Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 56 of 190
Found at i:9228145 original size:17 final size:17
Alignment explanation
Indices: 9228116--9228201 Score: 86
Period size: 17 Copynumber: 5.1 Consensus size: 17
9228106 AAATTCCTTA
*
9228116 CAAACCTAAAACCTTTG
1 CAAATCTAAAACCTTTG
*
9228133 CAAATCTAGAACCTTTG
1 CAAATCTAAAACCTTTG
* * *
9228150 CAAAACTTGAAATC-TTG
1 CAAATC-TAAAACCTTTG
*
9228167 CAAACCTAAAACCTTTG
1 CAAATCTAAAACCTTTG
9228184 -AGAATCTAAAACCTTTG
1 CA-AATCTAAAACCTTTG
9228201 C
1 C
9228202 GAAACTTGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
16 6 0.11
17 45 0.82
18 4 0.07
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (17 bp):
CAAATCTAAAACCTTTG
Found at i:9228173 original size:51 final size:51
Alignment explanation
Indices: 9228116--9228217 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
9228106 AAATTCCTTA
*
9228116 CAAACCTAAAACCTTTGCA-AATCTAGAACCTTTGCAAAACTTGAAATCTTG
1 CAAACCTAAAACCTTTG-AGAATCTAAAACCTTTGCAAAACTTGAAATCTTG
*
9228167 CAAACCTAAAACCTTTGAGAATCTAAAACCTTTGCGAAACTTGAAATCTTG
1 CAAACCTAAAACCTTTGAGAATCTAAAACCTTTGCAAAACTTGAAATCTTG
9228218 TGAATCTTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (51 bp):
CAAACCTAAAACCTTTGAGAATCTAAAACCTTTGCAAAACTTGAAATCTTG
Found at i:9228508 original size:61 final size:64
Alignment explanation
Indices: 9228418--9228554 Score: 147
Period size: 65 Copynumber: 2.2 Consensus size: 64
9228408 AATCCAAATT
* * * * * * *
9228418 ATTTTATTTTTTAGACCTATAATTTAATCCC-A-A-TCATTTCGATCTTAGTTC-AGTTTACATC
1 ATTTTATTTTTCAAACCTACAATTCAATCCCGACACTCATTTCGATCTCAGCTCGA-TCTACATC
* *
9228479 ATTTTATTTTTCAAACCTACAGTTCAATCCCGATCACTCATTTCGATCTCAGCTCGATCTAGATC
1 ATTTTATTTTTCAAACCTACAATTCAATCCCGA-CACTCATTTCGATCTCAGCTCGATCTACATC
9228544 ATTTTATTTTT
1 ATTTTATTTTT
9228555 ATGATTTGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
61 26 0.42
62 1 0.02
64 1 0.02
65 33 0.53
66 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (64 bp):
ATTTTATTTTTCAAACCTACAATTCAATCCCGACACTCATTTCGATCTCAGCTCGATCTACATC
Found at i:9229040 original size:51 final size:51
Alignment explanation
Indices: 9228980--9229086 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
9228970 AAATTTGATG
*
9228980 AAAATGATGTTGAGAGATTTTTA-AGATTTAATTCCATAATCAATTCATATT
1 AAAATGATGTTGAGAGATTTTTATA-ATTTAATTCCAGAATCAATTCATATT
* * *
9229031 AAAATGATGTTGAGAGATTTTTATAATTTAATTTCGGAATCAATTCTTATT
1 AAAATGATGTTGAGAGATTTTTATAATTTAATTCCAGAATCAATTCATATT
9229082 AAAAT
1 AAAAT
9229087 TAAATCAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (51 bp):
AAAATGATGTTGAGAGATTTTTATAATTTAATTCCAGAATCAATTCATATT
Found at i:9230446 original size:6 final size:6
Alignment explanation
Indices: 9230437--9230522 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
9230427 TTTATCTTAT
*
9230437 TTTTTA TTTTTA -TTTTA -TTTTA TTTTTAGA TTTTTAGA TTTTTA CTTATTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTT--A TTTTTA -TTTTTA
* * * * *
9230488 TTATTA TTATTA TTTTCA TCTTTAA TTATTA TTTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTT
9230523 ACTCATTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
5 10 0.15
6 34 0.50
7 10 0.15
8 14 0.21
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTTTA
Found at i:9230459 original size:16 final size:16
Alignment explanation
Indices: 9230438--9230523 Score: 57
Period size: 16 Copynumber: 5.0 Consensus size: 16
9230428 TTATCTTATT
9230438 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
*
9230454 TTTTATTTTTAGATTT-
1 TTTTATTTTTA-TTTTA
**
9230470 TTAGATTTTTACTTATTA
1 TTTTATTTTTA-TT-TTA
*
9230488 TTATTATTATTATTTTCA
1 TT-TTATTTTTATTTT-A
*
9230506 TCTTTAATTATTATTTTA
1 T-TTT-ATTTTTATTTTA
9230524 CTCATTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 21 0.38
17 7 0.13
18 9 0.16
19 18 0.33
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:9230459 original size:23 final size:24
Alignment explanation
Indices: 9230426--9230472 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
9230416 AGTTTTCTTT
*
9230426 TTTTATCTTATTTTT-TATTTTTA
1 TTTTATCTTATTTTTAGATTTTTA
*
9230449 TTTTATTTTATTTTTAGATTTTTA
1 TTTTATCTTATTTTTAGATTTTTA
9230473 GATTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTATCTTATTTTTAGATTTTTA
Found at i:9232077 original size:13 final size:13
Alignment explanation
Indices: 9232061--9232103 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
9232051 ATCAAAAATT
9232061 AAAACAAAAAACC
1 AAAACAAAAAACC
9232074 AAAAC-AAAAACC
1 AAAACAAAAAACC
* *
9232086 AAAAGGAAAAAGCC
1 AAAA-CAAAAAACC
9232100 AAAA
1 AAAA
9232104 GTCAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 5 0.19
14 10 0.38
ACGTcount: A:0.74, C:0.19, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAACC
Found at i:9232110 original size:14 final size:14
Alignment explanation
Indices: 9232067--9232111 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
9232057 AATTAAAACA
9232067 AAAAACCAAAA--C
1 AAAAACCAAAAGGC
9232079 AAAAACCAAAAGG-
1 AAAAACCAAAAGGC
*
9232092 AAAAAGCCAAAAGTC
1 AAAAA-CCAAAAGGC
9232107 AAAAA
1 AAAAA
9232112 AGTCAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.39
13 5 0.18
14 7 0.25
15 5 0.18
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.02
Consensus pattern (14 bp):
AAAAACCAAAAGGC
Found at i:9234310 original size:102 final size:102
Alignment explanation
Indices: 9234183--9234388 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
9234173 ATAGAAGGGA
*
9234183 TCGATCGGGCCTGGGCAAATACATCTCCAACGGTTATTTTATCAACCATTCAATAGCTACTTTCA
1 TCGATCGGGCCTGGGCAAATACATCTCCAACGGCTATTTTATCAACCATTCAATAGCTACTTTCA
9234248 TTTCCTAAGCATTCCCAACGACTATTTCCTCAATTTC
66 TTTCCTAAGCATTCCCAACGACTATTTCCTCAATTTC
*
9234285 TCGATCGGGTCTGGGCAAATACATCTCCAACGGCTATTTTATCAACCATTCAATAGCTACTTTCA
1 TCGATCGGGCCTGGGCAAATACATCTCCAACGGCTATTTTATCAACCATTCAATAGCTACTTTCA
*
9234350 TTTTCTAAGCATTCCCAACGACTATTTCCTCAATTTC
66 TTTCCTAAGCATTCCCAACGACTATTTCCTCAATTTC
9234387 TC
1 TC
9234389 TATAAATTGG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (102 bp):
TCGATCGGGCCTGGGCAAATACATCTCCAACGGCTATTTTATCAACCATTCAATAGCTACTTTCA
TTTCCTAAGCATTCCCAACGACTATTTCCTCAATTTC
Found at i:9235800 original size:14 final size:15
Alignment explanation
Indices: 9235781--9235810 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9235771 AAAAATTATT
9235781 AAATAATAAAA-ATA
1 AAATAATAAAAGATA
9235795 AAATAATAAAAGATA
1 AAATAATAAAAGATA
9235810 A
1 A
9235811 GTAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAGATA
Found at i:9237107 original size:11 final size:12
Alignment explanation
Indices: 9237084--9237112 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9237074 GAATGTTTTA
9237084 AAAAATAATAAT
1 AAAAATAATAAT
9237096 AAAAATAA-AAT
1 AAAAATAATAAT
9237107 AAAAAT
1 AAAAAT
9237113 TTGATAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:9238033 original size:17 final size:18
Alignment explanation
Indices: 9238011--9238051 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9238001 ATTTGATATC
*
9238011 TTTTTTCGCT-TTCACTT
1 TTTTTTCACTATTCACTT
*
9238028 TTTTTTCACTATTTACTT
1 TTTTTTCACTATTCACTT
9238046 TTTTTT
1 TTTTTT
9238052 AAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTTCACTATTCACTT
Found at i:9238174 original size:2 final size:2
Alignment explanation
Indices: 9238167--9238199 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9238157 CATACCATCT
*
9238167 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9238200 TTTTCCTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9238499 original size:24 final size:23
Alignment explanation
Indices: 9238447--9238500 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
9238437 TCTTTTTTAA
9238447 TTTTTTACTTTCACTTTTTTTCT
1 TTTTTTACTTTCACTTTTTTTCT
* *
9238470 TATTTTTCCTTTTC-CTTTTTTTGT
1 T-TTTTTAC-TTTCACTTTTTTTCT
*
9238494 CTTTTTA
1 TTTTTTA
9238501 ATAAAAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTTACTTTCACTTTTTTTCT
Found at i:9239841 original size:18 final size:18
Alignment explanation
Indices: 9239820--9239854 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9239810 TTTATAACGC
*
9239820 AATATCATCAATATATGA
1 AATATCAGCAATATATGA
*
9239838 AATATCAGCAATTTATG
1 AATATCAGCAATATATG
9239855 CTCGAGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (18 bp):
AATATCAGCAATATATGA
Found at i:9246229 original size:24 final size:24
Alignment explanation
Indices: 9246201--9246274 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 24
9246191 TATTTAGGTG
9246201 TAAATTAAAAATTAAAAATTTATT
1 TAAATTAAAAATTAAAAATTTATT
*
9246225 TAAATGTAATAAAAATATAAAATTTTATT
1 TAAA--T--TAAAAAT-TAAAAATTTATT
9246254 TAAA-T-AAAATTAGAAAATTTA
1 TAAATTAAAAATTA-AAAATTTA
9246275 AGAGTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 12 0.29
24 5 0.12
26 1 0.02
28 7 0.17
29 15 0.36
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
TAAATTAAAAATTAAAAATTTATT
Found at i:9249092 original size:697 final size:696
Alignment explanation
Indices: 9247757--9249151 Score: 2709
Period size: 697 Copynumber: 2.0 Consensus size: 696
9247747 TATTCTAAAT
9247757 AAACATACTTTGAATAGAAAAACATGACTATTTGAATAAGCATGTTTGAATAGGAAAACATAATT
1 AAACATACTTTGAATAGAAAAACATGACTATTTGAATAAGCATGTTTGAATAGGAAAACATAATT
9247822 GTCTGATTATGTTTGTTTGTGTTTCAACATCCTGTTGATGGTGAAGCTAGGGAACATTTAAATCG
66 GTCTGATTATGTTTGTTTGTGTTTCAACATCCTGTTGATGGTGAAGCTAGGGAACATTTAAATCG
9247887 TAGCCATGAATCATTGCATTTGAACTTCGAAATGTACAATTAGGATTATGTACAGATGGTTTTTG
131 TAGCCATGAATCATTGCATTTGAACTTCGAAATGTACAATTAGGATTATGTACAGATGGTTTTTG
* *
9247952 TCCATTTAATCCAAGTGCAAAACCACATTTTTATTGGCTAGTAATGATAGACGTATATAATTTTC
196 TCCATTTAATCCAAGTGCAAAACCACATTTTCATTGGCTAGTAATGATAGAAGTATATAATTTTC
9248017 CATTATGGTTGTGTATGAAGTGAGAATATATCTTATTGAATATGGTCAATCTAGGAAAAAGTAGT
261 CATTATGGTTGTGTATGAAGTGAGAATATATCTTATTGAATATGGTCAATCTAGGAAAAAGTAGT
9248082 CTAGATCAAAATATAAATGTTTTCTTGAGATCTTTAATAGATGAGTTAAAAATATTGTAGTTAAA
326 CTAGATCAAAATATAAATGTTTTCTTGAGATCTTTAATAGATGAGTTAAAAATATTGTAGTTAAA
9248147 TAGTGTTGTGACTTATTATGCTTATAAAATAAAATAAAATTTTCATTTGAGGGCGGCTTTTTCTT
391 TAGTGTTGTGACTTATTATGCTTATAAAATAAAATAAAATTTTCATTTGAGGGCGGCTTTTTCTT
9248212 GGACGATTAATGATTTTCCTATATATGGTATGTTACTTAGAACGAGCACTAATGGAATCTTATCA
456 GGACGATTAATGATTTTCCTATATATGGTATGTTACTTAGAACGAGCACTAATGGAATCTTATCA
9248277 TGTCCTTATTGCATGGGAAAATAAAAGTCTTTTCAATTGGTTCATGGTGAAAAACCTTACTTTTT
521 TGTCCTTATTGCATGGGAAAATAAAAGTCTTTTCAATTGGTTCATGGTGAAAAACCTTACTTTTT
*
9248342 CAATTGTCATCATTAGGTTTTGCCTCTTGATCATCATTTTCAAAGGCAAAGAGATAAATTTCAAA
586 CAATTGTCATCATTAGGTTTTACCTCTTGATCATCATTTTCAAAGGCAAAGAGATAAATTTCAAA
*
9248407 AAAGAATTGAGCATGACTCCCCTATTGTTTCATTATCAGGTGAAGAA
651 AAAGAATTAAGCATGACTCCCCTATTGTTTCATTATCAGGTGAA-AA
*
9248454 AAACATATTTTGAATAGAAAAACATGACTATTTGAATAAGCATGTTTGAATAGGAAAACATAATT
1 AAACATACTTTGAATAGAAAAACATGACTATTTGAATAAGCATGTTTGAATAGGAAAACATAATT
*
9248519 GTCTGATTATGTTTGTTTGTGTTTCAACATCCTGTTGATGGTGAAGCTTGGGAACATTTAAATCG
66 GTCTGATTATGTTTGTTTGTGTTTCAACATCCTGTTGATGGTGAAGCTAGGGAACATTTAAATCG
*
9248584 TAGCCATGAATCATTGCATTTGAACTTCGAAATGTACAATTAGGATTATGTGCAGATGGTTTTTG
131 TAGCCATGAATCATTGCATTTGAACTTCGAAATGTACAATTAGGATTATGTACAGATGGTTTTTG
9248649 TCCATTTAATCCAAGTGCAAAACCACATTTTCATTGGCTAGTAATGATAGAAGTATATAATTTTC
196 TCCATTTAATCCAAGTGCAAAACCACATTTTCATTGGCTAGTAATGATAGAAGTATATAATTTTC
9248714 CATTATGGTTGTGTATGAAGTGAGAATATATCTTATTGAATATGGTCAATCTAGGAAAAAGTAGT
261 CATTATGGTTGTGTATGAAGTGAGAATATATCTTATTGAATATGGTCAATCTAGGAAAAAGTAGT
9248779 CTAGATCAAAATATAAATGTTTTCTTGAGATCTTTAATAGATGAGTTAAAAATATTGTAGTTAAA
326 CTAGATCAAAATATAAATGTTTTCTTGAGATCTTTAATAGATGAGTTAAAAATATTGTAGTTAAA
9248844 TAGTGTTGTGACTTATTATGCTTATAAAATAAAATAAAATTTTCATTTGAGGGCGGCTTTTTCTT
391 TAGTGTTGTGACTTATTATGCTTATAAAATAAAATAAAATTTTCATTTGAGGGCGGCTTTTTCTT
9248909 GGACGATTAATGATTTTCCTATATATGGTATGTTACTTAGAACGAGCACTAATGGAATCTTATCA
456 GGACGATTAATGATTTTCCTATATATGGTATGTTACTTAGAACGAGCACTAATGGAATCTTATCA
*
9248974 TGTCCTTATTGCATGGGACAATAAAAGTCTTTTCAATTGGTTCATGGTGAAAAACCTTACTTTTT
521 TGTCCTTATTGCATGGGAAAATAAAAGTCTTTTCAATTGGTTCATGGTGAAAAACCTTACTTTTT
9249039 CAATTGTCATCATTAGGTTTTACCTCTTGATCATCATTTTCAAAGGCAAAGAGATAAATTTCAAA
586 CAATTGTCATCATTAGGTTTTACCTCTTGATCATCATTTTCAAAGGCAAAGAGATAAATTTCAAA
9249104 AAAGAATTAAGCATGACTCCCCTATTGTTTCATTATCAGGTGAAAA
651 AAAGAATTAAGCATGACTCCCCTATTGTTTCATTATCAGGTGAAAA
9249150 AA
1 AA
9249152 TTTTAGCTTG
Statistics
Matches: 690, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
696 4 0.01
697 686 0.99
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (696 bp):
AAACATACTTTGAATAGAAAAACATGACTATTTGAATAAGCATGTTTGAATAGGAAAACATAATT
GTCTGATTATGTTTGTTTGTGTTTCAACATCCTGTTGATGGTGAAGCTAGGGAACATTTAAATCG
TAGCCATGAATCATTGCATTTGAACTTCGAAATGTACAATTAGGATTATGTACAGATGGTTTTTG
TCCATTTAATCCAAGTGCAAAACCACATTTTCATTGGCTAGTAATGATAGAAGTATATAATTTTC
CATTATGGTTGTGTATGAAGTGAGAATATATCTTATTGAATATGGTCAATCTAGGAAAAAGTAGT
CTAGATCAAAATATAAATGTTTTCTTGAGATCTTTAATAGATGAGTTAAAAATATTGTAGTTAAA
TAGTGTTGTGACTTATTATGCTTATAAAATAAAATAAAATTTTCATTTGAGGGCGGCTTTTTCTT
GGACGATTAATGATTTTCCTATATATGGTATGTTACTTAGAACGAGCACTAATGGAATCTTATCA
TGTCCTTATTGCATGGGAAAATAAAAGTCTTTTCAATTGGTTCATGGTGAAAAACCTTACTTTTT
CAATTGTCATCATTAGGTTTTACCTCTTGATCATCATTTTCAAAGGCAAAGAGATAAATTTCAAA
AAAGAATTAAGCATGACTCCCCTATTGTTTCATTATCAGGTGAAAA
Found at i:9253432 original size:158 final size:158
Alignment explanation
Indices: 9253260--9253550 Score: 379
Period size: 158 Copynumber: 1.8 Consensus size: 158
9253250 TTGCATATTG
* * * * * **
9253260 TGATTGTTGATGAAGAAGATAGTGTAGTAATTAAAAGTCTAAACATTTTAGGAAATTTAGTATTG
1 TGATTGTTGATGAAGAAGATAATATAGTAATTAAAAGCCTAAACATTGTAGGAAATTCAACATTG
* *** *
9253325 AACTT-ATAGTATTTTATGGGTATT-AAGATGCAATGACTTTGTAAAAGGTGAAAACTATTGCGT
66 AA-TTAATAGCATTTTATACATATTGAA-ATGCAATGACTTTGTAAAAGGTGAAAACTATTGCAT
9253388 ATTTTGTTTTGTTATTGTAATTGTGTGTCA
129 ATTTTGTTTTGTTATTGTAATTGTGTGTCA
* *
9253418 TGATTGTTGATGAAGTAGATAATATAGTAATTGAAAGCCTAAACATTGTAGGAAATTCAACATTG
1 TGATTGTTGATGAAGAAGATAATATAGTAATTAAAAGCCTAAACATTGTAGGAAATTCAACATTG
* * * *
9253483 AATTAGATAGCGTTTTGTACATATTGAAATGTAATGACTTTGTAAAATGTGAAAACTATTGCATA
66 AATTA-ATAGCATTTTATACATATTGAAATGCAATGACTTTGTAAAAGGTGAAAACTATTGCATA
9253548 TTT
130 TTT
9253551 AATAATCAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
157 2 0.02
158 58 0.52
159 50 0.45
160 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (158 bp):
TGATTGTTGATGAAGAAGATAATATAGTAATTAAAAGCCTAAACATTGTAGGAAATTCAACATTG
AATTAATAGCATTTTATACATATTGAAATGCAATGACTTTGTAAAAGGTGAAAACTATTGCATAT
TTTGTTTTGTTATTGTAATTGTGTGTCA
Found at i:9254097 original size:20 final size:20
Alignment explanation
Indices: 9254074--9254123 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9254064 GATATGTATT
9254074 TTATGGATGTTTTAT-GAATG
1 TTATGGATGTTTTATAG-ATG
*
9254094 TTATGGATATTTTATAGATG
1 TTATGGATGTTTTATAGATG
*
9254114 TTAGGGATGT
1 TTATGGATGT
9254124 CAACTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (20 bp):
TTATGGATGTTTTATAGATG
Found at i:9254354 original size:21 final size:20
Alignment explanation
Indices: 9254315--9254356 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9254305 GATTTTACCA
* *
9254315 ACGAAATTTCAGTATTATTG
1 ACGAAATTTAAGAATTATTG
9254335 ACGAAATTTAAGCAATTATTG
1 ACGAAATTTAAG-AATTATTG
9254356 A
1 A
9254357 TAGATTATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
ACGAAATTTAAGAATTATTG
Found at i:9255516 original size:12 final size:12
Alignment explanation
Indices: 9255499--9255532 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9255489 TTAGAAGAAT
9255499 AATAATAATAAC
1 AATAATAATAAC
*
9255511 AATAATAATAAG
1 AATAATAATAAC
*
9255523 AATAAGAATA
1 AATAATAATA
9255533 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:9255571 original size:18 final size:17
Alignment explanation
Indices: 9255546--9255596 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
9255536 AAAAAAATCT
*
9255546 AAAAAAAAATTAAAATAG
1 AAAAAAAAATTAAAA-AC
*
9255564 AAACAAAAA-TAAAAAC
1 AAAAAAAAATTAAAAAC
9255580 AAAAAATAAATTAAAAA
1 AAAAAA-AAATTAAAAA
9255597 AAGGAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 14 0.50
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAAAAAATTAAAAAC
Found at i:9267067 original size:77 final size:77
Alignment explanation
Indices: 9266968--9267132 Score: 276
Period size: 77 Copynumber: 2.1 Consensus size: 77
9266958 AATTAAATCT
* * *
9266968 TCCAATAGTTTGGTAGGATAAAATATAAAATATTTTATTAATAGTAAACTTTTTTATAAAAATGA
1 TCCAATAGTTTAGTAGAATAAAATACAAAATATTTTATTAATAGTAAACTTTTTTATAAAAATGA
9267033 TTTATGAAATTC
66 TTTATGAAATTC
* * *
9267045 TCCAATAGTTTAGTAGAATAAAATGCAAAATATTTTATTATTAGTAAATTTTTTTATAAAAATGA
1 TCCAATAGTTTAGTAGAATAAAATACAAAATATTTTATTAATAGTAAACTTTTTTATAAAAATGA
9267110 TTTATGAAATTC
66 TTTATGAAATTC
9267122 TCCAATAGTTT
1 TCCAATAGTTT
9267133 GGTGGAATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (77 bp):
TCCAATAGTTTAGTAGAATAAAATACAAAATATTTTATTAATAGTAAACTTTTTTATAAAAATGA
TTTATGAAATTC
Found at i:9267318 original size:3 final size:3
Alignment explanation
Indices: 9267312--9267353 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
9267302 AATAGTTTAG
*
9267312 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
9267354 AAAGATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9267720 original size:21 final size:20
Alignment explanation
Indices: 9267691--9267729 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9267681 TTTTGGATGG
9267691 AATACTCAAACAGAAAACTAA
1 AATACTCAAA-AGAAAACTAA
* *
9267712 AATATTCAAAAGTAAACT
1 AATACTCAAAAGAAAACT
9267730 TGGTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (20 bp):
AATACTCAAAAGAAAACTAA
Found at i:9268261 original size:16 final size:17
Alignment explanation
Indices: 9268221--9268265 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
9268211 ATTTTATAAA
9268221 AAAT-AAAAAT-AATAC
1 AAATAAAAAATAAATAC
* *
9268236 ATATATAAAATAAAT-C
1 AAATAAAAAATAAATAC
9268252 AAATAAAAAATAAA
1 AAATAAAAAATAAA
9268266 AATAATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.12
16 18 0.75
17 3 0.12
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAATAAAAAATAAATAC
Found at i:9269703 original size:22 final size:22
Alignment explanation
Indices: 9269653--9269702 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
9269643 TAAATTTTAA
*
9269653 AATTTTAAAATTAAATCAATTT
1 AATTTTGAAATTAAATCAATTT
*
9269675 AATTTTGAAATTAAATTAATTT
1 AATTTTGAAATTAAATCAATTT
9269697 ATATTT
1 A-ATTT
9269703 GTGTACTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTTGAAATTAAATCAATTT
Found at i:9270689 original size:16 final size:16
Alignment explanation
Indices: 9270670--9270732 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
9270660 TAGATTCAAG
9270670 TAATTTTAAATTTGAA
1 TAATTTTAAATTTGAA
* *
9270686 TAATCTTAAATATGAA
1 TAATTTTAAATTTGAA
* * *
9270702 TTATTTTGAATTTAAA
1 TAATTTTAAATTTGAA
* *
9270718 TTATTTTGAATTTGA
1 TAATTTTAAATTTGA
9270733 TTTAGTTCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (16 bp):
TAATTTTAAATTTGAA
Found at i:9271836 original size:16 final size:16
Alignment explanation
Indices: 9271817--9271859 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
9271807 CTTTTATGAA
9271817 TTCAAATTTTTTTTGG
1 TTCAAATTTTTTTTGG
*
9271833 TTCAGA-TTTTTTTGG
1 TTCAAATTTTTTTTGG
*
9271848 ATCAAATTTTTT
1 TTCAAATTTTTT
9271860 CAAGTTTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (16 bp):
TTCAAATTTTTTTTGG
Found at i:9272883 original size:36 final size:36
Alignment explanation
Indices: 9272843--9272912 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
9272833 AAAGTAAGCG
*
9272843 ATTATTTCAGAGACACAATGATACCTTCTAACATCA
1 ATTATTTCAGAAACACAATGATACCTTCTAACATCA
9272879 ATTATTTCAGAAACACAATGATACCTTCTAACAT
1 ATTATTTCAGAAACACAATGATACCTTCTAACAT
9272913 ACTGACCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (36 bp):
ATTATTTCAGAAACACAATGATACCTTCTAACATCA
Found at i:9273650 original size:11 final size:11
Alignment explanation
Indices: 9273634--9273658 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9273624 TATTAATTCG
9273634 TATATTTATAT
1 TATATTTATAT
9273645 TATATTTATAT
1 TATATTTATAT
9273656 TAT
1 TAT
9273659 GTGAGACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:9273815 original size:117 final size:117
Alignment explanation
Indices: 9273596--9273816 Score: 246
Period size: 117 Copynumber: 1.9 Consensus size: 117
9273586 ATTAGCACTG
* *
9273596 ATCCAAATAGATCAAGTTTAATTAGATCTATTAATTCGTATATTTATATTATATTTATATTATGT
1 ATCCAAATAGATCAAGTTTAATTAGATCTATTAATTCGTATATTTATATTATATTCATATCATGT
** *
9273661 GAGACATATGTAAGCATGAAAAATTATAATAACAAATTCATGTCTCACATTA
66 GAGACATATGTAAAAATGAAAAATTACAATAACAAATTCATGTCTCACATTA
* ** * * * * *
9273713 ATCCAAATAGTTTGAGTTTAGTTAGATCTATTAATTTGTGTATTTCTATTGTATTCATATCATGA
1 ATCCAAATAGATCAAGTTTAATTAGATCTATTAATTCGTATATTTATATTATATTCATATCATG-
* ** * * * *
9273778 T-ATATTTGTGTAAAAATGAAAAATTGCAATGATAAATTC
65 TGAGACATATGTAAAAATGAAAAATTACAATAACAAATTC
9273817 GTGCTTAAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
117 82 0.99
118 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (117 bp):
ATCCAAATAGATCAAGTTTAATTAGATCTATTAATTCGTATATTTATATTATATTCATATCATGT
GAGACATATGTAAAAATGAAAAATTACAATAACAAATTCATGTCTCACATTA
Found at i:9273924 original size:11 final size:10
Alignment explanation
Indices: 9273904--9273935 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
9273894 ATCGTATCAC
9273904 TTTTTTATAT
1 TTTTTTATAT
9273914 TTTTTTCATAT
1 TTTTTT-ATAT
9273925 TTTTTTATAT
1 TTTTTTATAT
9273935 T
1 T
9273936 ATATTACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:9282600 original size:2 final size:2
Alignment explanation
Indices: 9282589--9282624 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9282579 TTTTGTAGAT
*
9282589 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9282625 GGCAAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9286790 original size:3 final size:3
Alignment explanation
Indices: 9286775--9286840 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
9286765 AAAAAATGAG
* *
9286775 AAT AAT AAA AAT AAT AAT AAAT AAT AAT AAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9286821 AAGT AAT AGT ATT AAT AAT A
1 AA-T AAT AAT AAT AAT AAT A
9286841 GTATATTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9286806 original size:28 final size:28
Alignment explanation
Indices: 9286775--9286838 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
9286765 AAAAAATGAG
9286775 AATAATAAAAATAATAATAAATAATAAT
1 AATAATAAAAATAATAATAAATAATAAT
* *
9286803 AATAATAAAAATAATAATAAGTAATAGT
1 AATAATAAAAATAATAATAAATAATAAT
*
9286831 ATTAATAA
1 AATAATAA
9286839 TAGTATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (28 bp):
AATAATAAAAATAATAATAAATAATAAT
Found at i:9286921 original size:26 final size:25
Alignment explanation
Indices: 9286885--9286963 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
9286875 GAAAAAGACT
*
9286885 GGCCCAATTAGGCTCGGACACAAATG
1 GGCCTAATTAGGC-CGGACACAAATG
*
9286911 GGCCTAATTAGGCCTGGACGC-AATG
1 GGCCTAATTAGGCC-GGACACAAATG
* * *
9286936 AGCCTAATTGGGCCCGAACACAAATG
1 GGCCTAATTAGG-CCGGACACAAATG
9286962 GG
1 GG
9286964 TGTCTACAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 19 0.44
26 24 0.56
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.16
Consensus pattern (25 bp):
GGCCTAATTAGGCCGGACACAAATG
Found at i:9286941 original size:25 final size:27
Alignment explanation
Indices: 9286890--9286961 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 27
9286880 AGACTGGCCC
*
9286890 AATTAGG-CTCGGACACAAATGGGCCT
1 AATTAGGCCTCGGACACAAATGAGCCT
*
9286916 AATTAGGCCT-GGACGC-AATGAGCCT
1 AATTAGGCCTCGGACACAAATGAGCCT
* *
9286941 AATTGGGCC-CGAACACAAATG
1 AATTAGGCCTCGGACACAAATG
9286962 GGTGTCTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 20 0.53
26 16 0.42
27 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (27 bp):
AATTAGGCCTCGGACACAAATGAGCCT
Found at i:9287323 original size:119 final size:118
Alignment explanation
Indices: 9287109--9287877 Score: 581
Period size: 119 Copynumber: 6.5 Consensus size: 118
9287099 GACTGGGACT
* * * *** * *
9287109 AAACCACAAGTCAAGATGAAGTGACCAAGACCAAATCGAGGTCAAAACTAAATGATC-GAGATGA
1 AAACCACAAGTCAAAATAAAGTGACTAAGATTGAGTCGAGGTCAAAAGTAAATGATCAG-GATGA
* * * *
9287173 AACCATAAATCATAAGAGATGATCTACACTGAGCCAAGATTAAGGGACCAGGACG
65 AACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGA-CAAGACG
* * * *
9287228 AAACCATAAGTCAAAATAAAGTGACTAAGATTGAGTCGAGGTTAAAAGTAAATGATTAGGACGAA
1 AAACCACAAGTCAAAATAAAGTGACTAAGATTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAA
* * * ** * *
9287293 ACCATAAATCATAAGAGATGATCTGGACTGAGCCAAGATTAAAAGAC-TGACATA
66 ACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGACAAGAC--G
* * *
9287347 AAACCACAAGTCAAAATAAAGTGA-TCAAGATCGAGTCGAGATCAAAAGTAAATGATCAAGATGA
1 AAACCACAAGTCAAAATAAAGTGACT-AAGATTGAGTCGAGGTCAAAAGTAAATGATCAGGATGA
* * * * *
9287411 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCATGGGATCAAGATG
65 AACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGA-CAAGACG
* *
9287466 AAACCACAAGTTAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAA
1 AAACCACAAGTCAAAATAAAGTGACTAAGATTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAA
* * * * * *
9287531 ATCACAAATCATAAGAAATGATCTAGATTGAGCCAAGACTAAGTGACTAGAACA
66 ACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGACAAG-ACG
** * * * * * * * * *
9287585 AAATGACGAA-T-AAAGATAAGGTGACCAAGATCGAGTCAAGGTAAAAAATAGACGA-CTGGGAT
1 AAACCAC-AAGTCAAA-ATAAAGTGACTAAGATTGAGTCGAGGTCAAAAGTAAATGATC-AGGAT
* * * * * * ** ** *
9287647 AAAATCACGAGTCATAAGAAATGATCTAGACTAAACCAAGATTAAGTAACTGGGATG
63 GAAACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGAC-AAGACG
* * * * * * ** * * *
9287704 AAATCACGAA-TCAAGATAAGGTGAC-CAGGTTCGAGTCGAGGTTAAAAACAAATAACCAAGATG
1 AAACCAC-AAGTCAAAATAAAGTGACTAAGATT-GAGTCGAGGTCAAAAGTAAATGATCAGGATG
** * * * *
9287767 AAACCATGAGTCA-AA-AAATGATCTAGACTGAGCTAAGATTAAGTGACCAAGATG
64 AAACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGA-CAAGACG
* * *
9287821 AAACCACGAGTCAAAATAAAGTGA-TCAAGACTGAGTCGAGATCGAAAA-TAAATGATC
1 AAACCACAAGTCAAAATAAAGTGACT-AAGATTGAGTCGAGGTC-AAAAGTAAATGATC
9287878 GAGACAAAAC
Statistics
Matches: 521, Mismatches: 109, Indels: 42
0.78 0.16 0.06
Matches are distributed among these distances:
116 1 0.00
117 67 0.13
118 22 0.04
119 420 0.81
120 9 0.02
121 2 0.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (118 bp):
AAACCACAAGTCAAAATAAAGTGACTAAGATTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAA
ACCACAAATCATAAGAAATGATCTAGACTGAGCCAAGATTAAGGGACAAGACG
Found at i:9287542 original size:238 final size:238
Alignment explanation
Indices: 9287109--9287568 Score: 650
Period size: 238 Copynumber: 1.9 Consensus size: 238
9287099 GACTGGGACT
* * * *
9287109 AAACCACAAGTCAAGATGAAGTGACCAAGACCAAATCGAGGTCAAAACTAAATGATCGAGATGAA
1 AAACCACAAGTCAAAATAAAGTGACCAAGACCAAATCGAGATCAAAACTAAATGATCAAGATGAA
* * * * *
9287174 ACCATAAATCATAAGAGATGATCTACACTGAGCCAAGATTAAGGGACCAGGACGAAACCATAAGT
66 ACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAGT
* * * *
9287239 CAAAATAAAGTGACTAAGATTGAGTCGAGGTTAAAAGTAAATGATTAGGACGAAACCATAAATCA
131 CAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATCA
* *
9287304 TAAGAGATGATCTGGACTGAGCCAAGATTAAAAGACTGACATA
196 TAAGAAATGATCTAGACTGAGCCAAGATTAAAAGACTGACATA
* * * * *
9287347 AAACCACAAGTCAAAATAAAGTGATCAAGATCGAGTCGAGATCAAAAGTAAATGATCAAGATGAA
1 AAACCACAAGTCAAAATAAAGTGACCAAGACCAAATCGAGATCAAAACTAAATGATCAAGATGAA
* ** * * *
9287412 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCATGGGATCAAGATGAAACCACAAGT
66 ACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAGT
* * *
9287477 TAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAAATCACAAATCA
131 CAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATCA
*
9287542 TAAGAAATGATCTAGATTGAGCCAAGA
196 TAAGAAATGATCTAGACTGAGCCAAGA
9287569 CTAAGTGACT
Statistics
Matches: 192, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
238 192 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (238 bp):
AAACCACAAGTCAAAATAAAGTGACCAAGACCAAATCGAGATCAAAACTAAATGATCAAGATGAA
ACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAGT
CAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATCA
TAAGAAATGATCTAGACTGAGCCAAGATTAAAAGACTGACATA
Found at i:9287616 original size:238 final size:238
Alignment explanation
Indices: 9287109--9287621 Score: 640
Period size: 238 Copynumber: 2.2 Consensus size: 238
9287099 GACTGGGACT
* * * * *
9287109 AAACCACAAGTC-AAGATGAAGTGACCAAGACCAAATCGAGGTCAAAACTAAATGATCGAGATGA
1 AAACCACAAGTCAAAGAT-AAGTGACCAAGATCGAGTCGAGATCAAAACTAAATGATCAAGATGA
* * * * *
9287173 AACCATAAATCATAAGAGATGATCTACACTGAGCCAAGATTAAGGGACCAGGACGAAACCATAAG
65 AACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAG
* * * *
9287238 TCAAAATAAAGTGACTAAGATTGAGTCGAGGTTAAAAGTAAATGATTAGGACGAAACCATAAATC
130 TCAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATC
* * * *
9287303 ATAAGAGATGATCTGGACTGAGCCAAGATTAAAAGACTGACATA
195 ATAAGAAATGATCTAGACTGAGCCAAGACTAAAAGACTGACACA
* *
9287347 AAACCACAAGTCAAA-ATAAAGTGATCAAGATCGAGTCGAGATCAAAAGTAAATGATCAAGATGA
1 AAACCACAAGTCAAAGAT-AAGTGACCAAGATCGAGTCGAGATCAAAACTAAATGATCAAGATGA
* ** * * *
9287411 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCATGGGATCAAGATGAAACCACAAG
65 AACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAG
* * *
9287476 TTAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGATGAAATCACAAATC
130 TCAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATC
* **
9287541 ATAAGAAATGATCTAGATTGAGCCAAGACTAAGTGACTAGA-ACA
195 ATAAGAAATGATCTAGACTGAGCCAAGACTAAAAGACT-GACACA
**
9287585 AAATGACGAA-T-AAAGATAAGGTGACCAAGATCGAGTC
1 AAACCAC-AAGTCAAAGATAA-GTGACCAAGATCGAGTC
9287622 AAGGTAAAAA
Statistics
Matches: 234, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
237 5 0.02
238 223 0.95
239 6 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (238 bp):
AAACCACAAGTCAAAGATAAGTGACCAAGATCGAGTCGAGATCAAAACTAAATGATCAAGATGAA
ACCACAAATCATAAGAAATGATCTACACTGAGCCAAGATCAAGGGACCAAGACGAAACCACAAGT
CAAAATAAAGTGACTAAGACTGAGTCGAGGTCAAAAGTAAATGATCAGGACGAAACCACAAATCA
TAAGAAATGATCTAGACTGAGCCAAGACTAAAAGACTGACACA
Found at i:9288867 original size:13 final size:13
Alignment explanation
Indices: 9288849--9288886 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9288839 TTTGGTTTTT
9288849 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
9288862 TTTATTTTATGTG
1 TTTATTTTATTTA
9288875 TTTATTTT-TTTA
1 TTTATTTTATTTA
9288887 GTAATTTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:9289538 original size:53 final size:53
Alignment explanation
Indices: 9289462--9289640 Score: 204
Period size: 53 Copynumber: 3.4 Consensus size: 53
9289452 AAAAAAGAAG
* * *
9289462 AAAAAAGAAAAGAATTTCTAAATAGGCCCAAATGGTAAAAAATTTAGAAATTTC
1 AAAAAAGAAAA-TATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTTC
* * * * *
9289516 AAAAAAGAAAATATTTCAAAATAGACTCAAATGGTGGAAAATTTAGAAATAATA
1 AAAAAAGAAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT-TTC
* *
9289570 AAAAAATG-AGA-ATTTCTAAATAGACTCAAATGGTGAAAAATTTAGAAA-TTC
1 AAAAAA-GAAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTTC
9289621 -AAAAAGAAAAATATTTCTAA
1 AAAAAAG-AAAATATTTCTAA
9289641 TTTGGCCCAA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.01
50 5 0.05
51 3 0.03
52 8 0.08
53 68 0.64
54 20 0.19
55 1 0.01
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (53 bp):
AAAAAAGAAAATATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTTC
Found at i:9293969 original size:2 final size:2
Alignment explanation
Indices: 9293962--9294012 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9293952 TTGTCAAAGG
9293962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9294004 TA TA TA TA T
1 TA TA TA TA T
9294013 GTATTAAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9294201 original size:25 final size:24
Alignment explanation
Indices: 9294173--9294219 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
9294163 ATATTCGATT
9294173 TAAAAT-TAATTTAATATAATATTCA
1 TAAAATAT-ATTTAATAT-ATATTCA
*
9294198 TAAAATATCTTTAATATATATT
1 TAAAATATATTTAATATATATT
9294220 ATATCTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 14 0.70
26 1 0.05
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAATATATTTAATATATATTCA
Found at i:9294298 original size:16 final size:19
Alignment explanation
Indices: 9294277--9294322 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9294267 TAAATTATGA
9294277 TATTAAATA-ATA-AT-TT
1 TATTAAATATATACATATT
9294293 TATTAATATATATACATATT
1 TATTAA-ATATATACATATT
9294313 TA-TAAATATA
1 TATTAAATATA
9294323 AAATTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.23
17 3 0.12
18 8 0.31
19 5 0.19
20 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTAAATATATACATATT
Found at i:9295606 original size:23 final size:23
Alignment explanation
Indices: 9295563--9295607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9295553 AATATTCTTC
**
9295563 TTTTTAATTTTTTTTTCTTTTCT
1 TTTTTAATTTTTTGATCTTTTCT
9295586 TTTTTAATTTTTCTGAT-TTTTC
1 TTTTTAATTTTT-TGATCTTTTC
9295608 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTAATTTTTTGATCTTTTCT
Found at i:9295753 original size:20 final size:20
Alignment explanation
Indices: 9295728--9295765 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9295718 TAAATTTACA
9295728 AATTAGATAGTCCAAGGTAT
1 AATTAGATAGTCCAAGGTAT
*
9295748 AATTAGGTAGTCCAAGGT
1 AATTAGATAGTCCAAGGT
9295766 CAAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (20 bp):
AATTAGATAGTCCAAGGTAT
Found at i:9300986 original size:189 final size:186
Alignment explanation
Indices: 9300496--9301053 Score: 697
Period size: 189 Copynumber: 3.0 Consensus size: 186
9300486 ATCTTATATT
* * * * *
9300496 TTATATAAATATATAAAAACTAAAACCTTTAATAAAAAATG--AAATAATCTGATATGAATAATC
1 TTATATAAATATATAAAAGCCAAAACCTTTAATAAAAAA-GAAAAATAATCTGATGTGGATAATT
* *
9300559 TACATTTTCGACATGTGGATAATTTAAAAAATTAACATGTGTTCAAAATTAATTATGCATTTTAA
65 TACATTTTCGATATGTGGATAATTTAAAAAATTAACATGTGTTCAAAATTAATTATGTATTTTAA
* * *
9300624 A--T----TT-AGTTTAATTATAAAATAAATTTAATTTAAAATATCTTATTTCCTTC
130 ATTTAAAATTAAATTTAATGATAAAATAAATTTAATTTAAAATATCTTATTTCCATC
* *
9300674 TTATATAAATATAAATATAAAAAGCC-AAAGCTTCTAATAAAAAA-AGAAATAATCTGATGTGGA
1 TTATAT-AA-AT--ATAT-AAAAGCCAAAACCTT-TAATAAAAAAGAAAAATAATCTGATGTGGA
* * * *
9300737 TAATTTGCATTTTCGATATGTAGACAATTTAAAAAATTGACATGTGTTCAAAATTAATTATGTAT
60 TAATTTACATTTTCGATATGTGGATAATTTAAAAAATTAACATGTGTTCAAAATTAATTATGTAT
*
9300802 TTTAAATTTTAAAATTAAAATTTAATGATAAAATAAATTTAATTTAAAATATCTTATTTTCATC
125 TTTAAA-TTTAAAATT-AAATTTAATGATAAAATAAATTTAATTTAAAATATCTTATTTCCATC
* *
9300866 TTATATAAATATATAAAAGCCAAAATCTTTAATAAAAAAGAAAAAAAAATCTGATGTGGATAATT
1 TTATATAAATATATAAAAGCCAAAACCTTTAATAAAAAAG-AAAAATAATCTGATGTGGATAATT
* * * * *
9300931 TACATTTTCTATATGTGGATAATTTACAAAACTAACATGTGTTCACAATTAATTATTTATTTTAA
65 TACATTTTCGATATGTGGATAATTTAAAAAATTAACATGTGTTCAAAATTAATTATGTATTTTAA
* *
9300996 ATTTAAAATTTAGAAGTTAATGATAGAATAAATTTAATTTAAAATATCTTATTTCCAT
130 ATTTAAAA-TTA-AATTTAATGATAAAATAAATTTAATTTAAAATATCTTATTTCCAT
9301054 TATTATAAAA
Statistics
Matches: 327, Mismatches: 31, Indels: 33
0.84 0.08 0.08
Matches are distributed among these distances:
178 6 0.02
179 2 0.01
180 2 0.01
182 10 0.03
183 94 0.29
186 1 0.00
187 17 0.05
188 18 0.06
189 123 0.38
190 4 0.01
191 2 0.01
192 48 0.15
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (186 bp):
TTATATAAATATATAAAAGCCAAAACCTTTAATAAAAAAGAAAAATAATCTGATGTGGATAATTT
ACATTTTCGATATGTGGATAATTTAAAAAATTAACATGTGTTCAAAATTAATTATGTATTTTAAA
TTTAAAATTAAATTTAATGATAAAATAAATTTAATTTAAAATATCTTATTTCCATC
Found at i:9304048 original size:34 final size:35
Alignment explanation
Indices: 9304004--9304082 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
9303994 ATATTTTGAT
*
9304004 TTTAGATTAAAATAAATACAACAATAGCATA-TAAA
1 TTTAG-TTAAAAGAAATACAACAATAGCATATTAAA
* * * *
9304039 TTTAGTTAAAAGAAATATAATATTATCATATTAAA
1 TTTAGTTAAAAGAAATACAACAATAGCATATTAAA
*
9304074 TTTAATTAA
1 TTTAGTTAA
9304083 TTAAAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 20 0.54
35 17 0.46
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (35 bp):
TTTAGTTAAAAGAAATACAACAATAGCATATTAAA
Found at i:9309311 original size:27 final size:27
Alignment explanation
Indices: 9309281--9309369 Score: 65
Period size: 27 Copynumber: 3.1 Consensus size: 27
9309271 TTTTTTAAGG
9309281 AAAATTGATACTTTCAACTTTTTCCTA
1 AAAATTGATACTTTCAACTTTTTCCTA
** * * *
9309308 AAAA-T-ATTTTTTTGGAAATTTATTCTTAA
1 AAAATTGA-TACTTT-CAACTTT-TTCCT-A
9309337 GGAAAATTGATACTTTCAACTTTTTCCTA
1 --AAAATTGATACTTTCAACTTTTTCCTA
9309366 AAAA
1 AAAA
9309370 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 13 0.30
28 4 0.09
29 2 0.05
30 4 0.09
31 9 0.20
32 5 0.11
33 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCTA
Found at i:9309436 original size:117 final size:116
Alignment explanation
Indices: 9309217--9309620 Score: 577
Period size: 117 Copynumber: 3.4 Consensus size: 116
9309207 TTTTTTTGTG
* *
9309217 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTGGAAATTTATTTTTTTAA
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTA--TTTCTAA
* * *
9309279 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAATTTATTCT
64 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTATT-T
* *
9309334 TAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAAAT-TTTTTTTTTTGAAATTTATTTCTGAG
1 TAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAAG
9309398 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT
65 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT
* *
9309450 CTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAAACTTTGATTTCC
1 -TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTG-AAA-TTT-ATTTCT
* *
9309515 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CTTTTTGAAAATTTATTTT
62 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTA-TTT
9309570 TAAGGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTTGAAA
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAA
9309621 AATTTGATTT
Statistics
Matches: 263, Mismatches: 14, Indels: 20
0.89 0.05 0.07
Matches are distributed among these distances:
116 14 0.05
117 75 0.29
118 73 0.28
119 45 0.17
120 56 0.21
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (116 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAAGG
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT
Found at i:9309661 original size:10 final size:10
Alignment explanation
Indices: 9309646--9309682 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
9309636 TGAAGAAAAT
9309646 AAAATAATAA
1 AAAATAATAA
9309656 AAAAT-ATAA
1 AAAATAATAA
9309665 ATAAATAATAA
1 A-AAATAATAA
9309676 AAAATAA
1 AAAATAA
9309683 AGAAAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAATAATAA
Found at i:9309672 original size:20 final size:21
Alignment explanation
Indices: 9309642--9309768 Score: 77
Period size: 20 Copynumber: 5.8 Consensus size: 21
9309632 TATTTGAAGA
9309642 AAATAAAATAATAAAAAATAT
1 AAATAAAATAATAAAAAATAT
9309663 AAAT-AAATAATAAAAAATA-
1 AAATAAAATAATAAAAAATAT
* * *
9309682 AAGA-AAAGTAAAACAAAAATAA
1 AA-ATAAAATAATA-AAAAATAT
9309704 AAATAAAACTGAGATAAAAAGAATATT
1 AAATAAAA-T-A-AT-AAAA-AATA-T
*
9309731 AAATAAACCTAATATAATAAATA-
1 AAATAAA-ATAATA-AA-AAATAT
9309754 AAA-AAAATAA-AAAAA
1 AAATAAAATAATAAAAA
9309769 CATTCAAAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
18 2 0.02
19 4 0.05
20 23 0.27
21 15 0.18
22 8 0.09
23 4 0.05
24 2 0.02
25 12 0.14
26 7 0.08
27 8 0.09
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATAAAATAATAAAAAATAT
Found at i:9309674 original size:7 final size:7
Alignment explanation
Indices: 9309641--9309683 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
9309631 TTATTTGAAG
9309641 AAAATAA
1 AAAATAA
9309648 AATAATAA
1 AA-AATAA
9309656 AAAAT-A
1 AAAATAA
*
9309662 TAAATAA
1 AAAATAA
*
9309669 ATAATAA
1 AAAATAA
9309676 AAAATAA
1 AAAATAA
9309683 A
1 A
9309684 GAAAAGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAATAA
Found at i:9309688 original size:10 final size:9
Alignment explanation
Indices: 9309641--9309711 Score: 54
Period size: 10 Copynumber: 7.4 Consensus size: 9
9309631 TTATTTGAAG
9309641 AAAATAAAAT
1 AAAA-AAAAT
9309651 AATAAAAAAT
1 AA-AAAAAAT
*
9309661 ATAAATAAAT
1 A-AAAAAAAT
9309671 AATAAAAAAT
1 AA-AAAAAAT
*
9309681 AAAGAAAAGT
1 AAA-AAAAAT
*
9309691 AAAACAAA-
1 AAAAAAAAT
*
9309699 AATAAAAAT
1 AAAAAAAAT
9309708 AAAA
1 AAAA
9309712 CTGAGATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.12
9 8 0.17
10 31 0.65
11 3 0.06
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:9309693 original size:28 final size:27
Alignment explanation
Indices: 9309641--9309711 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
9309631 TTATTTGAAG
9309641 AAAATAAAATAATAAAAAATATAAATA-A
1 AAAATAAAA-AATAAAAAATATAAA-ACA
*
9309669 ATAATAAAAAATAAAGAAA-AGTAAAACA
1 AAAATAAAAAATAAA-AAATA-TAAAACA
9309697 AAAAT-AAAAATAAAA
1 AAAATAAAAAATAAAA
9309712 CTGAGATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 1 0.03
27 17 0.45
28 20 0.53
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAATAAAAAATAAAAAATATAAAACA
Found at i:9310690 original size:24 final size:23
Alignment explanation
Indices: 9310631--9310690 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
9310621 TAATTAGAAA
*
9310631 AGATAAATAAAAAAAAATATTAT
1 AGATAAATAAAAAAAAATAATAT
9310654 AGGATAAAT-AAAAAAAATAATAT
1 A-GATAAATAAAAAAAAATAATAT
*
9310677 CAGATATATAAAAA
1 -AGATAAATAAAAA
9310691 TACGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (23 bp):
AGATAAATAAAAAAAAATAATAT
Found at i:9310781 original size:56 final size:57
Alignment explanation
Indices: 9310628--9310781 Score: 140
Period size: 57 Copynumber: 2.7 Consensus size: 57
9310618 AGATAATTAG
*
9310628 AAAAGATAAATAAA-AAAAAATATTATAGGATAAATAAAAAAAATAATATCAGATATAT
1 AAAA-ATAAATAAATAATAAATA-TATAGGATAAATAAAAAAAATAATATCAGATATAT
* * * *
9310686 AAAAATACGA-AAATAAATAAA-ATAAAAGATAAA-AATAAAAAATATATATTAG-TA-AT
1 AAAAATA-AATAAAT-AATAAATATATAGGATAAATAA-AAAAAATA-ATATCAGATATAT
*
9310742 AATAATAAATAAATAATAAATATATAGGATATACATAAAA
1 AAAAATAAATAAATAATAAATATATAGGATA-A-ATAAAA
9310782 TATAAAATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
55 7 0.09
56 22 0.29
57 26 0.34
58 15 0.19
59 7 0.09
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (57 bp):
AAAAATAAATAAATAATAAATATATAGGATAAATAAAAAAAATAATATCAGATATAT
Found at i:9311084 original size:1 final size:1
Alignment explanation
Indices: 9311074--9311113 Score: 71
Period size: 1 Copynumber: 40.0 Consensus size: 1
9311064 TAGAGGCAAC
*
9311074 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9311114 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:9311199 original size:1 final size:1
Alignment explanation
Indices: 9311193--9311279 Score: 84
Period size: 1 Copynumber: 87.0 Consensus size: 1
9311183 TAGAGGCAAC
* * * * * * * *
9311193 TTTTTTTTTGTTCTTTTTTTGTCTTTTTTTTATTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
9311258 TTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
9311280 CCAAAGCTCC
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.01, C:0.02, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:9311211 original size:10 final size:10
Alignment explanation
Indices: 9311193--9311279 Score: 108
Period size: 10 Copynumber: 8.8 Consensus size: 10
9311183 TAGAGGCAAC
9311193 TTTTTTTTTG
1 TTTTTTTTTG
9311203 TTCTTTTTTTG
1 TT-TTTTTTTG
*
9311214 TCTTTTTTT-
1 TTTTTTTTTG
*
9311223 TATTTTTTTG
1 TTTTTTTTTG
9311233 TTTTTTTTTG
1 TTTTTTTTTG
9311243 TTTTTTGTTT-
1 TTTTTT-TTTG
9311253 TTTTTTTTT-
1 TTTTTTTTTG
*
9311262 TGTTTTTTTG
1 TTTTTTTTTG
9311272 TTTTTTTT
1 TTTTTTTT
9311280 CCAAAGCTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
9 19 0.28
10 37 0.54
11 12 0.18
ACGTcount: A:0.01, C:0.02, G:0.08, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:9311259 original size:39 final size:40
Alignment explanation
Indices: 9311193--9311279 Score: 133
Period size: 39 Copynumber: 2.2 Consensus size: 40
9311183 TAGAGGCAAC
9311193 TTTTTTTTTGTTCTTTTTTTGTCTTTTTTTTATTTTTTTG
1 TTTTTTTTTGTTCTTTTTTTGTCTTTTTTTTATTTTTTTG
* *
9311233 TTTTTTTTTGTT-TTTTGTTT-TTTTTTTTTTGTTTTTTTG
1 TTTTTTTTTGTTCTTTT-TTTGTCTTTTTTTTATTTTTTTG
9311272 TTTTTTTT
1 TTTTTTTT
9311280 CCAAAGCTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 29 0.66
40 15 0.34
ACGTcount: A:0.01, C:0.02, G:0.08, T:0.89
Consensus pattern (40 bp):
TTTTTTTTTGTTCTTTTTTTGTCTTTTTTTTATTTTTTTG
Found at i:9311512 original size:200 final size:201
Alignment explanation
Indices: 9311285--9311684 Score: 652
Period size: 200 Copynumber: 2.0 Consensus size: 201
9311275 TTTTTCCAAA
* *
9311285 GCTCCTCTAAGCAGAGGCTCAACGACTTT-GAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGA-AAAGTAAATTGCTCCTCTAAACAGAGGCA--A
* *
9311349 CG-ACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAAC-GAAC-TTGGAAAGTAAATTGCT
63 CGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAG-ACTTTGAAAAGTAAATTGCT
9311410 CCTCTAAACAGAGGCAACG-ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACGAACTTT
126 CCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACG-ACTTT
9311473 GAAAAGTAAATT
190 GAAAAGTAAATT
*
9311485 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
9311550 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAGACTTTGAAAAGTAAATTGCTCCTCT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAGACTTTGAAAAGTAAATTGCTCCTCT
9311615 AAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACGACTTTGAAAAG
131 AAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACGACTTTGAAAAG
9311680 TAAAT
196 TAAAT
9311685 CTAGACAATC
Statistics
Matches: 188, Mismatches: 5, Indels: 13
0.91 0.02 0.06
Matches are distributed among these distances:
198 8 0.04
199 33 0.18
200 91 0.48
201 23 0.12
202 33 0.18
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (201 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAGACTTTGAAAAGTAAATTGCTCCTCT
AAACAGAGGCAACGAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACGACTTTGAAAAG
TAAATT
Found at i:9311570 original size:40 final size:39
Alignment explanation
Indices: 9311285--9311684 Score: 610
Period size: 39 Copynumber: 10.0 Consensus size: 39
9311275 TTTTTCCAAA
*
9311285 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGA-AAAGTAAATT
9311327 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATT
*
9311368 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
9311407 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
9311446 GCTCCTCTAAACAGAGGC-ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
9311485 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATT
9311527 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
9311567 GCTCCTCTAAACAGAGGCACCAGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAGTAAATT
9311607 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTT-GAAAAGTAAATT
9311648 GCTCCTCTAAACAGAGGC-ACGACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAAT
9311685 CTAGACAATC
Statistics
Matches: 338, Mismatches: 5, Indels: 34
0.90 0.01 0.09
Matches are distributed among these distances:
38 20 0.06
39 105 0.31
40 84 0.25
41 66 0.20
42 61 0.18
43 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:9312946 original size:10 final size:10
Alignment explanation
Indices: 9312933--9312975 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
9312923 CATTTTCTCA
9312933 TTTTTTCCTT
1 TTTTTTCCTT
* *
9312943 TTTTTTTCTC
1 TTTTTTCCTT
*
9312953 ATTTTTCCTT
1 TTTTTTCCTT
*
9312963 TTTTTTTCTT
1 TTTTTTCCTT
9312973 TTT
1 TTT
9312976 CTTTTCATCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCCTT
Found at i:9312949 original size:11 final size:11
Alignment explanation
Indices: 9312933--9312981 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9312923 CATTTTCTCA
9312933 TTTTTTCCTTT
1 TTTTTTCCTTT
*
9312944 TTTTTT-C-TC
1 TTTTTTCCTTT
*
9312953 ATTTTTCCTTT
1 TTTTTTCCTTT
9312964 TTTTTT-CTTT
1 TTTTTTCCTTT
9312974 TTCTTTTC
1 TT-TTTTC
9312982 ATCATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
9 6 0.20
10 8 0.27
11 16 0.53
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:9312957 original size:20 final size:21
Alignment explanation
Indices: 9312925--9312971 Score: 87
Period size: 20 Copynumber: 2.3 Consensus size: 21
9312915 CTTTTTTTCA
9312925 TTTTCTCATTTTTTCCTTTTT
1 TTTTCTCATTTTTTCCTTTTT
9312946 TTTTCTCA-TTTTTCCTTTTT
1 TTTTCTCATTTTTTCCTTTTT
9312966 TTTTCT
1 TTTTCT
9312972 TTTTCTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCATTTTTTCCTTTTT
Found at i:9312957 original size:29 final size:30
Alignment explanation
Indices: 9312916--9312990 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
9312906 TTTGAATCTC
9312916 TTTTTT-TCA-TTTT-CTCATTTTTTCCTTT
1 TTTTTTCTCATTTTTCCT-ATTTTTTCCTTT
* *
9312944 TTTTTTCTCATTTTTCCTTTTTTTTTCTTT
1 TTTTTTCTCATTTTTCCTATTTTTTCCTTT
9312974 TTCTTTTCATCATTTTT
1 TT-TTTTC-TCATTTTT
9312991 TTTCATCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 6 0.15
29 3 0.08
30 16 0.40
31 7 0.17
32 8 0.20
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTTTCTCATTTTTCCTATTTTTTCCTTT
Found at i:9316871 original size:57 final size:57
Alignment explanation
Indices: 9316805--9317216 Score: 542
Period size: 57 Copynumber: 7.0 Consensus size: 57
9316795 TTTTGTGTAG
9316805 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAAATTTATTTTTAA
* *
9316862 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAAATTTATTTTTAA
* *
9316920 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA---TTTTTTTGAAAATTTATTTTTAA
* * *
9316980 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGCAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGAAAATTTATTTTTAA
* **
9317037 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTTGAAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATA---TTTTTTTGAAAA-TTT-ATTTTTAA
*
9317100 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTCGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTT-GAAAATTTATTTTTAA
9317159 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAAATTTGATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTTGAAAATTT-ATTTTT
9317217 TATCTTGAAG
Statistics
Matches: 322, Mismatches: 14, Indels: 35
0.87 0.04 0.09
Matches are distributed among these distances:
56 8 0.02
57 76 0.24
58 66 0.20
59 40 0.12
60 65 0.20
61 26 0.08
62 8 0.02
63 33 0.10
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:9317344 original size:17 final size:16
Alignment explanation
Indices: 9317322--9317373 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
9317312 AAAGAAGTAT
*
9317322 TAAATAAACTAATATAA
1 TAAATAAAC-AATAAAA
9317339 TAAATAAA-AA-AAAA
1 TAAATAAACAATAAAA
9317353 TAAATAAACAAATAAAA
1 TAAATAAAC-AATAAAA
9317370 -AAAT
1 TAAAT
9317374 TCAAAGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 11 0.35
15 2 0.06
16 6 0.19
17 12 0.39
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAATAAACAATAAAA
Found at i:9317356 original size:14 final size:15
Alignment explanation
Indices: 9317322--9317364 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9317312 AAAGAAGTAT
*
9317322 TAAATAAACTAATATAA
1 TAAATAAAC-AA-AAAA
9317339 TAAATAAA-AAAAAA
1 TAAATAAACAAAAAA
9317353 TAAATAAACAAA
1 TAAATAAACAAA
9317365 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 5 0.21
17 8 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATAAACAAAAAA
Found at i:9317387 original size:18 final size:17
Alignment explanation
Indices: 9317337--9317391 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
9317327 AAACTAATAT
*
9317337 AATAAATAAAAAAAAATA
1 AATAAACAAAAAAAAA-A
*
9317355 AATAAACAAATAAAAAA
1 AATAAACAAAAAAAAAA
* *
9317372 ATTCAAAGAAAAAAAAAA
1 AAT-AAACAAAAAAAAAA
9317390 AA
1 AA
9317392 AAAAAACCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.13
Consensus pattern (17 bp):
AATAAACAAAAAAAAAA
Found at i:9317391 original size:22 final size:20
Alignment explanation
Indices: 9317344--9317394 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
9317334 TATAATAAAT
*
9317344 AAAAAAAAATAAATAAACAAA
1 AAAAAAAAATAAAGAAA-AAA
* *
9317365 TAAAAAAATTCAAAGAAAAAA
1 AAAAAAAAAT-AAAGAAAAAA
9317386 AAAAAAAAA
1 AAAAAAAAA
9317395 AAACCTGGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATAAAGAAAAAA
Found at i:9317756 original size:19 final size:20
Alignment explanation
Indices: 9317721--9317766 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
9317711 GAACACCGGT
*
9317721 GCCGGATTCTGGAAAATGTC
1 GCCGGAATCTGGAAAATGTC
*
9317741 GCCGGAATCT-GAAAATTTC
1 GCCGGAATCTGGAAAATGTC
*
9317760 ACCGGAA
1 GCCGGAA
9317767 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATGTC
Found at i:9325152 original size:15 final size:15
Alignment explanation
Indices: 9325120--9325160 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
9325110 TTTATATTAT
*
9325120 TTTAAAATT-TT-GA
1 TTTAAAATTATTAAA
9325133 TTTAAAATTATTAAA
1 TTTAAAATTATTAAA
*
9325148 TTTAAAAATATTA
1 TTTAAAATTATTA
9325161 TTTTGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTAAAATTATTAAA
Found at i:9328805 original size:16 final size:15
Alignment explanation
Indices: 9328786--9328815 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9328776 TTATTAATTC
9328786 AAAATAAAAGTATAAG
1 AAAATAAAA-TATAAG
9328802 AAAATAAAATATAA
1 AAAATAAAATATAA
9328816 CAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAATAAAATATAAG
Found at i:9329378 original size:17 final size:18
Alignment explanation
Indices: 9329356--9329389 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9329346 CTTTTAATTT
9329356 AAAAAG-TCCAAATTAAG
1 AAAAAGTTCCAAATTAAG
*
9329373 AAAAAGTTCCAATTTAA
1 AAAAAGTTCCAAATTAA
9329390 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAAAGTTCCAAATTAAG
Found at i:9331937 original size:30 final size:31
Alignment explanation
Indices: 9331903--9331960 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
9331893 TATTGGTATA
* * *
9331903 ACTATTTTTTCTTTGTT-TTTGTTATTTTAT
1 ACTATTTTTTATTTATTGTTTATTATTTTAT
9331933 ACTATTTTTTATTTATTGTTTATTATTT
1 ACTATTTTTTATTTATTGTTTATTATTT
9331961 ACATGATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (31 bp):
ACTATTTTTTATTTATTGTTTATTATTTTAT
Found at i:9332193 original size:93 final size:93
Alignment explanation
Indices: 9332095--9332263 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 93
9332085 AAAAGAAAAA
* * * *
9332095 TTCAATCATATCAAACTATTAG-AGTATTTAAATCTCTAA-TTAAATTTTA-TCAAACTATTGAA
1 TTCAATCATACCAAACTA-TAGAAGAATTTAAATCTCAAAGTTAAATCTTACT-AAACTATT-AA
9332157 AA-ATTTAATGATTTTTATAAAAAAATAAATT
63 AAGATTTAAT-ATTTTTATAAAAAAATAAATT
* * *
9332188 TTCAATCATACCGAATTATCGAAGAATTTAAATCTCAAAGTTAAATCTTACTAAACTATTAAAAG
1 TTCAATCATACCAAACTATAGAAGAATTTAAATCTCAAAGTTAAATCTTACTAAACTATTAAAAG
9332253 ATTTAATATTT
66 ATTTAATATTT
9332264 CTTTTAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
92 2 0.03
93 38 0.58
94 24 0.37
95 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (93 bp):
TTCAATCATACCAAACTATAGAAGAATTTAAATCTCAAAGTTAAATCTTACTAAACTATTAAAAG
ATTTAATATTTTTATAAAAAAATAAATT
Found at i:9336215 original size:25 final size:25
Alignment explanation
Indices: 9336180--9336235 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
9336170 CTAGGTCAAA
*
9336180 CAAAGTTAATTTGGGCAAATTTGAT
1 CAAAGTCAATTTGGGCAAATTTGAT
9336205 CAAAGTCAATTTGGGCAAATTTGAT
1 CAAAGTCAATTTGGGCAAATTTGAT
9336230 CAAAGT
1 CAAAGT
9336236 TAGTCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (25 bp):
CAAAGTCAATTTGGGCAAATTTGAT
Found at i:9336788 original size:144 final size:140
Alignment explanation
Indices: 9336369--9336859 Score: 417
Period size: 144 Copynumber: 3.4 Consensus size: 140
9336359 AAAATTACCA
* * * * * * *
9336369 AAATATCCTTTCGGGGTATTTTTGTAATTTCATCTTT-TGGAAGTCGATTTTTCGT-AAAAACTT
1 AAATA-CCTTTAGGAGTATTTTTGTAATTTGACCTTTCT-TAGGTTGATTTTT-GTGAAAAAC-T
* * * * *
9336432 TTAGATCATG-TTTAAACATTATTTGATGATTTTTGTTACATTAAAAACCTTGATCTCACCT-TG
62 CTAGATCATGTTTTAAA-ATTACTTCATGATTTTTGATGCATTAAAAACCTTGATCTCACCTAT-
*
9336495 AGAGGTGTAAAATCATT
125 A-AGGTGTAAAATTATT
* ** *
9336512 AAAATAACTTTAGGAGTATTTTTCGTAATTAAACCTTT-TCAAGGTTGATTTTTTGTGAAAAACT
1 -AAATACCTTTAGGAGTATTTTT-GTAATTTGACCTTTCT-TAGGTTGA-TTTTTGTGAAAAACT
* * * * * * *
9336576 CTAGATCATAGTTTT-ATAGTACTTTATGATGTTTGGTGCATTAAAAACTTTGATCTCACCTTAA
62 CTAGATCAT-GTTTTAAAATTACTTCATGATTTTTGATGCATTAAAAACCTTGATCTCACC-TAT
9336640 AAGGTGTAAAATTACTT
125 AAGGTGTAAAATTA-TT
*
9336657 AAATACCTTATAGG-GATATTTTTGTAATTTGACCTTTCTTAGGTTGACTTTTTGT-AAAACAGT
1 AAATACCTT-TAGGAG-TATTTTTGTAATTTGACCTTTCTTAGGTTGA-TTTTTGTGAAAA-ACT
9336720 CTAGATCATGTTTTAAAATTACTTCATGATTTTTGATGCATTAAAAACCTTGATCGT-ACCTCAT
62 CTAGATCATGTTTTAAAATTACTTCATGATTTTTGATGCATTAAAAACCTTGATC-TCACCT-AT
* *
9336784 AAGGTGTGAAATTATCA
125 AAGGTGTAAAATTAT-T
* * * * *
9336801 AAATTCTTTTTAGGAGTTTTTTTGTAGTTTGA-CTTTCTTGAGGTTGATTTTTATGAAAA
1 AAATAC-CTTTAGGAGTATTTTTGTAATTTGACCTTTCTT-AGGTTGATTTTTGTGAAAA
9336860 TTTTCATATC
Statistics
Matches: 286, Mismatches: 41, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
143 38 0.13
144 212 0.74
145 33 0.12
146 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (140 bp):
AAATACCTTTAGGAGTATTTTTGTAATTTGACCTTTCTTAGGTTGATTTTTGTGAAAAACTCTAG
ATCATGTTTTAAAATTACTTCATGATTTTTGATGCATTAAAAACCTTGATCTCACCTATAAGGTG
TAAAATTATT
Found at i:9337962 original size:24 final size:23
Alignment explanation
Indices: 9337931--9337975 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9337921 TCTAATGTTT
9337931 AAAATTTAATTCCTTTCTTTTTG
1 AAAATTTAATTCCTTTCTTTTTG
**
9337954 AAAACTTTAATTTTTTTCTTTT
1 AAAA-TTTAATTCCTTTCTTTT
9337976 CTTCTGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (23 bp):
AAAATTTAATTCCTTTCTTTTTG
Found at i:9338461 original size:17 final size:16
Alignment explanation
Indices: 9338407--9338465 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
9338397 TTTGAGGGTT
9338407 GGTTTAGGTT-TTTAG
1 GGTTTAGGTTGTTTAG
* *
9338422 GGTTTGGAGTTCAGTTTAA
1 GGTTTAG-GTT--GTTTAG
9338441 GGTTTAGGTTGGTTTAG
1 GGTTTAGGTT-GTTTAG
9338458 GGTTTAGG
1 GGTTTAGG
9338466 GTTTTGGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.17
16 3 0.09
17 13 0.37
18 3 0.09
19 10 0.29
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (16 bp):
GGTTTAGGTTGTTTAG
Found at i:9338462 original size:24 final size:24
Alignment explanation
Indices: 9338435--9338521 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 24
9338425 TTGGAGTTCA
9338435 GTTTAAGGTTTAGG-TTGGTTTAGG
1 GTTTAAGGTTT-GGATTGGTTTAGG
* *
9338459 GTTTAGGGTTTTGGCTTAGGTTTAGG
1 GTTTAAGG-TTTGGATT-GGTTTAGG
* *
9338485 ATTTAAGGTTTGGATAGGTTTAGG
1 GTTTAAGGTTTGGATTGGTTTAGG
**
9338509 GTTTTGGGTTTGG
1 GTTTAAGGTTTGG
9338522 TTTATGGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 27 0.52
25 11 0.21
26 14 0.27
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.46
Consensus pattern (24 bp):
GTTTAAGGTTTGGATTGGTTTAGG
Found at i:9338482 original size:43 final size:43
Alignment explanation
Indices: 9338403--9338538 Score: 129
Period size: 43 Copynumber: 3.1 Consensus size: 43
9338393 AGAGTTTGAG
*
9338403 GGTTGGTTTAGGTTTTTAGGG-TTTGGAGTTCA-GTTTAAGGTTTA
1 GGTTGGTTTAGG-GTTTAGGGTTTTGG-GTT-AGGTTTAAGGTTTA
*
9338447 GGTTGGTTTAGGGTTTAGGGTTTTGGCTTAGGTTT-AGGATTTAA
1 GGTTGGTTTAGGGTTTAGGGTTTTGGGTTAGGTTTAAGG-TTT-A
* * *
9338491 GGTTTGG-ATA-GGTTTAGGGTTTTGGGTTTGGTTTATGGTTTA
1 GG-TTGGTTTAGGGTTTAGGGTTTTGGGTTAGGTTTAAGGTTTA
*
9338533 GTTTGG
1 GGTTGG
9338539 GTGGGGTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
41 4 0.05
42 6 0.08
43 41 0.52
44 24 0.30
45 4 0.05
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (43 bp):
GGTTGGTTTAGGGTTTAGGGTTTTGGGTTAGGTTTAAGGTTTA
Found at i:9338505 original size:50 final size:50
Alignment explanation
Indices: 9338436--9338533 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
9338426 TGGAGTTCAG
*
9338436 TTTAAGGTTTAGGTTGGTTTAGGGTTTAGGGTTTTGGCTTA-GGTTTAGGA
1 TTTAAGGTTTAGGTAGGTTTAGGGTTTAGGG-TTTGGCTTATGGTTTAGGA
* *
9338486 TTTAAGGTTT-GGATAGGTTTAGGGTTTTGGGTTTGGTTTATGGTTTAG
1 TTTAAGGTTTAGG-TAGGTTTAGGGTTTAGGGTTTGGCTTATGGTTTAG
9338534 TTTGGGTGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 10 0.23
50 33 0.77
ACGTcount: A:0.15, C:0.01, G:0.36, T:0.48
Consensus pattern (50 bp):
TTTAAGGTTTAGGTAGGTTTAGGGTTTAGGGTTTGGCTTATGGTTTAGGA
Found at i:9338546 original size:23 final size:23
Alignment explanation
Indices: 9338511--9338564 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9338501 GGTTTAGGGT
**
9338511 TTTGGGTTTGGTTTA-TGGTTTAG
1 TTTGGGTGGGGTTTAGT-GTTTAG
9338534 TTTGGGTGGGGTTTAGTGTTTAG
1 TTTGGGTGGGGTTTAGTGTTTAG
9338557 TTTAGGGT
1 TTT-GGGT
9338565 TTGGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (23 bp):
TTTGGGTGGGGTTTAGTGTTTAG
Found at i:9338598 original size:34 final size:35
Alignment explanation
Indices: 9338551--9338639 Score: 137
Period size: 34 Copynumber: 2.5 Consensus size: 35
9338541 GGGGTTTAGT
9338551 GTTTA-GTTTAGGGTTTGGATGGGGGTTTGAATA-
1 GTTTAGGTTTAGGGTTTGGATGGGGGTTTGAATAG
9338584 GTTTAGGTTTAGGGTTTGGATGGGGGTTTGAATAGTG
1 GTTTAGGTTTAGGGTTTGGATGGGGGTTTGAATA--G
9338621 GTTTAGGGTTTAGGGTTTG
1 GTTTA-GGTTTAGGGTTTG
9338640 AGGTTTGGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
33 5 0.10
34 28 0.55
37 5 0.10
38 13 0.25
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.43
Consensus pattern (35 bp):
GTTTAGGTTTAGGGTTTGGATGGGGGTTTGAATAG
Found at i:9340861 original size:3 final size:3
Alignment explanation
Indices: 9340849--9340888 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9340839 CATTCGTATC
9340849 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9340889 GTTTGATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9342220 original size:20 final size:19
Alignment explanation
Indices: 9342195--9342242 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
9342185 CCACTCCATT
9342195 CTTTTCTTTGGCT-GACCTCC
1 CTTTTCTTTGG-TAGA-CTCC
9342215 CTTTTCCTTTTGGTAGACTCC
1 CTTTT-C-TTTGGTAGACTCC
9342236 CTTTTCT
1 CTTTTCT
9342243 AAAATATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 6 0.24
21 11 0.44
22 7 0.28
ACGTcount: A:0.06, C:0.31, G:0.12, T:0.50
Consensus pattern (19 bp):
CTTTTCTTTGGTAGACTCC
Found at i:9343120 original size:15 final size:15
Alignment explanation
Indices: 9343097--9343136 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
9343087 AGAAAGTTTT
9343097 TTTTTTTTTGCTTTG
1 TTTTTTTTTGCTTTG
* * *
9343112 TTTTGTTTTGGTTTT
1 TTTTTTTTTGCTTTG
9343127 TTTTTTTTTG
1 TTTTTTTTTG
9343137 TAAATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTGCTTTG
Found at i:9343291 original size:62 final size:62
Alignment explanation
Indices: 9343214--9343470 Score: 254
Period size: 62 Copynumber: 4.1 Consensus size: 62
9343204 CAAGGGATCA
* ** *
9343214 TGCCCAAAGGTCTTACAAATCTTGAAATTAAAATAGATTCAGCTTGAAAGACTTACGAATCT
1 TGCCTAAAGGTCTTACAAATCTCAAAATTAAAATAGATTCAGCTTAAAAGACTTACGAATCT
* * *
9343276 TGCCTAAAGGACTTACAAATCTCAAAATTAAAATATATGAATCTTGCTTAAAAGACTTAC-AGAT
1 TGCCTAAAGGTCTTACAAATCTCAAAATT-AAA-ATA-GATTC-AGCTTAAAAGACTTACGA-AT
9343340 -T
61 CT
* * * * *
9343341 ATACTCGAAA-GTCTTAAAAATCTCAAAATTAAAATAGATTCAGCCTAAAAGACTTATGAATCT
1 -TGC-CTAAAGGTCTTACAAATCTCAAAATTAAAATAGATTCAGCTTAAAAGACTTACGAATCT
* * * *
9343404 TGCCCAAAAGG-CTTACAAATCTCAAAATTAAAATAGATTCAACTCGAAAA-ACTTATGAATCT
1 TG-CCTAAAGGTCTTACAAATCTCAAAATTAAAATAGATTCAGCT-TAAAAGACTTACGAATCT
9343466 TGCCT
1 TGCCT
9343471 GGAGACTTAC
Statistics
Matches: 161, Mismatches: 22, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
61 2 0.01
62 89 0.55
63 15 0.09
64 6 0.04
65 9 0.06
66 36 0.22
67 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (62 bp):
TGCCTAAAGGTCTTACAAATCTCAAAATTAAAATAGATTCAGCTTAAAAGACTTACGAATCT
Found at i:9343637 original size:22 final size:23
Alignment explanation
Indices: 9343594--9343658 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
9343584 TAAAATGTTT
*
9343594 TGCCCGGAGGTCTT-GCAAATTA
1 TGCCTGGAGGTCTTAGCAAATTA
*
9343616 TGCCTGGAGGTCTTAG-AGATTA
1 TGCCTGGAGGTCTTAGCAAATTA
**
9343638 TGCCTAAAGGTCTTA-CAAATT
1 TGCCTGGAGGTCTTAGCAAATT
9343659 TCAAAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (23 bp):
TGCCTGGAGGTCTTAGCAAATTA
Found at i:9343798 original size:50 final size:50
Alignment explanation
Indices: 9343715--9343855 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 50
9343705 AAGGTTTTTA
* * *
9343715 TTTGAAAATGGTTTCCC-CTTAAACAGAGACTTTGAAACTTTAAAAATCTTG
1 TTTGAAAAT-GTCTCCCTC-TAAACAAAGGCTTTGAAACTTTAAAAATCTTG
9343766 TTTGAAAATGTCTCCCTCTAAACAAAGGCTTTGAAACTTTAAAAATCTTG
1 TTTGAAAATGTCTCCCTCTAAACAAAGGCTTTGAAACTTTAAAAATCTTG
* * * **
9343816 TTTGCATATGGCTTTGCT-TAAACAAAGGCTTTGAAACTTT
1 TTTGAAAATGTC-TCCCTCTAAACAAAGGCTTTGAAACTTT
9343856 GGAAATGACT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
50 67 0.84
51 13 0.16
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (50 bp):
TTTGAAAATGTCTCCCTCTAAACAAAGGCTTTGAAACTTTAAAAATCTTG
Found at i:9344393 original size:21 final size:22
Alignment explanation
Indices: 9344367--9344422 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
9344357 CCAAATCTTT
*
9344367 TTTTTTTCCTTTA-GTTTTTAC
1 TTTTTTTACTTTACGTTTTTAC
*
9344388 TTTTTTTACTTTACTTTTTTAC
1 TTTTTTTACTTTACGTTTTTAC
*
9344410 TTGTTTTTTCTTT
1 TT-TTTTTACTTT
9344423 TAAAACTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 9 0.30
23 9 0.30
ACGTcount: A:0.09, C:0.12, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTTTTACTTTACGTTTTTAC
Found at i:9344407 original size:13 final size:14
Alignment explanation
Indices: 9344383--9344411 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9344373 TCCTTTAGTT
9344383 TTTACTTTTTTTAC
1 TTTACTTTTTTTAC
9344397 TTTAC-TTTTTTAC
1 TTTACTTTTTTTAC
9344410 TT
1 TT
9344412 GTTTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTACTTTTTTTAC
Found at i:9361117 original size:34 final size:34
Alignment explanation
Indices: 9361079--9361147 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
9361069 GTGCCTTTCT
*
9361079 AGTATCTTGAAACAATCTACCTAAAATAATTGAA
1 AGTATCTTGAAACAATCTACCCAAAATAATTGAA
9361113 AGTATCTTGAAACAATCTACCCAAAATAATTGAA
1 AGTATCTTGAAACAATCTACCCAAAATAATTGAA
9361147 A
1 A
9361148 CCTCTTTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (34 bp):
AGTATCTTGAAACAATCTACCCAAAATAATTGAA
Found at i:9364521 original size:18 final size:18
Alignment explanation
Indices: 9364484--9364517 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9364474 AATTGAAAGC
9364484 AAAAGAACAATAAAACCT
1 AAAAGAACAATAAAACCT
9364502 AAAA-AACAATAAAACC
1 AAAAGAACAATAAAACC
9364518 CTAATAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAGAACAATAAAACCT
Found at i:9365742 original size:18 final size:18
Alignment explanation
Indices: 9365671--9365743 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 18
9365661 AAAAGAGAGG
9365671 AAAAAAGAAATAAAAGAAA
1 AAAAAAGAAA-AAAAGAAA
**
9365690 GCAAAAAAGGAAAAATTGAAA
1 --AAAAAA-GAAAAAAAGAAA
*
9365711 AAAAAAGAACAAAAGAAA
1 AAAAAAGAAAAAAAGAAA
*
9365729 AGAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
9365744 GGAAATGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 22 0.50
19 6 0.14
21 12 0.27
22 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAAGAAAAAAAGAAA
Found at i:9366104 original size:10 final size:10
Alignment explanation
Indices: 9366089--9366114 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9366079 TAATAATCCG
9366089 AAAAAAAAGA
1 AAAAAAAAGA
9366099 AAAAAAAAGA
1 AAAAAAAAGA
9366109 AAAAAA
1 AAAAAA
9366115 GATGAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:9369744 original size:10 final size:9
Alignment explanation
Indices: 9369722--9369786 Score: 69
Period size: 9 Copynumber: 7.0 Consensus size: 9
9369712 TTTATTGTTT
9369722 TTTTTTTTGC
1 TTTTTTTT-C
9369732 TTTTCTTTTC
1 TTTT-TTTTC
9369742 TTTTTCTTTC
1 TTTTT-TTTC
**
9369752 TTTTTTAAC
1 TTTTTTTTC
9369761 TTTTTTTTC
1 TTTTTTTTC
9369770 TTTTTTTT-
1 TTTTTTTTC
*
9369778 TTATTTTTC
1 TTTTTTTTC
9369787 CATTCTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
8 7 0.15
9 18 0.38
10 18 0.38
11 4 0.09
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9369757 original size:11 final size:10
Alignment explanation
Indices: 9369721--9369778 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
9369711 CTTTATTGTT
9369721 TTTTTTTTTGC
1 TTTTTTTTT-C
*
9369732 TTTTCTTTTC
1 TTTTTTTTTC
*
9369742 TTTTTCTTTC
1 TTTTTTTTTC
**
9369752 -TTTTTTAAC
1 TTTTTTTTTC
9369761 -TTTTTTTTC
1 TTTTTTTTTC
9369770 TTTTTTTTT
1 TTTTTTTTT
9369779 TATTTTTCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
9 13 0.34
10 17 0.45
11 8 0.21
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:9369779 original size:11 final size:11
Alignment explanation
Indices: 9369719--9369785 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
9369709 CACTTTATTG
9369719 TTTTTTT-TTT
1 TTTTTTTCTTT
**
9369729 TGCTTTTCTTT
1 TTTTTTTCTTT
*
9369740 TCTTTTTCTTT
1 TTTTTTTCTTT
* ***
9369751 CTTTTTTAACT
1 TTTTTTTCTTT
9369762 TTTTTTTCTTT
1 TTTTTTTCTTT
*
9369773 TTTTTTTATTT
1 TTTTTTTCTTT
9369784 TT
1 TT
9369786 CCATTCTTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
10 5 0.12
11 37 0.88
ACGTcount: A:0.04, C:0.10, G:0.01, T:0.84
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:9371810 original size:3 final size:3
Alignment explanation
Indices: 9371802--9371837 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9371792 CACAATGGGC
9371802 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
9371838 ATCCACATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:9376527 original size:35 final size:35
Alignment explanation
Indices: 9376456--9376630 Score: 160
Period size: 35 Copynumber: 5.0 Consensus size: 35
9376446 TATACAATTC
* * *
9376456 TCTCGATGGTAAAATCTGACCTTTC-TTAAAACTT
1 TCTCTATGGTGAAATTTGACCTTTCATTAAAACTT
* * *
9376490 TCTCTATGGTGAAATCTGACTTTTCATTAAAATTT
1 TCTCTATGGTGAAATTTGACCTTTCATTAAAACTT
*
9376525 TCTC-AGTGGTGAAATTTGACCTTTCAGTAAAACTT
1 TCTCTA-TGGTGAAATTTGACCTTTCATTAAAACTT
* * **
9376560 TCT-TGATGGTGGAATTTGACTTTTTGTTAAAACTT
1 TCTCT-ATGGTGAAATTTGACCTTTCATTAAAACTT
** * *
9376595 TCT-TGATGGCAAAATTTGACGTTTCATTATAACTT
1 TCTCT-ATGGTGAAATTTGACCTTTCATTAAAACTT
9376630 T
1 T
9376631 TTTGATGACA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
34 23 0.20
35 93 0.79
36 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (35 bp):
TCTCTATGGTGAAATTTGACCTTTCATTAAAACTT
Found at i:9376569 original size:70 final size:70
Alignment explanation
Indices: 9376460--9376637 Score: 200
Period size: 70 Copynumber: 2.6 Consensus size: 70
9376450 CAATTCTCTC
* *
9376460 GATGGTAAAATCTGACCTTTC-TTAAAACTTTCTCT-ATGGTGAAATCTGACTTTTCATTAAAAT
1 GATGGTAAAATTTGACCTTTCATTAAAACTTTCT-TGATGGTGAAATCTGACTTTTCATTAAAAC
9376523 TTTCTCA
65 TTTCT-A
* * * * **
9376530 G-TGGTGAAATTTGACCTTTCAGTAAAACTTTCTTGATGGTGGAATTTGACTTTTTGTTAAAACT
1 GATGGTAAAATTTGACCTTTCATTAAAACTTTCTTGATGGTGAAATCTGACTTTTCATTAAAACT
*
9376594 TTCTT
66 TTCTA
* * * *
9376599 GATGGCAAAATTTGACGTTTCATTATAACTTTTTTGATG
1 GATGGTAAAATTTGACCTTTCATTAAAACTTTCTTGATG
9376638 ACAAAATCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
69 19 0.21
70 71 0.79
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (70 bp):
GATGGTAAAATTTGACCTTTCATTAAAACTTTCTTGATGGTGAAATCTGACTTTTCATTAAAACT
TTCTA
Found at i:9380034 original size:258 final size:258
Alignment explanation
Indices: 9379760--9381206 Score: 972
Period size: 258 Copynumber: 5.6 Consensus size: 258
9379750 AAAAGTTACG
* *
9379760 AAAAATTTGATAATATTTGTAACGACAAAAAAAAGTTGTTGCATAAATTTATTTTATTTGTAACA
1 AAAAATTTTATAATATTTGTAACGACAAAAAAAAGTTGTTGCA-AAACTTATTTTATTTGTAACA
** * ** * *
9379825 ATTTTTTGAAGTCATAACTTAAAATATTTTTTTAATATTTTATAAAATACCAAATAAA-GTTAAG
65 ATTTTTTGAAGTTGTTACTTAAGTTATTTTTTTAATATTTTATACAATACCAAAAAAATGTTAAG
* * *
9379889 AAAAATTTTATAATATTTGTAACGACAACATAAAGTCATTACAAAAACTTGTTTTATTTGCAACC
130 AAAAATTTTATAATATTTGTAACGACAACATAAAGTCGTTGCAAAAACTTGTTTTATTTGCAATC
* * *
9379954 A-TTTTTGATA-TCGTTGCTTAAAATATTGTTTAATATTTTATGGAACAACAAATAAAGTTGTTA
195 ATTTTTTGATAGTCGTTGCTTAAAATATTGTTTAATATTTTAT-AAACAACAAA-AAAATTATTA
9380017 T
258 T
* * * * *
9380018 AAAAATTTTATAATATTTGTAATGACAACATAAAA-TCGTTGCAAAAACTTGTTTTATTTGCAAC
1 AAAAATTTTATAATATTTGTAACGACAA-AAAAAAGTTGTTGC-AAAACTTATTTTATTTGTAAC
* * * **
9380082 CA-TTTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAATGA-CAAAAAAAGTTG
64 AATTTTTTGAA-GTTGTTACTTAAGTTATTTTTTTAATATTTTATACAAT-ACCAAAAAAA--TG
* * * * * *
9380145 TTACGAAAATATTTGATCATATTTGTAAC-AGAA-A-AAAGTTTGTTGCATAAACTTGTTTTATT
125 TTAAGAAAA-ATTTTATAATATTTGTAACGACAACATAAAG-TCGTTGCAAAAACTTGTTTTATT
** * * ** * * * *
9380207 TGGTATGATTTTTTGA-AGTCGTTACTTAAGTTTTTTTTTTAATATTTTAT--ACAACTAAAAAC
188 TGCAATCATTTTTTGATAGTCGTTGCTTAA-AATATTGTTTAATATTTTATAAACAACAAAAAAA
*
9380269 TTATTAC
252 TTATTAT
* * * * * * * *
9380276 AAAAATTTTATAATATTTGTAACAACAACATAAAGTTGTT-CGAAGCTCTA-ATTATTTGCAACC
1 AAAAATTTTATAATATTTGTAACGACAAAAAAAAGTTGTTGCAAAACT-TATTTTATTTGTAACA
* * * * * * **
9380339 A-TTTTTAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAATACAATGGCAAAAAAATGTTGG
65 ATTTTTTGAA-GTTGTTACTTAAGTTATTTTTTTAATATTTTATACAATACCAAAAAAATG-T--
* * * * * ***
9380403 TATGAAAATATTTGATCATATTTGTAACG--AA-A-AAATTTGTTGTGTAAACTTGTTTTATTTG
126 TAAGAAAA-ATTTTATAATATTTGTAACGACAACATAAAGTCGTTGCAAAAACTTGTTTTATTTG
* * * ** * * *
9380464 CAAT-AATTTTTCAAAGTTATTTCTTAAAATATTTTTTAATATTTTATACAACAAAAAATAAAAT
190 CAATCATTTTTTGATAGTCGTTGCTTAAAATATTGTTTAATATTTTATA-AACAACAAA-AAAAT
*
9380528 TATTACG
253 TATTA-T
* * * * ** * *
9380535 AAAACTTTTATAATATTTGTAATGACAATATAAAGTCATTGTGAAAACTTATTTTATTTGTAACT
1 AAAAATTTTATAATATTTGTAACGACAAAAAAAAGTTGTTG-CAAAACTTATTTTATTTGTAACA
* * ** ** * **
9380600 ATTTTTTTAAATTGTTGTTTAAAATA-CTTTTTAATATTTTATACAATGGCAAATAAAATTGTTA
65 ATTTTTTGAAGTTGTTACTTAAGTTATTTTTTTAATATTTTATACAATACCAAA-AAAA-TGTTA
* * * *
9380664 CA-AAAATTTTTATAATATTTGTAATGACAACATAAAGTCGTTGCGAAAACTTATTTTATTTGCA
128 -AGAAAAATTTTATAATATTTGTAACGACAACATAAAGTCGTTGCAAAAACTTGTTTTATTTGCA
* * ** **
9380728 ATCATTTTTTCA-ATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATATAATGACAAAAAAATT
192 ATCATTTTTTGATA-GTCGTTGCTTAAAATA-TTGTTTAATATTTTATA-AACAACAAAAAAATT
*
9380792 GTTAT
254 ATTAT
* * *
9380797 GAAAATATTTGATCATATTTGT-A--ACAAAAAAAAGTTGTTACATAAACTTATTTTATTTGTAA
1 -AAAA-ATTTTATAATATTTGTAACGACAAAAAAAAGTTGTTGCA-AAACTTATTTTATTTGTAA
* * * * *
9380859 CAATTTTTTGAAATTGTTACTTAAGTTATTTTTTT-ATATTTTATACAACAACTACAAAATTGTT
63 CAATTTTTTGAAGTTGTTACTTAAGTTATTTTTTTAATATTTTATACAA-TACCAAAAAAATGTT
* * * **
9380923 ATGAAAAATTTTATAATATTTGTAAC-AGCAACATAAAGTTGTTGTAAAAACTCT-AATTATTTG
127 AAGAAAAATTTTATAATATTTGTAACGA-CAACATAAAGTCGTTGCAAAAACT-TGTTTTATTTG
* *** * ** * ** *
9380986 CAACCATTTTAAAAT-GTGGTTGCTTAAGTTATTTGTTTAAAATTTTATACAATGATAAAAAAAG
190 CAATCATTTTTTGATAGTCGTTGCTTAAAATA-TTGTTTAATATTTTATA-AACAACAAAAAAA-
*
9381050 TTATTAC
252 TTATTAT
* * * *
9381057 AAAAATATTTGATCATA-TTGTAACGA-AAAAAATTA-TTATGTG---AACTTGTTTTATTTGTA
1 AAAAAT-TTT-ATAATATTTGTAACGACAAAAAA-AAGTTGT-TGCAAAACTTATTTTATTTGTA
*** * * *
9381116 ATGGTTTTTTGGAGTTGTTACTTAAGTTATTCTTTTT-ATATTTTATACAATAACAAAAAAATTA
62 ACAATTTTTTGAAGTTGTTACTTAAGTTATT-TTTTTAATATTTTATACAATACCAAAAAAA-TG
* *
9381180 TTACA-AAAATTTTTATGATATTTGTAA
125 TTA-AGAAAAATTTTATAATATTTGTAA
9381207 TGATAAAAAA
Statistics
Matches: 949, Mismatches: 181, Indels: 117
0.76 0.15 0.09
Matches are distributed among these distances:
254 26 0.03
255 36 0.04
256 71 0.07
257 45 0.05
258 199 0.21
259 155 0.16
260 129 0.14
261 138 0.15
262 81 0.09
263 34 0.04
264 35 0.04
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (258 bp):
AAAAATTTTATAATATTTGTAACGACAAAAAAAAGTTGTTGCAAAACTTATTTTATTTGTAACAA
TTTTTTGAAGTTGTTACTTAAGTTATTTTTTTAATATTTTATACAATACCAAAAAAATGTTAAGA
AAAATTTTATAATATTTGTAACGACAACATAAAGTCGTTGCAAAAACTTGTTTTATTTGCAATCA
TTTTTTGATAGTCGTTGCTTAAAATATTGTTTAATATTTTATAAACAACAAAAAAATTATTAT
Found at i:9380190 original size:131 final size:130
Alignment explanation
Indices: 9379699--9381206 Score: 924
Period size: 131 Copynumber: 11.7 Consensus size: 130
9379689 TTTGTAATAA
* * * * **
9379699 TTTTCTAATGTGGTTGTTTAAGTTATTT-TTTAA-ATAGTTATATAACAAC-AAAAAA--GTTAC
1 TTTTC-AATGTTGTTGCTTAAGTTATTTGTTTAATAT-TTTATACAATGACAAAAAAATTGTTAC
* * * * * * *
9379759 GAAAA-ATTTGATAATATTTGTAACGACAAAAAAAAGTTGTTGCATAAATTTATTTTATTTGTAA
64 GAAAATATTTTATAATATTTGTAAC-A-GAAATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAA
*
9379823 CAATT
127 CCA-T
* ** ** ** * * * *
9379828 TTTTGAA-GTCATAACTTAAAATATTTTTTTAATATTTTATAAAAT-ACCAAATAAA--GTTAAG
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGA-CAAAAAAATTGTTACG
* ** *
9379889 AAAA-ATTTTATAATATTTGTAACGACAACATAAAGTCATTACAAAAACTTGTTTTATTTGCAAC
65 AAAATATTTTATAATATTTGTAAC-AGAA-ATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAAC
9379953 CAT
128 CAT
* * * ** ** ** * *
9379956 TTTT-GATATCGTTGCTTAAAATA-TTGTTTAATATTTTATGGAACAACAAATAAAGTTGTTA-T
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAA-AAAATTGTTACG
* * * *
9380018 AAAA-ATTTTATAATATTTGTAATGACAACATAAAATCGTTGCAAAAACTTGTTTTATTTGCAAC
65 AAAATATTTTATAATATTTGTAA-CAGAA-ATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAAC
9380082 CAT
128 CAT
*
9380085 TTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAATGACAAAAAAAGTTGTTACG
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAA-TTGTTACG
* * * ** **
9380150 AAAATATTTGATCATATTTGTAACAGAAA-AAAGTTTGTTGCATAAACTTGTTTTATTTGGTATG
65 AAAATATTTTATAATATTTGTAACAGAAATAAAG-TTGTTGCAAAAACTTGTTTTATTTGCAACC
9380214 ATT
129 A-T
* * * * * * * *
9380217 TTTTGAA-GTCGTTACTTAAGTTTTTTTTTTAATATTTTATAC-A--ACTAAAAACTTATTAC-A
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAATTGTTACGA
* * * **
9380277 AAA-ATTTTATAATATTTGTAACAACAACATAAAGTTGTT-C-GAAGCTCT-AATTATTTGCAAC
66 AAATATTTTATAATATTTGTAAC-AGAA-ATAAAGTTGTTGCAAAAACT-TGTTTTATTTGCAAC
9380338 CAT
128 CAT
* * * * * * * * *
9380341 TTTTAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAATACAATGGCAAAAAAATGTTGGTAT
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAA--TTGTTAC
* * * *** **
9380406 GAAAATATTTGATCATATTTGTAAC-GAAA-AAATTTGTTGTGTAAACTTGTTTTATTTGCAATA
64 GAAAATATTTTATAATATTTGTAACAGAAATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAACC
9380469 AT
129 AT
* * * ** ** * *
9380471 TTTTCAAAGTTATTTCTTAAAATATTT-TTTAATATTTTATACAACAAAAAATAAAATTATTACG
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAA-AAAATTGTTACG
* * * ** ** * *
9380535 AAAA-CTTTTATAATATTTGTAATGACAATATAAAGTCATTGTGAAAACTTATTTTATTTGTAAC
65 AAAATATTTTATAATATTTGTAA-CAGAA-ATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAAC
*
9380599 TATT
128 CA-T
* * * ** * * *
9380603 TTTTTAA-ATTGTTGTTTAAAATACTT-TTTAATATTTTATACAATGGCAAATAAAATTGTTACA
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAA-AAAATTGTTACG
* * * * * *
9380666 AAAAT-TTTTATAATATTTGTAATGACAACATAAAGTCGTTGCGAAAACTTATTTTATTTGCAAT
65 AAAATATTTTATAATATTTGTAA-CAGAA-ATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAAC
9380730 CATT
128 CA-T
* *
9380734 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATATAATGACAAAAAAATTGTTATGA
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAATTGTTACGA
* * * * * * * *
9380799 AAATATTTGATCATATTTGTAACA-AAAAAAAGTTGTTACATAAACTTATTTTATTTGTAACAAT
66 AAATATTTTATAATATTTGTAACAGAAATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAACCA-
9380863 T
130 T
* * * * ** * * *
9380864 TTTTGAA-ATTGTTACTTAAGTTATTT-TTTTATATTTTATACAACAACTACAAAATTGTTATGA
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAATTGTTACGA
* **
9380927 AAA-ATTTTATAATATTTGTAACAGCAACATAAAGTTGTTGTAAAAACTCT-AATTATTTGCAAC
66 AAATATTTTATAATATTTGTAACAG-AA-ATAAAGTTGTTGCAAAAACT-TGTTTTATTTGCAAC
9380990 CAT
128 CAT
** * * * * *
9380993 TTTAAAATGTGGTTGCTTAAGTTATTTGTTTAAAATTTTATACAATGATAAAAAAAGTTATTACA
1 TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAA-TTGTTACG
* * * * ***** * **
9381058 AAAATATTTGATCATA-TTGTAAC-GAAA-AAAATTATTATGTGAACTTGTTTTATTTGTAATGG
65 AAAATATTTTATAATATTTGTAACAGAAATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAA-CC
*
9381120 TT
129 AT
** * * * * *
9381122 TTTTGGA-GTTGTTACTTAAGTTATTCT-TTTTATATTTTATACAATAACAAAAAAATTATTACA
1 TTTTCAATGTTGTTGCTTAAGTTATT-TGTTTAATATTTTATACAATGACAAAAAAATTGTTACG
*
9381185 AAAAT-TTTTATGATATTTGTAA
65 AAAATATTTTATAATATTTGTAA
9381207 TGATAAAAAA
Statistics
Matches: 1090, Mismatches: 234, Indels: 112
0.76 0.16 0.08
Matches are distributed among these distances:
124 7 0.01
125 60 0.06
126 18 0.02
127 100 0.09
128 166 0.15
129 188 0.17
130 153 0.14
131 252 0.23
132 84 0.08
133 62 0.06
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (130 bp):
TTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATACAATGACAAAAAAATTGTTACGA
AAATATTTTATAATATTTGTAACAGAAATAAAGTTGTTGCAAAAACTTGTTTTATTTGCAACCAT
Found at i:9381305 original size:650 final size:645
Alignment explanation
Indices: 9379811--9381305 Score: 1710
Period size: 650 Copynumber: 2.3 Consensus size: 645
9379801 CATAAATTTA
* * ** * * * * **
9379811 TTTTATTTGTAACAATTTTTTGAAGTCATAACTTAAAATATTTTTTTAATATTTTATAAAATACC
1 TTTTATTTGCAATAATTTTTCAAAGTTATTACTTAAAATA-TTTTTTAATATTTTATACAACAAA
* * * * * * * * *
9379876 AAATAAAGTTA--AGAAAAA-TTTTATAATATTTGTAACGACAACATAAAGTCATTACAAAAACT
65 AAATAAAATTATTACAAAAACTTTTATAATATTTGTAATGACAATAAAAAATCATTGCGAAAACC
* * ** * * * * * * * ** *
9379938 TGTTTTATTTGCAACCA-TTTTTGATATCGTTGCTTAAAATATTGTTTAATATTTTATGGAACAA
130 TATATTATTCCCAACTACTTTATGAAATTGTTGTTTAAAATA-T-TTCAATATTTGATACAACGA
* *
9380002 CAAATAAAGTTGTTATAAAAATTTTATAATATTTGTAATGACAACATAAAATCGTTGCAAAAACT
193 CAAATAAAATTGTTACAAAAATTTTATAATATTTGTAATGACAACATAAAATCGTTGCAAAAACT
*
9380067 TGTTTTATTTGCAACCATTTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAATG
258 TATTTTATTTGCAACCATTTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAATG
* *
9380132 ACAAAAAAAGTTGTTACGAAAATATTTGATCATATTTGTAACAGAAAAAAGTTTGTTGCATAAAC
323 ACAAAAAAAGTTGTTACGAAAATATTTGATCATATTTGTAACAAAAAAAAGTTTGTTACATAAAC
* ** * *
9380197 TTGTTTTATTTGGTATGATTTTTTGAAGTCGTTACTTAAGTTTTTTTTTTAATATTTTATACAAC
388 TTATTTTATTTGGTACAATTTTTTGAAATCGTTACTTAAGTTATTTTTTTAATATTTTATACAAC
*
9380262 TAAAAACTTATTACAAAAATTTTATAATATTTGTAACAACAACATAAAGTTGTTCGAAGCTCTAA
453 TAAAAACTTATTACAAAAATTTTATAATATTTGTAACAACAACATAAAGTTGTTCGAAACTCTAA
* *
9380327 TTATTTGCAACCATTTTTAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAATACAATGGCAA
518 TTATTTGCAACCATTTTAAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAATACAATGACAA
* ** * * *
9380392 AAAAATGTTGGTATGAAAATATTTGATCATATTTGTAACGAAAAAATTTGTTGTGTAAACTTG
583 AAAAATGTTAGTACAAAAATATTTGATCATATTTGTAACGAAAAAAATTATTATGTAAACTTG
*
9380455 TTTTATTTGCAATAATTTTTCAAAGTTATTTCTTAAAATATTTTTTAATATTTTATACAACAAAA
1 TTTTATTTGCAATAATTTTTCAAAGTTATTACTTAAAATATTTTTTAATATTTTATACAACAAAA
* * * * *
9380520 AATAAAATTATTACGAAAACTTTTATAATATTTGTAATGACAATATAAAGTCATTGTGAAAACTT
66 AATAAAATTATTACAAAAACTTTTATAATATTTGTAATGACAATAAAAAATCATTGCGAAAACCT
* *** * * * * * * *
9380585 ATTTTATTTGTAACTATTTTTTTAAATTGTTGTTTAAAATACTTTTTAATATTTTATACAATGGC
131 ATATTATTCCCAACTACTTTATGAAATTGTTGTTTAAAATA--TTTCAATATTTGATACAACGAC
* *
9380650 AAATAAAATTGTTACAAAAATTTTTATAATATTTGTAATGACAACATAAAGTCGTTGCGAAAACT
194 AAATAAAATTGTTACAAAAA-TTTTATAATATTTGTAATGACAACATAAAATCGTTGCAAAAACT
* * *
9380715 TATTTTATTTGCAATCATTTTTTCAATGTTGTTGCTTAAGTTATTTGTTTAATATTTTATATAAT
258 TATTTTATTTGCAACCA-TTTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAAT
*
9380780 GACAAAAAAA-TTGTTATGAAAATATTTGATCATATTTGTAACAAAAAAAAG-TTGTTACATAAA
322 GACAAAAAAAGTTGTTACGAAAATATTTGATCATATTTGTAACAAAAAAAAGTTTGTTACATAAA
*
9380843 CTTATTTTATTT-GTAACAATTTTTTGAAATTGTTACTTAAGTTATTTTTTT-ATATTTTATACA
387 CTTATTTTATTTGGT-ACAATTTTTTGAAATCGTTACTTAAGTTATTTTTTTAATATTTTAT---
* * *
9380906 ACAACTACAAAA-TTGTTATGAAAAATTTTATAATATTTGTAACAGCAACATAAAGTTGTT-GTA
448 ACAACTA-AAAACTTATTA-CAAAAATTTTATAATATTTGTAACAACAACATAAAGTTGTTCG--
* * * *
9380969 AAAACTCTAATTATTTGCAACCATTTTAAAATGTGGTTGCTTAAGTTATTTGTTTAAAATTTTAT
509 -AAACTCTAATTATTTGCAACCATTTTAAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAAT
* *
9381034 ACAATGATAAAAAAA-GTTATTACAAAAATATTTGATCATA-TTGTAACGAAAAAAATTATTATG
573 ACAATGACAAAAAAATGTTAGTACAAAAATATTTGATCATATTTGTAACGAAAAAAATTATTATG
*
9381097 TGAACTTG
638 TAAACTTG
* ** *** * ** * * *
9381105 TTTTATTTGTAATGGTTTTTTGGAGTTGTTACTTAAGTTATTCTTTTTATATTTTATACAATAAC
1 TTTTATTTGCAATAATTTTTCAAAGTTATTACTTAAAATATT-TTTTAATATTTTATACAACAAA
* * * *
9381170 AAA-AAAATTATTACAAAAATTTTTATGATATTTGTAATGATAA-AAAAATATTATTGCGACAAA
65 AAATAAAATTATTACAAAAACTTTTATAATATTTGTAATGACAATAAAAA-ATCATTGCGA-AAA
*** *
9381233 CCTATATT-TTCCCAACTACTTTATGGTGTTGTT-TTTCATTGAAATA-TTCAATATTTGATACG
128 CCTATATTATTCCCAACTACTTTATGAAATTGTTGTTT-A---AAATATTTCAATATTTGATACA
9381295 ACGACAAATAA
189 ACGACAAATAA
9381306 TTTGTTGCAA
Statistics
Matches: 724, Mismatches: 104, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
643 30 0.04
644 33 0.05
645 5 0.01
646 64 0.09
647 107 0.15
648 98 0.14
649 75 0.10
650 184 0.25
651 52 0.07
652 71 0.10
653 5 0.01
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (645 bp):
TTTTATTTGCAATAATTTTTCAAAGTTATTACTTAAAATATTTTTTAATATTTTATACAACAAAA
AATAAAATTATTACAAAAACTTTTATAATATTTGTAATGACAATAAAAAATCATTGCGAAAACCT
ATATTATTCCCAACTACTTTATGAAATTGTTGTTTAAAATATTTCAATATTTGATACAACGACAA
ATAAAATTGTTACAAAAATTTTATAATATTTGTAATGACAACATAAAATCGTTGCAAAAACTTAT
TTTATTTGCAACCATTTTTCAATGTTGTTGCTTAAGTTATTTGCTTAATATTTTATACAATGACA
AAAAAAGTTGTTACGAAAATATTTGATCATATTTGTAACAAAAAAAAGTTTGTTACATAAACTTA
TTTTATTTGGTACAATTTTTTGAAATCGTTACTTAAGTTATTTTTTTAATATTTTATACAACTAA
AAACTTATTACAAAAATTTTATAATATTTGTAACAACAACATAAAGTTGTTCGAAACTCTAATTA
TTTGCAACCATTTTAAAATGTCGTTACCTAAGTTATTTGTTTAAAATTTAATACAATGACAAAAA
AATGTTAGTACAAAAATATTTGATCATATTTGTAACGAAAAAAATTATTATGTAAACTTG
Found at i:9383292 original size:23 final size:23
Alignment explanation
Indices: 9383262--9383308 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9383252 GGATTCAGGC
9383262 CAACATTTTGATGATTATATTAT
1 CAACATTTTGATGATTATATTAT
9383285 CAACATTTTGATGATTATATTAT
1 CAACATTTTGATGATTATATTAT
9383308 C
1 C
9383309 TACAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (23 bp):
CAACATTTTGATGATTATATTAT
Found at i:9384288 original size:12 final size:12
Alignment explanation
Indices: 9384271--9384296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9384261 TATTAGTACA
9384271 AATATGTTCGAG
1 AATATGTTCGAG
9384283 AATATGTTCGAG
1 AATATGTTCGAG
9384295 AA
1 AA
9384297 AAAACAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (12 bp):
AATATGTTCGAG
Found at i:9389544 original size:22 final size:22
Alignment explanation
Indices: 9389513--9389554 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9389503 AATGATTTGT
9389513 AAGACCTATAGGCATAATCTCA
1 AAGACCTATAGGCATAATCTCA
* *
9389535 AAGACTTATAGGCATGATCT
1 AAGACCTATAGGCATAATCT
9389555 ATAAAATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (22 bp):
AAGACCTATAGGCATAATCTCA
Found at i:9391500 original size:21 final size:21
Alignment explanation
Indices: 9391471--9391510 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9391461 ATAAACCCAA
9391471 TATTAATTTGATCT-TTTTTAT
1 TATTAATTT-ATCTATTTTTAT
*
9391492 TATTTATTTATCTATTTTT
1 TATTAATTTATCTATTTTT
9391511 TTTCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TATTAATTTATCTATTTTTAT
Found at i:9391525 original size:18 final size:20
Alignment explanation
Indices: 9391496--9391539 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
9391486 TTTTATTATT
9391496 TATTTATCTATT-TTT-TTTC
1 TATTT-TCTATTCTTTATTTC
9391515 TATTTTCTATTCTTTATTTC
1 TATTTTCTATTCTTTATTTC
9391535 -ATTTT
1 TATTTT
9391540 TATCTCTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 13 0.57
20 4 0.17
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTCTATTCTTTATTTC
Found at i:9391538 original size:19 final size:18
Alignment explanation
Indices: 9391491--9391539 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
9391481 ATCTTTTTTA
9391491 TTATTT-ATTTATCTATTT
1 TTATTTCATTT-TCTATTT
9391509 TT-TTTCTATTTTCTATTCT
1 TTATTTC-ATTTTCTATT-T
9391528 TTATTTCATTTT
1 TTATTTCATTTT
9391540 TATCTCTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.11
18 8 0.30
19 12 0.44
20 4 0.15
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTCATTTTCTATTT
Found at i:9393945 original size:5 final size:5
Alignment explanation
Indices: 9393924--9394056 Score: 60
Period size: 5 Copynumber: 25.8 Consensus size: 5
9393914 TAATTGATTT
* * *
9393924 TATTA TATCA TATTA T-TATA TTATTA TTATTA TATTA CAGTA TATTA
1 TATTA TATTA TATTA TAT-TA -TATTA -TATTA TATTA TATTA TATTA
* * * * **
9393971 CATTA CTACTA CTA-T- TGTTA TATTA TAGTA TATTA TACCA TATTA TTATTA
1 TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
*
9394022 TTATTA TATTA TTATTA TTATT- TATTT TATT- TATT
1 -TATTA TATTA -TATTA -TATTA TATTA TATTA TATT
9394057 TTTGTTTTTC
Statistics
Matches: 102, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
3 1 0.01
4 10 0.10
5 54 0.53
6 36 0.35
7 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:9394019 original size:3 final size:3
Alignment explanation
Indices: 9394011--9394052 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
9394001 TATTATACCA
9394011 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TATT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
9394053 TATTTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:9399819 original size:12 final size:12
Alignment explanation
Indices: 9399802--9399844 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
9399792 TGAGGTATTT
9399802 AAAAAAAGGTAA
1 AAAAAAAGGTAA
9399814 AAAAAAA-GTAA
1 AAAAAAAGGTAA
*
9399825 AAAAAAAGGGCAA
1 AAAAAAA-GGTAA
9399838 AAAAAAA
1 AAAAAAA
9399845 AAAAACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 7 0.25
13 10 0.36
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAAAAGGTAA
Done.