Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 32 of 130
Found at i:8153856 original size:3 final size:3
Alignment explanation
Indices: 8153848--8153878 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8153838 ATAAAAAATC
8153848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8153879 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8153883 original size:3 final size:3
Alignment explanation
Indices: 8153877--8153934 Score: 107
Period size: 3 Copynumber: 19.0 Consensus size: 3
8153867 ATAATAATAA
8153877 TAT TAT TAT TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8153923 TAT TAT TAT TAT
1 TAT TAT TAT TAT
8153935 CTGATTTTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8154023 original size:3 final size:3
Alignment explanation
Indices: 8154008--8154040 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8153998 TTTAGTTATG
*
8154008 TAA TAA TAC TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8154041 TCATTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8154304 original size:3 final size:3
Alignment explanation
Indices: 8154296--8154320 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8154286 TAGAAGATAA
8154296 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8154321 AAATAATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8156164 original size:18 final size:19
Alignment explanation
Indices: 8156143--8156187 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
8156133 TTAGTTACTT
8156143 TTTTTTATT-TAATAAAAA
1 TTTTTTATTGTAATAAAAA
* *
8156161 TTTTTTATTGTATTAAACA
1 TTTTTTATTGTAATAAAAA
8156180 TTTTTTAT
1 TTTTTTAT
8156188 AAATCCTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTTATTGTAATAAAAA
Found at i:8156166 original size:19 final size:20
Alignment explanation
Indices: 8156142--8156185 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
8156132 TTTAGTTACT
8156142 TTTTTTTATT-TAATAAAAA
1 TTTTTTTATTGTAATAAAAA
* *
8156161 -TTTTTTATTGTATTAAACA
1 TTTTTTTATTGTAATAAAAA
8156180 TTTTTT
1 TTTTTT
8156186 ATAAATCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTTTATTGTAATAAAAA
Found at i:8157237 original size:28 final size:27
Alignment explanation
Indices: 8157181--8157247 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
8157171 TATGTTTTGG
*
8157181 TTTTTTTTTTTTTTGATTGGAAAAGGT
1 TTTTTTTTTTTTTTGATTGGAAAAAGT
8157208 TTTTCTTTTTCTTTTTG-TT-GACAAAAGT
1 TTTT-TTTTT-TTTTTGATTGGA-AAAAGT
8157236 TTTTTTTTTTTT
1 TTTTTTTTTTTT
8157248 AATTTTTGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.08
27 11 0.31
28 16 0.44
29 6 0.17
ACGTcount: A:0.15, C:0.04, G:0.12, T:0.69
Consensus pattern (27 bp):
TTTTTTTTTTTTTTGATTGGAAAAAGT
Found at i:8158295 original size:15 final size:16
Alignment explanation
Indices: 8158275--8158306 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8158265 ACAATAAAAA
8158275 ATAATTTAA-ATATTT
1 ATAATTTAATATATTT
8158290 ATAATTTAATATATTT
1 ATAATTTAATATATTT
8158306 A
1 A
8158307 ATGTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATTTAATATATTT
Found at i:8160870 original size:2 final size:2
Alignment explanation
Indices: 8160863--8160896 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8160853 CCCTTATCTT
*
8160863 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8160897 AACTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8161565 original size:50 final size:50
Alignment explanation
Indices: 8161508--8161611 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
8161498 AATAAAATTT
* *
8161508 TAATATAAAAAATATTGAAATATTTTTTTAGTTATGTGAATAATTAAGCA
1 TAATATAAAAAACATTGAAATATTTTTTTAGTTACGTGAATAATTAAGCA
*
8161558 TAATATAAAATACATTGAAATATTTTTTTAGTTACGTGAATAATTAAGCA
1 TAATATAAAAAACATTGAAATATTTTTTTAGTTACGTGAATAATTAAGCA
8161608 TAAT
1 TAAT
8161612 TTGATAAGCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (50 bp):
TAATATAAAAAACATTGAAATATTTTTTTAGTTACGTGAATAATTAAGCA
Found at i:8163484 original size:28 final size:28
Alignment explanation
Indices: 8163449--8163515 Score: 71
Period size: 34 Copynumber: 2.2 Consensus size: 28
8163439 TAAATTTATT
*
8163449 TAATATAATTTTATTTTATAAATTATCAAAAAA
1 TAATATAATTTTA--TTA-GAA-TAT-AAAAAA
8163482 TAACTATAATTTTATTAGAATATAAAAAA
1 TAA-TATAATTTTATTAGAATATAAAAAA
8163511 TAATA
1 TAATA
8163516 AGAATACACT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 2 0.06
29 9 0.28
30 3 0.09
31 2 0.06
32 3 0.09
33 3 0.09
34 10 0.31
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
TAATATAATTTTATTAGAATATAAAAAA
Found at i:8164507 original size:13 final size:14
Alignment explanation
Indices: 8164481--8164510 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8164471 TTTGTTTTTT
8164481 TTTCTTCTATTTGA
1 TTTCTTCTATTTGA
8164495 TTTCTTC-ATTTGA
1 TTTCTTCTATTTGA
8164508 TTT
1 TTT
8164511 GCTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTCTATTTGA
Found at i:8173809 original size:21 final size:21
Alignment explanation
Indices: 8173783--8173823 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8173773 ATGAATTAGC
*
8173783 CATAAAATTTAAGAACATGAA
1 CATAAAATATAAGAACATGAA
8173804 CATAAAATATAAGAACATGA
1 CATAAAATATAAGAACATGA
8173824 TCTCTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
CATAAAATATAAGAACATGAA
Found at i:8179470 original size:15 final size:15
Alignment explanation
Indices: 8179440--8179476 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8179430 TATATCATTT
*
8179440 TGAAATT-TGGCTTG
1 TGAAATTGTGACTTG
8179454 TGAAATTGTGACTTG
1 TGAAATTGTGACTTG
8179469 TGAAATTG
1 TGAAATTG
8179477 ATATATTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (15 bp):
TGAAATTGTGACTTG
Found at i:8180033 original size:255 final size:254
Alignment explanation
Indices: 8179583--8180092 Score: 939
Period size: 255 Copynumber: 2.0 Consensus size: 254
8179573 TCCTTTTTGC
*
8179583 TATGATAAAAAAGGAGAGAGACAATTGTATGAAAAGTTTTTATTTGATTGATGATCTTGATGGTA
1 TATGATAAAAAAGGAGAGAGACAATTGTATGAAAAATTTTTATTTGATTGATGATCTTGATGGTA
8179648 TGAACAAATTCCACTTAATGATATTGGCATTGTTTTTGTTCCTAGGTTTTTTAAAATCTCTTAAA
66 TGAACAAATTCCACTTAATGATATTGGCATTGTTTTTGTTCCTAGGTTTTTTAAAATCTCTTAAA
*
8179713 TTTTTTATGCTTAAATTCAAGGGGAGCTTATTTCTTATATGAAAAAAAGTTTTTAAGCAAAATTT
131 TTTTTTATGCTTAAATTCAAGGGGAGCTTATTTCTCATATGAAAAAAAGTTTTTAAGCAAAATTT
*
8179778 TCACTAGGTTTTGTCATATAAAAAATGAGGAGATTATTGGCCTTGAATTAATTAAAAGT
196 TCACTAGATTTTGTCATATAAAAAATGAGGAGATTATTGGCCTTGAATTAATTAAAAGT
* *
8179837 TATGATAAAAAGGGATAGAGACAATTGTATGAAAAATTTTTATTTGATTGATGATCTTGATGGTA
1 TATGATAAAAAAGGAGAGAGACAATTGTATGAAAAATTTTTATTTGATTGATGATCTTGATGGTA
8179902 TGAACAAATTCCCACTTAATGATATTGGCATTGTTTTTGTTCCTAGGTTTTTTAAAATCTCTTAA
66 TGAACAAATT-CCACTTAATGATATTGGCATTGTTTTTGTTCCTAGGTTTTTTAAAATCTCTTAA
* *
8179967 ATTTTTTATGCTTAAATTCAGGGGGAGCTTATTTCTCATATGAAAAAATGTTTTTAAGCAAAATT
130 ATTTTTTATGCTTAAATTCAAGGGGAGCTTATTTCTCATATGAAAAAAAGTTTTTAAGCAAAATT
*
8180032 TTCACTAGATTTTGTCATATAAAAAATGAGGAGATTGTTGGCCTTGAATTAATTAAAAGT
195 TTCACTAGATTTTGTCATATAAAAAATGAGGAGATTATTGGCCTTGAATTAATTAAAAGT
8180092 T
1 T
8180093 TTGAATTGAC
Statistics
Matches: 247, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
254 72 0.29
255 175 0.71
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (254 bp):
TATGATAAAAAAGGAGAGAGACAATTGTATGAAAAATTTTTATTTGATTGATGATCTTGATGGTA
TGAACAAATTCCACTTAATGATATTGGCATTGTTTTTGTTCCTAGGTTTTTTAAAATCTCTTAAA
TTTTTTATGCTTAAATTCAAGGGGAGCTTATTTCTCATATGAAAAAAAGTTTTTAAGCAAAATTT
TCACTAGATTTTGTCATATAAAAAATGAGGAGATTATTGGCCTTGAATTAATTAAAAGT
Found at i:8180500 original size:21 final size:22
Alignment explanation
Indices: 8180474--8180528 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
8180464 AAATTCACAA
*
8180474 AAGGGATCGATCCCCTTA-CAT
1 AAGGGATCGATCCCCTAAGCAT
* *
8180495 AAGGGATCAATCACCTAAGCAT
1 AAGGGATCGATCCCCTAAGCAT
8180517 --GGGATCGATCCC
1 AAGGGATCGATCCC
8180529 TCCCTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.36
21 15 0.54
22 3 0.11
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (22 bp):
AAGGGATCGATCCCCTAAGCAT
Found at i:8183318 original size:5 final size:5
Alignment explanation
Indices: 8183308--8183362 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
8183298 TATTTTTTTC
* *
8183308 AAATA AAATA AAATA AAATA ATAA-A AAATA AAAGGAA AAACA AAATA
1 AAATA AAATA AAATA AAATA A-AATA AAATA AAA--TA AAATA AAATA
8183355 AAATA AAA
1 AAATA AAA
8183363 AGAAAAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
4 2 0.05
5 35 0.81
6 2 0.05
7 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:8189348 original size:33 final size:32
Alignment explanation
Indices: 8189278--8189357 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 32
8189268 AAATTTCTCG
* *
8189278 ATGGTGATATTCAAGCTTTTCAAAATTTTTTA
1 ATGGTGATATTCAAGCTTTTCAAAAGTTATTA
* * *
8189310 ATGGTGATATTTAAGTTTTCTCAAAAGTTATTG
1 ATGGTGATATTCAAGCTTT-TCAAAAGTTATTA
* *
8189343 GTGGTGATATCCAAG
1 ATGGTGATATTCAAG
8189358 TAGTCATGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 17 0.44
33 22 0.56
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (32 bp):
ATGGTGATATTCAAGCTTTTCAAAAGTTATTA
Found at i:8189893 original size:32 final size:33
Alignment explanation
Indices: 8189857--8189923 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
8189847 AACTTTTTCT
* *
8189857 ATAGTGACATTCAAGCTTT-TCGAAATTTCTCG
1 ATAGTGACATTCAAGCTTTCTCAAAATTTATCG
*
8189889 ATAGTGATATTCAAGCTTTCTCAAAATTTATCG
1 ATAGTGACATTCAAGCTTTCTCAAAATTTATCG
8189922 AT
1 AT
8189924 GTTGATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (33 bp):
ATAGTGACATTCAAGCTTTCTCAAAATTTATCG
Found at i:8189923 original size:33 final size:32
Alignment explanation
Indices: 8189857--8189933 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 32
8189847 AACTTTTTCT
* * *
8189857 ATAGTGACATTCAAGCTTTTCGAAATTTCTCG
1 ATAGTGATATTCAAGCTTTTCAAAATTTATCG
8189889 ATAGTGATATTCAAGCTTTCTCAAAATTTATCG
1 ATAGTGATATTCAAGCTTT-TCAAAATTTATCG
8189922 AT-GTTGATATTC
1 ATAG-TGATATTC
8189934 GAGATCTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (32 bp):
ATAGTGATATTCAAGCTTTTCAAAATTTATCG
Found at i:8190281 original size:31 final size:31
Alignment explanation
Indices: 8190246--8190319 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
8190236 CTTTTTGGTA
* *
8190246 GTGATATTCAAAGTCATCTCATTTTTCGATG
1 GTGATATCCAAAGTCATCTCATTTTTAGATG
*
8190277 GTGATATCCAAAGTCATCTCATTTTTAGGTG
1 GTGATATCCAAAGTCATCTCATTTTTAGATG
8190308 GTGATATCCAAA
1 GTGATATCCAAA
8190320 TTTCAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (31 bp):
GTGATATCCAAAGTCATCTCATTTTTAGATG
Found at i:8190540 original size:50 final size:49
Alignment explanation
Indices: 8190451--8190571 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 49
8190441 TCTTGATGTG
* ** *
8190451 ATCTTTAAAGTTTCAATGCTTCTGATTAGACGAGTTTTTTTCATATGAA
1 ATCTTTAAAGTTTCAATGCCTCTGATTAGACGAACTTTTTTCAGATGAA
* * * *
8190500 ATTTTTTAAAGTTTCAATGCCTCTTATTCGA-GAAACTTTTTTTAGATGAA
1 A-TCTTTAAAGTTTCAATGCCTCTGATTAGACG-AACTTTTTTCAGATGAA
*
8190550 ATCTTT-AAGTTTCAAAGCCTCT
1 ATCTTTAAAGTTTCAATGCCTCT
8190572 ATTTATGAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 15 0.25
49 6 0.10
50 39 0.65
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (49 bp):
ATCTTTAAAGTTTCAATGCCTCTGATTAGACGAACTTTTTTCAGATGAA
Found at i:8193251 original size:4 final size:4
Alignment explanation
Indices: 8193231--8193278 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
8193221 ATAAAATTTT
*
8193231 TAAA -AAA T-AA T-AA TAAA TAAA T-AG TAAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA TAAA
8193276 TAA
1 TAA
8193279 TGAAGGAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 11 0.29
4 25 0.66
5 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:8193258 original size:24 final size:23
Alignment explanation
Indices: 8193191--8193277 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 23
8193181 ACTTACTTTT
8193191 TAATAAA-AAATATATAAAAATAA
1 TAATAAATAAATATA-AAAAATAA
*
8193214 TAATAAAATAAAATTTTTAAAAAATAA
1 TAAT-AAAT-AAA--TATAAAAAATAA
*
8193241 TAATAAATAAATAGTAAAATA-AA
1 TAATAAATAAATA-TAAAAAATAA
8193264 TAAATAAATAAATA
1 T-AATAAATAAATA
8193278 ATGAAGGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
23 8 0.15
24 21 0.39
25 3 0.06
26 7 0.13
27 12 0.22
28 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (23 bp):
TAATAAATAAATATAAAAAATAA
Found at i:8193277 original size:38 final size:36
Alignment explanation
Indices: 8193192--8193279 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
8193182 CTTACTTTTT
*
8193192 AATAAAAAATATATAAAAATAATAATAAAATAAAATT
1 AATAAAAAATA-ATAAAAATAATAATAAAATAAAATA
** *
8193229 TTTAAAAAATAATAATAAATAAATAGTAAAAT-AAATA
1 AATAAAAAATAATAA-AAAT-AATAATAAAATAAAATA
8193266 AATAAATAAATAAT
1 AATAAA-AAATAAT
8193280 GAAGGAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
36 4 0.10
37 21 0.50
38 17 0.40
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (36 bp):
AATAAAAAATAATAAAAATAATAATAAAATAAAATA
Found at i:8193441 original size:19 final size:18
Alignment explanation
Indices: 8193400--8193442 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8193390 GAGTATTTAT
*
8193400 AAAAAATTTTCAATACAA
1 AAAAAATTTTCAATAAAA
* *
8193418 TAAAAATTTTCATTTAAAA
1 AAAAAATTTTCA-ATAAAA
8193437 AAAAAA
1 AAAAAA
8193443 GCAAAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATTTTCAATAAAA
Found at i:8193713 original size:20 final size:20
Alignment explanation
Indices: 8193688--8193743 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8193678 TTATTTTTCT
* *
8193688 AAAATAAAATAAAACAATGA
1 AAAATAAAAGAAAAAAATGA
*
8193708 AAAATAAAAGAAAAAAATTA
1 AAAATAAAAGAAAAAAATGA
8193728 AAAA-AAAAGGAAAAAA
1 AAAATAAAA-GAAAAAA
8193744 CCAAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAATAAAAGAAAAAAATGA
Found at i:8200066 original size:46 final size:42
Alignment explanation
Indices: 8199991--8200074 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 42
8199981 GAGAAAAGAA
*
8199991 AGTAAATGCAAGAAAAAAAAATGTAAAAACTAGCTAAATGCT
1 AGTAAATGCAAGAAAAAAAAATGTAAAAACTAGATAAATGCT
8200033 AGTAAATGCAAGGAAAAGAAAAAAATGTAAAAACTAGATAAA
1 AGTAAATGCAA-G--AA-AAAAAAATGTAAAAACTAGATAAA
8200075 GTTTCTTCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 11 0.30
43 1 0.03
45 2 0.05
46 23 0.62
ACGTcount: A:0.61, C:0.07, G:0.15, T:0.17
Consensus pattern (42 bp):
AGTAAATGCAAGAAAAAAAAATGTAAAAACTAGATAAATGCT
Found at i:8202859 original size:14 final size:15
Alignment explanation
Indices: 8202840--8202868 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8202830 TGATTTATTC
8202840 TATTAT-TTTTCTTT
1 TATTATCTTTTCTTT
8202854 TATTATCTTTTCTTT
1 TATTATCTTTTCTTT
8202869 GTTTGTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTATCTTTTCTTT
Found at i:8202937 original size:13 final size:13
Alignment explanation
Indices: 8202919--8202943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8202909 AAAAATAATA
8202919 AAAAATCAAAAGG
1 AAAAATCAAAAGG
8202932 AAAAATCAAAAG
1 AAAAATCAAAAG
8202944 ATTGGCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAATCAAAAGG
Found at i:8204278 original size:18 final size:17
Alignment explanation
Indices: 8204253--8204286 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
8204243 TTTGTATAGA
8204253 TTTTTTTATTTATTTTG
1 TTTTTTTATTTATTTTG
8204270 TTTTATTTATTTATTTT
1 TTTT-TTTATTTATTTT
8204287 TTAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTTATTTTG
Found at i:8204287 original size:14 final size:13
Alignment explanation
Indices: 8204253--8204287 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
8204243 TTTGTATAGA
8204253 TTTTTTTATTTAT
1 TTTTTTTATTTAT
8204266 TTTGTTTTATTTAT
1 TTT-TTTTATTTAT
8204280 TTATTTTT
1 TT-TTTTT
8204288 TAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTTTATTTAT
Found at i:8214748 original size:28 final size:28
Alignment explanation
Indices: 8214710--8214772 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
8214700 TGTTGTATGT
*
8214710 TGTATTCTAATCCAGCATCACTAACTTA
1 TGTATTCTAATCCAGCATCACTAACCTA
8214738 TGTATTCTAATCCAGCATCACTAACCTA
1 TGTATTCTAATCCAGCATCACTAACCTA
8214766 TGTATTC
1 TGTATTC
8214773 ATCTGCTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (28 bp):
TGTATTCTAATCCAGCATCACTAACCTA
Found at i:8218446 original size:23 final size:23
Alignment explanation
Indices: 8218416--8218461 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8218406 CAATTATGGG
*
8218416 TGCATTCATTACATCTCA-TGCAA
1 TGCATTCATGACAT-TCATTGCAA
8218439 TGCATTCATGACATTCATTGCAA
1 TGCATTCATGACATTCATTGCAA
8218462 ATAAGAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (23 bp):
TGCATTCATGACATTCATTGCAA
Found at i:8218853 original size:27 final size:27
Alignment explanation
Indices: 8218812--8218866 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8218802 ATTTTTTAAC
*
8218812 TCGTGGTTCAATTCGATCATCTTCATT
1 TCGTGGTTCAATTCGATCATCCTCATT
* *
8218839 TCGTGGTTCAGTTCGATTATCCTCATT
1 TCGTGGTTCAATTCGATCATCCTCATT
8218866 T
1 T
8218867 TTTACCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.45
Consensus pattern (27 bp):
TCGTGGTTCAATTCGATCATCCTCATT
Found at i:8219146 original size:31 final size:32
Alignment explanation
Indices: 8219073--8219182 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 32
8219063 GACTCAATCC
* * *
8219073 AATCATTTTCAT-TGTCAACATTGGTTTAGTCT
1 AATCACTTTCATCT-TCAACCTTAGTTTAGTCT
* * * **
8219105 GATTATTTTCAT-TTTTACCTTAGTTTAGTCT
1 AATCACTTTCATCTTCAACCTTAGTTTAGTCT
* * *
8219136 AATCACTTTCATCTTCAACCTTGGTTCAGTCC
1 AATCACTTTCATCTTCAACCTTAGTTTAGTCT
*
8219168 AATCACTTTTATCTT
1 AATCACTTTCATCTT
8219183 TAACTTTGGC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 23 0.37
32 39 0.63
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (32 bp):
AATCACTTTCATCTTCAACCTTAGTTTAGTCT
Found at i:8219172 original size:32 final size:32
Alignment explanation
Indices: 8219121--8219200 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
8219111 TTTCATTTTT
* * *
8219121 ACCTTAGTTTAGTCTAATCACTTTCATCTTCA
1 ACCTTGGTTCAGTCCAATCACTTTCATCTTCA
* *
8219153 ACCTTGGTTCAGTCCAATCACTTTTATCTTTA
1 ACCTTGGTTCAGTCCAATCACTTTCATCTTCA
* * *
8219185 ACTTTGGCTCAATCCA
1 ACCTTGGTTCAGTCCA
8219201 GTTACCTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (32 bp):
ACCTTGGTTCAGTCCAATCACTTTCATCTTCA
Found at i:8224550 original size:17 final size:17
Alignment explanation
Indices: 8224524--8224557 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8224514 AAAACATTTT
*
8224524 TCCCTTTGAAAATAAGC
1 TCCCTCTGAAAATAAGC
*
8224541 TCCCTCTGAATATAAGC
1 TCCCTCTGAAAATAAGC
8224558 CCAATTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (17 bp):
TCCCTCTGAAAATAAGC
Found at i:8233669 original size:18 final size:19
Alignment explanation
Indices: 8233629--8233669 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8233619 GAGTTTTTTA
*
8233629 ATCT-TTGTTAATGTATAT
1 ATCTATTGTTAATCTATAT
*
8233647 CTCTATTGTTAA-CTATAT
1 ATCTATTGTTAATCTATAT
8233665 ATCTA
1 ATCTA
8233670 ACAAGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
ATCTATTGTTAATCTATAT
Found at i:8250271 original size:37 final size:37
Alignment explanation
Indices: 8250221--8250294 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
8250211 TTTGGAAGGA
8250221 GAAAGTTTCTTCTTGTGTTCCTTTATGGACGTAGTGT
1 GAAAGTTTCTTCTTGTGTTCCTTTATGGACGTAGTGT
8250258 GAAAGTTTCTTCTTGTGTTCCTTTATGGACGTAGTGT
1 GAAAGTTTCTTCTTGTGTTCCTTTATGGACGTAGTGT
8250295 TATCTGCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.46
Consensus pattern (37 bp):
GAAAGTTTCTTCTTGTGTTCCTTTATGGACGTAGTGT
Found at i:8253199 original size:26 final size:26
Alignment explanation
Indices: 8253163--8253231 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
8253153 TATTTACAAA
*
8253163 TACCCCTGCTACCTAATAGTATAATC
1 TACCCCTGCTATCTAATAGTATAATC
*
8253189 TACCCCTGCTATCTAACAGTATAATC
1 TACCCCTGCTATCTAATAGTATAATC
*
8253215 TACCCTTGCTATCTAAT
1 TACCCCTGCTATCTAAT
8253232 CAAACAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (26 bp):
TACCCCTGCTATCTAATAGTATAATC
Found at i:8255262 original size:7 final size:7
Alignment explanation
Indices: 8255250--8255283 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
8255240 ATGGGTTTGG
8255250 TTGCTAC
1 TTGCTAC
8255257 TTGCTAC
1 TTGCTAC
8255264 TTGCTAC
1 TTGCTAC
8255271 TTGCTAC
1 TTGCTAC
*
8255278 ATGCTA
1 TTGCTA
8255284 AGTAGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (7 bp):
TTGCTAC
Found at i:8260291 original size:12 final size:12
Alignment explanation
Indices: 8260274--8260316 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
8260264 TGCTATGACA
8260274 TTTTCCTTTTTC
1 TTTTCCTTTTTC
*
8260286 TTTTCCTTTTCC
1 TTTTCCTTTTTC
8260298 TTTCTCTTCTTTTTC
1 TTT-TC--CTTTTTC
8260313 TTTT
1 TTTT
8260317 TCCTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 14 0.54
13 2 0.08
14 1 0.04
15 9 0.35
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCCTTTTTC
Found at i:8268115 original size:22 final size:22
Alignment explanation
Indices: 8268090--8268135 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8268080 TATATATTTA
* *
8268090 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
8268112 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
8268134 TA
1 TA
8268136 CAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:8268414 original size:25 final size:25
Alignment explanation
Indices: 8268380--8268447 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
8268370 TGACTTCTAT
* *
8268380 TTTAGGCCTTCATTGCCGAACCCTG
1 TTTAGGCCTTCATTGCCAAACCCTA
*
8268405 TTTAGGCCTTCATTGTCAAACCCTA
1 TTTAGGCCTTCATTGCCAAACCCTA
* *
8268430 TTAAGGCCTTCATAGCCA
1 TTTAGGCCTTCATTGCCA
8268448 TTCTATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (25 bp):
TTTAGGCCTTCATTGCCAAACCCTA
Found at i:8272171 original size:22 final size:22
Alignment explanation
Indices: 8272145--8272188 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8272135 TGTATATTTA
* *
8272145 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
8272167 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
8272189 GATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:8294291 original size:2 final size:2
Alignment explanation
Indices: 8294284--8294311 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8294274 TAAGTATGAT
8294284 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8294312 TAGAGCCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8295188 original size:67 final size:67
Alignment explanation
Indices: 8295079--8295215 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
8295069 AACATGCAGC
* * *
8295079 ATAAATTAGTGTGACATTTTTTTCTCCATAGAGTGCATACTCAGAGCAGTTTAAAGAACCTAACC
1 ATAAACTAGTGTGACATTTTTGTCTCCATAGAGTGCAGACTCAGAGCAGTTTAAAGAACCTAACC
8295144 TT
66 TT
8295146 ATAAACTAGTGTGACATTTTTGTCTCCATAGAGTGCAGACTCAGAGCAGTTTAAAGAACCTAACC
1 ATAAACTAGTGTGACATTTTTGTCTCCATAGAGTGCAGACTCAGAGCAGTTTAAAGAACCTAACC
8295211 TT
66 TT
8295213 ATA
1 ATA
8295216 CTTTGAGCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (67 bp):
ATAAACTAGTGTGACATTTTTGTCTCCATAGAGTGCAGACTCAGAGCAGTTTAAAGAACCTAACC
TT
Found at i:8299523 original size:22 final size:22
Alignment explanation
Indices: 8299497--8299538 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8299487 TGTATATTTA
* *
8299497 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
8299519 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
8299539 GGATAAACAA
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:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:8299795 original size:3 final size:3
Alignment explanation
Indices: 8299787--8299853 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
8299777 ATTTCACATT
8299787 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8299835 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
8299854 CTGAAAATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8306174 original size:2 final size:2
Alignment explanation
Indices: 8306162--8306196 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8306152 CATCAAAATC
* *
8306162 TA TA AA TA TA TA TA TA GA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8306197 TTTTATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8307539 original size:13 final size:14
Alignment explanation
Indices: 8307511--8307543 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8307501 GAATGTATGG
*
8307511 ATATAGTATGATAT
1 ATATAGTATAATAT
8307525 ATATA-TATAATAT
1 ATATAGTATAATAT
8307538 ATATAG
1 ATATAG
8307544 ATCTAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (14 bp):
ATATAGTATAATAT
Found at i:8315717 original size:12 final size:12
Alignment explanation
Indices: 8315700--8315734 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
8315690 CATAAAACCC
8315700 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8315712 TTTTCTTTTTTT
1 TTTTCTTTTTTT
8315724 TCTTT-TTTTTT
1 T-TTTCTTTTTT
8315735 ACTATATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:8315720 original size:9 final size:9
Alignment explanation
Indices: 8315699--8315733 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
8315689 TCATAAAACC
*
8315699 CTTTTCTTT
1 CTTTTTTTT
8315708 -TTTTTTTT
1 CTTTTTTTT
8315716 CTTTTTTTT
1 CTTTTTTTT
8315725 CTTTTTTTT
1 CTTTTTTTT
8315734 TACTATATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:8317055 original size:2 final size:2
Alignment explanation
Indices: 8317048--8317072 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8317038 ACTTTTATTT
8317048 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8317073 TTCACCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8318387 original size:24 final size:24
Alignment explanation
Indices: 8318338--8318388 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8318328 GTTAAAAATG
* **
8318338 ATTAAATAAAAATTAATTTTTGAA
1 ATTAAATAAAAAGTAATTTTAAAA
8318362 ATTAAATAAAAAGT-ATTATTAAAA
1 ATTAAATAAAAAGTAATT-TTAAAA
8318386 ATT
1 ATT
8318389 CATAGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
ATTAAATAAAAAGTAATTTTAAAA
Found at i:8318482 original size:13 final size:13
Alignment explanation
Indices: 8318455--8318501 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
8318445 AAATTTTGAT
8318455 ATATTTTTATATAA
1 ATATTTTTAT-TAA
8318469 ATATTTTTATTAA
1 ATATTTTTATTAA
* *
8318482 AAATTTTGA-TAA
1 ATATTTTTATTAA
8318494 A-ATTTTTA
1 ATATTTTTA
8318502 CTGTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 6 0.20
12 4 0.13
13 10 0.33
14 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTTTTATTAA
Found at i:8320797 original size:18 final size:19
Alignment explanation
Indices: 8320772--8320822 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
8320762 TGTGGCCGTG
*
8320772 GCAA-CTGCTGCTGCTGCA
1 GCAAGCTGCTGCTGCAGCA
*
8320790 G-AAGCTGCTGTTGCAGCA
1 GCAAGCTGCTGCTGCAGCA
8320808 GCTCAAGCTGCTGCT
1 G--CAAGCTGCTGCT
8320823 AAAGTTGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 2 0.08
18 14 0.54
21 10 0.38
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (19 bp):
GCAAGCTGCTGCTGCAGCA
Found at i:8323185 original size:17 final size:17
Alignment explanation
Indices: 8323162--8323196 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8323152 GTGATTTTGT
*
8323162 TTTTTTTTTCTATTATTA
1 TTTTTTTGTCT-TTATTA
8323180 TTTTTTTGTCTTTATTA
1 TTTTTTTGTCTTTATTA
8323197 CCTGAGTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTTGTCTTTATTA
Found at i:8339401 original size:13 final size:12
Alignment explanation
Indices: 8339359--8339403 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 12
8339349 AAATCATATT
8339359 TTATATATAAAA
1 TTATATATAAAA
*
8339371 TTATA-ATAAGA
1 TTATATATAAAA
8339382 -TA-ATATAAAA
1 TTATATATAAAA
8339392 TTATATTATAAA
1 TTATA-TATAAA
8339404 TAGAATTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
9 1 0.04
10 7 0.26
11 7 0.26
12 6 0.22
13 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TTATATATAAAA
Found at i:8340317 original size:2 final size:2
Alignment explanation
Indices: 8340310--8340335 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8340300 ATCTAATCTA
8340310 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8340336 TACATTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8340483 original size:26 final size:26
Alignment explanation
Indices: 8340453--8340503 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
8340443 CAAATAAATT
*
8340453 TTTTTAATAAATTATTTAAATTGAATA
1 TTTTGAAT-AATTATTTAAATTGAATA
*
8340480 TTTTGGATAATTATTTAAATTGAA
1 TTTTGAATAATTATTTAAATTGAA
8340504 ATCAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTGAATAATTATTTAAATTGAATA
Found at i:8341859 original size:18 final size:20
Alignment explanation
Indices: 8341836--8341875 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8341826 AAGTTAGTAT
8341836 AAATATA-T-ATTTTTCAAA
1 AAATATATTAATTTTTCAAA
*
8341854 AAATATATTAATTTTTGAAA
1 AAATATATTAATTTTTCAAA
8341874 AA
1 AA
8341876 TACATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATATATTAATTTTTCAAA
Found at i:8341973 original size:76 final size:75
Alignment explanation
Indices: 8341872--8342012 Score: 180
Period size: 76 Copynumber: 1.9 Consensus size: 75
8341862 TAATTTTTGA
* * * *
8341872 AAAATACATTTCTAAATAATCTAAATATATTTCTTTTTCAAT-TGAAAT-TTTCAAATATAATGA
1 AAAATAAATTTCTAAATAATATAAATATA--TCTTTTTAAATCT-AAATATCTCAAATATAATGA
8341935 TATATTATCTTTT
63 TATATTATCTTTT
*
8341948 AAAATAAATTTTCT-AATAATATAAATATATCTTTTTAAATCTAAATATCTCAAATATAGTGATA
1 AAAATAAA-TTTCTAAATAATATAAATATATCTTTTTAAATCTAAATATCTCAAATATAATGATA
8342012 T
65 T
8342013 TATAAAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
74 14 0.25
75 17 0.30
76 21 0.37
77 5 0.09
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (75 bp):
AAAATAAATTTCTAAATAATATAAATATATCTTTTTAAATCTAAATATCTCAAATATAATGATAT
ATTATCTTTT
Found at i:8341976 original size:38 final size:38
Alignment explanation
Indices: 8341854--8341977 Score: 98
Period size: 38 Copynumber: 3.2 Consensus size: 38
8341844 ATTTTTCAAA
* *
8341854 AAATATATTAAT-TTTTGAAAAATACA-TTTCTAAATAATCT
1 AAATATATT-ATCTTTT--AAAATAAATTTTCT-AATAATAT
* *
8341894 AAATATATT-TCTTTTTCAATTGAAATTTTC--A-AATAT
1 AAATATATTATC-TTTTAAAAT-AAATTTTCTAATAATAT
8341930 AATGATATATTATCTTTTAAAATAAATTTTCTAATAATAT
1 AA--ATATATTATCTTTTAAAATAAATTTTCTAATAATAT
8341970 AAATATAT
1 AAATATAT
8341978 CTTTTTAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
36 6 0.09
37 9 0.13
38 24 0.35
39 5 0.07
40 24 0.35
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (38 bp):
AAATATATTATCTTTTAAAATAAATTTTCTAATAATAT
Found at i:8341993 original size:37 final size:36
Alignment explanation
Indices: 8341880--8341993 Score: 97
Period size: 37 Copynumber: 3.0 Consensus size: 36
8341870 GAAAAATACA
* *
8341880 TTTCTAAATAATCTAAATATATTTCTTTTTCAATTGAAAT
1 TTTCT-AATAATATAAATATA--TCTTTTTAAATT-AAAT
* * *
8341920 TTTCAAAT-ATAATGATATATTATC-TTTTAAAATAAAT
1 TTTCTAATAAT-AT-AAATA-TATCTTTTTAAATTAAAT
8341957 TTTCTAATAATATAAATATATCTTTTTAAATCTAAAT
1 TTTCTAATAATATAAATATATCTTTTTAAAT-TAAAT
8341994 ATCTCAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
35 4 0.07
36 11 0.18
37 18 0.30
38 11 0.18
39 6 0.10
40 8 0.13
41 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (36 bp):
TTTCTAATAATATAAATATATCTTTTTAAATTAAAT
Found at i:8344001 original size:13 final size:14
Alignment explanation
Indices: 8343962--8344002 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
8343952 TGTTTCGTAT
*
8343962 AAAATAATTTTTGA
1 AAAATAATTTTTAA
8343976 AAAATAATTTTTAA
1 AAAATAATTTTTAA
8343990 AAAAT-ATTTTTAA
1 AAAATAATTTTTAA
8344003 TTTTTGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:8344189 original size:31 final size:31
Alignment explanation
Indices: 8344149--8344250 Score: 100
Period size: 35 Copynumber: 3.1 Consensus size: 31
8344139 ATAAAATTAT
*
8344149 TATTCTTTATATTATTTATTAATATATATAA
1 TATTATTTATATTATTTATTAATATATATAA
8344180 TATTATTTATTAATATATTGTATTAATAGTATATAA
1 TATTATTTA-T-AT-TATT-TATTAATA-TATATAA
* *
8344216 T-TTGTTAATATATTATTTATTAATATA-ATAT
1 TATTATT--TATATTATTTATTAATATATATAA
8344247 TATT
1 TATT
8344251 TATAAATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
31 12 0.20
32 5 0.08
33 10 0.17
34 8 0.13
35 14 0.23
36 9 0.15
37 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
TATTATTTATATTATTTATTAATATATATAA
Found at i:8344195 original size:13 final size:12
Alignment explanation
Indices: 8344161--8344207 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
8344151 TTCTTTATAT
8344161 TATTTATTAATA
1 TATTTATTAATA
8344173 TA--TA-TAATA
1 TATTTATTAATA
8344182 TTATTTATTAATA
1 -TATTTATTAATA
8344195 TATTGTATTAATA
1 TATT-TATTAATA
8344208 GTATATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
12 8 0.27
13 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATTTATTAATA
Found at i:8344195 original size:18 final size:17
Alignment explanation
Indices: 8344156--8344258 Score: 88
Period size: 18 Copynumber: 6.0 Consensus size: 17
8344146 TATTATTCTT
8344156 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
8344173 TATATAATATTATTTAT-
1 TATATTAT-TTATTAATA
8344190 TA-ATATATTGTATTAATA
1 TATAT-TATT-TATTAATA
* *
8344208 GTATATAATTTGTT-A-A
1 -TATATTATTTATTAATA
8344224 TATATTATTTATTAATA
1 TATATTATTTATTAATA
*
8344241 TAATATTATTTATAAATA
1 T-ATATTATTTATTAATA
8344259 AAATTATACT
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
15 11 0.16
16 5 0.07
17 20 0.29
18 25 0.37
19 5 0.07
20 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:8346489 original size:16 final size:18
Alignment explanation
Indices: 8346468--8346504 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8346458 ATTATCCTTT
8346468 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTGATATAA
*
8346484 TTTAAATTATTGATATAA
1 TTTAAAGTATTGATATAA
8346502 TTT
1 TTT
8346505 TTAACGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTGATATAA
Found at i:8348661 original size:125 final size:125
Alignment explanation
Indices: 8348438--8348685 Score: 397
Period size: 125 Copynumber: 2.0 Consensus size: 125
8348428 AATGATTGTC
* * * *
8348438 ATTGTTTTATTCATAATATTATGGCAAAATAAGAAATGTGCAATGCTAAGTATTAATTAGTACAT
1 ATTGTTTGATTCATAACATTATGACAAAATAAGAAATGTGCAATGCTAAGCATTAATTAGTACAT
*
8348503 ATGTCTTTCAAATGTAAAATTATACTTTGAAATGGCTTATACTTTTAAGAACATTGTTTT
66 ATGTCTCTCAAATGTAAAATTATACTTTGAAATGGCTTATACTTTTAAGAACATTGTTTT
* * *
8348563 ATTGTTTGATTCATAACATTGTGACAAAATAAGAAGTGTGCAATGCTAAGCATTAATTAGTGCAT
1 ATTGTTTGATTCATAACATTATGACAAAATAAGAAATGTGCAATGCTAAGCATTAATTAGTACAT
* * *
8348628 ATGTCTCTCAAATGTAAGATTATACTTTTAAATGGCTTCTACTTTTAAGAACATTGTT
66 ATGTCTCTCAAATGTAAAATTATACTTTGAAATGGCTTATACTTTTAAGAACATTGTT
8348686 GCTAAGTTAA
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (125 bp):
ATTGTTTGATTCATAACATTATGACAAAATAAGAAATGTGCAATGCTAAGCATTAATTAGTACAT
ATGTCTCTCAAATGTAAAATTATACTTTGAAATGGCTTATACTTTTAAGAACATTGTTTT
Found at i:8351916 original size:21 final size:21
Alignment explanation
Indices: 8351878--8351917 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8351868 TTGATATATA
* *
8351878 TATTTTATTTCTTTTATTTAT
1 TATTTTATTTATTATATTTAT
*
8351899 TATTTTCTTTATTATATTT
1 TATTTTATTTATTATATTT
8351918 CCTTCAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTTTATTTATTATATTTAT
Found at i:8354153 original size:14 final size:13
Alignment explanation
Indices: 8354131--8354211 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
8354121 TCAATACAAT
8354131 AAAAT-AAATAATA
1 AAAATGAAATAA-A
8354144 AAAATGAAATAAA
1 AAAATGAAATAAA
* * *
8354157 AAACTTTAAAT-AT
1 AAA-ATGAAATAAA
8354170 AAAATG--ATAAA
1 AAAATGAAATAAA
*
8354181 AAAATAAAATAAAAA
1 AAAATGAAAT--AAA
8354196 AAAATGAAA-AAA
1 AAAATGAAATAAA
8354208 AAAA
1 AAAA
8354212 CTTATGATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 8 0.15
13 15 0.28
14 11 0.21
15 11 0.21
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (13 bp):
AAAATGAAATAAA
Found at i:8354187 original size:16 final size:15
Alignment explanation
Indices: 8354168--8354211 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8354158 AACTTTAAAT
*
8354168 ATAAAATGATAAAAAA
1 ATAAAAT-AAAAAAAA
8354184 ATAAAATAAAAAAAA
1 ATAAAATAAAAAAAA
8354199 ATGAAAA-AAAAAA
1 AT-AAAATAAAAAA
8354212 CTTATGATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (15 bp):
ATAAAATAAAAAAAA
Found at i:8354709 original size:51 final size:50
Alignment explanation
Indices: 8354649--8354798 Score: 174
Period size: 51 Copynumber: 2.9 Consensus size: 50
8354639 TATTTGAATT
* * * * *
8354649 TCATTTTAATGAGAATTTATTTTGAAATTAAATCCCAAAAATCTCTCCCTA
1 TCATTTTAATGTGAATTGATTCT-AAATTAAATCCTAAAAATCTCTCCATA
* * *
8354700 TCATTTTAATGTGAATTGATTCTAGAATTAAATCTTGACAATCTCTCCATA
1 TCATTTTAATGTGAATTGATTCTA-AATTAAATCCTAAAAATCTCTCCATA
* *
8354751 TCATTTTTAATGTCAATTGATTCTAAAATTAAATCCTAAAAATATCTC
1 TCA-TTTTAATGTGAATTGATTCT-AAATTAAATCCTAAAAATCTCTC
8354799 AATTACGGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
50 1 0.01
51 44 0.53
52 37 0.45
53 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.41
Consensus pattern (50 bp):
TCATTTTAATGTGAATTGATTCTAAATTAAATCCTAAAAATCTCTCCATA
Found at i:8354781 original size:52 final size:51
Alignment explanation
Indices: 8354688--8354785 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
8354678 AAATCCCAAA
* * *
8354688 AATCTCTCCCTATCATTTTAATGTGAATTGATTCTAGAATTAAATCTTGAC
1 AATCTCTCCATATCATTTTAATGTCAATTGATTCTAAAATTAAATCTTGAC
8354739 AATCTCTCCATATCATTTTTAATGTCAATTGATTCTAAAATTAAATC
1 AATCTCTCCATATCA-TTTTAATGTCAATTGATTCTAAAATTAAATC
8354786 CTAAAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 14 0.33
52 29 0.67
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (51 bp):
AATCTCTCCATATCATTTTAATGTCAATTGATTCTAAAATTAAATCTTGAC
Found at i:8355519 original size:69 final size:69
Alignment explanation
Indices: 8355330--8355543 Score: 284
Period size: 69 Copynumber: 3.1 Consensus size: 69
8355320 TTAGATTCAT
* * **
8355330 AAAAGTTTCAGGTTCGCAAGGACTTTCAGATTCACAAGAATGAAATATTCACAAGATTTTAAGTT
1 AAAAGTTTCAGGTTCGCAAGGACTTTCAGATTCGCAAGAATGAAAGATTCGTAAGATTTTAAGTT
*
8355395 TCGT
66 TCGC
* * * *
8355399 AAAGGTTTCAAGTTCGTAAGGACTTTCAGATTTGCAAGAATGAAAGATTCGTAAGATTTTAAGTT
1 AAAAGTTTCAGGTTCGCAAGGACTTTCAGATTCGCAAGAATGAAAGATTCGTAAGATTTTAAGTT
*
8355464 TGGC
66 TCGC
* * * **
8355468 AAAAGTTTCAGGTTCACAAGGACTTTCAAATTCGCAAGAATGAAAGGTTCGTAAGATTCAAAGTT
1 AAAAGTTTCAGGTTCGCAAGGACTTTCAGATTCGCAAGAATGAAAGATTCGTAAGATTTTAAGTT
*
8355533 TCAC
66 TCGC
8355537 AAAAGTT
1 AAAAGTT
8355544 CTAGATTCGT
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 124 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (69 bp):
AAAAGTTTCAGGTTCGCAAGGACTTTCAGATTCGCAAGAATGAAAGATTCGTAAGATTTTAAGTT
TCGC
Found at i:8355618 original size:86 final size:86
Alignment explanation
Indices: 8355468--8355649 Score: 256
Period size: 86 Copynumber: 2.1 Consensus size: 86
8355458 TAAGTTTGGC
* * * *
8355468 AAAAGTTTCAGGTTCACAAGGACTTTCAAATTCGCAAGAATGAAAGGTTCGTAAGATTCAAAGTT
1 AAAAGTTTCAAGTTCACAAGGACTTTCAAATTCACAAGAATGAAAGATTCGCAAGATTCAAAGTT
8355533 TCACAAAAGTTCTAGATTCGT
66 TCACAAAAGTTCTAGATTCGT
** **
8355554 AAAAGTTTCAAGTTCGTAAGGACTTTCAAATTCACAAGAATGAAAGATTCGCAAGATTTTAAGTT
1 AAAAGTTTCAAGTTCACAAGGACTTTCAAATTCACAAGAATGAAAGATTCGCAAGATTCAAAGTT
* * *
8355619 TCATAAAGGTTCTAGATTTGT
66 TCACAAAAGTTCTAGATTCGT
*
8355640 AAAGGTTTCA
1 AAAAGTTTCA
8355650 TAATAATTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (86 bp):
AAAAGTTTCAAGTTCACAAGGACTTTCAAATTCACAAGAATGAAAGATTCGCAAGATTCAAAGTT
TCACAAAAGTTCTAGATTCGT
Found at i:8356853 original size:23 final size:22
Alignment explanation
Indices: 8356832--8356897 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 22
8356822 CCTCATTTTT
8356832 CTTTTTCATTTCATTTTTTTTTCA
1 CTTTTT-ATTTC-TTTTTTTTTCA
* *
8356856 CTTTTTGTTTCTTTTTTTTTGCC
1 CTTTTTATTTCTTTTTTTTT-CA
8356879 CTTTTT-TGTTGCTTTTTTT
1 CTTTTTAT-TT-CTTTTTTT
8356898 ACCTTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 10 0.27
23 13 0.35
24 14 0.38
ACGTcount: A:0.05, C:0.15, G:0.06, T:0.74
Consensus pattern (22 bp):
CTTTTTATTTCTTTTTTTTTCA
Found at i:8356885 original size:24 final size:22
Alignment explanation
Indices: 8356840--8356897 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
8356830 TTCTTTTTCA
8356840 TTTCATTTTTTTTTCACTTTTTG
1 TTTC-TTTTTTTTTCACTTTTTG
*
8356863 TTTCTTTTTTTTTGCCCTTTTTTG
1 TTTCTTTTTTTTT-CAC-TTTTTG
*
8356887 TTGCTTTTTTT
1 TTTCTTTTTTT
8356898 ACCTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 9 0.29
23 6 0.19
24 16 0.52
ACGTcount: A:0.03, C:0.14, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTCTTTTTTTTTCACTTTTTG
Found at i:8360682 original size:14 final size:13
Alignment explanation
Indices: 8360656--8360701 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
8360646 AAAAGCTTAC
*
8360656 AAAAAAATCAATA
1 AAAAAAATAAATA
8360669 AAATAAAATAAATA
1 AAA-AAAATAAATA
*
8360683 ATAAAAATGAAATA
1 AAAAAAAT-AAATA
8360697 AAAAA
1 AAAAA
8360702 CTTAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 8 0.29
14 20 0.71
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:8360708 original size:32 final size:31
Alignment explanation
Indices: 8360672--8360765 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
8360662 ATCAATAAAA
8360672 TAAAATAAATAATAAAAATGAAATAAAAAACT
1 TAAAATAAA-AATAAAAATGAAATAAAAAACT
8360704 TAAAATATAAAATGATAAAA--AAATCAAAAAA-T
1 TAAAATA-AAAAT-A-AAAATGAAAT-AAAAAACT
* *
8360736 TAAAATTAAAATAAAAATGAAAAAAAAAAC
1 TAAAATAAAAATAAAAATGAAATAAAAAAC
8360766 CTGTAATCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
29 4 0.08
30 7 0.13
31 8 0.15
32 21 0.40
33 9 0.17
34 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (31 bp):
TAAAATAAAAATAAAAATGAAATAAAAAACT
Found at i:8360734 original size:26 final size:26
Alignment explanation
Indices: 8360668--8360760 Score: 77
Period size: 26 Copynumber: 3.7 Consensus size: 26
8360658 AAAAATCAAT
* *
8360668 AAAAT-AAAAT-AAATAATAAAAATG
1 AAAATAAAAATCAAAAAATTAAAATG
* **
8360692 -AAATAAAAAACTTAAAATATAAAATG
1 AAAATAAAAATCAAAAAAT-TAAAATG
* *
8360718 ATAA-AAAAATCAAAAAATTAAAATT
1 AAAATAAAAATCAAAAAATTAAAATG
*
8360743 AAAATAAAAATGAAAAAA
1 AAAATAAAAATCAAAAAA
8360761 AAAACCTGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 13 0.25
26 29 0.56
27 2 0.04
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAATAAAAATCAAAAAATTAAAATG
Found at i:8360764 original size:18 final size:18
Alignment explanation
Indices: 8360705--8360764 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
8360695 TAAAAAACTT
*
8360705 AAAATATAAAATG-ATAAA
1 AAAATA-AAAATGAAAAAA
* **
8360723 AAAATCAAAAAATTAAAATT
1 AAAAT--AAAAATGAAAAAA
8360743 AAAATAAAAATGAAAAAA
1 AAAATAAAAATGAAAAAA
8360761 AAAA
1 AAAA
8360765 CCTGTAATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 19 0.59
19 5 0.16
20 8 0.25
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAATAAAAATGAAAAAA
Found at i:8361320 original size:51 final size:51
Alignment explanation
Indices: 8361229--8361334 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
8361219 TTGATTTTTG
* *
8361229 TTTTAATGAGAATTGATTCTAAAATTAAATCCTAAAAATCTCTTCCTGTCA
1 TTTTAATGAGAATTGATTCTAAAATTAAATCCTAAAAATCTCTTCATATCA
* ** * * *
8361280 TTTTAATGTGAATTGATTCTGGAATTAAATCCTGACAATCTTTTCATATCA
1 TTTTAATGAGAATTGATTCTAAAATTAAATCCTAAAAATCTCTTCATATCA
8361331 TTTT
1 TTTT
8361335 TAATATGGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (51 bp):
TTTTAATGAGAATTGATTCTAAAATTAAATCCTAAAAATCTCTTCATATCA
Found at i:8368864 original size:2 final size:2
Alignment explanation
Indices: 8368851--8368897 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
8368841 GAGAGTCAAG
*
8368851 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8368893 AT AT A
1 AT AT A
8368898 CATAGAGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8369468 original size:16 final size:16
Alignment explanation
Indices: 8369444--8369502 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
8369434 AAATAAAACT
8369444 TATTATATTATTTTTA
1 TATTATATTATTTTTA
*
8369460 TATTTTATTA-TTTTA
1 TATTATATTATTTTTA
* *
8369475 TA-CATATT-TTTTGA
1 TATTATATTATTTTTA
*
8369489 TATTTTAATTATTT
1 TATTAT-ATTATTT
8369503 ATAACACTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 10 0.30
15 8 0.24
16 12 0.36
17 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATATTATTTTTA
Found at i:8371503 original size:12 final size:12
Alignment explanation
Indices: 8371486--8371517 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
8371476 CGCCAGGAGC
8371486 GTTGCTGTTGTT
1 GTTGCTGTTGTT
8371498 GTTGCTGTTGTT
1 GTTGCTGTTGTT
8371510 GTTGCTGT
1 GTTGCTGT
8371518 GACCTTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.34, T:0.56
Consensus pattern (12 bp):
GTTGCTGTTGTT
Found at i:8372367 original size:2 final size:2
Alignment explanation
Indices: 8372360--8372386 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8372350 CATCACATCA
8372360 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8372387 TTTATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8388633 original size:43 final size:43
Alignment explanation
Indices: 8388586--8388813 Score: 102
Period size: 40 Copynumber: 5.1 Consensus size: 43
8388576 CAATCTATTA
8388586 AATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
1 AATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
* * * * *
8388629 AATAA-AGGT-T--TTTGTTATATATGAA-A-AATATTGAGGGCAATC
1 AATAATA-GTATGATTTGTGAAAAATCAAGATAAT-GTGA-GG--ATC
8388671 TATTAAATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
1 -----AATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
* * * * *
8388719 AATAA-AGGT-T--TTTGTTATATATGAA-A-AATATTGAGGGCAATC
1 AATAATA-GTATGATTTGTGAAAAATCAAGATAAT-GTGA-GG--ATC
8388761 TATTAAATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
1 -----AATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
8388809 AATAA
1 AATAA
8388814 AGGTTTTTGT
Statistics
Matches: 133, Mismatches: 20, Indels: 64
0.61 0.09 0.29
Matches are distributed among these distances:
38 6 0.05
39 8 0.06
40 26 0.20
42 10 0.08
43 19 0.14
47 14 0.11
48 10 0.08
50 26 0.20
51 8 0.06
52 6 0.05
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.33
Consensus pattern (43 bp):
AATAATAGTATGATTTGTGAAAAATCAAGATAATGTGAGGATC
Found at i:8388655 original size:90 final size:90
Alignment explanation
Indices: 8388550--8388823 Score: 548
Period size: 90 Copynumber: 3.0 Consensus size: 90
8388540 GAGCTATAAA
8388550 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
1 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
8388615 ATAATGTGAGGATCAATAAAGGTTT
66 ATAATGTGAGGATCAATAAAGGTTT
8388640 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
1 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
8388705 ATAATGTGAGGATCAATAAAGGTTT
66 ATAATGTGAGGATCAATAAAGGTTT
8388730 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
1 TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
8388795 ATAATGTGAGGATCAATAAAGGTTT
66 ATAATGTGAGGATCAATAAAGGTTT
8388820 TTGT
1 TTGT
8388824 GTATTTCTTA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 184 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (90 bp):
TTGTTATATATGAAAAATATTGAGGGCAATCTATTAAATAATAGTATGATTTGTGAAAAATCAAG
ATAATGTGAGGATCAATAAAGGTTT
Found at i:8388657 original size:47 final size:47
Alignment explanation
Indices: 8388603--8388747 Score: 119
Period size: 47 Copynumber: 3.2 Consensus size: 47
8388593 GTATGATTTG
8388603 TGAAAAATCAAGATAATGTGAGGATCAATAAAGGTTTTTGTTATATA
1 TGAAAAATCAAGATAATGTGAGGATCAATAAAGGTTTTTGTTATATA
* * ** * * *
8388650 TGAAAAAT----AT--TGAG-GGCAATCTATTAAA--TAATAGTATGATTTG
1 TGAAAAATCAAGATAATGTGAGG--ATC-AATAAAGGTTTTTGT-T-ATATA
8388693 TGAAAAATCAAGATAATGTGAGGATCAATAAAGGTTTTTGTTATATA
1 TGAAAAATCAAGATAATGTGAGGATCAATAAAGGTTTTTGTTATATA
8388740 TGAAAAAT
1 TGAAAAAT
8388748 ATTGAGGGCA
Statistics
Matches: 70, Mismatches: 14, Indels: 28
0.62 0.12 0.25
Matches are distributed among these distances:
40 2 0.03
41 7 0.10
42 4 0.06
43 18 0.26
47 26 0.37
48 4 0.06
49 7 0.10
50 2 0.03
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (47 bp):
TGAAAAATCAAGATAATGTGAGGATCAATAAAGGTTTTTGTTATATA
Found at i:8389112 original size:35 final size:35
Alignment explanation
Indices: 8389068--8389177 Score: 82
Period size: 35 Copynumber: 3.1 Consensus size: 35
8389058 GGGTAAGAGA
8389068 ATTTAAAGGGGTCAATGAAAGAGTATTCAGGATAT
1 ATTTAAAGGGGTCAATGAAAGAGTATTCAGGATAT
* * ** * ** *
8389103 ATTTCAAGGGATTTGA-GAAACAAAATGGGTAAGGA-A-
1 ATTTAAAGGG-GTCAATGAAAGAGTAT---TCAGGATAT
*
8389139 ATTTAAAGGGGTCAATGAAAGAGTATTCATGATAT
1 ATTTAAAGGGGTCAATGAAAGAGTATTCAGGATAT
8389174 ATTT
1 ATTT
8389178 CAAGAGATTA
Statistics
Matches: 51, Mismatches: 17, Indels: 14
0.62 0.21 0.17
Matches are distributed among these distances:
33 4 0.08
34 1 0.02
35 22 0.43
36 18 0.35
37 1 0.02
38 5 0.10
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (35 bp):
ATTTAAAGGGGTCAATGAAAGAGTATTCAGGATAT
Found at i:8389143 original size:71 final size:71
Alignment explanation
Indices: 8389048--8389186 Score: 226
Period size: 71 Copynumber: 2.0 Consensus size: 71
8389038 TTTTTTTTTT
* * *
8389048 GAAATAAAGTGGGTAAGAGAATTTAAAGGGGTCAATGAAAGAGTATTCAGGATATATTTCAAGGG
1 GAAACAAAATGGGTAAGAGAATTTAAAGGGGTCAATGAAAGAGTATTCAGGATATATTTCAAGAG
8389113 ATTTGA
66 ATTTGA
*
8389119 GAAACAAAATGGGTAAG-GAAATTTAAAGGGGTCAATGAAAGAGTATTCATGATATATTTCAAGA
1 GAAACAAAATGGGTAAGAG-AATTTAAAGGGGTCAATGAAAGAGTATTCAGGATATATTTCAAGA
8389183 GATT
65 GATT
8389187 AAATGGATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 62 0.98
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (71 bp):
GAAACAAAATGGGTAAGAGAATTTAAAGGGGTCAATGAAAGAGTATTCAGGATATATTTCAAGAG
ATTTGA
Found at i:8390882 original size:23 final size:23
Alignment explanation
Indices: 8390840--8390888 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
8390830 AAATTTAAAA
8390840 TTTAAAATTATTGATAT-AAATT
1 TTTAAAATTATTGATATAAAATT
8390862 TTTAAAATTAATTGA-ATTAAAATT
1 TTTAAAATT-ATTGATA-TAAAATT
8390886 TTT
1 TTT
8390889 TACTCTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTAAAATTATTGATATAAAATT
Found at i:8391204 original size:105 final size:105
Alignment explanation
Indices: 8391022--8391231 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
8391012 GGTAGATGTC
8391022 ATCAACCAACCACCCCATGGTCCAATCAAGGGGTAATCCAGCTCCAGCAATAATCAAATCCCGTC
1 ATCAACCAACCACCCCATGGTCCAATCAAGGGGTAATCCAGCTCCAGCAATAATCAAATCCCGTC
8391087 GATCTACCGGCCCCATAGTTCAGTGATTTGTGCTTTTGCT
66 GATCTACCGGCCCCATAGTTCAGTGATTTGTGCTTTTGCT
8391127 ATCAACCAACCACCCCATGGTCCAATCAAGGGGTAATCCAGCTCCAGCAATAATCAAATCCCGTC
1 ATCAACCAACCACCCCATGGTCCAATCAAGGGGTAATCCAGCTCCAGCAATAATCAAATCCCGTC
8391192 GATCTACCGGCCCCATAGTTCAGTGATTTGTGCTTTTGCT
66 GATCTACCGGCCCCATAGTTCAGTGATTTGTGCTTTTGCT
8391232 TTACAACTTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (105 bp):
ATCAACCAACCACCCCATGGTCCAATCAAGGGGTAATCCAGCTCCAGCAATAATCAAATCCCGTC
GATCTACCGGCCCCATAGTTCAGTGATTTGTGCTTTTGCT
Found at i:8403281 original size:2 final size:2
Alignment explanation
Indices: 8403274--8403299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8403264 AGTAAGTATG
8403274 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
8403300 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8403304 original size:2 final size:2
Alignment explanation
Indices: 8403299--8403347 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8403289 ATATATATAT
8403299 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8403341 AG AG AG A
1 AG AG AG A
8403348 TCAGTGTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8408721 original size:24 final size:23
Alignment explanation
Indices: 8408678--8408723 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
8408668 TATAAATAAA
8408678 ATTAATAAAAAATTAATTTTATTC
1 ATTAATAAAAAATT-ATTTTATTC
8408702 ATTAATAATTAAAATT-TTTTAT
1 ATTAATAA--AAAATTATTTTAT
8408724 CCAATATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 14 0.70
26 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTAATAAAAAATTATTTTATTC
Found at i:8416653 original size:17 final size:17
Alignment explanation
Indices: 8416628--8416660 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8416618 CAAAGTAAAA
8416628 AAAAAAAAAAAAAGAAC
1 AAAAAAAAAAAAAGAAC
*
8416645 AAAAGAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
8416661 GGTATACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAC
Found at i:8424278 original size:9 final size:10
Alignment explanation
Indices: 8424254--8424286 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
8424244 ATATCAAATT
8424254 TTTTTTAAAA
1 TTTTTTAAAA
8424264 TTTTTT-AAA
1 TTTTTTAAAA
8424273 TTTTTTCAAAA
1 TTTTTT-AAAA
8424284 TTT
1 TTT
8424287 GCATGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 6 0.29
11 6 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:8424350 original size:14 final size:13
Alignment explanation
Indices: 8424313--8424354 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8424303 TGATAATATT
8424313 TTTTAATTTATTGA
1 TTTTAATTT-TTGA
* *
8424327 TTTTGATTTTCGA
1 TTTTAATTTTTGA
8424340 TTTTAATTTTT-A
1 TTTTAATTTTTGA
8424352 TTT
1 TTT
8424355 ACTCATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.17
13 12 0.50
14 8 0.33
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTGA
Found at i:8437367 original size:13 final size:13
Alignment explanation
Indices: 8437342--8437379 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
8437332 TTCTCTTATC
8437342 TCTTTTC-TTAGT
1 TCTTTTCTTTAGT
8437354 TCTTTTCTTTAGT
1 TCTTTTCTTTAGT
*
8437367 T-ATTTCTTTAGT
1 TCTTTTCTTTAGT
8437379 T
1 T
8437380 TTAGTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.11, C:0.13, G:0.08, T:0.68
Consensus pattern (13 bp):
TCTTTTCTTTAGT
Found at i:8438765 original size:2 final size:2
Alignment explanation
Indices: 8438755--8438788 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8438745 TGCACACATG
* *
8438755 TA TA AA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8438789 CGATATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:8453875 original size:29 final size:29
Alignment explanation
Indices: 8453842--8453916 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
8453832 TAATTCATTT
8453842 ATCAAATAAGCCCTTAATGTTTTATTGT-A
1 ATCAAATAAGCCCTTAAT-TTTTATTGTCA
* * *
8453871 ATC-AATAAAACCCTTATATTTTTATTTTCG
1 ATCAAAT-AAGCCCTTA-ATTTTTATTGTCA
8453901 ATCAAATAAG-CCTTAA
1 ATCAAATAAGCCCTTAA
8453917 ATTAGATGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
28 4 0.11
29 24 0.63
30 7 0.18
31 3 0.08
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (29 bp):
ATCAAATAAGCCCTTAATTTTTATTGTCA
Found at i:8464124 original size:15 final size:15
Alignment explanation
Indices: 8464097--8464145 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
8464087 TAATTCATGC
*
8464097 AAAACCAAATCACAT
1 AAAATCAAATCACAT
* * *
8464112 AAAATTAATTCACAA
1 AAAATCAAATCACAT
*
8464127 AAAATCAAATCAAAT
1 AAAATCAAATCACAT
8464142 AAAA
1 AAAA
8464146 CAACAGAAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATCAAATCACAT
Found at i:8465127 original size:14 final size:14
Alignment explanation
Indices: 8465108--8465156 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
8465098 CCACATTTGA
8465108 TAATTTTTTTGATT
1 TAATTTTTTTGATT
*
8465122 TAATTTATTTGATT
1 TAATTTTTTTGATT
*
8465136 TAGATTTTATTTGTTT
1 TA-ATTTT-TTTGATT
8465152 TAATT
1 TAATT
8465157 AATTTTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 15 0.50
15 7 0.23
16 8 0.27
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (14 bp):
TAATTTTTTTGATT
Found at i:8471981 original size:84 final size:83
Alignment explanation
Indices: 8471827--8472203 Score: 330
Period size: 84 Copynumber: 4.5 Consensus size: 83
8471817 TTTGAAGATT
* ** * *
8471827 GATTTGTAAGA-CTCCCAAGCATAATCACTAAGTCCTTCAGGTAAGGCTCATAAGTTTTTCAAGC
1 GATTTGTAAGACCT-CCAAGCATAATCTCTAAGTCCTT-AGGTAAGATTCATAAGTCTTTCGAGC
8471891 TAAATCTATTTTAAAGTTAA
64 TAAATCTATTTTAAAGTTAA
* * * *
8471911 GATTTGTAAGACCTCCAAGCGTAATTTCTAAGTCCTCTGGGTAAGATTCATAAGTCTTTCGAGTT
1 GATTTGTAAGACCTCCAAGCATAATCTCTAAGTCCT-TAGGTAAGATTCATAAGTCTTTCGAGCT
* * *
8471976 GAATCTATTTTAGAGTCAA
65 AAATCTATTTTAAAGTTAA
* * * * * **
8471995 GATTTGTAAGACCT-CAGGGCATAATCTCTAAGTTCTCCAAGCAAGATTTGTAAAGTC-TTCTGA
1 GATTTGTAAGACCTCCA-AGCATAATCTCTAAGTCCT-TAGGTAAGATTCAT-AAGTCTTTC-GA
* *
8472058 GCCAAATATATTTTAAAGTTAA
62 GCTAAATCTATTTTAAAGTTAA
* * * * * * * * * *
8472080 GAGTTGTTAGACCTTCGAGCATAATCTATAAGTCCTTTAAGTACGATTCATAAGTTTTTCAAGTT
1 GATTTGTAAGACCTCCAAGCATAATCTCTAAGTCC-TTAGGTAAGATTCATAAGTCTTTCGAGCT
* **
8472145 GAATCTATTTTGGAGTTAA
65 AAATCTATTTTAAAGTTAA
*
8472164 GATTTGTAAGACCTCC-AGACTTAATCTCTAAGTCCTTAGG
1 GATTTGTAAGACCTCCAAG-CATAATCTCTAAGTCCTTAGG
8472204 GTATGACTTA
Statistics
Matches: 231, Mismatches: 53, Indels: 19
0.76 0.17 0.06
Matches are distributed among these distances:
83 8 0.03
84 156 0.68
85 65 0.28
86 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (83 bp):
GATTTGTAAGACCTCCAAGCATAATCTCTAAGTCCTTAGGTAAGATTCATAAGTCTTTCGAGCTA
AATCTATTTTAAAGTTAA
Found at i:8472130 original size:169 final size:169
Alignment explanation
Indices: 8471892--8472196 Score: 432
Period size: 169 Copynumber: 1.8 Consensus size: 169
8471882 TTTTCAAGCT
* * * * * **
8471892 AAATCTATTTTAAAGTTAAGATTTGTAAGACCTCCAAGCGTAATTTCTAAGTCCTCTGGGTAAGA
1 AAATATATTTTAAAGTTAAGAGTTGTAAGACCTCCAAGCATAATCTATAAGTCCTCTAAGTAAGA
* *
8471957 TTCATAAGTCTTTCGAGTTGAATCTATTTTAGAGTCAAGATTTGTAAGACCT-CAGGGCATAATC
66 TTCATAAGTCTTTCAAGTTGAATCTATTTTAGAGTCAAGATTTGTAAGACCTCCA-GACATAATC
8472021 TCTAAGTTCTCCAAGCAAGATTTGTAAAGTCTTCTGAGCC
130 TCTAAGTTCTCCAAGCAAGATTTGTAAAGTCTTCTGAGCC
* * * * *
8472061 AAATATATTTTAAAGTTAAGAGTTGTTAGACCTTCGAGCATAATCTATAAGTCCTTTAAGTACGA
1 AAATATATTTTAAAGTTAAGAGTTGTAAGACCTCCAAGCATAATCTATAAGTCCTCTAAGTAAGA
* * * *
8472126 TTCATAAGTTTTTCAAGTTGAATCTATTTTGGAGTTAAGATTTGTAAGACCTCCAGACTTAATCT
66 TTCATAAGTCTTTCAAGTTGAATCTATTTTAGAGTCAAGATTTGTAAGACCTCCAGACATAATCT
8472191 CTAAGT
131 CTAAGT
8472197 CCTTAGGGTA
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
169 115 0.98
170 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (169 bp):
AAATATATTTTAAAGTTAAGAGTTGTAAGACCTCCAAGCATAATCTATAAGTCCTCTAAGTAAGA
TTCATAAGTCTTTCAAGTTGAATCTATTTTAGAGTCAAGATTTGTAAGACCTCCAGACATAATCT
CTAAGTTCTCCAAGCAAGATTTGTAAAGTCTTCTGAGCC
Found at i:8473018 original size:10 final size:10
Alignment explanation
Indices: 8473003--8473032 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
8472993 AGGGCACTAA
8473003 CAATTAAAAG
1 CAATTAAAAG
8473013 CAATTAAAAG
1 CAATTAAAAG
8473023 CAATTGAAAA
1 CAATT-AAAA
8473033 TTTCTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (10 bp):
CAATTAAAAG
Found at i:8473618 original size:14 final size:14
Alignment explanation
Indices: 8473599--8473626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8473589 GAAAAAATAA
8473599 AGGATTTTGGCTTT
1 AGGATTTTGGCTTT
8473613 AGGATTTTGGCTTT
1 AGGATTTTGGCTTT
8473627 TATATAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (14 bp):
AGGATTTTGGCTTT
Found at i:8476442 original size:3 final size:3
Alignment explanation
Indices: 8476434--8476554 Score: 61
Period size: 3 Copynumber: 38.7 Consensus size: 3
8476424 TTTAATTTTC
* * * *
8476434 ATT ATT ATT ATG ATT ATG ATT ATG ATT ATTT ATCT ATT AAT ATTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT A-TT A-TT
* *
8476483 ATTT ATT ATT ATT ATT ATT -TT -TT AGCT ATCT ATT AAT A-T ATT -TT
1 A-TT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT
* *
8476527 ATT ATTT ATCT ATT ATT TTT ATT TTT AT
1 ATT A-TT AT-T ATT ATT ATT ATT ATT AT
8476555 CTTTTTTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
2 8 0.09
3 58 0.62
4 27 0.29
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8476480 original size:24 final size:24
Alignment explanation
Indices: 8476453--8476554 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
8476443 ATGATTATGA
*
8476453 TTATGATTATTTATCTATTAATAT
1 TTATTATTATTTATCTATTAATAT
*
8476477 TTA-T-TTATTTAT-TATTATTA-
1 TTATTATTATTTATCTATTAATAT
* **
8476497 TTATTTTTTAGCTATCTATTAATAT
1 TTA-TTATTATTTATCTATTAATAT
*
8476522 ATT-TTATTATTTATCTATT-ATTT
1 -TTATTATTATTTATCTATTAATAT
*
8476545 TTATTTTTAT
1 TTATTATTAT
8476555 CTTTTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
20 3 0.05
21 7 0.11
22 11 0.18
23 15 0.25
24 23 0.38
26 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTATTATTTATCTATTAATAT
Found at i:8476515 original size:45 final size:48
Alignment explanation
Indices: 8476464--8476552 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
8476454 TATGATTATT
8476464 TATCTATTAATAT-TTAT-TTATTTAT-TATTATTATTATTTTTTAGC
1 TATCTATTAATATATTATATTATTTATCTATTATTATTATTTTTTAGC
* *
8476509 TATCTATTAATATATTTTATTATTTATCTATTATTTTTATTTTT
1 TATCTATTAATATATTATATTATTTATCTATTATTATTATTTTT
8476553 ATCTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
45 13 0.33
46 3 0.08
47 8 0.21
48 15 0.38
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (48 bp):
TATCTATTAATATATTATATTATTTATCTATTATTATTATTTTTTAGC
Found at i:8476564 original size:19 final size:20
Alignment explanation
Indices: 8476458--8476567 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 20
8476448 TATGATTATG
*
8476458 ATTATTTATCTATTAATATTT
1 ATTATTTATCTATT-ATTTTT
*
8476479 ATTTATTTAT-TATTATTATT
1 A-TTATTTATCTATTATTTTT
*
8476499 ATTTTTTAGCTATCTATTAATATATTTT
1 A-TTATT---TATCTA-T--TAT-TTTT
8476527 ATTATTTATCTATTATTTTT
1 ATTATTTATCTATTATTTTT
* *
8476547 ATT-TTTATCTTTTTTTTTT
1 ATTATTTATCTATTATTTTT
8476566 AT
1 AT
8476568 CAATTTTCGA
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
19 16 0.22
20 17 0.23
21 8 0.11
22 8 0.11
23 4 0.05
24 8 0.11
25 1 0.01
27 7 0.10
28 4 0.05
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (20 bp):
ATTATTTATCTATTATTTTT
Found at i:8477637 original size:61 final size:60
Alignment explanation
Indices: 8477572--8477745 Score: 228
Period size: 61 Copynumber: 2.9 Consensus size: 60
8477562 GCCAAAAAGA
* * *
8477572 TTTTAGAAAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAGTGTTTTTAAAAAA-ATAT
1 TTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTG-TTCTAAAAAATAT-T
* * *
8477633 TTTTAGGAAAATTTGAAAGTATTAATTTTCTTTGAAAATAAAAGTGTTCTAAAAAATATT
1 TTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTGTTCTAAAAAATATT
* *
8477693 TTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAAA-T-TTCTAAAA
1 TTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTGTTCTAAAA
8477746 TAAAAATTTC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
59 8 0.08
60 16 0.16
61 76 0.76
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (60 bp):
TTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTGTTCTAAAAAATATT
Found at i:8477750 original size:14 final size:15
Alignment explanation
Indices: 8477728--8477760 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8477718 ATTTTTCTTG
8477728 AAAAC-AAAATTTCT
1 AAAACAAAAATTTCT
*
8477742 AAAATAAAAATTTCT
1 AAAACAAAAATTTCT
8477757 AAAA
1 AAAA
8477761 AGTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAACAAAAATTTCT
Found at i:8477887 original size:14 final size:15
Alignment explanation
Indices: 8477862--8477899 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
8477852 AGTTGAATCA
8477862 TTATTCCTTTTTATT-
1 TTATT-CTTTTTATTC
8477877 TTATTCTTTTTATTC
1 TTATTCTTTTTATTC
8477892 TT-TTCTTT
1 TTATTCTTT
8477900 CTTGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTCTTTTTATTC
Found at i:8488277 original size:16 final size:15
Alignment explanation
Indices: 8488248--8488280 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8488238 TACTATGCTT
*
8488248 AAAAAAAAGTAAAAC
1 AAAAAAAAGAAAAAC
8488263 AAAAAAAAGAAAAA-
1 AAAAAAAAGAAAAAC
8488277 AAAA
1 AAAA
8488281 GGGAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAAAAAGAAAAAC
Done.