignment explanation
Indices: 23037954--23037988 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
23037944 ATATATACTT
23037954 TTATTTTTTAAAAA
1 TTATTTTTTAAAAA
23037968 TTATTTTTT-AAAA
1 TTATTTTTTAAAAA
23037981 TTATTTTT
1 TTATTTTT
23037989 AGTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTTTAAAAA
Found at i:23039610 original size:47 final size:45
Alignment explanation
Indices: 23039556--23039658 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 45
23039546 TTATTAAATA
* * * * *
23039556 TAGTATTATTTTAGTATTTAATCTTAAC-ATTTTTTTAAATTTCTCAT
1 TAGTATTATTTTAATATATAAT-AT-ACTATTATTTTAAATTGC-CAT
23039603 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
1 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
*
23039648 TAATATTATTT
1 TAGTATTATTT
23039659 AAATTTATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 15 0.31
46 14 0.29
47 20 0.41
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (45 bp):
TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
Found at i:23039702 original size:24 final size:23
Alignment explanation
Indices: 23039659--23039716 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
23039649 AATATTATTT
23039659 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT-CATCATAGTTTA
*
23039683 AAATTTATCAT-ATACTATAGTTTT
1 AAATTTATCATCAT-C-ATAGTTTA
*
23039707 AAACTTATCA
1 AAATTTATCA
23039717 CAGATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 27 0.90
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (23 bp):
AAATTTATCATCATCATAGTTTA
Found at i:23044144 original size:17 final size:18
Alignment explanation
Indices: 23044116--23044149 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23044106 ATTTCAGATT
23044116 CAATATAAAAAAATCAAC
1 CAATATAAAAAAATCAAC
23044134 CAATA-AAAAAAATCAA
1 CAATATAAAAAAATCAA
23044150 AAAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (18 bp):
CAATATAAAAAAATCAAC
Found at i:23044153 original size:9 final size:9
Alignment explanation
Indices: 23044139--23044191 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
23044129 TCAACCAATA
23044139 AAAAAAATC
1 AAAAAAATC
23044148 AAAAAAAT-
1 AAAAAAATC
*
23044156 --GAAAATC
1 AAAAAAATC
23044163 --AAAAATC
1 AAAAAAATC
*
23044170 AAAAAAATG
1 AAAAAAATC
23044179 AAAAAAATC
1 AAAAAAATC
23044188 AAAA
1 AAAA
23044192 TCAAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 6 0.16
9 26 0.70
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:23044160 original size:15 final size:15
Alignment explanation
Indices: 23044141--23044197 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
23044131 AACCAATAAA
23044141 AAAAATCAAAAAAAT
1 AAAAATCAAAAAAAT
*
23044156 GAAAATCAAAAATCAA-
1 AAAAATCAAAAA--AAT
*
23044172 AAAAATGAAAAAAAT
1 AAAAATCAAAAAAAT
*
23044187 CAAAATCAAAA
1 AAAAATCAAAA
23044198 TGAAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 20 0.59
16 10 0.29
17 2 0.06
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.12
Consensus pattern (15 bp):
AAAAATCAAAAAAAT
Found at i:23044169 original size:22 final size:22
Alignment explanation
Indices: 23044141--23044182 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23044131 AACCAATAAA
23044141 AAAAATCAAAAAAATGAAAATC
1 AAAAATCAAAAAAATGAAAATC
23044163 AAAAATCAAAAAAATGAAAA
1 AAAAATCAAAAAAATGAAAA
23044183 AAATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAATCAAAAAAATGAAAATC
Found at i:23044177 original size:31 final size:31
Alignment explanation
Indices: 23044125--23044207 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
23044115 TCAATATAAA
* *
23044125 AAAATCAACCAATAAAAAAAATCAAAAAAATG
1 AAAATCAA-AAATAAAAAAAATCAAAAAAATC
* *
23044157 AAAATCAAAAATCAAAAAAATGAAAAAAATC
1 AAAATCAAAAATAAAAAAAATCAAAAAAATC
23044188 AAAATC-AAAATGAAAAAAAA
1 AAAATCAAAAAT-AAAAAAAA
23044208 AAGAAAAGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.11
31 32 0.71
32 8 0.18
ACGTcount: A:0.75, C:0.10, G:0.04, T:0.12
Consensus pattern (31 bp):
AAAATCAAAAATAAAAAAAATCAAAAAAATC
Found at i:23044204 original size:22 final size:19
Alignment explanation
Indices: 23044138--23044207 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 19
23044128 ATCAACCAAT
23044138 AAAAAAAATCAAAAAAATG
1 AAAAAAAATCAAAAAAATG
23044157 AAAATCAAAAATCAAAAAAATG
1 -AAA--AAAAATCAAAAAAATG
23044179 -AAAAAAATCAAAATCAAAATG
1 AAAAAAAATC-AAA--AAAATG
23044200 AAAAAAAA
1 AAAAAAAA
23044208 AAGAAAAGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.16
19 3 0.07
20 5 0.11
21 6 0.14
22 23 0.52
ACGTcount: A:0.77, C:0.07, G:0.04, T:0.11
Consensus pattern (19 bp):
AAAAAAAATCAAAAAAATG
Found at i:23045066 original size:51 final size:49
Alignment explanation
Indices: 23045005--23045101 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 49
23044995 GAGAAGGGAT
* *
23045005 CAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAGAAAAAAAAAGAC
1 CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCC-AAA-AAAAAAAAAGAC
* *
23045056 CAAGGTGAAAACCCGCAAAAGGTGCTTTGAATCCAAAAAATAAAAA
1 CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCCAAAAAAAAAAAA
23045102 TAAATCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 8 0.19
50 3 0.07
51 31 0.74
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (49 bp):
CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCCAAAAAAAAAAAAGAC
Found at i:23046620 original size:44 final size:43
Alignment explanation
Indices: 23046523--23046639 Score: 110
Period size: 44 Copynumber: 2.7 Consensus size: 43
23046513 AAATGTGGTG
* * * *
23046523 AATCTTATCTCCCTGAGGTTGTAGTAGAGCTAATTAAAGCTAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCGAATTAAA-CTAAT
* * *
23046567 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAA-TAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCGAATT-AAACTAAT
** *
23046610 AAATCTTATCTCTTTGAAGTTGCAGCAGAG
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAG
23046640 TGGATCGCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 3 0.05
44 53 0.90
45 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCGAATTAAACTAAT
Found at i:23046993 original size:50 final size:49
Alignment explanation
Indices: 23046897--23046994 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 49
23046887 GATGCAGTGG
* * * *
23046897 AAAAAATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAGTT
1 AAAAAATTGAAGCTACAACAGCGAATCATACTTCCCCGACAGTGTAGTT
* * *
23046946 AAAAAGATTGAAGCTACAACAGTGAATCATACTTCCCTGACGGTGTAGT
1 AAAAA-ATTGAAGCTACAACAGCGAATCATACTTCCCCGACAGTGTAGT
23046995 GGAGCGTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 5 0.12
50 36 0.88
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (49 bp):
AAAAAATTGAAGCTACAACAGCGAATCATACTTCCCCGACAGTGTAGTT
Found at i:23048595 original size:47 final size:45
Alignment explanation
Indices: 23048541--23048643 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 45
23048531 TTATTAAATA
* * * * *
23048541 TAGTATTATTTTAGTATTTAATCTTAAC-ATTGTTTTAAATTTCTCAT
1 TAGTATTATTTTAATATATAAT-AT-ACTATTATTTTAAATTGC-CAT
23048588 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
1 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
*
23048633 TAATATTATTT
1 TAGTATTATTT
23048644 AAATTTATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 15 0.31
46 14 0.29
47 20 0.41
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (45 bp):
TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
Found at i:23062497 original size:24 final size:24
Alignment explanation
Indices: 23062465--23062511 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23062455 AACAATCTTA
* *
23062465 ACCCTTTAATTCAGATTTTTATTC
1 ACCCTTTAAATCAAATTTTTATTC
23062489 ACCCTTTAAATCAAATTTTTATT
1 ACCCTTTAAATCAAATTTTTATT
23062512 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (24 bp):
ACCCTTTAAATCAAATTTTTATTC
Found at i:23080615 original size:20 final size:20
Alignment explanation
Indices: 23080590--23080629 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23080580 AGGAGCTTGA
23080590 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23080610 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23080630 TTTTAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
ACACAAGCATTTTGGTTAAG
Found at i:23090238 original size:2 final size:2
Alignment explanation
Indices: 23090233--23090263 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23090223 GTTTATGAGT
23090233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23090264 GTTGAATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23114839 original size:18 final size:18
Alignment explanation
Indices: 23114816--23114858 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23114806 ATTCAAGGTG
23114816 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
23114834 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
23114852 TAATTAA
1 TAATTAA
23114859 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:23116851 original size:14 final size:14
Alignment explanation
Indices: 23116834--23116868 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
23116824 CTCACATTTC
23116834 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
23116848 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
23116862 TATTTCT
1 T-TTTCT
23116869 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:23116852 original size:19 final size:18
Alignment explanation
Indices: 23116814--23116858 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
23116804 TACGGTACGC
23116814 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
23116831 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
23116850 TTCTTTTCT
1 TTCTTTTCT
23116859 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:23119647 original size:66 final size:63
Alignment explanation
Indices: 23119577--23119785 Score: 179
Period size: 61 Copynumber: 3.4 Consensus size: 63
23119567 ATATTTAATT
23119577 TTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAA
1 TTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATAAGAA
23119641 TA
62 TA
* * * * * * *
23119643 TTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAATAATTA
1 TTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAGAA-TA
* * *
23119704 GGTT-ATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATA
1 --TTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
23119763 TTAATTATTAAGAATTTTATTAA
1 TTAATTATTAAGAATTTTATTAA
23119786 ATTATATATT
Statistics
Matches: 109, Mismatches: 19, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
57 3 0.03
58 4 0.04
59 29 0.27
60 14 0.13
61 30 0.28
62 4 0.04
63 4 0.04
64 3 0.03
65 4 0.04
66 14 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
TTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
Found at i:23119659 original size:120 final size:119
Alignment explanation
Indices: 23119535--23119824 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 119
23119525 AATTATTTTA
* * **
23119535 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATTTTAATTATTTAAAATTT-TATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTT--AATTTATATTT
*
23119599 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
23119655 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTAGGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTA-TTTAATTTATATTTT
*
23119720 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
23119775 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
23119825 GTTTAAATAT
Statistics
Matches: 155, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
119 4 0.03
120 149 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:23119670 original size:54 final size:54
Alignment explanation
Indices: 23119612--23119790 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
23119602 AGTATCATAT
23119612 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
23119666 ATTATATATTTTAATTATATT-ATATTTAATAATAATTAGGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
23119729 TA
54 -A
*
23119731 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
23119786 ATTAT
1 ATTAT
23119791 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:23119687 original size:18 final size:17
Alignment explanation
Indices: 23119656--23119690 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23119646 ATTATTAAGA
23119656 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
23119673 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
23119691 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:23119793 original size:61 final size:61
Alignment explanation
Indices: 23119608--23119795 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
23119598 TTATAGTATC
23119608 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * *
23119669 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTAGGTT-ATT-TT-A-TATTTTA-CAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AAT
*
23119727 C
61 T
*
23119728 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
23119789 ATATATT
1 ATATATT
23119796 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
57 2 0.02
58 5 0.05
59 29 0.31
60 14 0.15
61 37 0.39
62 5 0.05
63 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:23119804 original size:18 final size:17
Alignment explanation
Indices: 23119776--23119810 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23119766 ATTATTAAGA
*
23119776 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23119793 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23119811 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23119822 original size:54 final size:54
Alignment explanation
Indices: 23119639--23119824 Score: 140
Period size: 54 Copynumber: 3.2 Consensus size: 54
23119629 TTCATATAAG
* *
23119639 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
** * * * *
23119693 AATAATAATTAGGTTATTTTATATTTTA-CAGTATCATATATTATGGTTTGAGTAAATTCATATA
1 AATAATAATTA--TTA--AGA-ATTTTATTA-AAT--TATA-TAT--TTTAATTAAATT-ATAT-
**
23119757 AG
53 TT
* *
23119759 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
23119813 AATAATAATTAT
1 AATAATAATTAT
23119825 GTTTAAATAT
Statistics
Matches: 97, Mismatches: 21, Indels: 28
0.66 0.14 0.19
Matches are distributed among these distances:
54 21 0.22
55 4 0.04
56 12 0.12
58 5 0.05
59 12 0.12
61 12 0.12
62 5 0.05
64 12 0.12
65 4 0.04
66 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:23119928 original size:147 final size:149
Alignment explanation
Indices: 23119764--23120038 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
23119754 ATAAGAATAT
*
23119764 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
23119829 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
23119892 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
23119911 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
23119976 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
23120039 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:23119951 original size:18 final size:17
Alignment explanation
Indices: 23119923--23119957 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23119913 ATTATTAAGA
*
23119923 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23119940 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23119958 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23120168 original size:44 final size:45
Alignment explanation
Indices: 23120119--23120213 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
23120109 TTACACCTCT
* * *
23120119 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
23120163 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
23120208 ATTACA
1 ATTACA
23120214 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:23120213 original size:16 final size:16
Alignment explanation
Indices: 23120194--23120261 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
23120184 GATTTGCTAT
* * *
23120194 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
23120210 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23120226 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23120242 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23120258 TACA
1 TACA
23120262 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:23123484 original size:16 final size:16
Alignment explanation
Indices: 23123459--23123505 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
23123449 TTGATTTGCT
*
23123459 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
* *
23123475 ATTATGCCTCTATTTC
1 ATTACGCCTCTATTCC
23123491 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
23123506 TAATACAGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23125084 original size:11 final size:11
Alignment explanation
Indices: 23125070--23125120 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
23125060 ATTCCCTTTC
23125070 AATTTCCTCTA
1 AATTTCCTCTA
*
23125081 AATTTCCTCTC
1 AATTTCCTCTA
*
23125092 AATTTGCTCTCA
1 AATTTCCTCT-A
23125104 AA-TTCCTTCTA
1 AATTTCC-TCTA
23125115 AATTTC
1 AATTTC
23125121 TCTCAAATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 25 0.76
12 8 0.24
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (11 bp):
AATTTCCTCTA
Found at i:23125087 original size:23 final size:23
Alignment explanation
Indices: 23125053--23125128 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 23
23125043 AACTAATCCT
* *
23125053 CTCTCAAATTCCCTTTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
23125076 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
*
23125098 CTCTCAAA-TTCCTTCTAAATTT-
1 CTCTCAAATTTCC-TCTCAATTTC
23125120 CTCTCAAAT
1 CTCTCAAAT
23125129 CCATATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 31 0.67
23 15 0.33
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:23125093 original size:34 final size:34
Alignment explanation
Indices: 23125052--23125128 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
23125042 AAACTAATCC
* *
23125052 TCTCTCAAATTCCCTTTCAATTTCC-TCTAAATT
1 TCTCTCAAATTCCCTCTCAAATTCCTTCTAAATT
**
23125085 TCCTCTC-AATTTGCTCTCAAATTCCTTCTAAATT
1 T-CTCTCAAATTCCCTCTCAAATTCCTTCTAAATT
23125119 TCTCTCAAAT
1 TCTCTCAAAT
23125129 CCATATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 20 0.54
34 17 0.46
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.44
Consensus pattern (34 bp):
TCTCTCAAATTCCCTCTCAAATTCCTTCTAAATT
Found at i:23125128 original size:11 final size:11
Alignment explanation
Indices: 23125052--23125128 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
23125042 AAACTAATCC
23125052 TCTCTCAAATT
1 TCTCTCAAATT
* *
23125063 CCCTTTC-AATT
1 -TCTCTCAAATT
23125074 TC-CTCTAAATT
1 TCTCTC-AAATT
23125085 TCCTCTC-AATT
1 T-CTCTCAAATT
23125096 TGCTCTCAAATT
1 T-CTCTCAAATT
*
23125108 CCT-TCTAAATT
1 TCTCTC-AAATT
23125119 TCTCTCAAAT
1 TCTCTCAAAT
23125129 CCATATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
9 2 0.04
10 3 0.06
11 32 0.63
12 11 0.22
13 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:23125153 original size:51 final size:51
Alignment explanation
Indices: 23125088--23125187 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
23125078 CTAAATTTCC
*
23125088 TCTCAATTTGCTCTCAAATTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCTCAAATTCCTCT-TAAATTTCTCTCAAATCCATATTTAA
* * *
23125139 TCTCAATTTCCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTT
23125188 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:23127021 original size:18 final size:18
Alignment explanation
Indices: 23126994--23127033 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23126984 TAAGTGCGTT
* *
23126994 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
23127012 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
23127030 TCCT
1 TCCT
23127034 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:23127565 original size:14 final size:14
Alignment explanation
Indices: 23127548--23127596 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
23127538 TTAATTGACA
23127548 AACCTTAAACCCTT
1 AACCTTAAACCCTT
*
23127562 AACCTAAAAACCC-T
1 AACCT-TAAACCCTT
*
23127576 AACCCT-AACCCTT
1 AACCTTAAACCCTT
23127589 AA-CTTAAA
1 AACCTTAAA
23127597 AACTGTAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 7 0.25
13 5 0.18
14 10 0.36
15 6 0.21
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCTTAAACCCTT
Found at i:23127581 original size:21 final size:21
Alignment explanation
Indices: 23127576--23127702 Score: 137
Period size: 21 Copynumber: 6.0 Consensus size: 21
23127566 TAAAAACCCT
23127576 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
23127597 AACTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
23127618 AACCATAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * * *
23127640 AATCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
23127661 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
23127682 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
23127703 TATAATTTGA
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
21 67 0.80
22 17 0.20
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:23127587 original size:27 final size:27
Alignment explanation
Indices: 23127555--23127608 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
23127545 ACAAACCTTA
23127555 AACCCTTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
* **
23127582 AACCCTTAACTTAAAAACTGTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
23127609 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:23127630 original size:43 final size:42
Alignment explanation
Indices: 23127580--23127702 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
23127570 AACCCTAACC
23127580 CTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAAC-
1 CTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACT
* *
23127621 CATAAACCCTTAACTTTAAAA-TCGTAACCCTTAAATAAAAAACT
1 C-T-AACCCTTAACTTAAAAACT-GTAACCCTTAAATTAAAAACT
* ** * *
23127665 CTAACACTTAACTTAAAAACCCTAACCTTTAACTTAAA
1 CTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
23127703 TATAATTTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.44
43 36 0.53
44 1 0.01
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (42 bp):
CTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACT
Found at i:23127654 original size:64 final size:63
Alignment explanation
Indices: 23127581--23127699 Score: 166
Period size: 64 Copynumber: 1.9 Consensus size: 63
23127571 ACCCTAACCC
* * * *
23127581 TAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACCATAAACCCTTAACTTTAAAATCG
1 TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCAT-AACCCTTAACTTTAAAATCG
* * *
23127645 TAACCCTTAAATAAAAAACTCTAACACTTAACTTAAAAACCCTAACCTTTAACTT
1 TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCATAACCCTTAACTT
23127700 AAATATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 11 0.23
64 37 0.77
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (63 bp):
TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCATAACCCTTAACTTTAAAATCG
Found at i:23131155 original size:127 final size:125
Alignment explanation
Indices: 23130869--23131437 Score: 761
Period size: 127 Copynumber: 4.5 Consensus size: 125
23130859 CCCAAACATG
** * * *
23130869 CTACTGTAGCAAAAGCGATTCTACGAGGGCGCGATTTCACAAATTATTCTCAAATAGCATCCGGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
23130934 TAGAAGC-GTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGAC
66 TTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
*
23130993 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
23131058 TTGAAGCATGTTTTTAAACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTATTCCAGGAC
66 TTGAAGCA-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* *
23131120 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* ***
23131185 TTGAAG-GGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCTTGGAC
66 TTGAAGCAG--TTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * * *
23131247 CTACTGTAGCAAAAGCGCATCCACGAAGGTGTGATTTCACAAATTCTTCTCATAA-AGTATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
*
23131311 CTTGAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * *
23131371 TTACTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
23131435 CTT
65 CTT
23131438 TGATTTTATG
Statistics
Matches: 397, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
124 127 0.32
125 42 0.11
126 40 0.10
127 186 0.47
128 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:23131385 original size:251 final size:250
Alignment explanation
Indices: 23130869--23131420 Score: 768
Period size: 251 Copynumber: 2.2 Consensus size: 250
23130859 CCCAAACATG
** * * *
23130869 CTACTGTAGCAAAAGCGATTCTACGAGGGCGCGATTTCACAAATTATTCTCAAATAGCATCCGGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCGGC
*
23130934 TAGAAGCGTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCTACTG
* *
23130999 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
131 TAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* *
23131064 CATGTTTTTAAACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTATTCCAGGAC
196 CA-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
* *
23131120 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCGGC
* * * ***
23131185 TTGAAGGGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCTTGGACCTA
66 TAGAAGCG--TTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAAGACCTA
*** *
23131250 CTGTAGCAAAAGCGCATCCACGAAGGTGTGATTTCACAAATTCTTCTCATAA-AGTATCCTGCTT
128 CTGTAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT
*
23131314 GAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
192 GAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
* * * * * * *
23131371 TTACTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAGAAATCCTTCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCT
23131421 GATAAAGCAT
Statistics
Matches: 267, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
251 115 0.43
252 40 0.15
253 40 0.15
254 70 0.26
255 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCGGC
TAGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCTACTG
TAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
CAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
Found at i:23140570 original size:18 final size:18
Alignment explanation
Indices: 23140547--23140588 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
23140537 ACACACGGCC
*
23140547 GTGCCCCAGCCCGTGTCT
1 GTGCCCCAACCCGTGTCT
23140565 GTGCCCCAACCCGTGTCT
1 GTGCCCCAACCCGTGTCT
23140583 GTGCCC
1 GTGCCC
23140589 GTGTAACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.45, G:0.26, T:0.21
Consensus pattern (18 bp):
GTGCCCCAACCCGTGTCT
Found at i:23144715 original size:3 final size:3
Alignment explanation
Indices: 23144707--23144731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23144697 ATAAAGAAGG
23144707 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
23144732 GGATTAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23144775 original size:5 final size:6
Alignment explanation
Indices: 23144756--23144819 Score: 83
Period size: 6 Copynumber: 10.2 Consensus size: 6
23144746 TTTGGAATTC
*
23144756 AAATAA AAATAA AAATAA AACATTAC AAATAA AAATAA AAATAA AAATAAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAAT-AA
*
23144807 AAATAA AGATAA A
1 AAATAA AAATAA A
23144820 CTAAATTGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
6 40 0.77
7 8 0.15
8 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:23144789 original size:26 final size:25
Alignment explanation
Indices: 23144755--23144819 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 25
23144745 ATTTGGAATT
*
23144755 CAAATAAAAATAAAAATAAAACATTA
1 CAAATAAAAATAAAAATAAAA-ATAA
23144781 CAAATAAAAATAAAAATAAAAATAA
1 CAAATAAAAATAAAAATAAAAATAA
* *
23144806 AAAATAAAGATAAA
1 CAAATAAAAATAAA
23144820 CTAAATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (25 bp):
CAAATAAAAATAAAAATAAAAATAA
Found at i:23149147 original size:6 final size:6
Alignment explanation
Indices: 23149138--23149183 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
23149128 TATTAAAGTT
* * *
23149138 AAAATA AAAATA AAAATA AAAATG AAAATG AAAATG AAAATGA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAA
23149184 CAAACACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
6 34 0.92
7 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:23149155 original size:12 final size:12
Alignment explanation
Indices: 23149138--23149183 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
23149128 TATTAAAGTT
*
23149138 AAAATAAAAATA
1 AAAATAAAAATG
23149150 AAAATAAAAATG
1 AAAATAAAAATG
*
23149162 AAAATGAAAATG
1 AAAATAAAAATG
23149174 AAAATGAAAA
1 AAAAT-AAAA
23149184 CAAACACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 27 0.90
13 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:23149165 original size:18 final size:18
Alignment explanation
Indices: 23149138--23149183 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
23149128 TATTAAAGTT
*
23149138 AAAATAAAAATAAAAATA
1 AAAATGAAAATAAAAATA
* *
23149156 AAAATGAAAATGAAAATG
1 AAAATGAAAATAAAAATA
23149174 AAAATGAAAA
1 AAAATGAAAA
23149184 CAAACACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAATGAAAATAAAAATA
Found at i:23149953 original size:29 final size:29
Alignment explanation
Indices: 23149920--23149978 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23149910 TATAGAATGT
23149920 TTGTAAGTTTGTAATCAAGTTGAACATGA
1 TTGTAAGTTTGTAATCAAGTTGAACATGA
23149949 TTGTAAGTTTGTAATCAAGTTGAACATGA
1 TTGTAAGTTTGTAATCAAGTTGAACATGA
23149978 T
1 T
23149979 ATATGATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (29 bp):
TTGTAAGTTTGTAATCAAGTTGAACATGA
Found at i:23150828 original size:79 final size:77
Alignment explanation
Indices: 23150650--23150896 Score: 254
Period size: 81 Copynumber: 3.1 Consensus size: 77
23150640 TTAATCATAT
* * *
23150650 ATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACAT--A-TA-TATATATTATG
1 ATATATAAATTAAGCATGCATCTCAT-TATTGAATCAATCAAAACATGCATTATTATATATT-TA
*
23150711 TATATAACCGAAAC
64 TATATAATCGAAAC
* *
23150725 ATATATATGAATTAAGCATACATCTCATTCATTGAATCAATCAAAACATGCATCTATTAGATATT
1 ATATATA--AATTAAGCATGCATCTCATT-ATTGAATCAATCAAAACATGCAT-TATTATATATT
*
23150790 TATATATAATTGAAAC
62 TATATATAATCGAAAC
* * *
23150806 ATATATAAATTAAGCATGCATCTAATAGATTGAATCAATCAAAAACGTTGCATATATTATATATT
1 ATATATAAATTAAGCATGCATCTCAT-TATTGAATCAATC-AAAAC-ATGCAT-TATTATATATT
*
23150871 TAT-TATAATCAAAAC
62 TATATATAATCGAAAC
23150886 ATGA-ATAAATT
1 AT-ATATAAATT
23150897 TTTATACTGT
Statistics
Matches: 145, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
75 6 0.04
76 1 0.01
77 36 0.25
79 30 0.21
80 24 0.17
81 41 0.28
82 7 0.05
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (77 bp):
ATATATAAATTAAGCATGCATCTCATTATTGAATCAATCAAAACATGCATTATTATATATTTATA
TATAATCGAAAC
Found at i:23159156 original size:22 final size:20
Alignment explanation
Indices: 23159120--23159210 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
23159110 TTTTTTTTTA
23159120 AATTATAAAAAAATATTAAT
1 AATTATAAAAAAATATTAAT
23159140 AATTACTAAATAAAATATT-AT
1 AATTA-TAAA-AAAATATTAAT
* * *
23159161 AA-AACTAAAATAAAGA--AAG
1 AATTA-TAAAA-AAATATTAAT
*
23159180 AAAT-TAAAAAAATATTAAT
1 AATTATAAAAAAATATTAAT
23159199 AATTTATAAAAA
1 AA-TTATAAAAA
23159211 TTAATAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
19 8 0.15
20 16 0.29
21 14 0.25
22 8 0.15
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAAATATTAAT
Found at i:23159171 original size:21 final size:22
Alignment explanation
Indices: 23159125--23159174 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
23159115 TTTTAAATTA
*
23159125 TAAA-AAAATATTAATAATTAC
1 TAAATAAAATATTAATAATAAC
23159146 TAAATAAAATATT-ATAA-AAC
1 TAAATAAAATATTAATAATAAC
23159166 TAAAATAAA
1 T-AAATAAA
23159175 GAAAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 8 0.31
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATAAAATATTAATAATAAC
Found at i:23161708 original size:35 final size:32
Alignment explanation
Indices: 23161656--23161730 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
23161646 TAAACAATAA
* * *
23161656 TTTTCTTTTAATTTTTAAAAAATATATTTATATT
1 TTTTATTTTAATATTTAAAAAAT-T-TATATATT
*
23161690 GTTTTATTTTAATATTTAATAAATTTATATATT
1 -TTTTATTTTAATATTTAAAAAATTTATATATT
23161723 TTTTATTT
1 TTTTATTT
23161731 ATTGAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.22
33 7 0.19
34 1 0.03
35 20 0.56
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTATTTTAATATTTAAAAAATTTATATATT
Found at i:23169280 original size:87 final size:86
Alignment explanation
Indices: 23169168--23169331 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 86
23169158 TGTGTAAGGA
* * * *
23169168 TGAGTTTTTACTCTTAATGAATTCATAGCCCATAATTTGGGTGGTCCTATTGAGATGGGCTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGGACTTAAT
23169233 GAATTCACATAATTGAGAGGT
66 GAATTCACATAATTGAGAGGT
* * ** **
23169254 TGAGTTTATTACTCTTAATGAGTTCATAACCTAAAATTTGGGTGGTTTTATTGAGACGGACTTGG
1 TGAGTTT-TTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGGACTTAA
23169319 TGAATTCACATAA
65 TGAATTCACATAA
23169332 CTTAAATTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 7 0.10
87 60 0.90
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAACCCAAAATTTGGGTGGTCCTATTGAGACGGACTTAAT
GAATTCACATAATTGAGAGGT
Found at i:23183514 original size:132 final size:132
Alignment explanation
Indices: 23183272--23183738 Score: 706
Period size: 132 Copynumber: 3.5 Consensus size: 132
23183262 AGAATAAACC
* * * ***
23183272 GTTGAAGATTACAGATTCTGTCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGACAAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
* * * *
23183337 CTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAATCCTATCTCCCTGAACAGCAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGT
23183402 AG
131 AG
* *
23183404 GTTGAAGATTGCAGATTCTGTCTTCCTAAGCAGTAGTGGAGCAGATCGAAAATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
*
23183469 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCTCTGAGCAGCAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGT
23183534 AG
131 AG
* * *
23183536 GTTTAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGTGAATCTTAT
1 GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
* **
23183601 CTTCCCAAGATAGTGGAGAAGCAGATTTAGGCCATTAGTCTTATCTCCCTGAGCAATAGTGGAGT
66 CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGT
23183666 AG
131 AG
* *
23183668 GTTGAAGATTG-AGA-TCTTGTCTCCCTAA-CTAGTAGTGGAGTAGATCGAAGACGGTGAATCTT
1 GTTGAAGATTGCAGATTC-TGTCTCCCTAAGC-AGTAGTGGAGCAGATCGAAAACGGTGAATCTT
23183730 ATCTTCCCA
64 ATCTTCCCA
23183739 TCGTAGTAGG
Statistics
Matches: 308, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
130 3 0.01
131 51 0.17
132 254 0.82
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
GTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTGAATCTTAT
CTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGT
AG
Found at i:23187248 original size:26 final size:26
Alignment explanation
Indices: 23187219--23187269 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23187209 ATTGTAAATG
* *
23187219 ATTTATCAATATTTATAAAAATTTAC
1 ATTTATAAAGATTTATAAAAATTTAC
* *
23187245 ATTTATAAAGATTTATCAATATTTA
1 ATTTATAAAGATTTATAAAAATTTA
23187270 TATGAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTATAAAGATTTATAAAAATTTAC
Found at i:23187250 original size:16 final size:16
Alignment explanation
Indices: 23187229--23187259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23187219 ATTTATCAAT
23187229 ATTTATAAAAATTTAC
1 ATTTATAAAAATTTAC
*
23187245 ATTTATAAAGATTTA
1 ATTTATAAAAATTTA
23187260 TCAATATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTATAAAAATTTAC
Found at i:23195145 original size:8 final size:8
Alignment explanation
Indices: 23195132--23195163 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
23195122 TTATATACTA
23195132 AATAAAAT
1 AATAAAAT
23195140 AATAAAAT
1 AATAAAAT
23195148 AAT-AAA-
1 AATAAAAT
23195154 AATAAAAT
1 AATAAAAT
23195162 AA
1 AA
23195164 AAATAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.14
7 6 0.27
8 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AATAAAAT
Found at i:23195157 original size:17 final size:17
Alignment explanation
Indices: 23195131--23195171 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23195121 CTTATATACT
23195131 AAAT-AAAATAATAA-AA
1 AAATAAAAATAA-AATAA
*
23195147 TAATAAAAATAAAATAA
1 AAATAAAAATAAAATAA
23195164 AAATAAAA
1 AAATAAAA
23195172 TATCTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:23195162 original size:11 final size:11
Alignment explanation
Indices: 23195131--23195173 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
23195121 CTTATATACT
23195131 AAATAAAATAA
1 AAATAAAATAA
*
23195142 TAAA-ATAATAA
1 -AAATAAAATAA
23195153 AAATAAAATAA
1 AAATAAAATAA
23195164 AAATAAAATA
1 AAATAAAATA
23195174 TCTCATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.11
11 22 0.79
12 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:23195196 original size:11 final size:11
Alignment explanation
Indices: 23195132--23195200 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
23195122 TTATATACTA
23195132 AATAAAATAAT
1 AATAAAATAAT
*
23195143 AA-AATAATAAA
1 AATAA-AATAAT
*
23195154 AATAAAATAAA
1 AATAAAATAAT
*
23195165 AATAAAATATCT
1 AATAAAATA-AT
* *
23195177 CATTAAAATATT
1 -AATAAAATAAT
23195189 AATAAAATAAT
1 AATAAAATAAT
23195200 A
1 A
23195201 TTTATCTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 2 0.04
11 34 0.72
12 3 0.06
13 8 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:23197415 original size:51 final size:51
Alignment explanation
Indices: 23197350--23197447 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
23197340 TACCATCCAT
* *
23197350 AAACACACCTAGGCACTGAGTG-TCAAGCCCGTAGGCTTCACATCCCTATAG
1 AAACAAACCTAGGCACTGAGTGCT-AAGCCCGTAGGCTACACATCCCTATAG
*
23197401 AAACAAACCTAGGCACTGAGTGCTAAGCCTGTAGGCTACACATCCCT
1 AAACAAACCTAGGCACTGAGTGCTAAGCCCGTAGGCTACACATCCCT
23197448 CCAGAACACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (51 bp):
AAACAAACCTAGGCACTGAGTGCTAAGCCCGTAGGCTACACATCCCTATAG
Found at i:23198647 original size:3 final size:3
Alignment explanation
Indices: 23198639--23198668 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23198629 AGCTGTTATG
23198639 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23198669 AATTCTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23207238 original size:23 final size:23
Alignment explanation
Indices: 23207212--23207287 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
23207202 ATAAGTGCAA
23207212 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23207235 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23207258 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23207281 CACTGAT
1 CACTGAT
23207288 CAATAACATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23207931 original size:18 final size:17
Alignment explanation
Indices: 23207889--23207931 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
23207879 TAACTTTATG
*
23207889 CACATTTTACCATTTTT
1 CACATTTAACCATTTTT
23207906 CACAATTTAACCATTTTT
1 CAC-ATTTAACCATTTTT
23207924 CAACATTT
1 C-ACATTT
23207932 TCATTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (17 bp):
CACATTTAACCATTTTT
Found at i:23231974 original size:9 final size:9
Alignment explanation
Indices: 23231949--23231991 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
23231939 GTTTCCTTAA
23231949 AAATAGAAAT
1 AAATA-AAAT
23231959 AAAATAAAAT
1 -AAATAAAAT
*
23231969 AAATAAAAC
1 AAATAAAAT
23231978 AAATAAAAAT
1 AAAT-AAAAT
23231988 AAAT
1 AAAT
23231992 GTCTAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 12 0.41
10 12 0.41
11 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:23231974 original size:14 final size:15
Alignment explanation
Indices: 23231949--23231990 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
23231939 GTTTCCTTAA
* *
23231949 AAATAGAAATAAAAT
1 AAATAAAAATAAAAC
*
23231964 AAA-ATAAATAAAAC
1 AAATAAAAATAAAAC
23231978 AAATAAAAATAAA
1 AAATAAAAATAAA
23231991 TGTCTAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAC
Found at i:23234979 original size:85 final size:83
Alignment explanation
Indices: 23234802--23234968 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 83
23234792 GCCCACATGG
* * * * *
23234802 CCTGACACACGGTCAATACATGCTCGTGTGGCCTACATGCCCAACTAGCCCAGACCGTGTGTCTC
1 CCTGGCACACGGTCAACACAAGCTCGTGTGGCCTACACGCCCAACTAGCCCAGACCGTATGTCTC
23234867 ACACGGTCCAACACACAT
66 ACACGGTCCAACACACAT
* * *
23234885 CCTGGCACACGGTCACACACAAGCTCGTGTGGCCTACACGACCCAAGTAGCCTAGACCTTATGTC
1 CCTGGCACACGGTCA-ACACAAGCTCGTGTGGCCTACACG-CCCAACTAGCCCAGACCGTATGTC
*
23234950 TCACACGGTCTAACACACA
64 TCACACGGTCCAACACACA
23234969 GCTAGTCACA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 14 0.19
84 21 0.29
85 38 0.52
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (83 bp):
CCTGGCACACGGTCAACACAAGCTCGTGTGGCCTACACGCCCAACTAGCCCAGACCGTATGTCTC
ACACGGTCCAACACACAT
Found at i:23235751 original size:51 final size:51
Alignment explanation
Indices: 23235692--23235795 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
23235682 AAATTAAAAA
23235692 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
1 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
23235743 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
1 GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
23235794 GA
1 GA
23235796 TTTGATTCTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.59, C:0.17, G:0.09, T:0.15
Consensus pattern (51 bp):
GAATAAAACAAACAAACAAAAGTAATACCAAATGGTAAAATCCAACCAATT
Found at i:23236998 original size:15 final size:16
Alignment explanation
Indices: 23236978--23237015 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23236968 CGTTGATTTA
23236978 TTTATTTCTA-GTTAT
1 TTTATTTCTATGTTAT
*
23236993 TTTATTT-TATTTTAT
1 TTTATTTCTATGTTAT
23237008 TTTATTTC
1 TTTATTTC
23237016 ATTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTCTATGTTAT
Found at i:23236999 original size:5 final size:5
Alignment explanation
Indices: 23236989--23237024 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
23236979 TTATTTCTAG
* *
23236989 TTATT TTATT TTATT TTATT TTATT TCATT TAATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
23237025 CATAATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:23250428 original size:13 final size:13
Alignment explanation
Indices: 23250410--23250446 Score: 60
Period size: 11 Copynumber: 3.0 Consensus size: 13
23250400 AAAAAACCAT
23250410 AAAAGTTATAAAA
1 AAAAGTTATAAAA
23250423 AAAAGTTAT--AA
1 AAAAGTTATAAAA
23250434 AAAAGTTATAAAA
1 AAAAGTTATAAAA
23250447 CTTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAGTTATAAAA
Found at i:23253793 original size:17 final size:19
Alignment explanation
Indices: 23253768--23253808 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
23253758 CTTTATTTCT
23253768 TTTTCTTTTA-ATAC-TTA
1 TTTTCTTTTATATACTTTA
*
23253785 TTTTGTTTTATTATACTTTA
1 TTTTCTTTTA-TATACTTTA
23253805 TTTT
1 TTTT
23253809 ATTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTCTTTTATATACTTTA
Found at i:23254252 original size:48 final size:48
Alignment explanation
Indices: 23254181--23254282 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
23254171 CAAGATGCAA
23254181 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
1 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
*
23254229 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATCTGATTATT
1 AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
23254277 -ATTTTT
1 AATTTTT
23254283 CATTGTTCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 6 0.11
48 47 0.89
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (48 bp):
AATTTTTACAGGAAGTTTATTTTATTTAATGTTTCATATATGATTATT
Found at i:23268258 original size:57 final size:57
Alignment explanation
Indices: 23268195--23268356 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 57
23268185 TTTTTCAGGT
* *
23268195 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTTCAAATGATT-CAATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTT-TC
* * * * *
23268252 TATTTTCATTTTTATTTTGGTGAAAATCATAATCATTTTCAAATGATTCCAATTTTT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
* * * * * *
23268309 TATTTTTATTTTCATTTTGAAGAAAATCATAATAATTTCCAAATGATT
1 TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATT
23268357 TCTCATTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 85 0.93
58 6 0.07
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCCAATTTTC
Found at i:23273724 original size:26 final size:26
Alignment explanation
Indices: 23273674--23273757 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 26
23273664 GAGTTAATAA
23273674 AATT-CTCTTTGAGTTTTTCTTTTAAAG
1 AATTCCTC-TTGAG-TTTTCTTTTAAAG
*
23273701 AATTCCTCTTGAGTTTTCTTTTAAAA
1 AATTCCTCTTGAGTTTTCTTTTAAAG
*
23273727 AATTCCTCTTAAGTTTTCTTTTAGAAG
1 AATTCCTCTTGAGTTTTCTTTTA-AAG
23273754 AATT
1 AATT
23273758 TTAATAATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 34 0.65
27 15 0.29
28 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (26 bp):
AATTCCTCTTGAGTTTTCTTTTAAAG
Found at i:23275481 original size:208 final size:207
Alignment explanation
Indices: 23274864--23275483 Score: 965
Period size: 208 Copynumber: 3.0 Consensus size: 207
23274854 TTGTTATCAT
* *
23274864 TTTAA-TTCATTATATTATATTTCATCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
*
23274928 AAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTTGT
66 -AAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
*
23274993 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGCCTCATTTTATC
130 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
* *
23275058 AACAAAAACCATA
195 AACAAAAGCCACA
* * * * * *
23275071 TTTCAGTTCGTTATATTACATTTCACTATCTTAACCATTTAAGCATGATAATATATCCTAACTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTT-
*
23275136 CAAATTTCTAATACCCACATAAATGCTACAATTGGTCTTAATAACTTAATTTAACCCATTTTCGT
65 CAAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23275201 TATTTCATAAGATTAAGCCACATAGAGTAAATATGCACCTTTACTGAGTTTTGTCT-ATTTTTAT
130 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCA-TTTTAT
23275265 CAACAAAAGCCACA
194 CAACAAAAGCCACA
* * * *
23275279 TTTAAGTTCGTTATATTATGTTTCACCATCTTAATAATTTAAACATAATAATATATCATACCTTC
1 TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
* * * *
23275344 AAATTTTCTAATACCCGCATAAATGCTACATTTAGTCTTAATAACTTAATTTAACCAATTTTCCT
66 AAA-TTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGT
* *
23275409 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACATTTATTGAGTTTTGTCTCATTTTATC
130 TATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATC
23275474 AACAAAAGCC
195 AACAAAAGCC
23275484 TTATTGTTCA
Statistics
Matches: 374, Mismatches: 34, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
207 9 0.02
208 363 0.97
209 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (207 bp):
TTTAAGTTCGTTATATTATATTTCACCATCTTAATCATTTAAGCATAATAATATATCATAACTTC
AAATTTCTAATACCCACATAAATGCTACAATTAGTCTTAATAACTTAATTTAACCCATTTTCGTT
ATTTAATAAGATTAAGCCACATTGAGTAAATATGCACCTTTACTGAGTTTTGTCTCATTTTATCA
ACAAAAGCCACA
Found at i:23275782 original size:84 final size:84
Alignment explanation
Indices: 23275666--23275827 Score: 288
Period size: 84 Copynumber: 1.9 Consensus size: 84
23275656 AGCTTTTAGG
* *
23275666 TTTTTCTCTTAAATATGCAATAAATATCAATAATAAATGCTCAACTTCTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23275731 CTTAAATAAATATTTCAGA
66 CTTAAATAAATATTTCAGA
* *
23275750 TTTTTCTCTTAAATATACAATAAATGTTAATAATAAATGCTCAACTACTTAATAAACATGAATAC
1 TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
23275815 CTTAAATAAATAT
66 CTTAAATAAATAT
23275828 GATGAGATGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (84 bp):
TTTTTCTCTTAAATATACAATAAATATCAATAATAAATGCTCAACTACTTAATAAACATGAATAC
CTTAAATAAATATTTCAGA
Found at i:23276268 original size:28 final size:28
Alignment explanation
Indices: 23276236--23276292 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23276226 AAATTTGAAG
23276236 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23276264 AAAAAATCTAAAGAATATGGAATTAGTT
1 AAAAAATCTAAAGAATATGGAATTAGTT
23276292 A
1 A
23276293 TATTGTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (28 bp):
AAAAAATCTAAAGAATATGGAATTAGTT
Found at i:23280366 original size:35 final size:35
Alignment explanation
Indices: 23280327--23280438 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
23280317 GACGTGTTTT
*
23280327 GGTTGGATTAGCTCTTGTGAGCATTGGCGTGTTAC
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
* * * * *
23280362 GGTTGGACTAGCTCTTATAAGCACTGGCATGTTTC
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
* * * *
23280397 GATTGGATTAACTCTTATGAGCATCGGCGTGTTAT
1 GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
23280432 GGTTGGA
1 GGTTGGA
23280439 CTGACAACGT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (35 bp):
GGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAC
Found at i:23281311 original size:12 final size:12
Alignment explanation
Indices: 23281294--23281323 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23281284 TCAGACAGTT
23281294 ACACGGCCTAGC
1 ACACGGCCTAGC
*
23281306 ACACGGCCTGGC
1 ACACGGCCTAGC
23281318 ACACGG
1 ACACGG
23281324 GCGTGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:23282267 original size:19 final size:19
Alignment explanation
Indices: 23282217--23282269 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 19
23282207 ATAAATTTTC
23282217 TAAAAGTTTTTATGAATTTGTT
1 TAAAA-TTTTT-TG-ATTTGTT
*
23282239 TACAATTTTTTGATTT-TT
1 TAAAATTTTTTGATTTGTT
23282257 TAAAATATTTTTG
1 TAAAAT-TTTTTG
23282270 TGAAGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
20 2 0.07
21 5 0.18
22 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (19 bp):
TAAAATTTTTTGATTTGTT
Found at i:23286208 original size:9 final size:9
Alignment explanation
Indices: 23286191--23286227 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23286181 TGAGTTTTCG
23286191 AATTCGAAT
1 AATTCGAAT
*
23286200 AACTCGAAT
1 AATTCGAAT
23286209 AATTCGAAT
1 AATTCGAAT
23286218 AATTCGAAT
1 AATTCGAAT
23286227 A
1 A
23286228 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23286475 original size:30 final size:31
Alignment explanation
Indices: 23286441--23286500 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
23286431 AAACCTTTTA
*
23286441 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
23286471 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
23286501 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:23287155 original size:5 final size:5
Alignment explanation
Indices: 23287145--23287175 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
23287135 GAACAAATAT
23287145 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
23287176 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:23297147 original size:45 final size:45
Alignment explanation
Indices: 23297123--23297289 Score: 298
Period size: 45 Copynumber: 3.7 Consensus size: 45
23297113 TTCGACATGA
23297123 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
*
23297168 TGCCATAGTGTCTTTCAACTATGGTTTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
* *
23297213 TGTCATATTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
*
23297258 TGCCATAGTGTCTTTCAAATATGGTCTTATTC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTC
23297290 GTTTTTCAAG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 115 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTATAG
Found at i:23297159 original size:21 final size:21
Alignment explanation
Indices: 23297135--23297249 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
23297125 CCATAGTGTC
23297135 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** * *
23297156 TTTCCGGTATAGTGCCATAGTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
*
23297180 TTTCAACTATGGTTTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** *
23297201 TTTCCGGTATAGTGTCATATTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
23297225 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
23297246 TTTC
1 TTTC
23297250 CGGTATAGTG
Statistics
Matches: 64, Mismatches: 20, Indels: 20
0.62 0.19 0.19
Matches are distributed among these distances:
20 4 0.06
21 20 0.31
22 10 0.16
23 10 0.16
24 16 0.25
25 4 0.06
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:23302536 original size:35 final size:35
Alignment explanation
Indices: 23302485--23302635 Score: 185
Period size: 35 Copynumber: 4.3 Consensus size: 35
23302475 TGGTGCATTT
23302485 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * *
23302520 AGGTTGTATTAACTCTTATGAGCATTGGCGTATTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
* * * * * *
23302555 CGATTGGACTAGCTCTTATAAGCACTGACGTGTTT
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
**
23302590 CGGTTGGATTAGCTCTTATGAGCATCAGCGTGTTA
1 CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
*
23302625 TGGTTGGATTA
1 CGGTTGGATTA
23302636 ACAATGTACT
Statistics
Matches: 93, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (35 bp):
CGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTA
Found at i:23308520 original size:19 final size:19
Alignment explanation
Indices: 23308496--23308534 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23308486 GTACCGTTAG
23308496 TAAAAGTCTTATTGCAACA
1 TAAAAGTCTTATTGCAACA
23308515 TAAAAGTCTTATTGCAACA
1 TAAAAGTCTTATTGCAACA
23308534 T
1 T
23308535 CATGGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAAAGTCTTATTGCAACA
Found at i:23310008 original size:35 final size:35
Alignment explanation
Indices: 23309944--23310139 Score: 196
Period size: 35 Copynumber: 5.6 Consensus size: 35
23309934 TACTCTCTGT
* * * *
23309944 TTGGCGTGTTTCGGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* *
23309979 TTGGTGTGTTACGATTGGACTAAG-CCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACT-AGCCCTTATGAGCA
*
23310014 TTGGCGTGTTATGGTTGGACTAGCCCTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23310049 TTTGCATGTTACGGTTGGACTAGCCCTTATGAACA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
** * * * **
23310084 TTGGAATGTTTCGGTTAGATTAGCTGTTATGAGCA
1 TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
* * *
23310119 TCGACGTGTTATGGTTGGACT
1 TTGGCGTGTTACGGTTGGACT
23310140 GATGATGTAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
34 2 0.02
35 126 0.97
36 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.37
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGACTAGCCCTTATGAGCA
Found at i:23312768 original size:15 final size:15
Alignment explanation
Indices: 23312748--23312779 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23312738 CATTTCACTA
*
23312748 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
23312763 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
23312778 TT
1 TT
23312780 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:23312844 original size:17 final size:17
Alignment explanation
Indices: 23312805--23312838 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23312795 ATTATAGATA
*
23312805 AAATT-AATTTAATATT
1 AAATTAAATTTAATACT
23312821 AAATTAAATTTAATACT
1 AAATTAAATTTAATACT
23312838 A
1 A
23312839 TCTTAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTAAATTTAATACT
Found at i:23313901 original size:183 final size:183
Alignment explanation
Indices: 23313593--23313956 Score: 622
Period size: 183 Copynumber: 2.0 Consensus size: 183
23313583 AAGTAATAAG
* *
23313593 TAAGTAAAAGAGTTATCGTCTCCACAAGGATTATATTTGTTAATCACATAATTGCAAAATTATGA
1 TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
*
23313658 ATTTACAAGTTGGCAAAGAAAACAAAAAATTTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
66 ATTTACAAGCTGGCAAAGAAAACAAAAAATTTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
* *
23313723 ACTAGATTCAAATTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
131 ACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
* *
23313776 TAAGTAAAAGAGTTATCGTCTCCACATGGACTATATTTGTTAATCAAATAATTGCAAAATTATGG
1 TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
* * *
23313841 ATTTACAAGCTGGTAAAGAAAACACAACAA-TTTTGAATTGATAGATGTTAAAATTAAATTAATT
66 ATTTACAAGCTGGCAAAGAAAACA-AAAAATTTTTGAAGTGATAGATGTTAAAATTAAATTAATT
23313905 AACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
130 AACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGT
23313957 GATGGTTTAG
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
183 166 0.98
184 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (183 bp):
TAAGTAAAAGAGTTATCGTCTCCACAAGGACTATATTTGTTAATCAAATAATTGCAAAATTATGA
ATTTACAAGCTGGCAAAGAAAACAAAAAATTTTTGAAGTGATAGATGTTAAAATTAAATTAATTA
ACTAGATGCAAAGTAACCTAAATGCAAATGAGATGAAATAAAATGTAGGGTAA
Found at i:23344757 original size:29 final size:28
Alignment explanation
Indices: 23344698--23344750 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23344688 TATGTTGACA
23344698 ATAAATATTTTTTTAATATGAGTATATT
1 ATAAATATTTTTTTAATATGAGTATATT
*
23344726 ATAAAT-TTATTTTTTATATGA-TATA
1 ATAAATATT-TTTTTAATATGAGTATA
23344751 AATTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (28 bp):
ATAAATATTTTTTTAATATGAGTATATT
Found at i:23359697 original size:15 final size:16
Alignment explanation
Indices: 23359665--23359697 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23359655 AGAAAAATAA
23359665 AACAAATTGCAAAAAT
1 AACAAATTGCAAAAAT
*
23359681 AACAAATT-CACAAAT
1 AACAAATTGCAAAAAT
23359696 AA
1 AA
23359698 TGAATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.15, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATTGCAAAAAT
Found at i:23363931 original size:66 final size:66
Alignment explanation
Indices: 23363825--23363951 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
23363815 CTTATTGCAT
* * ** *
23363825 TAATGTCGCTGCATGAGTTAGTTCCAGATTGCGTCCAGAATTGTCGCCACACCTGACAGCTGCCT
1 TAATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCTGCCT
23363890 G
66 G
* * * *
23363891 TAATGTCGCTCCAAGAGTTAACTCCAGATTTCATCTAGAATTGTCGCCTCACCTGATAGCT
1 TAATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCT
23363952 TTCCGGATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (66 bp):
TAATGTCGCTCCAAGAGTTAACTCCAGATTGCATCCAGAATTGTCGCCACACCTGACAGCTGCCT
G
Found at i:23365178 original size:255 final size:255
Alignment explanation
Indices: 23364727--23365236 Score: 939
Period size: 255 Copynumber: 2.0 Consensus size: 255
23364717 TATCATTATC
*
23364727 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAATTTATCTCATTTAT
1 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
* *
23364792 ATATAGTTATTGCACTGACATTAATAGACAAAAGACTATCATCCCTATGGGATCGATTTTCGACA
66 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
* * *
23364857 GACTCACATCTGTCTACTATACTTGCATCGATAGTGTACGCTTGCACATTATTGCTGTGACGTTA
131 AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
*
23364922 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATATAGGCCTTGTACCA
196 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
23364982 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
1 ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
23365047 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
66 ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
23365112 AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
131 AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
* *
23365177 AACAGTCGATTATCTTCCTTAGCCTCTCTTCCCTGGCCCTCAGATACAGGCCTTGTACCA
196 AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
23365237 CTCGTTACTA
Statistics
Matches: 246, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
255 246 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (255 bp):
ATATTTTATTTTATTGTTTTCAAGTTATTGCATCGACAACTATCCTCACAAATTATCTCATTTAT
ATATAGTTATTGCACTAACATTAATAGACAAAAGACTACCATCCCTATGGGATCGATTTTCGACA
AACTCACATCTGTCTACTATACTTGCATCGATAGTATACGCTTGCACATTATTGCTATGACGTTA
AACAGTCGATTAGCTTCCTTAGCCTCTCTTCCCTAGCCCTCAGATACAGGCCTTGTACCA
Found at i:23367087 original size:23 final size:24
Alignment explanation
Indices: 23367061--23367126 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
23367051 CCGTCAAATC
*
23367061 CTGTACAT-GTATGCTCTCACGAG
1 CTGTAAATCGTATGCTCTCACGAG
*
23367084 CTGTAAATCGGTATGCTTTCACGAG
1 CTGTAAATC-GTATGCTCTCACGAG
*
23367109 CTGTAAATTGGTATGCTC
1 CTGTAAA-TCGTATGCTC
23367127 ACATAAGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.19
25 28 0.78
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (24 bp):
CTGTAAATCGTATGCTCTCACGAG
Found at i:23367098 original size:25 final size:25
Alignment explanation
Indices: 23367069--23367126 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
23367059 TCCTGTACAT
23367069 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
* *
23367094 GTATGCTTTCACGAGCTGTAAATTG
1 GTATGCTCTCACGAGCTGTAAATCG
23367119 GTATGCTC
1 GTATGCTC
23367127 ACATAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:23367135 original size:25 final size:25
Alignment explanation
Indices: 23367069--23367135 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
23367059 TCCTGTACAT
* *
23367069 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCACACAAGCTGTAAATCG
** * *
23367094 GTATGCTTTCACGAGCTGTAAATTG
1 GTATGCTCACACAAGCTGTAAATCG
*
23367119 GTATGCTCACATAAGCT
1 GTATGCTCACACAAGCT
23367136 ATGGGTCGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTAAATCG
Found at i:23369892 original size:3 final size:3
Alignment explanation
Indices: 23369884--23369952 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
23369874 ATTAGTTTAA
* * * *
23369884 TAT TAT TAT TAA T-T TAT TGT TAT TAT TAT TAT TAA TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
23369931 AAT TTT TACT T-T TAT TTT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT T
23369953 TTTTTCTTAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
2 3 0.06
3 45 0.90
4 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23369895 original size:12 final size:12
Alignment explanation
Indices: 23369880--23369929 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
23369870 ACTAATTAGT
23369880 TTAATATTATTA
1 TTAATATTATTA
*
23369892 TTAAT-TTATTG
1 TTAATATTATTA
*
23369903 TTATTATTATTA
1 TTAATATTATTA
*
23369915 TTAATACTATTA
1 TTAATATTATTA
23369927 TTA
1 TTA
23369930 TAATTTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:23371995 original size:47 final size:47
Alignment explanation
Indices: 23371916--23372007 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
23371906 TATAGAGATC
* * *
23371916 AAATTTAGAATTCTAATTCTAATAGACGTCAAAATGCTAAAACTATA
1 AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTATA
*
23371963 AAATATAGAATTCTAATTCTAATAGGCATCAAAATACTAAAACTA
1 AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTA
23372008 GAATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (47 bp):
AAATATAGAATTCTAATTCTAATAGACATCAAAATACTAAAACTATA
Found at i:23376204 original size:15 final size:15
Alignment explanation
Indices: 23376184--23376215 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23376174 ACAAGGGATG
23376184 TACCTCTATTTTCAC
1 TACCTCTATTTTCAC
23376199 TACCTCTATTTTCAC
1 TACCTCTATTTTCAC
23376214 TA
1 TA
23376216 AGATCGGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (15 bp):
TACCTCTATTTTCAC
Found at i:23380989 original size:35 final size:35
Alignment explanation
Indices: 23380905--23381020 Score: 85
Period size: 35 Copynumber: 3.3 Consensus size: 35
23380895 GTGAACTGTT
* * * **
23380905 GCAAATTTTTGAATTTAATCAAACCTTGAACTTAA
1 GCAAATTTTTAAACTTAAGCAAATTTTGAACTTAA
* **
23380940 TC--ATGTTTTAAACTTTAAG-AAATTTTGGGCTTAA
1 GCAAAT-TTTTAAAC-TTAAGCAAATTTTGAACTTAA
* * *
23380974 GCGAATTTTTGAACTTAAGCATATTTTGAACTTAA
1 GCAAATTTTTAAACTTAAGCAAATTTTGAACTTAA
*
23381009 GCAAATTCTTAA
1 GCAAATTTTTAA
23381021 TTTGAGTAGG
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
33 2 0.03
34 23 0.38
35 33 0.55
36 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (35 bp):
GCAAATTTTTAAACTTAAGCAAATTTTGAACTTAA
Found at i:23381000 original size:17 final size:17
Alignment explanation
Indices: 23380930--23381011 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
23380920 TAATCAAACC
* *
23380930 TTGAACTTAATCATGTT
1 TTGAACTTAAGCATATT
* *
23380947 TTAAACTTTAAG-AAATT
1 TTGAAC-TTAAGCATATT
**
23380964 TTGGGCTTAAGCGA-ATTT
1 TTGAACTTAAGC-ATA-TT
23380982 TTGAACTTAAGCATATT
1 TTGAACTTAAGCATATT
23380999 TTGAACTTAAGCA
1 TTGAACTTAAGCA
23381012 AATTCTTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.10
17 28 0.55
18 18 0.35
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (17 bp):
TTGAACTTAAGCATATT
Found at i:23381409 original size:124 final size:124
Alignment explanation
Indices: 23381252--23381512 Score: 342
Period size: 124 Copynumber: 2.1 Consensus size: 124
23381242 TCATGAACTA
* * * *
23381252 GTAAACCTTTATAACATCAGCTGGGAACCTAGGTCCACTAACTGTGTTGGAGCTGCAAGCTCTTA
1 GTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTAGAGATACAAGCTCTTA
* * **
23381317 AAATATTAGCTGGGAGCATAGGTCCGCTAGTTGTTTTTGGAGGCTACGACCATAAACCG
66 AAATATTAGCTGGGAGCATAGGTCCACTAGCTGTTTTTAAAGGCTACGACCATAAACCG
* ** *
23381376 GTAAACCTTTATAACATCAGCTGGGAACATAGGTCCGCTAGTTGTGTTAGAGATACAAGCTTTTA
1 GTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTAGAGATACAAGCTCTTA
* * * * * *
23381441 GAATATTAGCTGGGAGCTTAGGTCTACTAGCTGTTTTTAAAGGTTACGATCATAAATCG
66 AAATATTAGCTGGGAGCATAGGTCCACTAGCTGTTTTTAAAGGCTACGACCATAAACCG
**
23381500 ACAAACCTTTATA
1 GTAAACCTTTATA
23381513 TAATACAAAG
Statistics
Matches: 117, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (124 bp):
GTAAACCTTTATAACATCAGCTGGGAACATAGGTCCACTAACTGTGTTAGAGATACAAGCTCTTA
AAATATTAGCTGGGAGCATAGGTCCACTAGCTGTTTTTAAAGGCTACGACCATAAACCG
Found at i:23385186 original size:16 final size:16
Alignment explanation
Indices: 23385152--23385186 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23385142 TTGACTCACT
**
23385152 AACTCTGTCCCCTGCA
1 AACTCTGTCCCCTAAA
23385168 AACTCTGTCCCCTAAA
1 AACTCTGTCCCCTAAA
23385184 AAC
1 AAC
23385187 GAGCTCTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.40, G:0.09, T:0.23
Consensus pattern (16 bp):
AACTCTGTCCCCTAAA
Found at i:23387187 original size:5 final size:5
Alignment explanation
Indices: 23387177--23387206 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
23387167 TAAATAAAAA
23387177 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC
1 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC
23387207 AAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAC
Found at i:23387215 original size:15 final size:15
Alignment explanation
Indices: 23387182--23387215 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23387172 AAAAAGAAAC
* *
23387182 GAAACGAAACGAAAC
1 GAAACGAAACAAAAA
23387197 GAAACGAAACAAAAA
1 GAAACGAAACAAAAA
23387212 GAAA
1 GAAA
23387216 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.15, G:0.18, T:0.00
Consensus pattern (15 bp):
GAAACGAAACAAAAA
Found at i:23388248 original size:39 final size:40
Alignment explanation
Indices: 23388128--23388261 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 40
23388118 GACTTCGAGT
* * * * *
23388128 CGATGAGACACTAGGTGTTAATTTACTACTTTGGATTAATT
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGAATT-ATC
* * *
23388169 CGATGAGGCACTAGGTGTCAA--T-TTACTTC-AGTTTAAC
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGA-ATTATC
*
23388206 CGATGAGACA-TTGGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGAATTATC
* *
23388245 CGATGAGGCACTGGGTG
1 CGATGAGACACTAGGTG
23388262 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
36 9 0.12
37 10 0.14
38 8 0.11
39 21 0.29
40 6 0.08
41 19 0.26
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAATTTATTACTTCGAATTATC
Found at i:23392084 original size:5 final size:5
Alignment explanation
Indices: 23392022--23392080 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
23392012 ATTATTAAGT
* * * *
23392022 ATATT ATATT ATATG CTATG ATATG ATATG ATATG ATATG ATATG ATATT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
23392072 ATATT ATAT
1 ATATG ATAT
23392081 TATAGTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (5 bp):
ATATG
Found at i:23395648 original size:27 final size:27
Alignment explanation
Indices: 23395609--23395667 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
23395599 TTATTTGTGT
23395609 AGATCCAACCAGACCTCGTACGGAGTA
1 AGATCCAACCAGACCTCGTACGGAGTA
** *
23395636 AGATCCAGTCAGACCTCGTACGGAGTT
1 AGATCCAACCAGACCTCGTACGGAGTA
23395663 AGATC
1 AGATC
23395668 GAGGCAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATCCAACCAGACCTCGTACGGAGTA
Found at i:23402451 original size:40 final size:41
Alignment explanation
Indices: 23402383--23402470 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
23402373 ATTTTATCTG
* * *
23402383 AATTTTTGTAAATATTTTGTAGTGTTAATTATAAGTTTTAT
1 AATTTTTGTAAATATTTTATAGTATTAATTATAAGTCTTAT
* * * *
23402424 -ATTTTTGTGAATCTTTTATATTATTAATTATAGGTCTTAT
1 AATTTTTGTAAATATTTTATAGTATTAATTATAAGTCTTAT
23402464 AATTTTT
1 AATTTTT
23402471 ATTTCCATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 33 0.85
41 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (41 bp):
AATTTTTGTAAATATTTTATAGTATTAATTATAAGTCTTAT
Done.