Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 112 of 226
Found at i:34850373 original size:17 final size:17
Alignment explanation
Indices: 34850254--34850397 Score: 74
Period size: 17 Copynumber: 8.4 Consensus size: 17
34850244 TGGTTATGTA
34850254 TATTAAAACTATATATAT
1 TATTAAAACTATATAT-T
*
34850272 T-TTAAAACTATA-ATA
1 TATTAAAACTATATATT
**
34850287 TA-T-AAACTATATAGA
1 TATTAAAACTATATATT
34850302 TATTAAAACAATATATATT
1 TATTAAAAC--TATATATT
34850321 ATATATAAAA-TATATATAT
1 -TAT-TAAAACTATATAT-T
34850340 ATAAATTTTAAAA--ATATATT
1 -T--A--TTAAAACTATATATT
34850360 TATTAAAACTATATA--
1 TATTAAAACTATATATT
*
34850375 TATTAAAACATATGTATT
1 TATTAAAAC-TATATATT
34850393 T-TTAA
1 TATTAA
34850398 TATTAATAAG
Statistics
Matches: 103, Mismatches: 5, Indels: 37
0.71 0.03 0.26
Matches are distributed among these distances:
14 8 0.08
15 21 0.20
16 8 0.08
17 25 0.24
18 9 0.09
19 10 0.10
20 4 0.04
21 12 0.12
22 5 0.05
23 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (17 bp):
TATTAAAACTATATATT
Found at i:34850617 original size:123 final size:121
Alignment explanation
Indices: 34850484--34850716 Score: 290
Period size: 123 Copynumber: 1.9 Consensus size: 121
34850474 TATGCATGTT
* * *
34850484 ATTTATAATTATTTAGAAAACTTATAAA-TTTAATACTAATAAATTTTAAATATAGGTTATATAT
1 ATTTACAATTATTTAGAAAACTTA-AAATTTTAATACTAATAAAATTGAAATATAGGTTATATAT
* * *
34850548 CCATA-CCATATATGGGATGATATATTAAAAATATAGGTTTTAATATTTTATAAAATATC
65 CCATATCAATATAT--G-TAATATATTAAAAATATAGATTTTAATATTTTATAAAATATC
** * * * *
34850607 ATTTACAATTATTTTTAAAATTTAAAATTTTATTATTAATAAAATTGAAATATAGGTTATATATT
1 ATTTACAATTATTTAGAAAACTTAAAATTTTAATACTAATAAAATTGAAATATAGGTTATATATC
* *
34850672 CATATTAATATATGTAATATATTAATAATATAGATTTTAATATTT
66 CATATCAATATATGTAATATATTAAAAATATAGATTTTAATATTT
34850717 AAGATATAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
121 28 0.30
122 4 0.04
123 56 0.60
124 6 0.06
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (121 bp):
ATTTACAATTATTTAGAAAACTTAAAATTTTAATACTAATAAAATTGAAATATAGGTTATATATC
CATATCAATATATGTAATATATTAAAAATATAGATTTTAATATTTTATAAAATATC
Found at i:34850731 original size:21 final size:24
Alignment explanation
Indices: 34850681--34850731 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 24
34850671 TCATATTAAT
*
34850681 ATATGTAATATATTAATAATATAG
1 ATATTTAATATATTAATAATATAG
*
34850705 AT-TTTAATAT-TTAA-GATATA-
1 ATATTTAATATATTAATAATATAG
34850725 ATATTTA
1 ATATTTA
34850732 TGTCCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 9 0.38
22 4 0.17
23 7 0.29
24 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATATTTAATATATTAATAATATAG
Found at i:34857096 original size:45 final size:44
Alignment explanation
Indices: 34856984--34857242 Score: 227
Period size: 44 Copynumber: 5.9 Consensus size: 44
34856974 CAATGTATAG
* *
34856984 CTTCAATCTGCTCCGCTGTAACTTCAGGAAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* * ** *
34857028 CTTCAACCTGCTGCACTACAACTTCAGGGAGATAAGGTTGGTTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGG-TAT
* * * *
34857073 CTTCAGTCTGCTCCAATGTAACTTCAGGGAGATAAGACTAGTAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* * * * *
34857117 CTTCAACCTG-TCCCACTGCAACTTCAGGG-GATAAGGTTTGTCGT
1 CTTCAATCTGCT-CCACTGTAACTTCAGGGAGATAAGATTGGT-AT
* * * * * * ** *
34857161 -TTTAATCCGCTCTATTGCAACTTCAGGGAGATAGGATTACTAG
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
* *
34857204 CTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
34857243 CGCCATGATG
Statistics
Matches: 166, Mismatches: 43, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
43 31 0.19
44 100 0.60
45 35 0.21
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTAT
Found at i:34857097 original size:89 final size:88
Alignment explanation
Indices: 34856984--34857154 Score: 245
Period size: 89 Copynumber: 1.9 Consensus size: 88
34856974 CAATGTATAG
** * * *
34856984 CTTCAATCTGCTCCGCTGTAACTTCAGGAAGATAAGATTGGTATCTTCAACCTG-CTGCACTACA
1 CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTC-CCACTACA
34857048 ACTTCAGGGAGATAAGGTTGGTTAT
65 ACTTCAGGG-GATAAGGTTGGTTAT
* * *
34857073 CTTCAGTCTGCTCCAATGTAACTTCAGGGAGATAAGACTAGTATCTTCAACCTGTCCCACTGCAA
1 CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTCCCACTACAA
34857138 CTTCAGGGGATAAGGTT
66 CTTCAGGGGATAAGGTT
34857155 TGTCGTTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
88 9 0.12
89 63 0.86
90 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
CTTCAATCTGCTCCAATGTAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGTCCCACTACAA
CTTCAGGGGATAAGGTTGGTTAT
Found at i:34857341 original size:50 final size:50
Alignment explanation
Indices: 34857281--34857762 Score: 426
Period size: 50 Copynumber: 9.6 Consensus size: 50
34857271 TCAATGTCGA
* * * *
34857281 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTACCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * * ** * * *
34857331 GGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
*** * * * *
34857381 GGAAGCAAGATTTAACGTTGTAGTTTCAATCTGTTCCACTGCACCGCCAT
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * * ** * *
34857431 GGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* *
34857481 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCATTGCACTGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * ** * * *
34857531 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* ** * *
34857581 GGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCAGTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * ** * *
34857631 GGAAGTAAGATTCTCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * *
34857680 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCACTACCAG
1 GG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
* * * *
34857731 GGAAGTAAGATTTGCTGTTGTGGCTTCAATCT
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
34857763 TTTTAATCGT
Statistics
Matches: 330, Mismatches: 100, Indels: 4
0.76 0.23 0.01
Matches are distributed among these distances:
49 3 0.01
50 324 0.98
51 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCACTGCCAG
Found at i:34857376 original size:100 final size:100
Alignment explanation
Indices: 34857259--34857769 Score: 760
Period size: 100 Copynumber: 5.1 Consensus size: 100
34857249 GATGACTTTG
*
34857259 ATCTTTTTAATTTCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
1 ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
*
34857324 CTACCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
66 CTGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
* * * * *
34857359 ATCTTTTTAATTACAATGTC-AGGGAAGCAAGATTTAACGTTGTAGTTTCAATCTGTTCCACTGC
1 ATCTTTTTAATTGCAATGTCGA-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
* * * *
34857423 ACCGCCATGGAAGTAAGATTCGCTGTTGTGGCTTCA
65 ACTGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
*
34857459 ATCTTTTTAATTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCATTGC
1 ATCTTTTTAATTGCAATGTCGA-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
*
34857523 ACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCA
65 ACTGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
* * * * *
34857559 ATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCAGTGCA
1 ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
* *
34857624 CCGCCAGGGAAGTAAGATTCT-CCGTTGTAGCTTCA
66 CTGCCAGGGAAGTAAGATT-TGCCGTTGTGGCTTCA
34857659 ATCTTTTTAATTGCAATGTCG-GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
1 ATCTTTTTAATTGCAATGTCGAGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGC
* *
34857723 ACTACCAGGGAAGTAAGATTTGCTGTTGTGGCTTCA
65 ACTGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
34857759 ATCTTTTTAAT
1 ATCTTTTTAAT
34857770 CGTAACCTCC
Statistics
Matches: 371, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
99 4 0.01
100 367 0.99
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
ATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTGCA
CTGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCA
Found at i:34869429 original size:35 final size:35
Alignment explanation
Indices: 34869388--34869518 Score: 120
Period size: 35 Copynumber: 3.8 Consensus size: 35
34869378 ATCGACGATG
34869388 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
*** * * * *
34869423 GTTGTGCCCAGTGCTAGTCGGAT-AACCGACGGTA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
* * *
34869457 GTTGTGCCCAACATTAGTCAGATAAACTGACAAAA
1 GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
* * * **
34869492 ATTGCGCCCAACGCTAGTTGGATGAAC
1 GTTGTGCCCAACACTAGTCAGATGAAC
34869519 CAACAATATT
Statistics
Matches: 72, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
34 26 0.36
35 46 0.64
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (35 bp):
GTTGTGCCCAACACTAGTCAGATGAACTGACAGAA
Found at i:34869440 original size:69 final size:69
Alignment explanation
Indices: 34869338--34869488 Score: 194
Period size: 69 Copynumber: 2.2 Consensus size: 69
34869328 AGAAATAATT
* * ** * *
34869338 AGATAAACTAACAGAAGTTATGCCGAGCACTAGTTTGATAATCGACGATGGTTGTGCCCAACACT
1 AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCGGATAACCGACGATAGTTGTGCCCAACACT
34869403 AGTC
66 AGTC
* * ** * *
34869407 AGATGAACTGACAGAAGTTGTGCCCAGTGCTAGTCGGATAACCGACGGTAGTTGTGCCCAACATT
1 AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCGGATAACCGACGATAGTTGTGCCCAACACT
34869472 AGTC
66 AGTC
34869476 AGATAAACTGACA
1 AGATAAACTGACA
34869489 AAAATTGCGC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (69 bp):
AGATAAACTGACAGAAGTTATGCCCAGCACTAGTCGGATAACCGACGATAGTTGTGCCCAACACT
AGTC
Found at i:34869475 original size:34 final size:34
Alignment explanation
Indices: 34869365--34869481 Score: 108
Period size: 34 Copynumber: 3.4 Consensus size: 34
34869355 TTATGCCGAG
** * * *
34869365 CACTAGTTTGATAATCGACGATGGTTGTGCCCAA
1 CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
* * * *
34869399 CACTAGTCAGATGAACTGACAGAAGTTGTGCCCAG
1 CACTAGTCAGAT-AACCGACGGTAGTTGTGCCCAA
** *
34869434 TGCTAGTCGGATAACCGACGGTAGTTGTGCCCAA
1 CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
*
34869468 CATTAGTCAGATAA
1 CACTAGTCAGATAA
34869482 ACTGACAAAA
Statistics
Matches: 62, Mismatches: 20, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
34 38 0.61
35 24 0.39
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
CACTAGTCAGATAACCGACGGTAGTTGTGCCCAA
Found at i:34869501 original size:69 final size:69
Alignment explanation
Indices: 34869374--34869519 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 69
34869364 GCACTAGTTT
* * * * * * **
34869374 GATAATCGACGATGGTTGTGCCCAACACTAGTCAGATGAACTGACAGAAGTTGTGCCCAGTGCTA
1 GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
34869439 GTCG
66 GTCG
* *
34869443 GATAACCGACGGTAGTTGTGCCCAACATTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
1 GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
*
34869508 GTTG
66 GTCG
34869512 GATGAACC
1 GAT-AACC
34869520 AACAATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
69 61 0.94
70 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (69 bp):
GATAACCGACGATAGTTGTGCCCAACACTAGTCAGATAAACTGACAAAAATTGCGCCCAACGCTA
GTCG
Found at i:34869582 original size:20 final size:20
Alignment explanation
Indices: 34869554--34869600 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
34869544 AGTCCATAAA
34869554 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
* *
34869574 ATTACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
34869594 ATCACAT
1 ATCACAT
34869601 ATTCTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:34873477 original size:29 final size:29
Alignment explanation
Indices: 34873444--34873671 Score: 180
Period size: 29 Copynumber: 7.9 Consensus size: 29
34873434 GTGTAATCAC
*
34873444 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * *
34873473 GATGGTCATCACTATCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * * *
34873502 GATAGTCG-AAGCTATCCCTTTTCATAATC
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* *** **
34873531 GATAG-CCAAAGTTATCCCTTTTCATAATT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* * *
34873560 CAATGGTCGTCACCATCTCTTTTCATAGTT
1 -GATGGTCGTCACCATCCCTTTTCATAATT
*
34873590 GATGGTCGTCA-C-T--ATTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAA-TT
** *
34873616 GATGGTCGTCACCATTTCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
*
34873645 GATGGTCGTCACTATCCCTTTTCATAA
1 GATGGTCGTCACCATCCCTTTTCATAA
34873672 ATCCCTAATT
Statistics
Matches: 162, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
25 8 0.05
26 13 0.08
27 2 0.01
28 4 0.02
29 108 0.67
30 25 0.15
31 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAATT
Found at i:34873621 original size:55 final size:55
Alignment explanation
Indices: 34873549--34873659 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
34873539 AAGTTATCCC
34873549 TTTTCATAATTCAATGGTCGTCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAATTCAATGGTCGTCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
** *
34873604 TTTTCATAATTTGATGGTCGTCACCATTTCTTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAATTCAATGGTCGTCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
34873659 T
1 T
34873660 CCCTTTTCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (55 bp):
TTTTCATAATTCAATGGTCGTCACCATCTCTTTTCATAGTTGATGGTCGTCACTA
Found at i:34873624 original size:26 final size:25
Alignment explanation
Indices: 34873579--34873659 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 25
34873569 TCACCATCTC
34873579 TTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAGTTGATGGTCGTCACTA
* *
34873604 TTTTCATAATTTGATGGTCGTCACCATTTC
1 TTTTCAT-AGTTGATGGTCGTCA-C---TA
34873634 TTTTCATAGTTGATGGTCGTCACTA
1 TTTTCATAGTTGATGGTCGTCACTA
34873659 T
1 T
34873660 CCCTTTTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 9 0.19
26 14 0.30
27 1 0.02
28 1 0.02
29 14 0.30
30 8 0.17
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (25 bp):
TTTTCATAGTTGATGGTCGTCACTA
Found at i:34880208 original size:14 final size:14
Alignment explanation
Indices: 34880189--34880220 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34880179 AGGTCATTTA
34880189 GCCCAACCAAACTG
1 GCCCAACCAAACTG
34880203 GCCCAACCAAACTG
1 GCCCAACCAAACTG
34880217 GCCC
1 GCCC
34880221 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:34888042 original size:13 final size:13
Alignment explanation
Indices: 34888011--34888044 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
34888001 TTCACAAAGC
34888011 AATTAAAAATACA
1 AATTAAAAATACA
34888024 ATATTAAAAATACA
1 A-ATTAAAAATACA
34888038 AATTAAA
1 AATTAAA
34888045 TATTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (13 bp):
AATTAAAAATACA
Found at i:34888060 original size:20 final size:20
Alignment explanation
Indices: 34888023--34888061 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34888013 TTAAAAATAC
*
34888023 AATATTAAAAATACAAATTA
1 AATATTAAAAACACAAATTA
* *
34888043 AATATTAAATACATAAATT
1 AATATTAAAAACACAAATT
34888062 CACATGCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTAAAAACACAAATTA
Found at i:34893188 original size:32 final size:32
Alignment explanation
Indices: 34893152--34893215 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
34893142 AGCCCAAAGC
* * *
34893152 ATGTTTCATCAGGGGAGAAGTGACAAAAGTTT
1 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
34893184 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
1 ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
34893216 TTAGGAGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (32 bp):
ATGTTTCACCACGGGAGAAGTGAAAAAAGTTT
Found at i:34893291 original size:15 final size:15
Alignment explanation
Indices: 34893265--34893302 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34893255 TAGTAAAATT
34893265 ATAATGTTATATTTTA
1 ATAAT-TTATATTTTA
*
34893281 ATAATTTATATTTTT
1 ATAATTTATATTTTA
34893296 ATAATTT
1 ATAATTT
34893303 TTAAAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATAATTTATATTTTA
Found at i:34897076 original size:217 final size:218
Alignment explanation
Indices: 34896700--34897135 Score: 856
Period size: 217 Copynumber: 2.0 Consensus size: 218
34896690 TCTCTACTAT
*
34896700 TCTCGTACCACAAACTGCTTTGAGTGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
1 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
34896765 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
66 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
34896830 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
131 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
34896895 TCAAAGTTGTTTAAAACTTAATG
196 TCAAAGTTGTTTAAAACTTAATG
34896918 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACA-AAAAAAATAAA
1 TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
34896982 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
66 TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
34897047 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
131 TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
34897112 TCAAAGTTGTTTAAAACTTAATG
196 TCAAAGTTGTTTAAAACTTAATG
34897135 T
1 T
34897136 GTATTTAGCC
Statistics
Matches: 217, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
217 165 0.76
218 52 0.24
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (218 bp):
TCTCGTACCACAAACTGCTTTGAGCGTGGGCTTGAACGAATTAGAATCAAACACAAAAAAATAAA
TTATTTAATTTACTTTCAGTAGGAAAACAAAAATCTCTCTTTAATAGAAACTGATAGAATTGTTA
TTCCAAAAAATATAATTCATACTTAATAGTAAATTCTCACTATTTTCGGGCAGAATAATAATATC
TCAAAGTTGTTTAAAACTTAATG
Found at i:34899081 original size:8 final size:8
Alignment explanation
Indices: 34899068--34899096 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34899058 TATATGTACT
34899068 AAATAATA
1 AAATAATA
34899076 AAATAATA
1 AAATAATA
34899084 AAATAATA
1 AAATAATA
34899092 AAATA
1 AAATA
34899097 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:34899796 original size:16 final size:16
Alignment explanation
Indices: 34899777--34899807 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34899767 GTAATTAATT
*
34899777 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
34899793 AATTAAATAATTTTC
1 AATTAAATAATTTTC
34899808 TCAACCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:34903957 original size:50 final size:50
Alignment explanation
Indices: 34903844--34904039 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
34903834 ACATTAGGGG
**
34903844 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG---TACCGA
*
34903895 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
*** * * *
34903948 GATGAGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
* ** * * *
34903998 TATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATT
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
34904040 TGCAGTATAG
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
50 73 0.61
52 2 0.02
53 4 0.03
54 6 0.05
56 34 0.29
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGA
Found at i:34904329 original size:20 final size:20
Alignment explanation
Indices: 34904304--34904342 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34904294 TGAGTTATTT
34904304 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
34904324 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
34904343 AAAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:34917637 original size:54 final size:54
Alignment explanation
Indices: 34917544--34917653 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
34917534 TGTGTATTAG
* * *
34917544 GTCAGTGAGTTACACGGTCTAGCACATGACCTAACACACGACCGTGTGACACAA
1 GTCAGAGAGTTACAAGGTCTAGCACACGACCTAACACACGACCGTGTGACACAA
* * ** *
34917598 GTCAGAGAGTTACAAGGTCTGGCACACGGCCT-ACGACACGGTCGTGTGACCCAA
1 GTCAGAGAGTTACAAGGTCTAGCACACGACCTAAC-ACACGACCGTGTGACACAA
34917652 GT
1 GT
34917654 GATAGTACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.04
54 45 0.96
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.18
Consensus pattern (54 bp):
GTCAGAGAGTTACAAGGTCTAGCACACGACCTAACACACGACCGTGTGACACAA
Found at i:34924532 original size:25 final size:24
Alignment explanation
Indices: 34924476--34924548 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
34924466 ACCATAACTT
* *
34924476 GTATGAGCTTACCGATTTCATCTC
1 GTATGAGCTTACCGATTCCAGCTC
*
34924500 GTGA-GAGCTTATCGATTCCCAGCTC
1 GT-ATGAGCTTACCGATT-CCAGCTC
*
34924525 GTATGAGCTTACCTATTTCCAGCT
1 GTATGAGCTTACCGA-TTCCAGCT
34924549 AGTGACAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 15 0.38
25 23 0.57
26 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (24 bp):
GTATGAGCTTACCGATTCCAGCTC
Found at i:34925749 original size:12 final size:12
Alignment explanation
Indices: 34925732--34925757 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34925722 GCTATTACAT
34925732 GGCCTAGCACAC
1 GGCCTAGCACAC
34925744 GGCCTAGCACAC
1 GGCCTAGCACAC
34925756 GG
1 GG
34925758 GCATGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:34930815 original size:25 final size:25
Alignment explanation
Indices: 34930745--34930831 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
34930735 TAGCTTGTAT
*
34930745 GAGCTTTCCAATTT-CAGCTCATGA
1 GAGCTTACCAATTTCCAGCTCATGA
**
34930769 GAGCTTACTGA-TTCTCAGCTCAT-A
1 GAGCTTACCAATTTC-CAGCTCATGA
*
34930793 TGAGCTTACCAATTTCCAACTCATGA
1 -GAGCTTACCAATTTCCAGCTCATGA
*
34930819 GAGCATACCAATT
1 GAGCTTACCAATT
34930832 CATAGCTCGT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
23 2 0.04
24 9 0.18
25 36 0.71
26 4 0.08
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (25 bp):
GAGCTTACCAATTTCCAGCTCATGA
Found at i:34930839 original size:50 final size:49
Alignment explanation
Indices: 34930733--34930847 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 49
34930723 GCGGACACAC
* * * * **
34930733 CATAGCTTGTATGAGCTTTCCAATTTCAGCTCATGAGAGCTTACTGATT
1 CATAGCTCGTATGAGCTTACCAATTTCAACTCATGAGAGCATACCAATT
*
34930782 C-TCAGCTCATATGAGCTTACCAATTTCCAACTCATGAGAGCATACCAATT
1 CAT-AGCTCGTATGAGCTTACCAATTT-CAACTCATGAGAGCATACCAATT
34930832 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
34930848 ATACATGTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.02
49 21 0.38
50 32 0.58
51 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (49 bp):
CATAGCTCGTATGAGCTTACCAATTTCAACTCATGAGAGCATACCAATT
Found at i:34932966 original size:51 final size:50
Alignment explanation
Indices: 34932847--34933027 Score: 229
Period size: 51 Copynumber: 3.6 Consensus size: 50
34932837 CATTCGATAT
* * *
34932847 ACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCGGTTC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAACTTT-CGGTAC
*
34932897 ACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAAACCTTTCGGTAC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAA-CTTTCGGTAC
* * * * * *
34932948 ACATAGTAGCCTGCACATAGGACTACACATGTGATCATTATCTATCGATAC
1 ACGTAGTAGCCTGCACATAGTACTACACATGTGATCA-AAACTTTCGGTAC
*
34932999 ACGTAGTAGCCTGCACTTAGTACTACACA
1 ACGTAGTAGCCTGCACATAGTACTACACA
34933028 CGTGTTTATA
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
50 33 0.29
51 76 0.67
52 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
ACGTAGTAGCCTGCACATAGTACTACACATGTGATCAAAACTTTCGGTAC
Found at i:34941790 original size:25 final size:24
Alignment explanation
Indices: 34941728--34941809 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 24
34941718 GGACACACCA
* *
34941728 TAGCTTGTATAAGCTTACCGATTT
1 TAGCTCGTATGAGCTTACCGATTT
*
34941752 TAGCTCGTGA-GAGCTTTCCGATTCT
1 TAGCTCGT-ATGAGCTTACCGATT-T
*
34941777 TAGCTCGTATGAGCTTACCAATTT
1 TAGCTCGTATGAGCTTACCGATTT
34941801 TCAGCTCGT
1 T-AGCTCGT
34941810 GACAGCATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
24 21 0.43
25 28 0.57
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (24 bp):
TAGCTCGTATGAGCTTACCGATTT
Found at i:34941831 original size:50 final size:49
Alignment explanation
Indices: 34941726--34941832 Score: 124
Period size: 50 Copynumber: 2.2 Consensus size: 49
34941716 GTGGACACAC
* * * * * *
34941726 CATAGCTTGTATAAGCTTACCGATTTTAGCTCGTGAGAGCTTTCCGATT
1 CATAGCTCGTATAAGCTTACCAATTTTAGCTCGTGACAGCATACCAATT
* * *
34941775 CTTAGCTCGTATGAGCTTACCAATTTTCAGCTCGTGACAGCATACTAATT
1 CATAGCTCGTATAAGCTTACCAATTTT-AGCTCGTGACAGCATACCAATT
34941825 CATAGCTC
1 CATAGCTC
34941833 ATATTACCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 23 0.49
50 24 0.51
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (49 bp):
CATAGCTCGTATAAGCTTACCAATTTTAGCTCGTGACAGCATACCAATT
Found at i:34947971 original size:72 final size:73
Alignment explanation
Indices: 34947888--34948035 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 73
34947878 TTTAATGCTA
* * *
34947888 TCCCAAGTCCCATGCACACACTAAATTCGGCTG-GTTGGGAAAATACAACAG-CAACTTTCGCTT
1 TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTT-GCTT
34947951 TAAATGCCG
65 TAAATGCCG
* * * * * *
34947960 TCCCAAGTCCCATGCACTCAATAAATTCGGCAGCTTTGGAAAAATGCAGCAGCCACCTTTTCTTT
1 TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTTGCTTT
34948025 AAATGCCG
66 AAATGCCG
34948033 TCC
1 TCC
34948036 ATGTACCTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 30 0.46
73 29 0.45
74 6 0.09
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (73 bp):
TCCCAAGTCCCATGCACACAATAAATTCGGCAGCGTTGGAAAAATACAACAGCCAACTTTGCTTT
AAATGCCG
Found at i:34948243 original size:16 final size:16
Alignment explanation
Indices: 34948222--34948253 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34948212 CATTCTGCAT
34948222 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
34948238 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
34948254 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:34957643 original size:40 final size:40
Alignment explanation
Indices: 34957556--34957643 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
34957546 TTGCACCTCG
*
34957556 GTGCCCTTATAAACACTTCGGTGTCCCTATTTGCACAATT
1 GTGCCCCTATAAACACTTCGGTGTCCCTATTTGCACAATT
* * *
34957596 GTTCCCCTATAAACACTTTGGTGTCCTTGA-TTGCAC-ATT
1 GTGCCCCTATAAACACTTCGGTGTCCCT-ATTTGCACAATT
34957635 CGTGCCCCT
1 -GTGCCCCT
34957644 GAATGCACTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 37 0.90
41 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (40 bp):
GTGCCCCTATAAACACTTCGGTGTCCCTATTTGCACAATT
Found at i:34957704 original size:40 final size:41
Alignment explanation
Indices: 34957609--34957704 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 41
34957599 CCCCTATAAA
* * *
34957609 CACTTTGGTGT-CCTTGATTGCACATTCGTGCCCCTGAATG
1 CACTTTGGTGTCCCTAGATTACACACTCGTGCCCCTGAATG
*** * * *
34957649 CACTCAAGTGCCCCTAG-TTACACACTCGTGCTCCTGATTG
1 CACTTTGGTGTCCCTAGATTACACACTCGTGCCCCTGAATG
34957689 CACTTTGGTGTCCCTA
1 CACTTTGGTGTCCCTA
34957705 AAATTGAGTG
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (41 bp):
CACTTTGGTGTCCCTAGATTACACACTCGTGCCCCTGAATG
Found at i:34980078 original size:25 final size:25
Alignment explanation
Indices: 34980040--34980093 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
34980030 TGTACATGTC
*
34980040 TGCTCATACGAGCTGTGA-ATCGGTA
1 TGCTCATACAAGCT-TGAGATCGGTA
* *
34980065 TGCTCATGCAAGCTTTAGATCGGTA
1 TGCTCATACAAGCTTGAGATCGGTA
34980090 TGCT
1 TGCT
34980094 GACATGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (25 bp):
TGCTCATACAAGCTTGAGATCGGTA
Found at i:34983829 original size:45 final size:46
Alignment explanation
Indices: 34983754--34984009 Score: 206
Period size: 45 Copynumber: 5.7 Consensus size: 46
34983744 ATGGTTGCAG
* * *
34983754 GATGCCATAGTGTCTTTCAA-TCATGATCTTATTC-TTCTGATTCAT
1 GATGCCATAGTGTCTTTCAACT-ATGGTCTTACTCGTTCTGAATCAT
* * * * * *
34983799 GATCCCATAGCGTCTTTCAACTATGGTCTTACTCATT-AGAACCGT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
* * * ** *
34983844 GATGCCATAATGTCTTTCAGCTATGCTCTTACTCGTT-AAAATCGT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
* ** * *
34983889 GATGACATAACGTCTTTCAGCTATGGTCTTACTCGTTTTCG-AT-AT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTCT-GAATCAT
* * *
34983934 GATGCCATAGTTTCTTTCAACTATGGTCTTATTCAGTTCTG-GT-AT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTC-GTTCTGAATCAT
34983979 -ATTGCCATAGTGTCTTTCAACTATGGTCTTA
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTA
34984010 TTACTTCATT
Statistics
Matches: 174, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 164 0.94
46 9 0.05
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (46 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
Found at i:34985979 original size:40 final size:40
Alignment explanation
Indices: 34985896--34985983 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
34985886 TTCCACCTCG
** * *
34985896 GTGCCCCTGTAAACACTTCGGTGTCCCTGTTTGCACAACT
1 GTGCCCCTGTAAACACTTCAATGTCCCTGATTACACAACT
* * **
34985936 GTGCCCTTGTAAACATTTCAATGTCCCTGATTACACATTT
1 GTGCCCCTGTAAACACTTCAATGTCCCTGATTACACAACT
34985976 GTGCCCCT
1 GTGCCCCT
34985984 AAATGCACTC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (40 bp):
GTGCCCCTGTAAACACTTCAATGTCCCTGATTACACAACT
Found at i:35000249 original size:29 final size:29
Alignment explanation
Indices: 35000207--35000478 Score: 214
Period size: 29 Copynumber: 9.4 Consensus size: 29
35000197 CCCTCAAATA
35000207 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * *
35000236 ATGAACAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * * *
35000265 ATGAAAAAGGAT-G--TTGACAACCATCAAAT
1 ATGAAAAGGGATAGCTTTG---GCTATCGAAT
* ** *
35000294 ATGAAAAGGGAT-GGTAACGACTATCGAAT
1 ATGAAAAGGGATAGCT-TTGGCTATCGAAT
35000323 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * *
35000352 ATGGAAAGGGATAGCTTTGACTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * * *
35000381 ATGAAAAGGGACAACTTTAGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* ** * *
35000410 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TTGGCTATCGAAT
* * *
35000439 A-GAAATGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
*
35000467 ATGAAAACGGAT
1 ATGAAAAGGGAT
35000479 GGTTTTGACC
Statistics
Matches: 191, Mismatches: 42, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.01
28 21 0.11
29 165 0.86
30 2 0.01
32 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTATCGAAT
Found at i:35000353 original size:58 final size:57
Alignment explanation
Indices: 35000207--35000481 Score: 252
Period size: 58 Copynumber: 4.8 Consensus size: 57
35000197 CCCTCAAATA
* * * * *
35000207 ATGAAAAGGGATAGCTTTGGCTATCGAATATGAACAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGAT-GGTACGACTATCGAAT
* * * *
35000265 ATGAAAAAGGAT-G--TTGACAACCATCAAATATGAAAAGGGATGGTAACGACTATCGAAT
1 ATGAAAAGGGATAGCTTTG---GCTATCGAATATGAAAAGGGATGGT-ACGACTATCGAAT
* * ** *
35000323 ATGAAAAGGGATAGCTTTGGCTATCGAATATGGAAAGGGATAGCTTTGACTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGAT-GGTACGACTATCGAAT
* * * * *
35000381 ATGAAAAGGGACAACTTTAGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGATGGT-ACGACTATCGAAT
* * * *
35000439 A-GAAATGGGATAGCTTCGGCTATTGAATATGAAAACGGATGGT
1 ATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGATGGT
35000482 TTTGACCATT
Statistics
Matches: 172, Mismatches: 36, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
55 3 0.02
57 39 0.23
58 124 0.72
59 3 0.02
61 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTTGGCTATCGAATATGAAAAGGGATGGTACGACTATCGAAT
Found at i:35009959 original size:102 final size:102
Alignment explanation
Indices: 35009777--35010116 Score: 400
Period size: 102 Copynumber: 3.4 Consensus size: 102
35009767 GATGAACACG
* *
35009777 TGTGTAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCATATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * *
35009842 TGAAGGCTACAATGTGTACTGAGAAGCTTTGGTCACA
66 TGAAGGCTACTATGTGTACAGAAAAGCTTTGGTCACA
* *
35009879 TGTGTAGTACTGTGTGAAGGATACTACGTGTATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* *
35009944 TGAAGACTACTATGTGTACAGAAAAGCTTTGGTCACG
66 TGAAGGCTACTATGTGTACAGAAAAGCTTTGGTCACA
* * * *** * * *
35009981 TGTGTAATACTTTGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
** * * *
35010045 TGAAGGCTACTACATGAACCATAAAA-C-TTGATCA-A
66 TGAAGGCTACTATGTGTA-CAGAAAAGCTTTGGTCACA
* * *
35010080 GTGTGTAGTACTATGTGAAGTCTACTACGTGTATCGA
1 -TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
35010117 ATGATAAAAG
Statistics
Matches: 203, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
100 36 0.18
101 38 0.19
102 129 0.64
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
TGAAGGCTACTATGTGTACAGAAAAGCTTTGGTCACA
Found at i:35010047 original size:50 final size:50
Alignment explanation
Indices: 35009773--35010110 Score: 284
Period size: 51 Copynumber: 6.7 Consensus size: 50
35009763 TATCGATGAA
* * * ***
35009773 CACGTGTGTAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
** * * * * * *
35009824 CATATGTGTAGTACTAAGTGAAGGCTACAATGTGTACTG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * * * ***
35009875 CACATGTGTAGTACTGTGTGAAGGATACTACGTGTATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * *
35009926 CACATGTGTAGTACTAAGTGAAGACTACTATGTGTACAG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* * *
35009977 CACGTGTGTAATACTTTGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* * *
35010027 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
35010077 CAAGTGTGTAGTACTATGTGAAGTCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
35010111 TATCGAATGA
Statistics
Matches: 230, Mismatches: 50, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
49 4 0.02
50 83 0.36
51 136 0.59
52 6 0.03
53 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:35010349 original size:21 final size:22
Alignment explanation
Indices: 35010323--35010374 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35010313 GAATATTGAC
**
35010323 TTGAAAATGGCAAAGTG-AATT
1 TTGAAAATGAAAAAGTGAAATT
*
35010344 TTGAAAGTGAAAAAGTGAAATT
1 TTGAAAATGAAAAAGTGAAATT
*
35010366 ATGAAAATG
1 TTGAAAATG
35010375 TAGAATTAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (22 bp):
TTGAAAATGAAAAAGTGAAATT
Found at i:35014324 original size:27 final size:26
Alignment explanation
Indices: 35014294--35014362 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
35014284 CTTGTACTTG
*
35014294 TTTTTTTTCTCTTATT-TTCTTCTTTA
1 TTTTTTTT-TCTTTTTATTCTTCTTTA
*
35014320 TTTTTATTTTCTTTTTATTTTTCTTTA
1 TTTTT-TTTTCTTTTTATTCTTCTTTA
*
35014347 TTTTTTCTT-TTTTTAT
1 TTTTTTTTTCTTTTTAT
35014363 GTAATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 7 0.18
26 14 0.37
27 17 0.45
ACGTcount: A:0.09, C:0.10, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTATTCTTCTTTA
Found at i:35014352 original size:17 final size:17
Alignment explanation
Indices: 35014305--35014341 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
35014295 TTTTTTTCTC
35014305 TTATTTTCTTCTTTATTT
1 TTATTTTCTT-TTTATTT
35014323 TTATTTTCTTTTTATTT
1 TTATTTTCTTTTTATTT
35014340 TT
1 TT
35014342 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTATTTTCTTTTTATTT
Found at i:35014358 original size:18 final size:18
Alignment explanation
Indices: 35014296--35014359 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
35014286 TGTACTTGTT
35014296 TTTTTTCTCTTATTTTCTTC
1 TTTTTTCT-TTATTTT-TTC
* *
35014316 TTTATT-TTTATTTTCTTTT
1 TTTTTTCTTTA-TTT-TTTC
35014335 TATTTTTCTTTATTTTTTC
1 T-TTTTTCTTTATTTTTTC
35014354 TTTTTT
1 TTTTTT
35014360 TATGTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
20 13 0.36
21 4 0.11
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTCTTTATTTTTTC
Found at i:35015874 original size:21 final size:22
Alignment explanation
Indices: 35015797--35016295 Score: 320
Period size: 24 Copynumber: 21.7 Consensus size: 22
35015787 CTACCCTGTT
35015797 TTGGACAGCATTTATACATCAAA
1 TTGGACAGCA-TTATACATCAAA
35015820 TTGGACAGCATTAATATGC-TCAAA
1 TTGGACAGCATT-ATA--CATCAAA
*
35015844 ATGGACAGCATTATACATC-AA
1 TTGGACAGCATTATACATCAAA
* *
35015865 TTGGATAGCATCAATATGC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
* *
35015889 ATAGACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
*
35015911 TTGGACAGCATCAATATGC-TCTAAA
1 TTGGACAGCAT---TATACATC-AAA
*
35015936 -TAGACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
*
35015957 TTGGACAACATCAATATAC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
*
35015981 ATGGACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
*
35016003 TTGGACAGCTTTAATATGC-TCAAA
1 TTGGACAGCATT-ATA--CATCAAA
*
35016027 TTGGACAGCATCAATATGC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
* * * *
35016051 ATGGATAGGATTATGCATCAAA
1 TTGGACAGCATTATACATCAAA
* **
35016073 TTGGACAGCATCAATATGGTCAAA
1 TTGGACAGCAT-TATA-CATCAAA
* *
35016097 ATGTACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
* *
35016119 TTAGACAGCATCAATATGC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
*
35016143 ATGGACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
* *
35016165 TTGGACAGTATCAATATGC-TCAAA
1 TTGGACAG---CATTATACATCAAA
* *
35016189 ATGTACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
*
35016211 TTGGACAACATCAATATAC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
*
35016235 ATGGACAGCATTATACATCAAA
1 TTGGACAGCATTATACATCAAA
* *
35016257 TTAGACAGCATCAATATGC-TCAAA
1 TTGGACAGCAT---TATACATCAAA
*
35016281 ATGGACAGCATTATA
1 TTGGACAGCATTATA
35016296 ACATATAAAA
Statistics
Matches: 372, Mismatches: 61, Indels: 88
0.71 0.12 0.17
Matches are distributed among these distances:
21 51 0.14
22 108 0.29
23 26 0.07
24 151 0.41
25 33 0.09
26 2 0.01
27 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (22 bp):
TTGGACAGCATTATACATCAAA
Found at i:35015930 original size:46 final size:46
Alignment explanation
Indices: 35015798--35016037 Score: 374
Period size: 46 Copynumber: 5.2 Consensus size: 46
35015788 TACCCTGTTT
*
35015798 TGGACAGCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
35015845 TGGACAGCATTATACATC-AATTGGATAGCATCAATATGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
35015890 TAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * *
35015936 TAGACAGCATTATACATCAAATTGGACAACATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * *
35015982 TGGACAGCATTATACATCAAATTGGACAGCTTTAATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
35016028 TGGACAGCAT
1 TGGACAGCAT
35016038 CAATATGCTC
Statistics
Matches: 178, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
45 42 0.24
46 127 0.71
47 9 0.05
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:35016033 original size:116 final size:116
Alignment explanation
Indices: 35015906--35016153 Score: 379
Period size: 116 Copynumber: 2.1 Consensus size: 116
35015896 GCATTATACA
*
35015906 TCAAATTGGACAGCATCAATATGCTCTAAATAGACAGCATTATACATCAAATTGGACAACATCAA
1 TCAAATTGGACAGCATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAACATCAA
* * *
35015971 TATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCTTTAATATGC
66 TATACTCAAAATGGACAGCATTATACATCAAATTAGACAGCATCAATATGC
* * * * *
35016022 TCAAATTGGACAGCATCAATATGCTCAAAATGGATAGGATTATGCATCAAATTGGACAGCATCAA
1 TCAAATTGGACAGCATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAACATCAA
** *
35016087 TATGGTCAAAATGTACAGCATTATACATCAAATTAGACAGCATCAATATGC
66 TATACTCAAAATGGACAGCATTATACATCAAATTAGACAGCATCAATATGC
*
35016138 TCAAAATGGACAGCAT
1 TCAAATTGGACAGCAT
35016154 TATACATCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (116 bp):
TCAAATTGGACAGCATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAACATCAA
TATACTCAAAATGGACAGCATTATACATCAAATTAGACAGCATCAATATGC
Found at i:35016043 original size:162 final size:162
Alignment explanation
Indices: 35015809--35016199 Score: 526
Period size: 162 Copynumber: 2.4 Consensus size: 162
35015799 GGACAGCATT
* * *
35015809 TATACATCAAATTGGACAGCATTAATATGC-TCAAAATGGACAGCATT-ATA--CATC-AATTGG
1 TATAC-TCAAAATGGACAGCATT-ATA--CATCAAATTGGACAGCTTTAATATGC-TCAAATTGG
* *
35015869 ATAGCATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTA
61 ACAGCATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAA
*
35015934 AATAG-ACAGCATTATACATCAAATTGGACAACATCAA
126 AAT-GTACAGCATTATACATCAAATTAGACAACATCAA
35015971 TATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGACAGC
1 TATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGACAGC
* * * * *
35016036 ATCAATATGCTCAAAATGGATAGGATTATGCATCAAATTGGACAGCATCAATATGGTCAAAATGT
66 ATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAATGT
*
35016101 ACAGCATTATACATCAAATTAGACAGCATCAA
131 ACAGCATTATACATCAAATTAGACAACATCAA
* * * *
35016133 TATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG-TATCAATATGCTCAAAATGTACAG
1 TATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCT-TTAATATGCTCAAATTGGACAG
35016197 CAT
65 CAT
35016200 TATACATCAA
Statistics
Matches: 206, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
158 1 0.00
159 15 0.07
160 6 0.03
161 20 0.10
162 164 0.80
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (162 bp):
TATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGACAGC
ATCAATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAATGT
ACAGCATTATACATCAAATTAGACAACATCAA
Found at i:35016072 original size:46 final size:46
Alignment explanation
Indices: 35016022--35016295 Score: 449
Period size: 46 Copynumber: 6.0 Consensus size: 46
35016012 TTTAATATGC
* * *
35016022 TCAAATTGGACAGCATCAATATGCTCAAAATGGATAGGATTATGCA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
* *
35016068 TCAAATTGGACAGCATCAATATGGTCAAAATGTACAGCATTATACA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
*
35016114 TCAAATTAGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
* *
35016160 TCAAATTGGACAGTATCAATATGCTCAAAATGTACAGCATTATACA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
* *
35016206 TCAAATTGGACAACATCAATATACTCAAAATGGACAGCATTATACA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
*
35016252 TCAAATTAGACAGCATCAATATGCTCAAAATGGACAGCATTATA
1 TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATA
35016296 ACATATAAAA
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 210 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (46 bp):
TCAAATTGGACAGCATCAATATGCTCAAAATGGACAGCATTATACA
Found at i:35016072 original size:92 final size:92
Alignment explanation
Indices: 35015797--35016293 Score: 409
Period size: 92 Copynumber: 5.4 Consensus size: 92
35015787 CTACCCTGTT
*
35015797 TTGGACAGCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCAT---TATA
1 TTGGACAGCA-TTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAGCATCAATATA
* * *
35015859 CATC-AATTGGATAGCATCAATATGC-TCAAA
65 C-TCAAAATGGACAGCAT---TATACATCAAA
* * * *
35015889 ATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTAAA-TAGACAGCAT---TATA
1 TTGGACAGCATTATACATCAAATTGGACAGCATTAATATGCTC-AAATTGGACAGCATCAATATA
* *
35015950 CATCAAATTGGACAACATCAATATAC-TCAAA
65 C-TCAAAATGGACAGCAT---TATACATCAAA
* * *
35015981 ATGGACAGCATTATACATCAAATTGGACAGCTTTAATATGCTCAAATTGGACAGCATCAATATGC
1 TTGGACAGCATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAGCATCAATATAC
* * *
35016046 TCAAAATGGATAGGATTATGCATCAAA
66 TCAAAATGGACAGCATTATACATCAAA
* ** * * *
35016073 TTGGACAGCATCAATATGGTCAAAATGTACAGCATT-ATA--CATCAAATTAGACAGCATCAATA
1 TTGGACAGCAT-TATA-CATCAAATTGGACAGCATTAATATGC-TCAAATTGGACAGCATCAATA
*
35016135 TGCTCAAAATGGACAGCATTATACATCAAA
63 TACTCAAAATGGACAGCATTATACATCAAA
* * * * *
35016165 TTGGACAGTATCAATATGC-TCAAAATGTACAGCATT-ATA--CATCAAATTGGACAACATCAAT
1 TTGGACAG---CATTATACATCAAATTGGACAGCATTAATATGC-TCAAATTGGACAGCATCAAT
35016226 ATACTCAAAATGGACAGCATTATACATCAAA
62 ATACTCAAAATGGACAGCATTATACATCAAA
* * *
35016257 TTAGACAGCATCAATATGC-TCAAAATGGACAGCATTA
1 TTGGACAGCAT---TATACATCAAATTGGACAGCATTA
35016294 TAACATATAA
Statistics
Matches: 350, Mismatches: 38, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
89 2 0.01
91 57 0.16
92 251 0.72
93 6 0.02
94 28 0.08
95 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (92 bp):
TTGGACAGCATTATACATCAAATTGGACAGCATTAATATGCTCAAATTGGACAGCATCAATATAC
TCAAAATGGACAGCATTATACATCAAA
Found at i:35016118 original size:138 final size:136
Alignment explanation
Indices: 35015971--35016295 Score: 422
Period size: 138 Copynumber: 2.4 Consensus size: 136
35015961 ACAACATCAA
* * * *
35015971 TATAC-TCAAAATGGACAGCAT-TATACATCAAATTGGACAGCTTTAATATGC-TCAAATTGGAC
1 TATACATCAAATTAGACAGCATATATAC-TCAAAATGGACAGCATT-ATA--CATCAAATTGGAC
* * * * **
35016033 AGCATCAATATGCTCAAAATGGATAGGATTATGCATCAAATTGGACAGCATCAATATGGTCAAAA
62 AGCATCAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAACATCAATATACTCAAAA
*
35016098 TGTACAGCAT
127 TGGACAGCAT
*
35016108 TATACATCAAATTAGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAG
1 TATACATCAAATTAGACAGCAT--ATATACTCAAAATGGACAGCATTATACATCAAATTGGACAG
* *
35016173 TATCAATATGCTCAAAATGTACAGCATTATACATCAAATTGGACAACATCAATATACTCAAAATG
64 CATCAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAACATCAATATACTCAAAATG
35016238 GACAGCAT
129 GACAGCAT
*
35016246 TATACATCAAATTAGACAGCATCAATATGCTCAAAATGGACAGCATTATA
1 TATACATCAAATTAGACAGCAT--ATATACTCAAAATGGACAGCATTATA
35016296 ACATATAAAA
Statistics
Matches: 169, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
137 6 0.04
138 141 0.83
139 3 0.02
140 15 0.09
141 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (136 bp):
TATACATCAAATTAGACAGCATATATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCA
TCAATATGCTCAAAATGGACAGCATTATACATCAAATTGGACAACATCAATATACTCAAAATGGA
CAGCAT
Found at i:35016242 original size:162 final size:160
Alignment explanation
Indices: 35015878--35016245 Score: 474
Period size: 162 Copynumber: 2.3 Consensus size: 160
35015868 GATAGCATCA
* * * *
35015878 ATATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTAAATAGACAG
1 ATATACTCAAAATGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAATAGACAG
*
35015943 CATTATACATCAAATTGGACAACATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGA
66 CATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGA
* *
35016008 CAGCTTTAATATGCTCAAATTGGACAGCAT
131 CAGCTTCAATATGCTCAAAATGGACAGCAT
* * ** * *
35016038 CAATATGCTCAAAATGGATAGGATTATGCATCAAATTGGACAGCATCAATATGGTCAAAAT-GTA
1 --ATATACTCAAAATGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAATAG-A
* *
35016102 CAGCATTATACATCAAATTAGACAGCATCAATATGCTCAAAATGGACAGCATTATACATCAAATT
63 CAGCATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGCATTATACATCAAATT
*
35016167 GGACAG-TATCAATATGCTCAAAATGTACAGCAT
128 GGACAGCT-TCAATATGCTCAAAATGGACAGCAT
* *
35016200 -TATACATCAAATTGGACAACATCAATATAC-TCAAAATGGACAGCAT
1 ATATAC-TCAAAATGGACAACAT---TATACATCAAATTGGACAGCAT
35016246 TATACATCAA
Statistics
Matches: 181, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
159 4 0.02
160 12 0.07
161 2 0.01
162 159 0.88
163 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (160 bp):
ATATACTCAAAATGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAATAGACAG
CATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGA
CAGCTTCAATATGCTCAAAATGGACAGCAT
Found at i:35018839 original size:40 final size:40
Alignment explanation
Indices: 35018562--35018825 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
35018552 TTGAATGATG
* * * *
35018562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35018602 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35018642 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
35018681 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35018720 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35018760 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35018801 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35018826 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 74 0.36
40 122 0.59
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35018843 original size:80 final size:77
Alignment explanation
Indices: 35018563--35018858 Score: 305
Period size: 80 Copynumber: 3.7 Consensus size: 77
35018553 TGAATGATGT
* * **
35018563 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCATT
* *
35018626 TGTGCGAGATACTAATT
62 TGTGCGAGTTACTAA-A
* *
35018643 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
35018706 TGCGAGTTACTAAA
64 TGCGAGTTACTAAA
* *
35018720 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
35018785 GTGCGAGTTACTATAA
63 GTGCGAGTTACTA-AA
* ** * *
35018801 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
35018859 TACGTGATTT
Statistics
Matches: 189, Mismatches: 17, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
78 35 0.19
79 74 0.39
80 78 0.41
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:35034067 original size:62 final size:62
Alignment explanation
Indices: 35033970--35034089 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
35033960 TTACTCATCT
35033970 TTTTATTTCCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTACCC
1 TTTTATTTCCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTACCC
* * *
35034032 TTTTATTTTCAATTTAAATTATGGGTAAGTATACAAATAGTCACACTACTATAAGTGT
1 TTTTATTTCCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGT
35034090 GCTTCCATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (62 bp):
TTTTATTTCCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTACCC
Found at i:35036542 original size:24 final size:24
Alignment explanation
Indices: 35036508--35036562 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
35036498 GCTTATTGTC
* * *
35036508 ACTATCATCATAGTTTGCACTGTT
1 ACTATCATCATAGCTCGCACTATT
*
35036532 ATTATCATCATAGCTCGCACTATT
1 ACTATCATCATAGCTCGCACTATT
35036556 ACTATCA
1 ACTATCA
35036563 ACTTCTTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (24 bp):
ACTATCATCATAGCTCGCACTATT
Found at i:35045188 original size:14 final size:14
Alignment explanation
Indices: 35045171--35045212 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
35045161 GTGATGTGAA
35045171 AAAAT-AAAAAGATG
1 AAAATGAAAAA-ATG
35045185 AAAATGAAAAAATG
1 AAAATGAAAAAATG
* *
35045199 AAAAAGTAAAAATG
1 AAAATGAAAAAATG
35045213 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAATGAAAAAATG
Found at i:35045192 original size:22 final size:22
Alignment explanation
Indices: 35045167--35045212 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
35045157 AAAAGTGATG
*
35045167 TGAAAAAAT-AAAAAGATGAAAA
1 TGAAAAAATGAAAAAG-TAAAAA
35045189 TGAAAAAATGAAAAAGTAAAAA
1 TGAAAAAATGAAAAAGTAAAAA
35045211 TG
1 TG
35045213 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (22 bp):
TGAAAAAATGAAAAAGTAAAAA
Found at i:35046740 original size:132 final size:132
Alignment explanation
Indices: 35046562--35047464 Score: 1305
Period size: 132 Copynumber: 6.8 Consensus size: 132
35046552 GACAGCAGAA
35046562 CAGATCAAAGATGGC-GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 CAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * * * *
35046626 CTA-TCTCCCTGGGCAGTAGTGGAATAGATTGAGGATTTCAGATCTTATCTCCCTAAGTAGTAGT
65 CTACT-TCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
35046690 GGAG
129 GGAG
* * * * * *
35046694 CAAATCGAAGATGGCGGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGTCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * * *
35046759 TA-TCTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTAGATCTTGTCTTCCT--GCA-TAGGT
66 TACT-TCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA-GT
*
35046820 AGCAAAG
129 -G--GAG
** *
35046827 CAGATTGAAGACGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * * *
35046892 TACTTCTCTAGATAGCAGCAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGCAGTGG
66 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
35046957 AG
131 AG
*
35046959 CAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * * * *
35047024 TACTTCCCTGGACAGCAGCGGAATAGATTAAAGATTTTAGATATTGTTTCCCTAAGTAGTAGCGG
66 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
35047089 AG
131 AG
* * *
35047091 CAGATCAAATATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTATACTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
35047156 TACTTCCCTGGACAGCAGCGGAATAGATTGAGGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
35047221 AG
131 AG
* * * *
35047223 CAGATCAAAGATGGCAGATTTTATCTTCCTATGGTTACAGTGGAGTACATTGAAGCTAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
35047288 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
35047353 AG
131 AG
**
35047355 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
35047420 TACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTT
66 TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTT
35047465 ACCTCTTTAG
Statistics
Matches: 690, Mismatches: 72, Indels: 18
0.88 0.09 0.02
Matches are distributed among these distances:
129 2 0.00
130 4 0.01
131 1 0.00
132 572 0.83
133 103 0.15
134 2 0.00
135 5 0.01
136 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
CAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGG
AG
Found at i:35047632 original size:100 final size:100
Alignment explanation
Indices: 35047459--35047948 Score: 716
Period size: 100 Copynumber: 4.9 Consensus size: 100
35047449 GAAGATTTCA
* * * * *
35047459 GATCTTACCTCTTTAGCAGTGCGGTGGAATAGATT-ACAGTTACGACGGCGGATCTGGTTTCCCT
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGA-AGCTACGACGGCGGATCTGGTTTCCCT
*
35047523 GATATTGCAATTAAAAAGATTGAAGCCACAACGGTG
65 GATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
35047559 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
*
35047624 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCA
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
**
35047659 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAAATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
35047724 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * *
35047759 GATCTTACTTCCTTAGCAGTGCAGTGGAATAGATTGAAGCTACAACGGCGGATCTTGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
* * *
35047824 ATATTGCAATTAAAAATATTGAAGCCACAGCGACG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * ** * *
35047859 GATCTTACTTCCCT-GACGGTGTGGTGGAACAGATTGAAGTTACGACGGCGGATCTGGTTTCCCC
1 GATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCT
* * *
35047923 GACATTGCAGTTGAACAA-ATTGAAGC
65 GATATTGCAATT-AAAAAGATTGAAGC
35047949 TACACTTATC
Statistics
Matches: 357, Mismatches: 30, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
99 1 0.00
100 351 0.98
101 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (100 bp):
GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
Found at i:35047939 original size:50 final size:50
Alignment explanation
Indices: 35047503--35047952 Score: 314
Period size: 50 Copynumber: 9.0 Consensus size: 50
35047493 TACAGTTACG
* * * * *
35047503 ACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
* ** * * * * *
35047553 ACGGTGGATCTTACTT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCTACG
1 ACGGCGGATCTTGTTTCCCTGA-CATTGCAGTTGAAAAGATTGAAGCTACA
* * * * *
35047603 ACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
* ** * * * * *
35047653 ACGGCAGATCTTACTT-CCTTAGCAGTGCAGTGGAACAGATTGAAGCTACG
1 ACGGCGGATCTTGTTTCCCTGA-CATTGCAGTTGAAAAGATTGAAGCTACA
** * * * * *
35047703 ACGGCAAATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
** * * * *
35047753 ACGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGAATAGATTGAAGCTACA
1 ACGGCGGATCTTGTTTCCCTGA-CATTGCAGTTGAAAAGATTGAAGCTACA
* * * * *
35047803 ACGGCGGATCTTGTTTCCCTGATATTGCAATTAAAAATATTGAAGCCACA
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
* * ** ** ** * * * *
35047853 GCGACGGATCTTACTTCCCTGACGGTGTGGTGGAACAGATTGAAGTTACG
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
* *
35047903 ACGGCGGATCTGGTTTCCCCGACATTGCAGTTGAACAA-ATTGAAGCTACA
1 ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAA-AAGATTGAAGCTACA
35047953 CTTATCTCCC
Statistics
Matches: 286, Mismatches: 107, Indels: 14
0.70 0.26 0.03
Matches are distributed among these distances:
49 12 0.04
50 261 0.91
51 13 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (50 bp):
ACGGCGGATCTTGTTTCCCTGACATTGCAGTTGAAAAGATTGAAGCTACA
Found at i:35052317 original size:19 final size:20
Alignment explanation
Indices: 35052295--35052336 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
35052285 ATAAATTCGG
*
35052295 AATAATAAAATAATAAA-AT
1 AATAAGAAAATAATAAATAT
*
35052314 AAT-AGGAAATAATAAATAT
1 AATAAGAAAATAATAAATAT
35052333 AATA
1 AATA
35052337 TTAGGCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAGAAAATAATAAATAT
Found at i:35052325 original size:10 final size:8
Alignment explanation
Indices: 35052295--35052336 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
35052285 ATAAATTCGG
35052295 AATAATAA
1 AATAATAA
35052303 AATAATAA
1 AATAATAA
35052311 AATAATAGGA
1 AATAATA--A
35052321 AATAATAA
1 AATAATAA
35052329 ATATAATA
1 A-ATAATA
35052337 TTAGGCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 8 0.26
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:35054399 original size:21 final size:22
Alignment explanation
Indices: 35054374--35054423 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
35054364 AAATATTTTT
*
35054374 TAAAAAT-ATATAAATAAATTC
1 TAAAAATAATATAAATAAATCC
*
35054395 -AAAAATAATATATATAAATCC
1 TAAAAATAATATAAATAAATCC
35054416 ATAAAAAT
1 -TAAAAAT
35054424 TAAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
23 6 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATAATATAAATAAATCC
Found at i:35059000 original size:162 final size:163
Alignment explanation
Indices: 35058753--35059052 Score: 485
Period size: 162 Copynumber: 1.8 Consensus size: 163
35058743 TGCTATTTGA
* *
35058753 TTCCTAGTATAAATGCCTATATGTTACTTTTATATAATCCTACTATCCTTAAATTCCATGTCACT
1 TTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCACT
* * * * * *
35058818 TACATAATTTTTTTTAACAAAATGGTGACTTTGCTCTTTGATCTAACTTATAGGGATTAATTTGC
66 TACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACTTATAAGAACTAATTTGC
*
35058883 TTATTTTTAATAAAGAGGCAAAACGTAATCCGG
131 CTATTTTTAATAAAGAGGCAAAACGTAATCCGG
* *
35058916 TTCCTAGTAT-AAGGGCTATATGATACTTTTATGTAATCCTACTATCCTTAAATTCCATGTCACT
1 TTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCACT
*
35058980 TACATAATTTTTTCTAACAAAAGGGTGAGTTTGCTCTTTAATCTAACTTATAAGAACTAATTTGC
66 TACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACTTATAAGAACTAATTTGC
35059045 CTATTTTT
131 CTATTTTT
35059053 TTTAGTAAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
162 115 0.92
163 10 0.08
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (163 bp):
TTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCACT
TACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACTTATAAGAACTAATTTGC
CTATTTTTAATAAAGAGGCAAAACGTAATCCGG
Found at i:35068195 original size:23 final size:23
Alignment explanation
Indices: 35068151--35068238 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
35068141 TTAATGTTCA
**
35068151 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
*
35068174 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
* *
35068197 CAAACATGTTCATGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
* * *
35068221 TGAATATGTTCACAAACA
1 CGAACATGTTCACGAACA
35068239 ATGTTAATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.63
24 16 0.31
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:35071520 original size:25 final size:26
Alignment explanation
Indices: 35071474--35071522 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35071464 TTTTCATATA
*
35071474 TATATTTGAACCACAATCAAAGTTTC
1 TATAATTGAACCACAATCAAAGTTTC
*
35071500 TATAATTGCACCA-AATCAAAGTT
1 TATAATTGAACCACAATCAAAGTT
35071523 CATATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (26 bp):
TATAATTGAACCACAATCAAAGTTTC
Found at i:35071528 original size:25 final size:27
Alignment explanation
Indices: 35071473--35071528 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
35071463 ATTTTCATAT
*
35071473 ATATATTTGAACCACAATCAAAGTTTC
1 ATATAATTGAACCACAATCAAAGTTTC
*
35071500 -TATAATTGCACCA-AATCAAAG-TTC
1 ATATAATTGAACCACAATCAAAGTTTC
35071524 ATATA
1 ATATA
35071529 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
ATATAATTGAACCACAATCAAAGTTTC
Found at i:35073184 original size:9 final size:9
Alignment explanation
Indices: 35073165--35073201 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35073155 TGATTTTTCG
*
35073165 AATTAGAAT
1 AATTCGAAT
*
35073174 AACTCGAAT
1 AATTCGAAT
35073183 AATTCGAAT
1 AATTCGAAT
35073192 AATTCGAAT
1 AATTCGAAT
35073201 A
1 A
35073202 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35077631 original size:19 final size:19
Alignment explanation
Indices: 35077588--35077632 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
35077578 TTTTATTGTA
35077588 ACAAATAATAAAATATCTC
1 ACAAATAATAAAATATCTC
35077607 -CTAAATAATAAAATATCTC
1 AC-AAATAATAAAATATCTC
35077626 ACAAATA
1 ACAAATA
35077633 CTAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
ACAAATAATAAAATATCTC
Found at i:35078660 original size:21 final size:22
Alignment explanation
Indices: 35078634--35078692 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
35078624 AGCTACAAAA
* *
35078634 TTCTACCGGTAGAACTCCTA-G
1 TTCTACCGATACAACTCCTAGG
35078655 TTCTACCGATACAACT-CTAGG
1 TTCTACCGATACAACTCCTAGG
35078676 TTCTACCGATACAACTC
1 TTCTACCGATACAACTC
35078693 GGACTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (22 bp):
TTCTACCGATACAACTCCTAGG
Found at i:35084895 original size:29 final size:29
Alignment explanation
Indices: 35084832--35084899 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
35084822 TAATCAACCG
35084832 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
35084861 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
35084890 CGCACACTTA
1 CGCACACTTA
35084900 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:35085040 original size:29 final size:30
Alignment explanation
Indices: 35085001--35085079 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
35084991 CTTAATAATC
35085001 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
35085031 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
35085060 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
35085080 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:35088178 original size:29 final size:29
Alignment explanation
Indices: 35088101--35088178 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
35088091 AGAGCGCATT
*
35088101 TAACAGAATTAGTCACAAAGGCTCTCATA
1 TAACAGAATTAGCCACAAAGGCTCTCATA
* * *
35088130 TAACAAAATCAACCACAAAGGCTCTCATA
1 TAACAGAATTAGCCACAAAGGCTCTCATA
* * *
35088159 TGATAGAATTAGCCATAAAG
1 TAACAGAATTAGCCACAAAG
35088179 ACATTCATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.22
Consensus pattern (29 bp):
TAACAGAATTAGCCACAAAGGCTCTCATA
Found at i:35088338 original size:27 final size:30
Alignment explanation
Indices: 35088259--35088359 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
35088249 ATATCTCCAT
* *
35088259 AAAGGCTT--ACATATGATAGAGAACAACCAT
1 AAAGGCTTCCACATAT--TAGAGAACAGCCAC
* *
35088289 AGAGGCTTCCACTTATTAGAG-A-A-CCAC
1 AAAGGCTTCCACATATTAGAGAACAGCCAC
*
35088316 AAAGGTTTCCACATATCTA-AGAACAGCCAC
1 AAAGGCTTCCACATAT-TAGAGAACAGCCAC
35088346 AAAGGCTTCCACAT
1 AAAGGCTTCCACAT
35088360 GTCGATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 18 0.31
28 4 0.07
29 2 0.03
30 29 0.50
32 5 0.09
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.21
Consensus pattern (30 bp):
AAAGGCTTCCACATATTAGAGAACAGCCAC
Found at i:35089609 original size:5 final size:5
Alignment explanation
Indices: 35089599--35089625 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35089589 ATAATTTTAC
35089599 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
35089626 GCAAAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:35090621 original size:25 final size:25
Alignment explanation
Indices: 35090531--35090646 Score: 99
Period size: 25 Copynumber: 4.6 Consensus size: 25
35090521 GCAGACACAC
* * * *
35090531 CACAACTCTTATGATCTTACTGATT
1 CACAGCTCGTATGAGCTTACCGATT
** * *
35090556 TTCAGCTTGTATGAGCTTATCGATT
1 CACAGCTCGTATGAGCTTACCGATT
* *
35090581 CTCAACTCGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
* *
35090606 CACAGCTCGTGA-GAGCATACCAATT
1 CACAGCTCGT-ATGAGCTTACCGATT
*
35090631 CATAGCTCGTATGAGC
1 CACAGCTCGTATGAGC
35090647 ATACATGTAT
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
24 1 0.01
25 70 0.97
26 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:35091312 original size:20 final size:20
Alignment explanation
Indices: 35091287--35091329 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
35091277 TAATGAGACT
*
35091287 AAATGC-AATGGAAAATAATG
1 AAATGCAAAT-GAAAATAAGG
35091307 AAATGCAAATGAAAATAAGG
1 AAATGCAAATGAAAATAAGG
35091327 AAA
1 AAA
35091330 ATTTTAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (20 bp):
AAATGCAAATGAAAATAAGG
Found at i:35093923 original size:79 final size:82
Alignment explanation
Indices: 35093805--35093989 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
35093795 GCTACTCGTT
* *
35093805 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35093868 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35093885 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35093948 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35093965 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35093990 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35093989 original size:40 final size:40
Alignment explanation
Indices: 35093786--35093989 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35093776 TGGAATTTAA
** *
35093786 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35093826 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35093866 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35093905 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35093945 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35093985 CCGGA
1 CCGGA
35093990 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35098495 original size:12 final size:12
Alignment explanation
Indices: 35098478--35098505 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35098468 GAACAATACT
35098478 GGTGCACCCCAA
1 GGTGCACCCCAA
35098490 GGTGCACCCCAA
1 GGTGCACCCCAA
35098502 GGTG
1 GGTG
35098506 AGAAACTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.32, T:0.11
Consensus pattern (12 bp):
GGTGCACCCCAA
Found at i:35102079 original size:39 final size:39
Alignment explanation
Indices: 35101990--35102134 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 39
35101980 GCTACTCGTT
*
35101990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAA-TCGCA
35102030 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATCGCA
* * * * *
35102069 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-A-ATCGCA
35102110 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35102135 CATCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.03
39 30 0.32
40 47 0.51
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATCGCA
Found at i:35104860 original size:48 final size:47
Alignment explanation
Indices: 35104753--35105262 Score: 653
Period size: 48 Copynumber: 10.7 Consensus size: 47
35104743 CCCTTCGGGA
* * * * * *
35104753 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35104799 CTCTGTCACATATATACACTTTCAACA-TCATCACATCGGCCGTTAGGGC
1 CT-TATCACATATATACACTTTC-ACATTCATCACATCGGCCATTA-GGC
* *
35104848 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35104894 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
35104941 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35104988 CTTATCAACATATATACACTTTCA-ATTCATCACATCGGCCATTAGGC
1 CTTATC-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35105035 CTTATCACATACATATACACTTTCACATTCGTCACATTCGGCCATTAGG-
1 CTTATCACAT--ATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
* * *
35105084 CTTATCACATAATATATATACATTTCACATTCATCTACATTGGCCATTCGGC
1 CTTATCAC---ATATATACAC-TTTCACATTCATC-ACATCGGCCATTAGGC
*
35105136 CTTATCACATATATACACTTTCACATTCATCA-ACTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
35105183 CTTATCACATATATACACTTTCACATTC-TCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35105229 CTTATCACATATATATACACTTTCACATTCATCA
1 CTTATCAC--ATATATACACTTTCACATTCATCA
35105263 GCCACTTTCA
Statistics
Matches: 412, Mismatches: 24, Indels: 53
0.84 0.05 0.11
Matches are distributed among these distances:
45 6 0.01
46 99 0.24
47 99 0.24
48 106 0.26
49 48 0.12
50 19 0.05
51 22 0.05
52 13 0.03
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35104961 original size:95 final size:95
Alignment explanation
Indices: 35104753--35105262 Score: 684
Period size: 95 Copynumber: 5.4 Consensus size: 95
35104743 CCCTTCGGGA
* * * * * *
35104753 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCT-TATCACATATATAC
*
35104816 ACTTTCAACA-TCATCACATCGGCCGTTAGGGC
65 ACTTTC-ACATTCATCACATCGGCCATTA-GGC
* *
35104848 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACA
35104911 CTTTCACATTCATCACATCGG-CATTAGGCC
66 CTTTCACATTCATCACATCGGCCATTAGG-C
35104941 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGCTTATCAACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATC-ACATATATAC
35105005 ACTTTCA-ATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
35105035 CTTATCACATACATATACACTTTCACATTCGTCACATTCGGCCATTAGGCTTATCACATAATATA
1 CTTATCACATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGCTTATCAC---ATATA
* * *
35105100 TATACATTTCACATTCATCTACATTGGCCATTCGGC
62 TACAC-TTTCACATTCATC-ACATCGGCCATTAGGC
*
35105136 CTTATCAC--ATATATACACTTTCACATTCATCA-ACTCGGCTATTAGGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACA-TCGGCCATTAGG-CTTATCACATATATA
35105198 CACTTTCACATTC-TCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
35105229 CTTATCACATATATATACACTTTCACATTCATCA
1 CTTATCACATATATATACACTTTCACATTCATCA
35105263 GCCACTTTCA
Statistics
Matches: 373, Mismatches: 23, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
92 2 0.01
93 37 0.10
94 100 0.27
95 122 0.33
96 27 0.07
98 21 0.06
99 35 0.09
100 7 0.02
101 22 0.06
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35105292 original size:68 final size:67
Alignment explanation
Indices: 35105198--35105329 Score: 255
Period size: 68 Copynumber: 2.0 Consensus size: 67
35105188 CACATATATA
35105198 CACTTTCACATTCTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CACTTTCACATTCTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
35105263 GC
66 GC
35105265 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTC-TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
35105330 CACATTGGCC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
67 13 0.20
68 51 0.80
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (67 bp):
CACTTTCACATTCTCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
GC
Found at i:35105357 original size:114 final size:113
Alignment explanation
Indices: 35105151--35105376 Score: 343
Period size: 114 Copynumber: 2.0 Consensus size: 113
35105141 CACATATATA
*
35105151 CACTTTCACATTCATCAACTCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCTCACA
1 CACTTTCACATTCATCAACTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCTCACA
*
35105216 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAGC
66 TCGGCCATTACGCCTTATCACA-ATATATACACTTTCACATTCATCAGC
35105265 CACTTTCACATTCATC-ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 CACTTTCACATTCATCAAC-TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTC-T
*
35105329 CCACATTGGCCATT-CGCCTTA-CAC-ATATATACACTTTCACATTCATCA
62 -CACATCGGCCATTACGCCTTATCACAATATATACACTTTCACATTCATCA
35105377 CATCGCCATT
Statistics
Matches: 104, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
113 2 0.02
114 60 0.58
116 23 0.22
117 7 0.07
118 12 0.12
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (113 bp):
CACTTTCACATTCATCAACTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCTCACA
TCGGCCATTACGCCTTATCACAATATATACACTTTCACATTCATCAGC
Found at i:35105374 original size:46 final size:46
Alignment explanation
Indices: 35105265--35105415 Score: 200
Period size: 46 Copynumber: 3.2 Consensus size: 46
35105255 ATTCATCAGC
*
35105265 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATTGGCCATTA-GCCTTATCAC--ATATATA
*
35105314 CACTTTCACATTCATCCACATTGGCCATTCGCCTTA-CACATATATA
1 CACTTTCACATTCAT-CACATTGGCCATTAGCCTTATCACATATATA
*
35105360 CACTTTCACATTCATCACA-TCGCCATTAGCCTTATCACATTATATA
1 CACTTTCACATTCATCACATTGGCCATTAGCCTTATCACA-TATATA
*
35105406 C-CATTCACAT
1 CACTTTCACAT
35105416 CACAATTATC
Statistics
Matches: 94, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
44 13 0.14
45 16 0.17
46 29 0.31
48 3 0.03
49 21 0.22
50 12 0.13
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (46 bp):
CACTTTCACATTCATCACATTGGCCATTAGCCTTATCACATATATA
Found at i:35160214 original size:50 final size:50
Alignment explanation
Indices: 35160127--35160305 Score: 175
Period size: 50 Copynumber: 3.6 Consensus size: 50
35160117 GGTAACGAGA
* * * **
35160127 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
35160177 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * * * * *
35160227 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
* *
35160275 ATCCCATGTGAGACCATGTCTGGGACATGGC
1 -TCCCACGTAAGACCATGTCTGGGACATGGC
35160306 TTTGGCATGT
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.04
49 30 0.28
50 74 0.69
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:35171947 original size:41 final size:41
Alignment explanation
Indices: 35171902--35172087 Score: 320
Period size: 41 Copynumber: 4.5 Consensus size: 41
35171892 GACTTTAAGT
* *
35171902 CTAGCAGGGTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
35171943 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
35171984 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
35172025 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
35172066 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
35172088 ATATGTTAAA
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 1 0.01
41 139 0.99
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:35177790 original size:29 final size:29
Alignment explanation
Indices: 35177722--35177804 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
35177712 CAACAAAGAA
*
35177722 CAACCACAAATGCTTCCACATATAACAGGTT
1 CAACCACAAAGGC-T-CACATATAACAGGTT
** *
35177753 CTGCAACAAAGGCTCACATATAACAGGTT
1 CAACCACAAAGGCTCACATATAACAGGTT
* *
35177782 CAACCACAAAGACTAACATATAA
1 CAACCACAAAGGCTCACATATAA
35177805 TAGATTTAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 33 0.77
30 1 0.02
31 9 0.21
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.19
Consensus pattern (29 bp):
CAACCACAAAGGCTCACATATAACAGGTT
Found at i:35178046 original size:54 final size:53
Alignment explanation
Indices: 35177986--35178136 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 53
35177976 CCGTCCTTTC
*
35177986 CCTATATGATGTTATAGCTAATGGCTAGGCCTTACACTATATGGTCTTCATTT
1 CCTATATGATGTCATAGCTAATGGCTAGGCCTTACACTATATGGTCTTCATTT
* * * * * *
35178039 CCTTATATGACGCCGTAGCTAACGACTAGGACTTACACTATATGGTCTTCATTT
1 CC-TATATGATGTCATAGCTAATGGCTAGGCCTTACACTATATGGTCTTCATTT
* * *
35178093 CC-AGATGATGTCATAGCTAATGGCAAGGCATTACACTATATGGT
1 CCTATATGATGTCATAGCTAATGGCTAGGCCTTACACTATATGGT
35178137 GTTCGCTTGT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 33 0.41
53 2 0.02
54 46 0.57
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (53 bp):
CCTATATGATGTCATAGCTAATGGCTAGGCCTTACACTATATGGTCTTCATTT
Found at i:35188154 original size:89 final size:90
Alignment explanation
Indices: 35188027--35188263 Score: 291
Period size: 89 Copynumber: 2.6 Consensus size: 90
35188017 TCGATAGCCA
* * * * * * **
35188027 AAGCTATCCCTTTCCATATTTTGATAG-CTGAAGTCATCCGTTTTCATAATTCGATGGTTGTCAC
1 AAGCCATCCCTTTTCATAATTTGATAGTC-GAAGCCATCCCTTTTCATAATTCGATAGTCATCAC
35188091 CATCTCTTTTCATTGTTGATTGTCGT-
65 CATCTCTTTTCATTGTTGATTGT-GTG
*
35188117 CA-CCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGTCATCACC
1 AAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGTCATCACC
*
35188181 ATCTCTTTTCATTGTTGATTGTTTG
66 ATCTCTTTTCATTGTTGATTGTGTG
* * ** *
35188206 AAGCTATCCCTTTTCATAATTTGATAGTCGAAGCTATCTTTTTTTCATAATTTGATAG
1 AAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATC-CCTTTTCATAATTCGATAG
35188264 CTGAAGCCAT
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
88 1 0.01
89 75 0.59
90 35 0.28
91 16 0.13
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (90 bp):
AAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGTCATCACC
ATCTCTTTTCATTGTTGATTGTGTG
Found at i:35188239 original size:30 final size:30
Alignment explanation
Indices: 35188027--35188343 Score: 204
Period size: 30 Copynumber: 10.6 Consensus size: 30
35188017 TCGATAGCCA
* * *
35188027 AAGCTATCCCTTTCCATATTTTGATAG-CTG
1 AAGCCATCCCTTTTCATAATTTGATAGTC-G
* * * * *
35188057 AAGTCATCCGTTTTCATAATTCGATGGTTG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* * *
35188087 TCA-CCATCTCTTTTCAT--TGTTGATTGTCG
1 -AAGCCATCCCTTTTCATAAT-TTGATAGTCG
*
35188116 TCA-CCATCCCTTTTCATAATTTGATAGTCG
1 -AAGCCATCCCTTTTCATAATTTGATAGTCG
*
35188146 AAGCCATCCCTTTTCATAATTCGATAGTC-
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* * *
35188175 ATCA-CCATCTCTTTTCAT--TGTTGATTGTTTG
1 A--AGCCATCCCTTTTCATAAT-TTGATAG-TCG
*
35188206 AAGCTATCCCTTTTCATAATTTGATAGTCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* **
35188236 AAGCTATCTTTTTTTCATAATTTGATAG-CTG
1 AAGCCATC-CCTTTTCATAATTTGATAGTC-G
* * * *
35188267 AAGCCATCCATTTCCATATTTTGATAGCCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* * * *
35188297 AAGCCATCCCTTTCCATATTTTGATAGCCA
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* *
35188327 AATCCATCCATTTTCAT
1 AAGCCATCCCTTTTCAT
35188344 TGGTCGATGA
Statistics
Matches: 231, Mismatches: 39, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.01
29 31 0.13
30 161 0.70
31 36 0.16
32 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (30 bp):
AAGCCATCCCTTTTCATAATTTGATAGTCG
Found at i:35188306 original size:91 final size:90
Alignment explanation
Indices: 35188012--35188343 Score: 266
Period size: 89 Copynumber: 3.7 Consensus size: 90
35188002 GCCACTTTTT
* * * * * *
35188012 ATTGTTCGATAG-CCAAAGCTATCCCTTTCCATATTTTGATAG-CTGAAGTCATCCGTTTTCATA
1 ATTGTT-GATAGTCCGAAGCCATCCCTTTTCATAATTTGATAGTC-GAAGCCATCCCTTTTCATA
* ** * *
35188075 ATTCGATGGTTGTCACCATCTCTTTTC
64 ATTCGATAGTCATAACCATCTCTTTCC
* *
35188102 ATTGTTGATTGT-CGTCA-CCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAA
1 ATTGTTGATAGTCCG-AAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAA
* *
35188165 TTCGATAGTCATCACCATCTCTTTTC
65 TTCGATAGTCATAACCATCTCTTTCC
* ** * * **
35188191 ATTGTTGATTGTTTGAAGCTATCCCTTTTCATAATTTGATAGTCGAAGCTATCTTTTTTTCATAA
1 ATTGTTGATAGTCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATC-CCTTTTCATAA
*
35188256 TTTGATAG-C-TGAAGCCATC-CATTTCC
65 TTCGATAGTCAT-AA-CCATCTC-TTTCC
* * * * * * *
35188282 ATATTTTGATAG-CCGAAGCCATCCCTTTCCATATTTTGATAGCCAAATCCATCCATTTTCAT
1 AT-TGTTGATAGTCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCAT
35188344 TGGTCGATGA
Statistics
Matches: 199, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
89 81 0.41
90 52 0.26
91 59 0.30
92 7 0.04
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (90 bp):
ATTGTTGATAGTCCGAAGCCATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTTTCATAAT
TCGATAGTCATAACCATCTCTTTCC
Found at i:35195808 original size:30 final size:30
Alignment explanation
Indices: 35195764--35195822 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
35195754 CATTTTATAA
* * *
35195764 TTTGATATCCGAAGCTATCCCTTTCCATAT
1 TTTGATAGCCGAAGCCATCCATTTCCATAT
* *
35195794 TTTGATAGCTGAAGCCATCCATTTTCATA
1 TTTGATAGCCGAAGCCATCCATTTCCATA
35195823 ATTCAATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (30 bp):
TTTGATAGCCGAAGCCATCCATTTCCATAT
Found at i:35195849 original size:30 final size:29
Alignment explanation
Indices: 35195808--35195939 Score: 149
Period size: 29 Copynumber: 4.5 Consensus size: 29
35195798 ATAGCTGAAG
* *
35195808 CCATCCATTTTCATAATTCAATGGTCGTCA
1 CCATCCCTTTTCATAGTT-AATGGTCGTCA
* *
35195838 CCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAGTTAATGGTCGTCA
*
35195867 CCATCCCTTTTCATAGTTCGATGG-CTGTCA
1 CCATCCCTTTTCATAGTT-AATGGTC-GTCA
* * * *
35195897 CCATCTCTTTTCATTGTTAATGGTCATTA
1 CCATCCCTTTTCATAGTTAATGGTCGTCA
35195926 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
35195940 GATTTGATAG
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
29 47 0.53
30 41 0.47
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (29 bp):
CCATCCCTTTTCATAGTTAATGGTCGTCA
Found at i:35195869 original size:29 final size:29
Alignment explanation
Indices: 35195828--35195939 Score: 154
Period size: 29 Copynumber: 3.8 Consensus size: 29
35195818 TCATAATTCA
35195828 ATGGTCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCCTTTTCATTGTTG
*
35195857 ATGGTCGTCACCATCCCTTTTCATAGTTCG
1 ATGGTCGTCACCATCCCTTTTCATTGTT-G
* *
35195887 ATGG-CTGTCACCATCTCTTTTCATTGTTA
1 ATGGTC-GTCACCATCCCTTTTCATTGTTG
* *
35195916 ATGGTCATTACCATCCCTTTTCAT
1 ATGGTCGTCACCATCCCTTTTCAT
35195940 GATTTGATAG
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
29 47 0.64
30 26 0.36
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATTGTTG
Found at i:35195871 original size:59 final size:59
Alignment explanation
Indices: 35195808--35195939 Score: 185
Period size: 59 Copynumber: 2.2 Consensus size: 59
35195798 ATAGCTGAAG
* * *
35195808 CCATCCATTTTCATAATTCAATGG-TCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAATTCAATGGCT-GTCACCATCCCTTTTCATTGTTAATGGTCATCA
* * * *
35195867 CCATCCCTTTTCATAGTTCGATGGCTGTCACCATCTCTTTTCATTGTTAATGGTCATTA
1 CCATCCCTTTTCATAATTCAATGGCTGTCACCATCCCTTTTCATTGTTAATGGTCATCA
35195926 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
35195940 GATTTGATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 64 0.98
60 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (59 bp):
CCATCCCTTTTCATAATTCAATGGCTGTCACCATCCCTTTTCATTGTTAATGGTCATCA
Found at i:35195960 original size:59 final size:59
Alignment explanation
Indices: 35195808--35195969 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 59
35195798 ATAGCTGAAG
* * * * * * * * *
35195808 CCATCCATTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAGTTCGATAGCCGTAACCATCACTTTTCATTGTTAATGGTCATCA
* * * * *
35195867 CCATCCCTTTTCATAGTTCGATGGCTGTCACCATCTCTTTTCATTGTTAATGGTCATTA
1 CCATCCCTTTTCATAGTTCGATAGCCGTAACCATCACTTTTCATTGTTAATGGTCATCA
*
35195926 CCATCCCTTTTCAT-GATTTGATAGCCG-AAGCCATCACTTTTCAT
1 CCATCCCTTTTCATAG-TTCGATAGCCGTAA-CCATCACTTTTCAT
35195970 AATTCGATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.02
59 85 0.98
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (59 bp):
CCATCCCTTTTCATAGTTCGATAGCCGTAACCATCACTTTTCATTGTTAATGGTCATCA
Found at i:35195960 original size:89 final size:89
Alignment explanation
Indices: 35195745--35196004 Score: 208
Period size: 89 Copynumber: 2.9 Consensus size: 89
35195735 ACGATGGTTG
* * * * * *
35195745 TTACCACCCCATTTT-ATAATTTGATATCCGAAGCTATCCCTTTCCATATTTTGATAGCTGAAGC
1 TTACCATCCC-TTTTCAT-ATTTGATAGCCGAAGCCATCCCTTTTCATAATTCGATAGCTGAAGC
*
35195809 CATCCATTTTCATAATTCAATGGTCG
64 CATCCATTTTCATAATTCAATGGTCA
* * * * * * *
35195835 TCACCATCCCTTTTCAT-TGTTGATGGTCGTCA-CCATCCCTTTTCATAGTTCGATGGCTGTCA-
1 TTACCATCCCTTTTCATAT-TTGATAGCCG-AAGCCATCCCTTTTCATAATTCGATAGCTG-AAG
**
35195897 CCATCTC-TTTTCATTGTT-AATGGTCA
63 CCATC-CATTTTCATAATTCAATGGTCA
* *** * *
35195923 TTACCATCCCTTTTCATGATTTGATAGCCGAAGCCATCACTTTTCATAATTCGATTTTTAAAGCT
1 TTACCATCCCTTTTCAT-ATTTGATAGCCGAAGCCATCCCTTTTCATAATTCGATAGCTGAAGCC
*
35195988 ATCCCTTTTCATAATTC
65 ATCCATTTTCATAATTC
35196005 GATAGTCAAA
Statistics
Matches: 130, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
88 27 0.21
89 89 0.68
90 14 0.11
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (89 bp):
TTACCATCCCTTTTCATATTTGATAGCCGAAGCCATCCCTTTTCATAATTCGATAGCTGAAGCCA
TCCATTTTCATAATTCAATGGTCA
Found at i:35195996 original size:30 final size:30
Alignment explanation
Indices: 35195928--35196071 Score: 117
Period size: 30 Copynumber: 4.8 Consensus size: 30
35195918 GGTCATTACC
* * *** *
35195928 ATCCCTTTTCATGATTTGATAGCCGAAGCC
1 ATCCCTTTTCATAATTCGATAGTTAAAGCT
* **
35195958 ATCACTTTTCATAATTCGATTTTTAAAGCT
1 ATCCCTTTTCATAATTCGATAGTTAAAGCT
* *
35195988 ATCCCTTTTCATAATTCGATAGTCAAAGTT
1 ATCCCTTTTCATAATTCGATAGTTAAAGCT
* * * *
35196018 GTCCCCTTCTCATAATTTGATAGCTAAAGCT
1 AT-CCCTTTTCATAATTCGATAGTTAAAGCT
* * *
35196049 ATCCCTTTCCATATTTTGATAGT
1 ATCCCTTTTCATAATTCGATAGT
35196072 CGAAGGCATC
Statistics
Matches: 88, Mismatches: 25, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
30 64 0.73
31 24 0.27
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTTAAAGCT
Found at i:35196088 original size:30 final size:30
Alignment explanation
Indices: 35196028--35196118 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35196018 GTCCCCTTCT
* ** * *
35196028 CATAATTTGATAGCTAAAGCTATCCCTTTC
1 CATATTTTGATAGCCCAAGCCATCCTTTTC
* * *
35196058 CATATTTTGATAGTCGAAGGCATCCTTTTC
1 CATATTTTGATAGCCCAAGCCATCCTTTTC
35196088 CATATTTTGATAGCCCAAGCCATCCCTTTTC
1 CATATTTTGATAGCCCAAGCCAT-CCTTTTC
35196119 ATTGGTCGAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 43 0.86
31 7 0.14
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (30 bp):
CATATTTTGATAGCCCAAGCCATCCTTTTC
Found at i:35200420 original size:17 final size:17
Alignment explanation
Indices: 35200360--35200420 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
35200350 CTTTTCCATA
* * *
35200360 TATTTATTTTTTTCTCT
1 TATTTATTTTTCTATTT
35200377 TATTTATTTTTCTAATCATT
1 TATTTATTTTTCT-AT--TT
*
35200397 GATTTATTTTTCTATTT
1 TATTTATTTTTCTATTT
35200414 TATTTAT
1 TATTTAT
35200421 ATTAGTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 20 0.56
18 1 0.03
19 2 0.06
20 13 0.36
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTATTTTTCTATTT
Found at i:35206069 original size:25 final size:24
Alignment explanation
Indices: 35206040--35206123 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
35206030 GAGTTTGTCT
35206040 CAATCTAAAGTTTCTATCTTTTTCA
1 CAATCTAAAGTTTCTAT-TTTTTCA
* * **
35206065 CAATCTATAGCTTCCTATAGTTTCA
1 CAATCTAAAG-TTTCTATTTTTTCA
* * *
35206090 CAATTTATAGTTTCTGTTGTTTTCA
1 CAATCTAAAGTTTCTATT-TTTTCA
35206115 C-ATCTAAAG
1 CAATCTAAAG
35206124 ATCACTTACC
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
24 11 0.24
25 29 0.63
26 6 0.13
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (24 bp):
CAATCTAAAGTTTCTATTTTTTCA
Found at i:35208431 original size:21 final size:19
Alignment explanation
Indices: 35208400--35208441 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 19
35208390 TTGGAAAACT
35208400 AGAAAGAAAAATAGAGAGAA
1 AGAAAGAAAAATAGA-AGAA
35208420 AGAAATGAAAAATAGAAGAA
1 AGAAA-GAAAAATAGAAGAA
35208440 AG
1 AG
35208442 TGAGAGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (19 bp):
AGAAAGAAAAATAGAAGAA
Found at i:35210582 original size:28 final size:28
Alignment explanation
Indices: 35210543--35210616 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
35210533 CTATTCAGTA
*
35210543 ACAGTA-CAGTGTGGGCCTTA-TCCAGAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCA-AT
35210570 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
*
35210598 ACAGTAGCAGTGTGAGCCT
1 ACAGTAGCAGTGTGGGCCT
35210617 GTAACACCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 6 0.14
28 34 0.79
29 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (28 bp):
ACAGTAGCAGTGTGGGCCTTAGCCCAAT
Found at i:35211716 original size:12 final size:12
Alignment explanation
Indices: 35211691--35211729 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35211681 ACTCGCTTCT
* *
35211691 TTACTTACTCAC
1 TTACTTGCTTAC
*
35211703 TTACTTGTTTAC
1 TTACTTGCTTAC
35211715 TTACTTGCTTAC
1 TTACTTGCTTAC
35211727 TTA
1 TTA
35211730 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:35212163 original size:49 final size:50
Alignment explanation
Indices: 35211991--35212217 Score: 231
Period size: 50 Copynumber: 4.4 Consensus size: 50
35211981 CAATGTCAGA
* ** * * *
35211991 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* ** *
35212041 TCCCAGACATGTTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * *
35212091 TCCCAGACATGGTCTAACATGGGACCTCTCATCTTGGTGCCAACACCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
35212141 T-CCAGACATGGTCTTACATGGGACCTTTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GGTGCCAACGCCATG
*
35212196 TCTCAGACATGGTCTTACATGG
1 TCCCAGACATGGTCTTACATGG
35212218 TATCTCATTC
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 23 0.16
50 83 0.58
51 2 0.01
52 5 0.03
55 12 0.08
56 19 0.13
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:35213365 original size:28 final size:28
Alignment explanation
Indices: 35213323--35213392 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
35213313 CTATTCAGTA
*
35213323 ACAGTA-CAGTGTGGGCCTTAGCCCTAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
*
35213350 ACAGTAGCAATGTGGGCCTTAGCCCAAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
35213378 ACAGTAGCAGTGTGG
1 ACAGTAGCAGTGTGG
35213393 CCTGTAACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (28 bp):
ACAGTAGCAGTGTGGGCCTTAGCCCAAT
Found at i:35214495 original size:12 final size:12
Alignment explanation
Indices: 35214470--35214508 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35214460 ACTCGCTTCT
* *
35214470 TTACTTACTCAC
1 TTACTTGCTTAC
*
35214482 TTACTTGTTTAC
1 TTACTTGCTTAC
35214494 TTACTTGCTTAC
1 TTACTTGCTTAC
35214506 TTA
1 TTA
35214509 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:35214889 original size:99 final size:101
Alignment explanation
Indices: 35214770--35214997 Score: 250
Period size: 99 Copynumber: 2.2 Consensus size: 101
35214760 CAATGTCAGA
* * ** * *
35214770 TCCCAGATATGGTTTTACATGGGAGTTCTCATATCGGTGCGCATG-CCATGTCCCAGACATGTTC
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC-CA-GACCATAT-CCAGACATGGTC
*
35214834 TTAC-GGGGACC-TC-TCATCTC-GATGCCAACGCCATG
63 TTACAGGGGACCTTCATAATCTCAGATGCCAACGCCATG
* *
35214869 TCCCAGACATGGTCTAACATGGGACCTCTCATCTCGGTGCCAGCACCATATCCAGACATGGTCTT
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAG-ACCATATCCAGACATGGTCTT
* *
35214934 ACATGGGACCTTTCATAATCTCAATGATGCCAATGCCATG
65 ACAGGGGACC-TTCATAATCTC-A-GATGCCAACGCCATG
*
35214974 TCTCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
35214998 TCTCATTCCC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
97 1 0.01
98 17 0.16
99 45 0.42
101 2 0.02
102 6 0.06
105 36 0.34
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (101 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAGACCATATCCAGACATGGTCTTA
CAGGGGACCTTCATAATCTCAGATGCCAACGCCATG
Found at i:35214910 original size:50 final size:50
Alignment explanation
Indices: 35214770--35214997 Score: 219
Period size: 49 Copynumber: 4.5 Consensus size: 50
35214760 CAATGTCAGA
* * ** * * *
35214770 TCCCAGATATGGTTTTACATGGGAGTTCTCATATCGGTGCGC-ATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGC-CAACGCCATG
* *
35214820 TCCCAGACATGTTCTTAC-GGGGACCTCTCATCTCGATGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATG
* * * * *
35214869 TCCCAGACATGGTCTAACATGGGACCTCTCATCTCGGTGCCAGCACCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATG
* *
35214919 T-CCAGACATGGTCTTACATGGGACCTTTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GATGCCAACGCCATG
*
35214974 TCTCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
35214998 TCTCATTCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 62 0.43
50 42 0.29
51 2 0.01
52 6 0.04
55 11 0.08
56 21 0.14
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATG
Found at i:35216266 original size:28 final size:28
Alignment explanation
Indices: 35216213--35216266 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35216203 GGATGTTACA
*
35216213 GGGCCTTAGCCCAATACAATAGCAGTGT
1 GGGCCTTAGCCCAATACAATAACAGTGT
*
35216241 GGGCCTTAGCCCAATACAGTAACAGT
1 GGGCCTTAGCCCAATACAATAACAGT
35216267 ACAGTGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAATAACAGTGT
Found at i:35216694 original size:27 final size:27
Alignment explanation
Indices: 35216608--35216810 Score: 214
Period size: 27 Copynumber: 7.5 Consensus size: 27
35216598 CTATGGGGGC
* * *
35216608 ATTTCGATCATTTTACCCTATGGGGGGT
1 ATTTCGGTCATTTTACCCT-TCGAGGGT
* *
35216636 ATTTCGGCCATTTTACTCTAT--AGGGT
1 ATTTCGGTCATTTTACCCT-TCGAGGGT
35216662 ATTTCGGTCATTTTACCCTTCGAGGGT
1 ATTTCGGTCATTTTACCCTTCGAGGGT
*
35216689 ATTTCGGTCATTTTACCTTTCGAGGGT
1 ATTTCGGTCATTTTACCCTTCGAGGGT
*
35216716 ATTTCGGTCATTTTACCCTTCGAAGGT
1 ATTTCGGTCATTTTACCCTTCGAGGGT
* * *
35216743 ATTTCGATCATTTCACCCTT-TAGGGAT
1 ATTTCGGTCATTTTACCCTTCGAGGG-T
* ** * *
35216770 ATTTCGATTTTTTTAACCATCGAGGGT
1 ATTTCGGTCATTTTACCCTTCGAGGGT
*
35216797 ATTTTGGTCATTTT
1 ATTTCGGTCATTTT
35216811 CCCACAAATC
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 24 0.16
27 101 0.68
28 22 0.15
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTTCGAGGGT
Found at i:35220344 original size:40 final size:40
Alignment explanation
Indices: 35220173--35220384 Score: 216
Period size: 40 Copynumber: 5.5 Consensus size: 40
35220163 AATGATGTCC
* * * *
35220173 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* *
35220213 GACTAAGAT-CCGAA-GCATTTGTGCGAG-TACTAATTCC-
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
35220250 GG-TAAG-CCCGAA-G-ATTGGTGCGAGTTACTAAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
35220285 GG-TTAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
35220324 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
35220364 GGCTATGT-CCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
35220385 AACGAGGAGC
Statistics
Matches: 147, Mismatches: 14, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
34 11 0.07
35 18 0.12
36 10 0.07
37 2 0.01
38 25 0.17
39 21 0.14
40 57 0.39
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:35222493 original size:96 final size:97
Alignment explanation
Indices: 35222328--35222527 Score: 386
Period size: 96 Copynumber: 2.1 Consensus size: 97
35222318 TTGTGCCCCG
35222328 AGAGCAAGTAACTTGGGAGTTTTTCCAAACTGAGTTTCGGAAAAAGTATATCAGTCAGAGATTTG
1 AGAGCAAGTAACTTGGGAGTTTTTCCAAACTGAGTTTCGGAAAAAGTATATCAGTCAGAGATTTG
35222393 TTGATCAAAAACGGAAGGAATTTCTTGAGCTT
66 TTGATCAAAAACGGAAGGAATTTCTTGAGCTT
35222425 AGAGCAAGTAACTT-GGAGTTTTTCCAAACTGAGTTTCGGAAAAAGTATATCAGTCAGAGATTTG
1 AGAGCAAGTAACTTGGGAGTTTTTCCAAACTGAGTTTCGGAAAAAGTATATCAGTCAGAGATTTG
35222489 TTGATCAAAAACGGAAGGAATTTCTTGAGCTT
66 TTGATCAAAAACGGAAGGAATTTCTTGAGCTT
35222521 A-AGCAAG
1 AGAGCAAG
35222528 GTTCCATGTC
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 6 0.06
96 83 0.81
97 14 0.14
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (97 bp):
AGAGCAAGTAACTTGGGAGTTTTTCCAAACTGAGTTTCGGAAAAAGTATATCAGTCAGAGATTTG
TTGATCAAAAACGGAAGGAATTTCTTGAGCTT
Done.