Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 16 of 343
Found at i:5632196 original size:25 final size:25
Alignment explanation
Indices: 5632167--5632214 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
5632157 ATTTAATATA
* *
5632167 TAAAATATAAATTTTAAATATTTTT
1 TAAAAAATAAATATTAAATATTTTT
* *
5632192 TAAAAAATTAATATTAATTATTT
1 TAAAAAATAAATATTAAATATTT
5632215 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAAAAATAAATATTAAATATTTTT
Found at i:5643350 original size:22 final size:22
Alignment explanation
Indices: 5643318--5643360 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5643308 CTCTATAAAC
*
5643318 ATATTAATTAATAGATTAAAAT
1 ATATTAATTAATAAATTAAAAT
*
5643340 ATATTATTTAATAAATTAAAA
1 ATATTAATTAATAAATTAAAA
5643361 AATAACTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATTAATTAATAAATTAAAAT
Found at i:5643512 original size:23 final size:22
Alignment explanation
Indices: 5643473--5643520 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
5643463 ATAAATACAA
5643473 ATATTTTTAATAATTTATCAAT
1 ATATTTTTAATAATTTATCAAT
*
5643495 ATATATTTTAA-AAGTTTATTAAT
1 ATAT-TTTTAATAA-TTTATCAAT
5643518 ATA
1 ATA
5643521 ATTAACGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTTTTAATAATTTATCAAT
Found at i:5645271 original size:208 final size:208
Alignment explanation
Indices: 5644650--5645393 Score: 1307
Period size: 208 Copynumber: 3.6 Consensus size: 208
5644640 TTAATACTCG
* * * *
5644650 GTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATATATGCGTAAATATATATA
1 GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATA
* * *
5644715 TAATCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATACATTATTAAAATTAA
66 TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTGTTAAAATTAA
5644780 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
131 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
5644845 TAATGAGATACAT
196 TAATGAGATACAT
*
5644858 GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGT--GTATATATA
1 GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATA
*
5644921 TAATCATATTAGTGAATCTGCTAATACATACTTCATTCAGGTAAAGTATGCATTGTTAAAATTAA
66 TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTGTTAAAATTAA
5644986 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
131 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
5645051 TAATGAGATACAT
196 TAATGAGATACAT
* **
5645064 GTTTTATTAGGTACAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTGTATATATATA
1 GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATA
*
5645129 TAATCATATTAGTGAATCTGCTAATACATACTTCATTCAGGTAAAGTATGCATTGTTAAAATTAA
66 TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTGTTAAAATTAA
5645194 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
131 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
5645259 TAATGAGATACAT
196 TAATGAGATACAT
*
5645272 GTTTTATTAGGTATAAGTATTTAAATTTTT-TTTTTGTAATGTGATACATGCGTAAATATATATA
1 GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATA
* * *
5645336 TAATCATATTAGTAAATCTGCTAATGCATACTTCATCCAGATAAAGTATGCATT-TTAA
66 TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTGTTAA
5645394 TAACACATGA
Statistics
Matches: 515, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
206 204 0.40
207 82 0.16
208 229 0.44
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (208 bp):
GTTTTATTAGGTATAAGTAATTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATA
TAATCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTGTTAAAATTAA
ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
TAATGAGATACAT
Found at i:5660094 original size:41 final size:41
Alignment explanation
Indices: 5660037--5660119 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
5660027 CTGAAGATCA
5660037 ATAGCATGCTCGCAATAATACTACTGTTTCTTTTGTTTTCG
1 ATAGCATGCTCGCAATAATACTACTGTTTCTTTTGTTTTCG
5660078 ATAGCATGCTCGCAATAATACTACTGTTTCTTTTGTTTTCG
1 ATAGCATGCTCGCAATAATACTACTGTTTCTTTTGTTTTCG
5660119 A
1 A
5660120 CTTGCTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (41 bp):
ATAGCATGCTCGCAATAATACTACTGTTTCTTTTGTTTTCG
Found at i:5683419 original size:12 final size:12
Alignment explanation
Indices: 5683404--5683434 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5683394 TTCTCTTTTA
5683404 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
5683416 TTTTTCTTTCTC
1 TTTTTCTTTCCC
5683428 TTTTTCT
1 TTTTTCT
5683435 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:5687790 original size:26 final size:26
Alignment explanation
Indices: 5687744--5687796 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5687734 TCAAACATGC
*
5687744 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
5687770 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
5687796 A
1 A
5687797 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:5689319 original size:26 final size:26
Alignment explanation
Indices: 5689283--5689366 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5689273 CATGAAATTG
5689283 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5689309 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5689335 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5689361 TTATCA
1 TTATCA
5689367 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5693952 original size:12 final size:12
Alignment explanation
Indices: 5693937--5693967 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5693927 TTCTCTTTTA
5693937 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
5693949 TTTTTCTTTCTC
1 TTTTTCTTTCCC
5693961 TTTTTCT
1 TTTTTCT
5693968 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:5695241 original size:21 final size:20
Alignment explanation
Indices: 5695217--5695256 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5695207 ACTTGTTTAA
5695217 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
5695238 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
5695257 ATCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:5696440 original size:27 final size:27
Alignment explanation
Indices: 5696390--5696476 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
5696380 AGCATGGCTG
*
5696390 CCAGAACAGATA-ATGTGACAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
5696416 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
5696443 CCAGATCAGATATTTGTTGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
5696470 CCAGAAC
1 CCAGAAC
5696477 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
26 12 0.22
27 42 0.78
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:5698128 original size:26 final size:26
Alignment explanation
Indices: 5698090--5698147 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
5698080 CATGAAATTG
5698090 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5698116 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5698142 TTATCA
1 TTATCA
5698148 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5712224 original size:58 final size:58
Alignment explanation
Indices: 5712151--5712269 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
5712141 TATCTAAAGA
5712151 TGTTAGTGCCATTGATGATCTAAGCCTTCTCTTTTTGTAACGACCTGAAAGTGAATGG
1 TGTTAGTGCCATTGATGATCTAAGCCTTCTCTTTTTGTAACGACCTGAAAGTGAATGG
* *
5712209 TGTTAGTGTCGTTGATGATCTAAGCCTTCTCTTTTTGTAACGACCTGAAAGTGAATGG
1 TGTTAGTGCCATTGATGATCTAAGCCTTCTCTTTTTGTAACGACCTGAAAGTGAATGG
5712267 TGT
1 TGT
5712270 CAAAAAAAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (58 bp):
TGTTAGTGCCATTGATGATCTAAGCCTTCTCTTTTTGTAACGACCTGAAAGTGAATGG
Found at i:5713564 original size:106 final size:106
Alignment explanation
Indices: 5713437--5713646 Score: 384
Period size: 106 Copynumber: 2.0 Consensus size: 106
5713427 TGCTGCTTTG
* *
5713437 TGCATGGACTAATGAATTGATGATGAGATTGTGCTATAAATTGAGATATTGATGTATAAATGAAA
1 TGCATGGACTAATGAATTGATGACGAGATTGTGCTATAAATTGAGATATTGACGTATAAATGAAA
5713502 TTGAGAAATGGTTACCCTATTAATTGTTCAAGCAGGGTCTA
66 TTGAGAAATGGTTACCCTATTAATTGTTCAAGCAGGGTCTA
*
5713543 TGCATGGACTAATGAATTGATGACGATATTGTGCTATAAATTGAGATATTGACGTATAAATGAAA
1 TGCATGGACTAATGAATTGATGACGAGATTGTGCTATAAATTGAGATATTGACGTATAAATGAAA
*
5713608 TTGAGAAATGGTTACCCTATTAATTGTTCAGGCAGGGTC
66 TTGAGAAATGGTTACCCTATTAATTGTTCAAGCAGGGTC
5713647 AAGTATAATT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (106 bp):
TGCATGGACTAATGAATTGATGACGAGATTGTGCTATAAATTGAGATATTGACGTATAAATGAAA
TTGAGAAATGGTTACCCTATTAATTGTTCAAGCAGGGTCTA
Found at i:5722509 original size:27 final size:25
Alignment explanation
Indices: 5722484--5722531 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5722474 TTTCTTTTAA
5722484 AACTACTGAAATTATATTTATATTT
1 AACTACTGAAATTATATTTATATTT
* *
5722509 AAGTGCTGAAATTATATTTATAT
1 AACTACTGAAATTATATTTATAT
5722532 ATATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (25 bp):
AACTACTGAAATTATATTTATATTT
Found at i:5728247 original size:20 final size:21
Alignment explanation
Indices: 5728222--5728265 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5728212 TGTTGGTTAG
* *
5728222 ATATTTTAAAA-TTAAAAATA
1 ATATTTAAAAATTTAAAAAAA
5728242 ATATTTAAAAATTTAAAAAAA
1 ATATTTAAAAATTTAAAAAAA
5728263 ATA
1 ATA
5728266 CTCAATTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATTTAAAAATTTAAAAAAA
Found at i:5731947 original size:78 final size:78
Alignment explanation
Indices: 5731813--5731964 Score: 259
Period size: 78 Copynumber: 1.9 Consensus size: 78
5731803 GTCGTGACTT
* *
5731813 GTAGGATATGATGCAACTCTTCAACCTTCATGTACAACTCATTGAACTTGTACACAAGAGACAAC
1 GTAGGAGATGATGCAACTCTTCAACCTTCATGTACAACTCATTGAACTTGTACACAAAAGACAAC
5731878 AACAATGCAACTC
66 AACAATGCAACTC
* *
5731891 GTAGGAGATGATGCAACTCTTCAAGCTTCATGTACAACTCATTGAACTTGTGCACAAAAGACAAC
1 GTAGGAGATGATGCAACTCTTCAACCTTCATGTACAACTCATTGAACTTGTACACAAAAGACAAC
*
5731956 AACTATGCA
66 AACAATGCA
5731965 GGGAGTACTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (78 bp):
GTAGGAGATGATGCAACTCTTCAACCTTCATGTACAACTCATTGAACTTGTACACAAAAGACAAC
AACAATGCAACTC
Found at i:5734868 original size:6 final size:6
Alignment explanation
Indices: 5734857--5734888 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5734847 TGGAAGCCCC
5734857 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
5734889 ATTCAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:5736619 original size:30 final size:30
Alignment explanation
Indices: 5736575--5736636 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
5736565 ATATTATGTT
5736575 ATAAAATTATTATA-TTA-ATTATATATTTAA
1 ATAAAATTATTATATTTATATT-TATA-TTAA
5736605 ATAATAATTA-TATATTTATATTTATATTAA
1 ATAA-AATTATTATATTTATATTTATATTAA
5736635 AT
1 AT
5736637 CACTAACCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 14 0.48
31 12 0.41
32 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
ATAAAATTATTATATTTATATTTATATTAA
Found at i:5736633 original size:19 final size:18
Alignment explanation
Indices: 5736584--5736633 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
5736574 TATAAAATTA
5736584 TTATATTA-ATTATATAT
1 TTATATTATATTATATAT
* *
5736601 TTAAATAATAATTATATAT
1 TTATATTAT-ATTATATAT
5736620 TTATATTTATATTA
1 TTATA-TTATATTA
5736634 AATCACTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
19 17 0.65
20 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTATATTATATAT
Found at i:5738776 original size:11 final size:11
Alignment explanation
Indices: 5738760--5738784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5738750 ACCTACTTTA
5738760 TTTCCCACAAC
1 TTTCCCACAAC
5738771 TTTCCCACAAC
1 TTTCCCACAAC
5738782 TTT
1 TTT
5738785 TTTAAATTTC
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:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (11 bp):
TTTCCCACAAC
Found at i:5740359 original size:3 final size:3
Alignment explanation
Indices: 5740351--5740496 Score: 81
Period size: 3 Copynumber: 49.0 Consensus size: 3
5740341 TAGTACCATG
* * * *
5740351 ATA ATA ATA ACA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** *
5740397 TTA CCA ATA ATA ATA ATAA ATAA ATA ATG ATA ATAA ATA TATA A-A ATA
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA
* * *
5740445 ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA
*
5740488 ATA ACA ATA
1 ATA ATA ATA
5740497 TTTAAAAATA
Statistics
Matches: 109, Mismatches: 22, Indels: 24
0.70 0.14 0.15
Matches are distributed among these distances:
2 12 0.11
3 82 0.75
4 15 0.14
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:5740431 original size:13 final size:12
Alignment explanation
Indices: 5740403--5740488 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 12
5740393 TATGTTACCA
5740403 ATAAT-AATAAT
1 ATAATAAATAAT
5740414 A-AATAAATAAT
1 ATAATAAATAAT
5740425 GATAATAAATATAT
1 -ATAATAAATA-AT
* *
5740439 AAAATAATAGTAAC
1 ATAATAA-A-TAAT
5740453 AGTAATAAAATAAAT
1 A-TAAT-AAAT-AAT
5740468 ATAATATAATAAAT
1 ATAATA-AAT-AAT
5740482 ATAATAA
1 ATAATAA
5740489 TAACAATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.05
11 7 0.11
12 1 0.02
13 16 0.26
14 23 0.38
15 9 0.15
16 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:5740490 original size:17 final size:17
Alignment explanation
Indices: 5740402--5740490 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 17
5740392 ATATGTTACC
5740402 AATAATAATAATAAATA-
1 AATAAT-ATAATAAATAT
5740419 AATAATGATAATAAATAT
1 AATAAT-ATAATAAATAT
* *
5740437 -ATAAAATAAT-AGTA-
1 AATAATATAATAAATAT
*
5740451 ACAGTAATAAAAT-AA-AT
1 A-A-TAATATAATAAATAT
5740468 -ATAATATAATAAATAT
1 AATAATATAATAAATAT
5740484 AATAATA
1 AATAATA
5740491 ACAATATTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
14 8 0.14
15 6 0.11
16 9 0.16
17 34 0.60
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (17 bp):
AATAATATAATAAATAT
Found at i:5740887 original size:17 final size:17
Alignment explanation
Indices: 5740865--5740903 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5740855 CATGGTGGCA
5740865 AGTGGGGTAATGG-GATT
1 AGTGGGGTAATGGAG-TT
*
5740882 AGTGGGGTGATGGAGTT
1 AGTGGGGTAATGGAGTT
5740899 AGTGG
1 AGTGG
5740904 CAAGTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (17 bp):
AGTGGGGTAATGGAGTT
Found at i:5741280 original size:22 final size:21
Alignment explanation
Indices: 5741255--5741295 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5741245 CTTTTTAATA
*
5741255 ATTTATAATATTCTAAAATACT
1 ATTTATAAAATTC-AAAATACT
*
5741277 ATTTTTAAAATTCAAAATA
1 ATTTATAAAATTCAAAATA
5741296 TTTTGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAAAATTCAAAATACT
Found at i:5746656 original size:11 final size:11
Alignment explanation
Indices: 5746637--5746666 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5746627 AGATGATGGG
*
5746637 CTTTCTTTTTT
1 CTTTTTTTTTT
5746648 CTTTTTTTTTT
1 CTTTTTTTTTT
5746659 CTTTTTTT
1 CTTTTTTT
5746667 CCCTTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:5747499 original size:28 final size:27
Alignment explanation
Indices: 5747449--5747505 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
5747439 GCAAATGATT
**
5747449 AAGTATTGATAATATTCGTTCATCAAAA
1 AAGTATTGATAATATTCCATCAT-AAAA
*
5747477 AAGTATTGATACTATTCCATCATAAAA
1 AAGTATTGATAATATTCCATCATAAAA
5747504 AA
1 AA
5747506 TTTGGATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (27 bp):
AAGTATTGATAATATTCCATCATAAAA
Found at i:5747915 original size:31 final size:29
Alignment explanation
Indices: 5747877--5747950 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
5747867 TCTACCAAAA
**
5747877 TAGTCACTTATGTTTGCCTCAGGTTACATTT
1 TAGTCACTTATGTTTG--AAAGGTTACATTT
* *
5747908 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
5747937 TAGTCACTTATGTT
1 TAGTCACTTATGTT
5747951 ACTATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:5748986 original size:31 final size:29
Alignment explanation
Indices: 5748917--5748988 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
5748907 ACAAAATAAT
*
5748917 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTGCA
* *
5748946 AACATAAGTGACTAAAATGTAACCTGATGCA
1 AACATAAGTGACTAAAACGTAACAT--TGCA
*
5748977 AACAAAAGTGAC
1 AACATAAGTGAC
5748989 AATTTTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 23 0.62
31 14 0.38
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTGCA
Found at i:5751095 original size:20 final size:20
Alignment explanation
Indices: 5751061--5751109 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
5751051 TTTTGTTGAT
* *
5751061 CTTATATTACATTTTAGTCA
1 CTTATGTTACATTTTAATCA
*
5751081 -TTCATGTTACGTTTTAATCA
1 CTT-ATGTTACATTTTAATCA
5751101 CTTATGTTA
1 CTTATGTTA
5751110 TTGTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (20 bp):
CTTATGTTACATTTTAATCA
Found at i:5751936 original size:10 final size:11
Alignment explanation
Indices: 5751914--5751939 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5751904 AGTATGGGCC
5751914 AACTTTTTAAA
1 AACTTTTTAAA
5751925 AACTTTTTAAA
1 AACTTTTTAAA
5751936 AACT
1 AACT
5751940 CTTATAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (11 bp):
AACTTTTTAAA
Found at i:5752765 original size:18 final size:18
Alignment explanation
Indices: 5752739--5752773 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5752729 AAATTATTTT
*
5752739 CTTAAAATTAGAATTATG
1 CTTAAAATTACAATTATG
*
5752757 CTTATAATTACAATTAT
1 CTTAAAATTACAATTAT
5752774 TATATTTAAT
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:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (18 bp):
CTTAAAATTACAATTATG
Found at i:5752880 original size:3 final size:3
Alignment explanation
Indices: 5752872--5752911 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5752862 ATCTAGTTTT
5752872 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
5752912 GCAATTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5754477 original size:32 final size:32
Alignment explanation
Indices: 5754434--5754510 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
5754424 CAATCACTTT
*
5754434 AATATCCAACAAGCTT-AAAACATAATAAATTC
1 AATATCCAACAA-ATTCAAAACATAATAAATTC
* * *
5754466 AATATCTAACAAATTCAAGACATAATAATTTC
1 AATATCCAACAAATTCAAAACATAATAAATTC
*
5754498 AAAATCCAACAAA
1 AATATCCAACAAA
5754511 CTAAAATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.25
Consensus pattern (32 bp):
AATATCCAACAAATTCAAAACATAATAAATTC
Found at i:5756239 original size:47 final size:47
Alignment explanation
Indices: 5756130--5756240 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
5756120 CCGGGATAAG
* * * *
5756130 CACATAGTGCTTCATTGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
5756177 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
5756224 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
5756241 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:5756999 original size:4 final size:4
Alignment explanation
Indices: 5756986--5757020 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
5756976 TCAACTTTCC
5756986 CTTT -TTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
5757021 ACGTTTGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:5759894 original size:28 final size:29
Alignment explanation
Indices: 5759835--5759900 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
5759825 TCTAACGAAC
* *
5759835 AACAAGCATAAACTTTATGCAAAACCCAGA
1 AACAAACATAAACTCTA-GCAAAACCCAGA
*
5759865 AACAAACATAAACTCTA-CAAAATCCAGA
1 AACAAACATAAACTCTAGCAAAACCCAGA
5759893 AACAAACA
1 AACAAACA
5759901 GATTAGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.55
30 15 0.45
ACGTcount: A:0.56, C:0.24, G:0.06, T:0.14
Consensus pattern (29 bp):
AACAAACATAAACTCTAGCAAAACCCAGA
Found at i:5760899 original size:35 final size:35
Alignment explanation
Indices: 5760853--5760922 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
5760843 GTCCTTCACC
5760853 ATCGTCCACTATTGAACGGTTTGAGAAGCTTGGTT
1 ATCGTCCACTATTGAACGGTTTGAGAAGCTTGGTT
5760888 ATCGTCCACTATTGAACGGTTTGAGAAGCTTGGTT
1 ATCGTCCACTATTGAACGGTTTGAGAAGCTTGGTT
5760923 TTTAACTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (35 bp):
ATCGTCCACTATTGAACGGTTTGAGAAGCTTGGTT
Found at i:5770409 original size:3 final size:3
Alignment explanation
Indices: 5770401--5770591 Score: 95
Period size: 3 Copynumber: 65.0 Consensus size: 3
5770391 TGTCTAACAC
* * * *
5770401 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAC TAT TAT TAC TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
5770449 TTT TAT TAA CAT TAA CAT TAA CAT TAG TAT TAT TAT TTT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
5770496 T-T TAT TAT CAT TAT CAT TCT TGT AAT TAT TAT TAC TAT TCT T-T TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
5770542 TAT TAT TAT T-T AACA TAC TAT TAT TAC TAT T-G TAT TAT TAC TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5770586 TAT TAT
1 TAT TAT
5770592 ATTTTCATCT
Statistics
Matches: 131, Mismatches: 51, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
2 8 0.06
3 122 0.93
4 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:5770579 original size:14 final size:14
Alignment explanation
Indices: 5770560--5770586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5770550 TTTAACATAC
5770560 TATTATTACTATTG
1 TATTATTACTATTG
5770574 TATTATTACTATT
1 TATTATTACTATT
5770587 ATTATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
TATTATTACTATTG
Found at i:5770634 original size:15 final size:14
Alignment explanation
Indices: 5770614--5770648 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
5770604 GTTTATTTTA
5770614 TTATTTATCTAATTT
1 TTATTTATCT-ATTT
5770629 TTATTTATCTATTT
1 TTATTTATCTATTT
*
5770643 ATATTT
1 TTATTT
5770649 CTGTTATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTATCTATTT
Found at i:5770748 original size:18 final size:17
Alignment explanation
Indices: 5770704--5770750 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 17
5770694 GTATAAATAT
5770704 CATTATTTTATTATT-G
1 CATTATTTTATTATTAG
5770720 C--TATTTT-TTATTAG
1 CATTATTTTATTATTAG
5770734 CATTATATTTATTATTA
1 CATTAT-TTTATTATTA
5770751 TTATTTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
16 4 0.15
17 3 0.12
18 6 0.23
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (17 bp):
CATTATTTTATTATTAG
Found at i:5776160 original size:6 final size:6
Alignment explanation
Indices: 5776149--5776173 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5776139 TTTTCTTTAT
5776149 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
5776174 GATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:5781825 original size:127 final size:126
Alignment explanation
Indices: 5781668--5781912 Score: 445
Period size: 127 Copynumber: 1.9 Consensus size: 126
5781658 GTTTTAGCCT
*
5781668 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGTACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
*
5781733 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAATTTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAA-ATTTTGAGAGTGAACTGG
*
5781795 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGAACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
*
5781860 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAAATTTTGAGAG
5781913 AAGATCAATG
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 9 0.08
127 105 0.92
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:5782045 original size:13 final size:12
Alignment explanation
Indices: 5782013--5782062 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
5782003 AACCATATAT
5782013 AAATAA-TAA-A
1 AAATAATTAATA
5782023 AAATAA-TAATA
1 AAATAATTAATA
*
5782034 ATAGTAATTAATA
1 A-AATAATTAATA
5782047 GAAATAATTAATA
1 -AAATAATTAATA
5782060 AAA
1 AAA
5782063 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:5782398 original size:16 final size:15
Alignment explanation
Indices: 5782370--5782400 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5782360 ATATTTACAT
5782370 AATAAATATATAATA
1 AATAAATATATAATA
5782385 AATAAATAATATAATA
1 AATAAAT-ATATAATA
5782401 CTATGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATATATAATA
Found at i:5782873 original size:37 final size:37
Alignment explanation
Indices: 5782823--5782893 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
5782813 ATAACAAGTA
5782823 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTGG
1 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTGG
5782860 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
5782894 ATGGAGTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.30
Consensus pattern (37 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTGG
Found at i:5782893 original size:29 final size:29
Alignment explanation
Indices: 5782860--5782922 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
5782850 TAGGGTGTGG
5782860 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
5782889 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
5782918 GGGTG
1 GGGTG
5782923 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:5783467 original size:43 final size:43
Alignment explanation
Indices: 5783411--5783615 Score: 132
Period size: 43 Copynumber: 4.7 Consensus size: 43
5783401 AAAATTTGAT
**
5783411 CTGCTCCGGTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
* * * ** **
5783454 CTGCTCCACTCCTGCTCAGTGAAGATAAGA-CTGGTGGCTGAAAT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGT--ATTTAGC
* * * ** *
5783498 CTGCTCCATTGCC-GATACATG-G-AGATAAGATTCACCAAAATTT-GAT
1 CTGCTCCACT-CCTGCT-CA-GCGAAGATAAGA-T--CTAGTATTTAG-C
*
5783544 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
**
5783587 CTGCTCCACTCCTGCTCAGTAAAGATAAG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAG
5783616 GTTGGTGGCT
Statistics
Matches: 119, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 4 0.03
43 59 0.50
44 23 0.19
45 11 0.09
46 21 0.18
48 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
Found at i:5783644 original size:310 final size:310
Alignment explanation
Indices: 5783321--5783948 Score: 1123
Period size: 310 Copynumber: 2.0 Consensus size: 310
5783311 AGTATTTAGC
*
5783321 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
1 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
*
5783386 GAGATAAGATTCACCAAAATTTGATCTGCTCCGGTCCTGCTCAGCGAAGATAAGATCTAGTATTT
66 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
5783451 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATAC
131 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATAC
5783516 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGC-GAAGATAAGATCTAGT
196 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGT
* * *
5783580 ATTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAAT
260 ATTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTAAAAT
*
5783631 CTACTCTACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
1 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
*
5783696 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTT
66 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
* *
5783761 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATAC
131 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATAC
* *
5783826 ATGGAGATAAGATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
196 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
*
5783891 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTAAAAT
261 TTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTAAAAT
*
5783941 CTGCTCCA
1 CTACTCCA
5783949 TTGCCGATAT
Statistics
Matches: 303, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
309 1 0.00
310 302 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (310 bp):
CTACTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATAC
ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
TTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTAAAAT
Found at i:5783657 original size:44 final size:44
Alignment explanation
Indices: 5783594--5783680 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
5783584 AGCCTGCTCC
*
5783594 ACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
1 ACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
*
5783638 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTC
1 ACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTC
5783681 CATTGCCGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
ACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
Found at i:5783659 original size:133 final size:133
Alignment explanation
Indices: 5783151--5783632 Score: 784
Period size: 133 Copynumber: 3.6 Consensus size: 133
5783141 ATCTGTTTTA
** * *
5783151 CTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAA
* ** * * **
5783216 GGCTGATGATTGGAATCTGCTCCATTCCCGATACATGGAGATAAGATTCATTAAAATTTGATCTG
64 GGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTG
**
5783281 CTTTG
129 CTCCG
*
5783286 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
5783351 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
5783416 CCG
131 CCG
* *
5783419 GTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
5783484 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
5783549 CCG
131 CCG
*
5783552 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
*
5783617 TTGGTGGCTGAAATCT
66 CTGGTGGCTGAAATCT
5783633 ACTCTACTCC
Statistics
Matches: 326, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 300 0.92
135 26 0.08
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
CCG
Found at i:5783659 original size:177 final size:177
Alignment explanation
Indices: 5783461--5783809 Score: 653
Period size: 177 Copynumber: 2.0 Consensus size: 177
5783451 AGCCTGCTCC
*
5783461 ACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
5783526 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
*
5783591 TCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
131 TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
*
5783638 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
*
5783703 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
*
5783768 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCT
131 TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCT
5783810 GCTCCATTGT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 167 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (177 bp):
ACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
Found at i:5783785 original size:133 final size:133
Alignment explanation
Indices: 5783638--5784017 Score: 645
Period size: 133 Copynumber: 2.9 Consensus size: 133
5783628 AATCTACTCT
*
5783638 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
*
5783703 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
5783768 TCC
131 TCC
*
5783771 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
* *
5783836 GATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGTATTTAGCCTG
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGC-GAAGATAAGATCTAGTATTTAGCCTG
5783900 CTCC
130 CTCC
* * *
5783904 ACTCCTGCTCAGTGAAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCGATATATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
** *
5783969 GATTCGTCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGAAGATAAGAT
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGAT
5784018 TTGTCGAAAT
Statistics
Matches: 231, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
132 1 0.00
133 229 0.99
134 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (133 bp):
ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
TCC
Found at i:5783871 original size:443 final size:443
Alignment explanation
Indices: 5783195--5784017 Score: 1414
Period size: 443 Copynumber: 1.9 Consensus size: 443
5783185 AGCCTGCTCC
* * * *
5783195 ACTCTTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTCCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTCCCGATACATGGAGATAA
** **
5783260 GATTCATTAAAATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTAC
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTAC
5783325 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGA
131 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGA
*
5783390 TAAGATTCACCAAAATTTGATCTGCTCCGGTCCTGCTCAGC-GAAGATAAGATCTAGTATTTAGC
196 TAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGTATTTAGC
* *
5783454 CTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
260 CTGCTCCACTCCTGCTCAGTGAAGATAAGACTGATGGCTAAAATCTGCTCCATTGCCGATACATG
5783519 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
325 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
5783584 AGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
390 AGCCTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
* * *
5783638 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTCCCGATACATGGAGATAA
* *
5783703 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTAC
*
5783768 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATGGAGA
131 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGA
* *
5783833 TAAGATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
196 TAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
* *
5783898 TGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTAAAATCTGCTCCATTGCCGATATATGG
261 TGCTCCACTCCTGCTCAGTGAAGATAAGACTGATGGCTAAAATCTGCTCCATTGCCGATACATGG
** *
5783963 AGATAAGATTCGTCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGAAGATAAGAT
326 AGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGAT
5784018 TTGTCGAAAT
Statistics
Matches: 355, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
442 1 0.00
443 354 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (443 bp):
ACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTCCCGATACATGGAGATAA
GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTAC
TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGA
TAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
TGCTCCACTCCTGCTCAGTGAAGATAAGACTGATGGCTAAAATCTGCTCCATTGCCGATACATGG
AGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTA
GCCTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
Found at i:5785395 original size:16 final size:16
Alignment explanation
Indices: 5785365--5785425 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
5785355 CTCTCATTTG
5785365 CTTTTCTTTTC-TTTCT
1 CTTTT-TTTTCTTTTCT
5785381 CTTTTTTTAT-TTTTCT
1 CTTTTTTT-TCTTTTCT
5785397 CTTCTTTTTTCTTTTC-
1 CTT-TTTTTTCTTTTCT
*
5785413 CTTTTTTCTCTTT
1 CTTTTTTTTCTTT
5785426 CCTTTTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 12 0.30
16 18 0.45
17 10 0.25
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTTTTTCTTTTCT
Found at i:5785406 original size:13 final size:12
Alignment explanation
Indices: 5785385--5785444 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
5785375 CTTTCTCTTT
5785385 TTTTATTTTTCTC
1 TTTT-TTTTTCTC
*
5785398 TTCTTTTTTCT-
1 TTTTTTTTTCTC
5785409 TTTCCTTTTTTCTC
1 TTT--TTTTTTCTC
*
5785423 TTTCCTTTTTCTC
1 TTT-TTTTTTCTC
5785436 TTTTTTTTT
1 TTTTTTTTT
5785445 GAAAGTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.05
12 12 0.30
13 23 0.57
14 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:5785411 original size:25 final size:24
Alignment explanation
Indices: 5785366--5785444 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
5785356 TCTCATTTGC
* *
5785366 TTTTCTTTTCTTTCTCTT-TTTTTAT
1 TTTTCTCTTCTTT-T-TTCTTTTTTT
*
5785391 TTTTCTCTTCTTTTTTCTTTTCCTT
1 TTTTCTCTTCTTTTTTCTTTT-TTT
* *
5785416 TTTTCTCTTTCCTTTTTCTCTTTTT
1 TTTTCTC-TTCTTTTTTCTTTTTTT
5785441 TTTT
1 TTTT
5785445 GAAAGTGAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 5 0.11
25 26 0.58
26 12 0.27
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTCTCTTCTTTTTTCTTTTTTT
Found at i:5785443 original size:26 final size:26
Alignment explanation
Indices: 5785376--5785444 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
5785366 TTTTCTTTTC
*
5785376 TTTCTCTTTTTTTATTTTTCTCTTCTT
1 TTTCTCTTTTTTT-TTTCTCTCTTCTT
5785403 TTT-TCTTTTCCTTTTTTCTCT-TTCCTT
1 TTTCTCTTTT--TTTTTTCTCTCTT-CTT
5785430 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
5785445 GAAAGTGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
26 13 0.35
27 15 0.41
28 9 0.24
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTCTCTTTTTTTTTTCTCTCTTCTT
Found at i:5788206 original size:19 final size:20
Alignment explanation
Indices: 5788182--5788228 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5788172 TTTTTTGAAT
* *
5788182 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGGGATG
5788201 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGGGATG
5788221 -AATGCAAA
1 TAATGCAAA
5788229 AGAAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGGGATG
Found at i:5791147 original size:135 final size:134
Alignment explanation
Indices: 5790905--5791310 Score: 794
Period size: 134 Copynumber: 3.0 Consensus size: 134
5790895 TCAGAAGACA
5790905 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGTACACTACAACA
1 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGTACACTACAACA
5790970 ACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATAA
66 ACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATAA
5791035 CAGC
131 CAGC
5791039 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGGTACACTACAAC
1 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACA-GGGGTACACTACAAC
*
5791104 AACAACAACAAAAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATA
65 AACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATA
5791169 ACAGC
130 ACAGC
5791174 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGTACACTACAACA
1 CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGTACACTACAACA
5791239 ACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATAA
66 ACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATAA
5791304 CAGC
131 CAGC
5791308 CTA
1 CTA
5791311 AACCCTATAC
Statistics
Matches: 269, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
134 136 0.51
135 133 0.49
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (134 bp):
CTACTCTTACTACTTCATTCAATACAACATGTTGAATGCGGCTTTCACAGGGGTACACTACAACA
ACAACAACAACAAAAATGCTATGCAAAAGAAAAGAACATCATCACAAAAACCCAAAATTATATAA
CAGC
Found at i:5794027 original size:23 final size:23
Alignment explanation
Indices: 5793982--5794028 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
5793972 CCATCCAAAC
*
5793982 TAAATCATAATATATATTTTTTA
1 TAAATCATAATAAATATTTTTTA
5794005 TAAATCATAATAAAT-TTTATTTA
1 TAAATCATAATAAATATTT-TTTA
5794028 T
1 T
5794029 TTATTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATCATAATAAATATTTTTTA
Found at i:5796159 original size:50 final size:50
Alignment explanation
Indices: 5796084--5796186 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
5796074 CTACACCTTA
5796084 CTTGCCTACCATAGTTGATCATAAAACCACTAGAAAGAAAATTGGCTGAG
1 CTTGCCTACCATAGTTGATCATAAAACCACTAGAAAGAAAATTGGCTGAG
5796134 CTTGCCTACCATAGTTGATCATAAAACCACTAGAAAGAAAATTGGCTGAG
1 CTTGCCTACCATAGTTGATCATAAAACCACTAGAAAGAAAATTGGCTGAG
5796184 CTT
1 CTT
5796187 TGTAATTCGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (50 bp):
CTTGCCTACCATAGTTGATCATAAAACCACTAGAAAGAAAATTGGCTGAG
Found at i:5798410 original size:22 final size:22
Alignment explanation
Indices: 5798385--5798428 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5798375 TAGTCTTATA
5798385 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
5798407 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
5798429 TATTCAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:5801661 original size:7 final size:7
Alignment explanation
Indices: 5801649--5801682 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
5801639 AATGAGATAT
5801649 TTTATTA
1 TTTATTA
5801656 TTTATTA
1 TTTATTA
5801663 TTTATTA
1 TTTATTA
5801670 -TTATTAA
1 TTTATT-A
5801677 TTTATT
1 TTTATT
5801683 TAATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.20
7 15 0.60
8 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:5803418 original size:40 final size:40
Alignment explanation
Indices: 5803326--5803463 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
5803316 CTCGAGAATA
* * ** *
5803326 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* * *
5803366 CAGAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* * * *
5803406 TAAAGTGAATAGGATTTATTCTTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* *
5803446 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
5803464 ACCTGAAAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
Found at i:5803535 original size:79 final size:79
Alignment explanation
Indices: 5803441--5803666 Score: 301
Period size: 79 Copynumber: 2.9 Consensus size: 79
5803431 TTCACTACGG
* * *
5803441 TAACTTAAGGCGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACATGATAT
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACAGTTACATGATAT
*
5803506 ATGATTCATTATGG
66 ATGATTCATTATGA
* * * * *
5803520 TAACCTATGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACAGTTATACGATAC
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACAGTTACATGATAT
*
5803585 ATGATTCCTTATGA
66 ATGATTCATTATGA
* * * * * *
5803599 TAACTTAAGGTGGGTAGGATTTCACCT-AAAAAGGTAATCTTGATTCACTACAGTTACATGAGAT
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACAGTTACATGATAT
5803663 ATGA
66 ATGA
5803667 CTCGAGAGAG
Statistics
Matches: 126, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 34 0.27
79 92 0.73
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (79 bp):
TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACAGTTACATGATAT
ATGATTCATTATGA
Found at i:5806552 original size:19 final size:19
Alignment explanation
Indices: 5806530--5806568 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5806520 TCCTTTTTCA
*
5806530 TTTTTATTTCTTAGTTTAT
1 TTTTTAATTCTTAGTTTAT
*
5806549 TTTTTAATTCTTATTTTAT
1 TTTTTAATTCTTAGTTTAT
5806568 T
1 T
5806569 ATCTGTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTAATTCTTAGTTTAT
Found at i:5808509 original size:47 final size:47
Alignment explanation
Indices: 5808376--5808516 Score: 192
Period size: 51 Copynumber: 2.9 Consensus size: 47
5808366 TTTTAGAAAA
5808376 ATAAAACTCACAGAAAAGAATCAAAAAATAAAGTAATGAATAAGTTAAT
1 ATAAAACTCACA-AAAA-AATCAAAAAATAAAGTAATGAATAAGTTAAT
* * *
5808425 ATAAATTTATTCCCAAAAAAATCAAAAAAATAAAGTAATGAATGAGTTAAT
1 ATAAA---ACTCACAAAAAAATC-AAAAAATAAAGTAATGAATAAGTTAAT
*
5808476 ATAAAACTCACAAAAAATTCAAAAAATAAAGTAATGAATAA
1 ATAAAACTCACAAAAAAATCAAAAAATAAAGTAATGAATAA
5808517 CATGTTAAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
47 20 0.25
48 12 0.15
49 5 0.06
50 4 0.05
51 35 0.43
52 5 0.06
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.23
Consensus pattern (47 bp):
ATAAAACTCACAAAAAAATCAAAAAATAAAGTAATGAATAAGTTAAT
Found at i:5812975 original size:16 final size:16
Alignment explanation
Indices: 5812908--5812967 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 16
5812898 GAAATAGAAT
5812908 AAAGAAAGAAAAAGGGG
1 AAAGAAAGAAAAA-GGG
*
5812925 AATA-AACAGAACAAGGAAAG
1 AA-AGAA-AGAAAAAGG---G
5812945 AAAGAAAGAAAAAGGG
1 AAAGAAAGAAAAAGGG
5812961 AAAGAAA
1 AAAGAAA
5812968 AAGAAAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.23
17 6 0.17
18 7 0.20
19 9 0.26
20 5 0.14
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAAAGGG
Found at i:5815047 original size:27 final size:26
Alignment explanation
Indices: 5815009--5815097 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
5814999 TAAGTTGTAG
*
5815009 AATTACCGAAATACCTCTGTAGGGTAA
1 AATTACCAAAATACC-CTGTAGGGTAA
* *
5815036 AATTGCCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATA-CCCTGTAGGGTAA
* * *
5815063 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCC-TGTAGGGTAA
5815090 AATTACCA
1 AATTACCA
5815098 TTTTGCCCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.06
27 46 0.90
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
AATTACCAAAATACCCTGTAGGGTAA
Found at i:5820276 original size:47 final size:47
Alignment explanation
Indices: 5820207--5820305 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
5820197 TATTATTTCA
*
5820207 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCAAAAATTT
*
5820254 CATATCAAATTATTTT-CTACTTTATTTTATTAGTTTACTAAAAATTT
1 CATATCAAATTATTTTAC-ACTTTATTTTATTAGTTTACCAAAAATTT
5820301 CATAT
1 CATAT
5820306 AATTTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (47 bp):
CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCAAAAATTT
Found at i:5820752 original size:5 final size:5
Alignment explanation
Indices: 5820732--5820775 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
5820722 TAGGAATATA
*
5820732 TTATT TT-TT TGT-TT TTATT TTACT TTATT TTATT TTATT TTATT
1 TTATT TTATT T-TATT TTATT TTATT TTATT TTATT TTATT TTATT
5820776 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:5821358 original size:14 final size:13
Alignment explanation
Indices: 5821341--5821443 Score: 50
Period size: 15 Copynumber: 7.2 Consensus size: 13
5821331 TATTCTAATA
5821341 CTATTATTATTTAT
1 CTATTATTATTT-T
5821355 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
5821369 ACTATTATTATATTT
1 -CTATTATTAT-TTT
5821384 CTATGTATTATATTT
1 CTAT-TATTAT-TTT
*
5821399 TTATT-TCTATTTATAT
1 CTATTAT-TA-TT-T-T
*
5821415 ACTAATATTATTTT
1 -CTATTATTATTTT
5821429 C-ATTATTATGTTT
1 CTATTATTAT-TTT
5821442 CT
1 CT
5821444 TATATATGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.10
13 7 0.10
14 20 0.28
15 25 0.35
16 6 0.08
17 5 0.07
18 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:5821362 original size:29 final size:28
Alignment explanation
Indices: 5821330--5821392 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
5821320 ATTTATTTTG
5821330 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
5821359 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
*
5821388 GTATT
1 TTATT
5821393 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:5821392 original size:15 final size:17
Alignment explanation
Indices: 5821359--5821398 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5821349 ATTTATCTAT
*
5821359 TTATATTTCTACTATTA
1 TTATATTTCTACTAGTA
5821376 TTATATTTCTA-T-GTA
1 TTATATTTCTACTAGTA
5821391 TTATATTT
1 TTATATTT
5821399 TTATTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 11 0.50
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATTTCTACTAGTA
Found at i:5821397 original size:23 final size:22
Alignment explanation
Indices: 5821290--5821437 Score: 69
Period size: 23 Copynumber: 6.7 Consensus size: 22
5821280 TTTAATATAT
*
5821290 TATTGCTATTATTATTATGT-TTA
1 TATTTCTATTATTA-TAT-TATTA
* * * *
5821313 TATTTATATTTATTTTGTTATTC
1 TATTTCTA-TTATTATATTATTA
* * *
5821336 TAATACTATTATTAT-TTA-TC
1 TATTTCTATTATTATATTATTA
*
5821356 TATTTATATT-TCTACTATTATTA
1 TATTTCTATTAT-TA-TATTATTA
5821379 TATTTCTATGTATTATATT-TT-
1 TATTTCTAT-TATTATATTATTA
*
5821400 TATTTCTATTTATATACTAATATTA
1 TATTTCTA-TTAT-TA-TATTATTA
5821425 T-TTTC-ATTATTAT
1 TATTTCTATTATTAT
5821438 GTTTCTTATA
Statistics
Matches: 97, Mismatches: 15, Indels: 29
0.69 0.11 0.21
Matches are distributed among these distances:
19 1 0.01
20 12 0.12
21 17 0.18
22 19 0.20
23 32 0.33
24 14 0.14
25 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (22 bp):
TATTTCTATTATTATATTATTA
Found at i:5826576 original size:15 final size:15
Alignment explanation
Indices: 5826552--5826603 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
5826542 AAAGGCAGCC
*
5826552 AAAAAGAAAGAAACA
1 AAAAACAAAGAAACA
* *
5826567 AAAAATAAAGAAAAA
1 AAAAACAAAGAAACA
*
5826582 TAAAAACAAAAACAACA
1 -AAAAACAAAGA-AACA
5826599 AAAAA
1 AAAAA
5826604 AGATTGTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 13 0.43
16 14 0.47
17 3 0.10
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAACAAAGAAACA
Found at i:5828504 original size:44 final size:46
Alignment explanation
Indices: 5828456--5828552 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 46
5828446 AGGCACCTGC
** * *
5828456 CTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGA-TACAAGT
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAAATTACAAAT
5828500 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
5828545 CTTATCTC
1 CTTATCTC
5828553 CATGTATCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.02
44 29 0.64
45 15 0.33
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
Found at i:5828656 original size:178 final size:177
Alignment explanation
Indices: 5828346--5829621 Score: 1723
Period size: 178 Copynumber: 7.2 Consensus size: 177
5828336 GCAGTAGGGT
* * * * ** *
5828346 AGCAGGCTAAAAATTATAGATTTTATCTTTATGTATCGGCTATGGAGTAGATCAGAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAATGGCGAG
** * * * *
5828411 TCTTATCTCCATGTAT-CGACTATCTAGTAGATTTTAGGCACCTGCCTTATCTCTCTGAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGC
5828475 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * *
5828524 AGCAGACTGAAAATTACAAATCTTATCTCCATGTATCGACTATGGAGTAGATCGAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AAAATGGCGAG
* * * ** * *
5828589 TCTTATCTCCATGTATCCGCTATAGAGTAAATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCA
* * * * *
5828654 AGAGAACAGGTTGAA-TTCACAAGTCTTATATTCTTGAGGTGGCAAGGA
130 AGAGAGCAGGTTGAAGAT-ACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * * * *
5828702 AGCAGACTAAAAATTACAGACCTTATCTCCGTGTATCGGCTATAGAGCAGATCAGAAATGACGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAATGGCGAG
* * * * *
5828767 TCTTATCTCCATGTATCGGCTATGGAGCATATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCA
* *
5828832 AAAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* *
5828880 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAACATATCAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AAAATGGCGAG
* *
5828945 TCTTGTCTCCATGTAT-CGTCTATGGAGCAGATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGC
* *
5829009 AAGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * *
5829058 AGCAGATTGAAAATTACAGATCTTGTCTCCATGTATCGGCTATGGAGCATATCAGAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAATGGCGAG
* *
5829123 TCTTGTCTCCATGTAT-CGACTATGGAGCAGATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGC
*
5829187 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAAGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * * *
5829236 AGCAGACTGAAAATTATAGATCTTATCTCCATATATCGGCTATAGAGCAGATAAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-CAAAATGGCGAG
* * *
5829301 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGTA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCA
* * * * *
5829366 AGAGAGTAGGTTGATGATACAAGTCTTCTCTTCTTGAGGTAGCAAAGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* ** * *
5829414 AGCAAACTGAAAATTACAGATCTTATCTCCACATATCGGCTATAGAGCAGATAAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-CAAAATGGCGAG
* * * *
5829479 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCGACTTTATCTCTCTAAGGTAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCA
* * *
5829544 AGAGAGCAAGTCGAAGATACAAGTCTTATCTTCCTGAGGTAACAAGGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
**
5829592 AGCAGACTGAAAATTTTAGATCTTATCTCC
1 AGCAGACTGAAAATTACAGATCTTATCTCC
5829622 CTGAGCAGTA
Statistics
Matches: 989, Mismatches: 99, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
177 4 0.00
178 978 0.99
179 7 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (177 bp):
AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAATGGCGAGT
CTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAA
GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
Found at i:5829661 original size:44 final size:44
Alignment explanation
Indices: 5829611--5830116 Score: 205
Period size: 44 Copynumber: 11.5 Consensus size: 44
5829601 AAAATTTTAG
*
5829611 ATCTTATCTCCCTGAGCAGTAGGGTAACAGGCTGAAGATTACAT
1 ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * *
5829655 ATCTTATCTCCCTAAGCAGTAGTGG-AGC-GGATTGAAAATGGT-GA-
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGG-CTGAAGAT--TACAT
** * * *
5829699 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * * **
5829743 ATCTTATCTCCCTAAGCTGTAGTGG-AGC-GGATCAA-A-GGCAGT
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTGAAGATTACA-T
* *
5829785 GAGCCTTAAC-CCCTTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
1 -A-TCTTATCTCCC-TAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * **
5829831 ATCTTATCTTCCTAAGCAGTAGTGG-AGC-GGATCGAAG-GCA-ATT
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCT-GAAGATTACA-T
* * * * *
5829874 AGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTACAG
1 A-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * *
5829919 ATCTTATCTCCCTAAGCAGTAGTGG-AGC-GGATCGAAG---GCAGT
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCT-GAAGATTACA-T
* * * * * * *
5829961 GAGCCTTAACCCCCTAAGCAGTAGGTTAGCAGGCTGGAGATTACAG
1 -A-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* *
5830007 ATCTTATCTCCCTAAGCAGTAATGGAGT-AGA-TC-GAAG---ACGAT
1 ATCTTATCTCCCTAAGCAGT-A-GG-GTAACAGGCTGAAGATTAC-AT
* * * * * * *
5830049 GAGCCTTAACCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAA
1 -A-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
5830095 ATCTTATCTCCCTAAGCAGTAG
1 ATCTTATCTCCCTAAGCAGTAG
5830117 TGGAGCGGAT
Statistics
Matches: 329, Mismatches: 85, Indels: 96
0.65 0.17 0.19
Matches are distributed among these distances:
41 7 0.02
42 8 0.02
43 32 0.10
44 236 0.72
45 31 0.09
46 8 0.02
47 7 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
Found at i:5830175 original size:44 final size:44
Alignment explanation
Indices: 5829960--5830176 Score: 113
Period size: 44 Copynumber: 4.9 Consensus size: 44
5829950 TCGAAGGCAG
* * * **
5829960 TGAGCCTTAACCCCCTAAGCAGT-AGGTTAGCAGGCTGGAGATTA
1 TGAGCCTTATCCCCCTAAGCAGTAAGG-AAGCAGGCTGAAGACGA
* * * * *
5830004 -CAGATCTTATCTCCCTAAGCAGTAATGG-AGTA-GATCGAAGACGA
1 TGAG-CCTTATCCCCCTAAGCAGTAA-GGAAGCAGGCT-GAAGACGA
* * ** * **
5830048 TGAGCCTTAACCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTA
1 TGAGCCTTATCCCCCTAAGCAGTAAGGAAGCAGGCTGAAGACGA
** ** * * * *
5830092 CAAATCTTATCTCCCTAAGCAGT-AGTGGAGC-GGATTGAAGACGG
1 TGAGCCTTATCCCCCTAAGCAGTAAG-GAAGCAGG-CTGAAGACGA
5830136 TGAGCCTTATCCCCCTAAGCAGTAAGGAAGCAGGCTGAAGA
1 TGAGCCTTATCCCCCTAAGCAGTAAGGAAGCAGGCTGAAGA
5830177 TTACAAATCA
Statistics
Matches: 121, Mismatches: 41, Indels: 22
0.66 0.22 0.12
Matches are distributed among these distances:
43 9 0.07
44 101 0.83
45 9 0.07
46 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (44 bp):
TGAGCCTTATCCCCCTAAGCAGTAAGGAAGCAGGCTGAAGACGA
Found at i:5830185 original size:88 final size:88
Alignment explanation
Indices: 5829620--5830181 Score: 813
Period size: 88 Copynumber: 6.4 Consensus size: 88
5829610 GATCTTATCT
* *
5829620 CCCTGAGCAGTAGGGTAACAGGCTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* * **
5829685 ATTGAAAATGGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
*
5829708 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCTGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* *
5829773 ATCAAAGGCAGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * *
5829796 CCTTAAGCAGTAGGGTAACAGGCTGAAGATTACATATCTTATCTTCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* * *
5829861 ATCGAAGGCAATTAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
*
5829884 CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
*
5829949 ATCGAAGGCAGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * * * **
5829972 CCCTAAGCAGTAGGTTAGCAGGCTGGAGATTACAGATCTTATCTCCCTAAGCAGTAATGGAGTAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
5830037 ATCGAAGAC-GATGAGCCTTAACC
66 ATCGAAGACAG-TGAGCCTTAACC
* * * *
5830060 CCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* * *
5830125 ATTGAAGACGGTGAGCCTTATCC
66 ATCGAAGACAGTGAGCCTTAACC
*
5830148 CCCTAAGCAGTAAGG-AAGCAGGCTGAAGATTACA
1 CCCTAAGCAGTAGGGTAA-CAGGCTGAAGATTACA
5830182 AATCATAAGC
Statistics
Matches: 426, Mismatches: 45, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
87 3 0.01
88 422 0.99
89 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (88 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
ATCGAAGACAGTGAGCCTTAACC
Found at i:5830754 original size:35 final size:34
Alignment explanation
Indices: 5830677--5830764 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
5830667 GATACTTGGA
* *
5830677 TGAATTACTTTTGTATTCCTACTTCTATTTGGAAT
1 TGAATTA-TTTTCTTTTCCTACTTCTATTTGGAAT
* *
5830712 TGGATTATTCTCTCTTTTCCTATTTCTA-TTGGAAT
1 TGAATTATT-T-TCTTTTCCTACTTCTATTTGGAAT
5830747 TGAATTATTTTCTTTTCC
1 TGAATTATTTTCTTTTCC
5830765 CTTTCAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
33 8 0.17
34 3 0.07
35 22 0.48
36 13 0.28
ACGTcount: A:0.19, C:0.16, G:0.10, T:0.55
Consensus pattern (34 bp):
TGAATTATTTTCTTTTCCTACTTCTATTTGGAAT
Found at i:5832341 original size:31 final size:30
Alignment explanation
Indices: 5832304--5832365 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
5832294 TTTAATAATG
* * *
5832304 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
5832333 ATATATATACAATATAGTATTTAAAAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
5832363 ATA
1 ATA
5832366 CATAAGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATATATACAATATAGTATTTAAAAATAT
Found at i:5832381 original size:24 final size:23
Alignment explanation
Indices: 5832354--5832414 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
5832344 ATATAGTATT
5832354 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
5832378 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
5832402 TAAGAAATATATA
1 TAA-AAATATATA
5832415 TAATTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:5832542 original size:16 final size:17
Alignment explanation
Indices: 5832511--5832545 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5832501 AACTACTTTG
5832511 TACACTACACAAATATA
1 TACACTACACAAATATA
*
5832528 TACAC-ACACATATATA
1 TACACTACACAAATATA
5832544 TA
1 TA
5832546 TAAATAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (17 bp):
TACACTACACAAATATA
Found at i:5832596 original size:20 final size:21
Alignment explanation
Indices: 5832543--5832644 Score: 102
Period size: 21 Copynumber: 4.8 Consensus size: 21
5832533 ACACATATAT
*
5832543 ATATAAATAATAGTATTAGAA
1 ATATAAATAATAATATTAGAA
5832564 ATATAAA-ATATAATATTAGAA
1 ATATAAATA-ATAATATTAGAA
* *
5832585 ATATACAT-ATAATAGTATAAAA
1 ATATAAATAATAATA-T-TAGAA
5832607 ATATATAACTAATAATATTA-AA
1 ATATA-AA-TAATAATATTAGAA
*
5832629 ATATATATAATAATAT
1 ATATAAATAATAATAT
5832645 ATAAAAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
20 16 0.23
21 26 0.38
22 16 0.23
23 3 0.04
24 2 0.03
25 6 0.09
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATAAATAATAATATTAGAA
Found at i:5832611 original size:22 final size:21
Alignment explanation
Indices: 5832541--5832656 Score: 94
Period size: 22 Copynumber: 5.3 Consensus size: 21
5832531 ACACACATAT
* *
5832541 ATATATAAATAATAGTATTAGAA
1 ATATATATATAATA-TA-TAAAA
* *
5832564 ATATAAAATATAATAT-TAGAA
1 ATAT-ATATATAATATATAAAA
*
5832585 ATATACATATAATAGTATAAAA
1 ATATATATATAATA-TATAAAA
*
5832607 ATATATA-ACTAATAATATTAAA
1 ATATATATA-TAAT-ATATAAAA
5832629 ATATATATAATAATATATAAAA
1 ATATATAT-ATAATATATAAAA
5832651 A-ATATA
1 ATATATA
5832657 ATATTGAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
20 9 0.11
21 16 0.20
22 35 0.44
23 10 0.13
24 9 0.11
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
ATATATATATAATATATAAAA
Found at i:5832626 original size:45 final size:44
Alignment explanation
Indices: 5832539--5832657 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
5832529 ACACACACAT
* *
5832539 ATATATATAAATAATAGTATTAGAAATATA-AAATATAATATTAGAA
1 ATATACAT-AATAATAGTA-TAAAAATATATAAATATAATATTA-AA
*
5832585 ATATACAT-ATAATAGTATAAAAATATATAACTAATAATATTAAA
1 ATATACATAATAATAGTATAAAAATATATAAAT-ATAATATTAAA
*
5832629 ATATATATAATAATA-TATAAAAA-ATATAA
1 ATATACATAATAATAGTATAAAAATATATAA
5832658 TATTGAAAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
43 15 0.23
44 29 0.44
45 15 0.23
46 7 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (44 bp):
ATATACATAATAATAGTATAAAAATATATAAATATAATATTAAA
Found at i:5832882 original size:21 final size:20
Alignment explanation
Indices: 5832862--5832901 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
5832852 ATGTAAATAT
5832862 ATATACATACA-T-ATA-TA
1 ATATACATACACTAATATTA
5832879 ATATACATACACTAATATTA
1 ATATACATACACTAATATTA
5832899 ATA
1 ATA
5832902 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 3 0.15
20 5 0.25
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATACATACACTAATATTA
Found at i:5832884 original size:17 final size:16
Alignment explanation
Indices: 5832858--5832889 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
5832848 CTATATGTAA
5832858 ATATATATACATACAT
1 ATATATATACATACAT
5832874 ATATAATATACATACA
1 ATAT-ATATACATACA
5832890 CTAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:5832905 original size:3 final size:3
Alignment explanation
Indices: 5832891--5833054 Score: 92
Period size: 3 Copynumber: 54.7 Consensus size: 3
5832881 ATACATACAC
* *
5832891 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA
* * * * *
5832937 TAA TAA TACA TTA GAA -AA TAA TTAA T-A TAT TAA TAA AAA TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * *
5832982 TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
5833027 TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5833055 TGTAAAAAAA
Statistics
Matches: 122, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
2 13 0.11
3 96 0.79
4 12 0.10
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5833598 original size:9 final size:9
Alignment explanation
Indices: 5833581--5833613 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
5833571 GAAGTAAAAA
*
5833581 TTTACTTTT
1 TTTATTTTT
5833590 TTTATTTTT
1 TTTATTTTT
5833599 TTTA-TTTT
1 TTTATTTTT
5833607 TTTATTT
1 TTTATTT
5833614 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTATTTTT
Found at i:5835118 original size:75 final size:72
Alignment explanation
Indices: 5834924--5835386 Score: 450
Period size: 75 Copynumber: 6.3 Consensus size: 72
5834914 TGAAACTTAA
* * * *
5834924 TTTGAAAAGCAGAATTTGAAAATACCTCGACATGTGAT-CTGAGGCTCCACTCACCTCTCGCAAT
1 TTTGAAAA-TAGAAATTGAAAATACCTC-A-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
5834988 ATGAGTTGATT
62 ATGAGTTGATT
* ** * * *
5834999 TTCGAAAACGGAGA-TCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAATAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5835063 AGTTGATTAT
65 AGTTGA-T-T
* * * * *
5835073 TTTGAAAGATAGAAATTTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAA-ATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5835138 AGTTGAATTT
65 AGTTG-A-TT
* * * *
5835148 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAA-ATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
5835213 AGTTGAAT
65 AGTTGATT
* * * *
5835221 TTTG-AAATAGAAA-TAAAAATTATCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAATAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5835284 AGTTGATTT
65 AGTTGA-TT
* * * * * * *
5835293 TTTGACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAATTCACCTATAGCAATAT
1 TTTGA-AAATAGA-AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
5835357 GAATTGATT
64 GAGTTGATT
* *
5835366 TTTGAAAACATAAATTGAAAA
1 TTTGAAAATAGAAATTGAAAA
5835387 ACAGAAATCG
Statistics
Matches: 335, Mismatches: 39, Indels: 31
0.83 0.10 0.08
Matches are distributed among these distances:
70 5 0.01
71 50 0.15
72 58 0.17
73 21 0.06
74 64 0.19
75 129 0.39
76 8 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTGAAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:5835358 original size:145 final size:143
Alignment explanation
Indices: 5834965--5835372 Score: 453
Period size: 145 Copynumber: 2.8 Consensus size: 143
5834955 ATGTGATCTG
* * * * *
5834965 AGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTCGAAAACGGAGA-TCAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC-AAAATTGAAAA-TACCTCAG
* *
5835028 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGATAGAAATTTAA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--ATTTTG-AA-ATAGAAATTAAA
* *
5835093 AATACCTCAACGTGTCTTG
125 AATACCTCAACGTGTCCTA
* * * *
5835112 AGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAA-ACA-AAATTGAAAATACCTCA
* * * * *
5835177 ACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTGAAATAGAAA-TAAAAAT
63 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAATAGAAATTAAAAA-
* *
5835241 TATCTCAGCGTGTCCTA
127 TACCTCAACGTGTCCTA
5835258 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAATAATTGAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAA-AATTGAAAATACCTCAG
* * * * * *
5835323 CGTGCCCCGAGGCTCAATTCACCTATAGCAATATGAATTGATTTTTGAAA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAA
5835373 ACATAAATTG
Statistics
Matches: 219, Mismatches: 34, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
144 1 0.00
145 72 0.33
146 50 0.23
147 29 0.13
148 7 0.03
149 8 0.04
150 47 0.21
151 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (143 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAATAGAAATTAAAAATACC
TCAACGTGTCCTA
Found at i:5835466 original size:231 final size:229
Alignment explanation
Indices: 5834845--5835469 Score: 682
Period size: 231 Copynumber: 2.7 Consensus size: 229
5834835 GATATTAAAA
* * * * *
5834845 ACAGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGG
1 ACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGA
* * * *
5834910 TTTTTGAAACTTAATTTGAAAAGCAGAATTTGAAAATACCTC-GACATGTGATCTGAGGCTCCAC
64 TTTTTGAAAC-TAA-TTGAAAAACAGAAATTGAAAATACCTCAG-CATGT--CCTGAGGCTCAAC
* * * * *
5834974 TCACCTCTCGCAATATGAGTTG-ATTTTCGAAAACGGAGATCAAAATTACCTCAGCGTGTCCTGA
124 TCACCTCTCGCAGTATGAGTTGAATTTT-G-AAACAGAAATAAAAATTACCTCAGCGTGTCCTAA
5835038 GGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAG
187 GGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAG
* * * * ** * * *
5835081 ATAGAAATTTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-A
1 ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATT
* * * * * *
5835145 TTT-----T--TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTC
66 TTTGAAACTAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTC
* * *
5835203 TTGCAGTATGAGTTGAATTTTGAAATAGAAATAAAAATTATCTCAGCGTGTCCTAAGGCTCAACT
131 TCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTACCTCAGCGTGTCCTAAGGCTCAACT
5835268 CACCTCTCGCAATATGAGTTGATT-TTTTGACAA-
196 CACCTCTCGCAATATGAGTTGATTATTTTGA-AAG
* * * * *
5835301 ACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAATTCACCTATAGCAATATGAATTGAT
1 ACAGA-AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGAT
*
5835365 TTTTGAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAGCATGTCCTGAGGCTCAACTCA
65 TTTTG-AAAC-T-AATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCA
*
5835430 CCCCTCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAA
127 CCTCTCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAA
5835470 CATCAGAATA
Statistics
Matches: 320, Mismatches: 54, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
219 1 0.00
220 55 0.17
221 66 0.21
222 30 0.09
223 5 0.02
224 27 0.08
227 1 0.00
228 1 0.00
231 80 0.25
233 3 0.01
234 32 0.10
236 19 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (229 bp):
ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATT
TTTGAAACTAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTC
TCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTACCTCAGCGTGTCCTAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTATTTTGAAAG
Found at i:5841833 original size:42 final size:42
Alignment explanation
Indices: 5841728--5841845 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
5841718 TAAATTATCA
* * *
5841728 TATAAGACTATGTTTGGGACATTGGCATCGATTTGAAATTTACG
1 TATAAGACCATGTATGGGACATTGGCATCGATCTG--ATTTACG
* * *
5841772 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTG-TTTTCG
1 TATAAGACCATGTATGGGACATTGGCATCG-ATCTGATTTACG
* **
5841814 TATAAGACCCTGTATGGGACAGAGGCATCGAT
1 TATAAGACCATGTATGGGACATTGGCATCGAT
5841846 ACCGAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.03
42 30 0.48
44 27 0.43
45 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TATAAGACCATGTATGGGACATTGGCATCGATCTGATTTACG
Found at i:5843382 original size:29 final size:29
Alignment explanation
Indices: 5843350--5843450 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 29
5843340 TATTATGTTT
*
5843350 CTATTTATATTTATTTTTTTATTCTAATA
1 CTATTTATATTTATTTTTATATTCTAATA
*
5843379 CTA-TTATTATTTATCTATTTATATTTCTACTA
1 CTATTTA-TATTTAT-T-TTTATA-TTCTAATA
* * * * *
5843411 TTATTTATTTTTATTTATTATATTTTATTT
1 CTATTTATATTTATTT-TTATATTCTAATA
5843441 CTATTTATAT
1 CTATTTATAT
5843451 ACTAATATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
28 3 0.05
29 10 0.18
30 15 0.26
31 11 0.19
32 15 0.26
33 3 0.05
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (29 bp):
CTATTTATATTTATTTTTATATTCTAATA
Found at i:5843479 original size:73 final size:72
Alignment explanation
Indices: 5843325--5843479 Score: 160
Period size: 73 Copynumber: 2.1 Consensus size: 72
5843315 TATTTTAATA
* * *
5843325 TATTTTTGCTATTATTATTATGTTTCTATTTATATTTATTTTTTTATTCTAATACTATTATTATT
1 TATTTTT-CTACTATTATTATGTTTCTATTTATATTTATTTTTCTATTCTAATACTAATATTATT
5843390 TATCTATT
65 TATCTATT
*
5843398 TATATTTCTACTATTATTTAT-TTT-TATTTATTATATT-TTATTTCTATT-TATATACTAATAT
1 TATTTTTCTACTATTA-TTATGTTTCTATTTA-TAT-TTATT-TTTCTATTCTA-ATACTAATAT
5843459 TATTT-TC-ATTAT
61 TATTTATCTA-T-T
5843471 TATTTTTCT
1 TATTTTTCT
5843480 TATATTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
71 7 0.10
72 21 0.30
73 42 0.60
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (72 bp):
TATTTTTCTACTATTATTATGTTTCTATTTATATTTATTTTTCTATTCTAATACTAATATTATTT
ATCTATT
Found at i:5849949 original size:18 final size:18
Alignment explanation
Indices: 5849928--5849962 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5849918 TTTTGCAAAT
*
5849928 GATTTAATTTATTTTTAC
1 GATTTAATTTATCTTTAC
5849946 GATTTAATTTATCTTTA
1 GATTTAATTTATCTTTA
5849963 AAATCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
GATTTAATTTATCTTTAC
Found at i:5858841 original size:48 final size:48
Alignment explanation
Indices: 5858780--5858882 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
5858770 TACCCCCTAA
*
5858780 TTTTAT-CCCAATTTTCAATTCAATCCTTAACCTTTTTAGTTTCATTT
1 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
5858827 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
1 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
5858875 TTTTATAC
1 TTTTATAC
5858883 TTTTTTTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 6 0.11
48 48 0.89
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.52
Consensus pattern (48 bp):
TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
Found at i:5867760 original size:26 final size:26
Alignment explanation
Indices: 5867724--5867833 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
5867714 CATGAAATTC
5867724 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5867750 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5867776 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
5867802 TTATCACGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5867828 TTATCA
1 TTATCA
5867834 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5872080 original size:73 final size:73
Alignment explanation
Indices: 5871948--5872511 Score: 526
Period size: 73 Copynumber: 7.7 Consensus size: 73
5871938 AAAAATGGAA
* * * * * **
5871948 TACTGATTCTACTG-AAGTGCTC-AACAAGTAATATCTACTGATACTATTGAAAAAGCTCAATA-
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAA-AC
5872010 AGCAATATC
65 AGCAATATC
* * * ** *
5872019 TATTGATCCTACTGAACGAGCTCAAACGAGCAATGCCTATTGATTCTACTGAAAGTGCTCAAACG
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAC-
5872084 AGCAATATC
65 AGCAATATC
* * *
5872093 TACTGATACTACTGAAAGTGCTC-AACGAGCAATATCTACTGATCCTATTGAATA-TGCTCAAAC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AGTGCTCAAAC
*
5872156 GAGCAATGTC
65 -AGCAATATC
* * * * * *
5872166 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATCTACTGATTCTATTGAAAGTGCTC-AACA
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAC-
*
5872230 AACAATATC
65 AGCAATATC
* *
5872239 TACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATCTACTGATCCTACT-AAATGTGCTCAAAC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAA-GTGCTCAAAC
*
5872302 GAGCAATGTC
65 -AGCAATATC
* * *
5872312 TACTGATCCTACTG-AAGTG-TACAAAAGAGTAATATCTACTAATTCTACT-AGAAGTGCTC-AA
1 TACTGATCCTACTGAAAGTGCT-CAAACGAGCAATATCTACTGATTCTACTGA-AAGTGCTCAAA
5872373 CAAGCAATATC
64 C-AGCAATATC
* * *
5872384 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTCTACTGATTCTACTGAATAGTTGCTCAA
1 TACT-GATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AG-TGCTCAA
*
5872448 ACAAGTAATATC
63 AC-AGCAATATC
* * * * *
5872460 CACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATCCACTGATTATACT
1 TACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATCTACTGATTCTACT
5872512 CAATAAGATT
Statistics
Matches: 405, Mismatches: 65, Indels: 39
0.80 0.13 0.08
Matches are distributed among these distances:
71 16 0.04
72 64 0.16
73 202 0.50
74 66 0.16
75 6 0.01
76 21 0.05
77 2 0.00
78 28 0.07
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (73 bp):
TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACA
GCAATATC
Found at i:5872102 original size:110 final size:109
Alignment explanation
Indices: 5871951--5872466 Score: 510
Period size: 110 Copynumber: 4.7 Consensus size: 109
5871941 AATGGAATAC
* * * ** *
5871951 TGATTCTACTG-AAGTGCTC-AACAAGTAATATCTACTGATACTATTGAAAAAGCTCAATAAGCA
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACAAGCA
* *
5872014 ATATCTATTGATCCTACTGAACGAGCTCAAACGAGCAATGCCTAT
66 ATATCTACTGATCCTACTGAA-GAGCTCAAACGAGCAATGTCTAT
*
5872059 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACGAGCA
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACAAGCA
* *
5872124 ATATCTACTGATCCTATTGAATATGCTCAAACGAGCAATGTCTACT
66 ATATCTACTGATCCTACTGAAGA-GCTCAAACGAGCAATGTCTA-T
* * * * * *
5872170 T-ATTCTACTGAATGTGCTCAAAAGAACAATATCTACTGATTCTATTGAAAGTGCTCAACAAACA
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACAAGCA
* * * *
5872234 ATATCTACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATCTAC
66 ATATCTACTGATCCTACTG-AAGAGCTCAAACGAGCAATGTCTAT
* * * *
5872278 TGATCCTACT-AAATGTGCTCAAACGAGCAATGTCTACTGATCCTACTG-AAGTG-TACAAAAGA
1 TGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCT-CAACA-A
* * * * * *
5872340 GTAATATCTACTAATTCTACTAGAAGTGCTC-AACAAGCAATATCTACT
63 GCAATATCTACTGATCCTACT-GAAGAGCTCAAACGAGCAATGTCTA-T
* * * * * *
5872388 CG-TCCTACTGAATGTGCTCAAACAAGCAATGTCTACTGATTCTACTGAATAGTTGCTCAAACAA
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAA-AG-TGCTC-AACAA
* *
5872452 GTAATATCCACTGAT
63 GCAATATCTACTGAT
5872467 TACACTGAAT
Statistics
Matches: 345, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
107 1 0.00
108 23 0.07
109 137 0.40
110 157 0.46
111 6 0.02
112 17 0.05
113 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (109 bp):
TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACAAGCA
ATATCTACTGATCCTACTGAAGAGCTCAAACGAGCAATGTCTAT
Found at i:5872285 original size:36 final size:37
Alignment explanation
Indices: 5871948--5872505 Score: 525
Period size: 37 Copynumber: 15.2 Consensus size: 37
5871938 AAAAATGGAA
* * *
5871948 TACTGATTCTACTG-AAGTGCTC-AACAAGTAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * **
5871983 TACTGATACTATTGAAAAAGCTCAATA--AGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-ACGAGCAATATC
* * * **
5872019 TATTGATCCTACTGAACGAGCTCAAACGAGCAATGCC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* *
5872056 TATTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5872093 TACTGATACTACTGAAAGTGCTC-AACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* *
5872129 TACTGATCCTATTGAATA-TGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAA-AGTGCTCAAACGAGCAATATC
* * * * *
5872166 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * * *
5872203 TACTGATTCTATTGAAAGTGCTC-AACAAACAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5872239 TACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5872275 TACTGATCCTACT-AAATGTGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAAA-GTGCTCAAACGAGCAATATC
* *
5872312 TACTGATCCTACTG-AAGTG-TACAAAAGAGTAATATC
1 TACTGATCCTACTGAAAGTGCT-CAAACGAGCAATATC
* * *
5872348 TACTAATTCTACT-AGAAGTGCTC-AACAAGCAATATC
1 TACTGATCCTACTGA-AAGTGCTCAAACGAGCAATATC
* * *
5872384 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTC
1 TACT-GATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
5872421 TACTGATTCTACTGAATAGTTGCTCAAACAAGTAATATC
1 TACTGATCCTACTGAA-AG-TGCTCAAACGAGCAATATC
* * *
5872460 CACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATC
1 TACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATC
*
5872499 CACTGAT
1 TACTGAT
5872506 TATACTCAAT
Statistics
Matches: 438, Mismatches: 62, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
35 17 0.04
36 180 0.41
37 182 0.42
38 4 0.01
39 52 0.12
40 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (37 bp):
TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
Found at i:5872346 original size:109 final size:111
Alignment explanation
Indices: 5871948--5872505 Score: 527
Period size: 109 Copynumber: 5.1 Consensus size: 111
5871938 AAAAATGGAA
* * * * * * ** *
5871948 TACTGATTCTACTGAA-GTGCTC-AACAAGTAATATCTACTGATACTATTGAAAAAGCTCAATA-
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAAG
* * * **
5872010 AGCAATATCTATTGATCCTACTGAACGAGCTCAAACGAGCAATGCC
66 AGCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * * *
5872056 TATTGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTC-AAC
1 TACTGATCCTACT-AAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAA
* *
5872119 GAGCAATATCTACTGATCCTATTGAATA-TGCTCAAACGAGCAATGTC
65 GAGCAATATCTACTGATCCTACTGAA-AGTGCTCAAACGAGCAATATC
* * * * * *
5872166 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATCTACTGATTCTATTGAAAGTGCTCAACAA
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAA-AA
*
5872231 -A-CAATATCTACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATC
65 GAGCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* *
5872275 TACTGATCCTACTAAATGTGCTCAAACGAGCAATGTCTACTGATCCTACTG-AAGTG-TACAAAA
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCT-CAAAA
* * * *
5872338 GAGTAATATCTACTAATTCTACT-AGAAGTGCTC-AACAAGCAATATC
65 GAGCAATATCTACTGATCCTACTGA-AAGTGCTCAAACGAGCAATATC
* * *
5872384 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTCTACTGATTCTACTGAATAGTTGCTCAA
1 TACT-GATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AG-TGCTCAA
* * * *
5872448 ACA-AGTAATATCCACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATC
63 A-AGAGCAATATCTACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATC
*
5872499 CACTGAT
1 TACTGAT
5872506 TATACTCAAT
Statistics
Matches: 379, Mismatches: 47, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
107 3 0.01
108 22 0.06
109 149 0.39
110 149 0.39
111 4 0.01
112 24 0.06
113 6 0.02
114 7 0.02
115 15 0.04
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (111 bp):
TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAAG
AGCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
Found at i:5880245 original size:20 final size:20
Alignment explanation
Indices: 5880220--5880269 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
5880210 AACACTCAAG
5880220 AAATTTTTCTCAAAATTTCA
1 AAATTTTTCTCAAAATTTCA
5880240 AAATTTTTCTCAAAATTTCA
1 AAATTTTTCTCAAAATTTCA
5880260 AAATTTTTCT
1 AAATTTTTCT
5880270 TAAGAGCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATTTTTCTCAAAATTTCA
Found at i:5883096 original size:31 final size:31
Alignment explanation
Indices: 5883042--5883116 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
5883032 ATGTTGATGA
*
5883042 TATTTTAA-ATTAATTAATTAGATAAATATTAT
1 TATTTTAATATT--TTAATGAGATAAATATTAT
**
5883074 T-TTATTAATATTTTAATGAGATATTTATTAT
1 TATT-TTAATATTTTAATGAGATAAATATTAT
5883105 TATTTTAATATT
1 TATTTTAATATT
5883117 ATTTATTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 27 0.73
32 7 0.19
33 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (31 bp):
TATTTTAATATTTTAATGAGATAAATATTAT
Found at i:5884841 original size:33 final size:32
Alignment explanation
Indices: 5884804--5884907 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 32
5884794 TACCTAAAAG
5884804 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTAGAAAAGGAAATGTACACT-TGTGT
* *
5884837 GTACAACTTA-AAAAGGAAAAGTACACTTTGTAT
1 GTACAAC-TAGAAAAGGAAATGTACAC-TTGTGT
*
5884870 GTAC-ACTTGAAAAGGAAATGTATGC-CTTGTGT
1 GTACAACTAGAAAAGGAAATGTA--CACTTGTGT
5884902 GTACAA
1 GTACAA
5884908 TGTGAAAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.02
32 23 0.38
33 32 0.53
34 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (32 bp):
GTACAACTAGAAAAGGAAATGTACACTTGTGT
Found at i:5884946 original size:31 final size:31
Alignment explanation
Indices: 5884909--5885048 Score: 201
Period size: 31 Copynumber: 4.5 Consensus size: 31
5884899 TGTGTACAAT
*
5884909 GTGAAAAGTGATAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
* *
5884940 GTGAAAAGTGGTAGCTTCAGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
* * *
5884971 GTGAAAAATGATAGCTTCGGCTACTTGATGA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
5885002 GTGAAAAGT-AGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGA-TAGCTTCGGCTACCTGATTA
*
5885033 GTGAAAAGTGGTAGCT
1 GTGAAAAGTGATAGCT
5885049 CCAGGTAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
30 1 0.01
31 94 0.99
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGATAGCTTCGGCTACCTGATTA
Found at i:5884984 original size:62 final size:62
Alignment explanation
Indices: 5884909--5885048 Score: 226
Period size: 62 Copynumber: 2.3 Consensus size: 62
5884899 TGTGTACAAT
*
5884909 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAGTAGTAGCTTCAGCTACCTGATTA
* * * *
5884971 GTGAAAAATGATAGCTTCGGCTACTTGATGAGTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAGTAGTAGCTTCAGCTACCTGATTA
*
5885033 GTGAAAAGTGGTAGCT
1 GTGAAAAGTGATAGCT
5885049 CCAGGTAGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (62 bp):
GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAGTAGTAGCTTCAGCTACCTGATTA
Found at i:5885187 original size:27 final size:27
Alignment explanation
Indices: 5885156--5885220 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
5885146 TAGTTGAACT
*
5885156 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
5885183 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
5885210 ATAGCAAAGTG
1 ATGGCAAAGTG
5885221 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:5885313 original size:34 final size:34
Alignment explanation
Indices: 5885275--5885348 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
5885265 CATGGCAAAG
*
5885275 TGTGAAACGTAGGTATGGTATTTCTATACCGAGC
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
* * *
5885309 TGTGAAACGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
5885343 TGTGAA
1 TGTGAA
5885349 TCGTGGCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
Found at i:5891833 original size:20 final size:20
Alignment explanation
Indices: 5891805--5891846 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5891795 AAAAAGGGAA
* *
5891805 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
5891825 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
5891845 AA
1 AA
5891847 AGAGGTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:5891835 original size:14 final size:13
Alignment explanation
Indices: 5891804--5891843 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
5891794 TAAAAAGGGA
5891804 AAATA-TAATAAT
1 AAATAGTAATAAT
5891816 -AATAGTAATAAT
1 AAATAGTAATAAT
5891828 ACAATAGTAATAAT
1 A-AATAGTAATAAT
5891842 AA
1 AA
5891844 TAAAGAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:5891843 original size:47 final size:52
Alignment explanation
Indices: 5891775--5891871 Score: 118
Period size: 53 Copynumber: 1.9 Consensus size: 52
5891765 TAATGTAAAA
5891775 AATAATAACATATAGTAAATAA-AAAG-GG-A-A-AATATAATAATAATAGT
1 AATAATAACATATAGTAAATAATAAAGAGGTATATAATATAATAATAATAGT
5891822 AATAAT-ACA-ATAGTAATAATAATAAAGAGGTATTATAATATAATAATAAT
1 AATAATAACATATAGT-A-AATAATAAAGAGGTA-TATAATATAATAATAAT
5891872 GATGATAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
45 5 0.12
46 4 0.10
47 11 0.26
48 4 0.10
49 2 0.05
50 1 0.02
52 1 0.02
53 14 0.33
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (52 bp):
AATAATAACATATAGTAAATAATAAAGAGGTATATAATATAATAATAATAGT
Found at i:5891931 original size:3 final size:3
Alignment explanation
Indices: 5891808--5891912 Score: 56
Period size: 3 Copynumber: 35.0 Consensus size: 3
5891798 AAGGGAAAAT
* * *
5891808 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA A-A GAGGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A--TA
* * * * * *
5891853 ATT ATA AT- ATA ATA ATA ATG ATG ATA ATA GTG ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
5891900 ATA GAAA ATA ATA
1 ATA -ATA ATA ATA
5891913 CATTAAATTA
Statistics
Matches: 77, Mismatches: 17, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
2 5 0.06
3 69 0.90
4 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5892186 original size:3 final size:3
Alignment explanation
Indices: 5892178--5892374 Score: 50
Period size: 3 Copynumber: 65.3 Consensus size: 3
5892168 AGCAAAAAGG
* * * * *
5892178 TAA TAA TAA TAA -AA AAGA TAA TAG TAA TAA AAA TAA AAA TAA TAG
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
5892223 TAA TGAA -AA TGG TAA TAA TAA TAAA TAG TAG TAT TAA TACCT TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA--A TAA TAA
** * *
5892271 TAA TAA T-A TGT TAA TAA TAG TAA -AT TAA TGAA TTAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA
** * * * * *
5892315 CCA TAAA TAAA TAA AAA TAA -AG T-A TAA TTA TAA TAT TAA TAT TAA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
5892360 CAA -AA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
5892375 GACATATTAA
Statistics
Matches: 139, Mismatches: 39, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
2 13 0.09
3 106 0.76
4 17 0.12
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Done.