Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 99 of 199
Found at i:33891202 original size:24 final size:25
Alignment explanation
Indices: 33891165--33891214 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
33891155 ATAATGGGTG
33891165 AATTCATCCGACAAAAAATTTAAAA
1 AATTCATCCGACAAAAAATTTAAAA
*
33891190 AATT-ATCCTACAAAAAATTTAAAA
1 AATTCATCCGACAAAAAATTTAAAA
33891214 A
1 A
33891215 TGACCCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (25 bp):
AATTCATCCGACAAAAAATTTAAAA
Found at i:33891227 original size:23 final size:24
Alignment explanation
Indices: 33891175--33891220 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
33891165 AATTCATCCG
* *
33891175 ACAAAAAATTTAAAAAATTATCCT
1 ACAAAAAATTTAAAAAATGACCCT
33891199 ACAAAAAATTT-AAAAATGACCC
1 ACAAAAAATTTAAAAAATGACCC
33891221 ATCAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (24 bp):
ACAAAAAATTTAAAAAATGACCCT
Found at i:33903044 original size:3 final size:3
Alignment explanation
Indices: 33903036--33903060 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33903026 TTAAAACTTG
33903036 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
33903061 TGTAGGTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33907781 original size:6 final size:6
Alignment explanation
Indices: 33907770--33907796 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33907760 GGCTTTAACT
33907770 AAAACG AAAACG AAAACG AAAACG AAA
1 AAAACG AAAACG AAAACG AAAACG AAA
33907797 TCTCATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAACG
Found at i:33911690 original size:17 final size:17
Alignment explanation
Indices: 33911667--33911700 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
33911657 AAACATACTA
33911667 AAAAAAACAAAAACCTGC
1 AAAAAAA-AAAAACCTGC
33911685 AAAAAAAAAAAACCTG
1 AAAAAAAAAAAACCTG
33911701 ACAACAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.18, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAACCTGC
Found at i:33911756 original size:27 final size:27
Alignment explanation
Indices: 33911735--33911791 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
33911725 CATTGGCGGC
33911735 ACCAAAGGTGCCAAAGAGATTGGCCCG
1 ACCAAAGGTGCCAAAGAGATTGGCCCG
*
33911762 ACCAAAGGTGCCAAAGAGATTGGCCTG
1 ACCAAAGGTGCCAAAGAGATTGGCCCG
33911789 ACC
1 ACC
33911792 GGACTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.12
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGAGATTGGCCCG
Found at i:33912238 original size:19 final size:19
Alignment explanation
Indices: 33912214--33912276 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
33912204 AAGCAATAGT
33912214 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
33912233 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
33912252 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
33912271 TTATTA
1 TTATTA
33912277 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:33912925 original size:27 final size:27
Alignment explanation
Indices: 33912886--33912963 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
33912876 TAGTATTGGC
*
33912886 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
* * *
33912913 GCCTATCTGAGAGGTGCCATTAGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
*
33912940 GCC-ATGTTGAGAGGCGCCAATGGT
1 GCCTAT-CTGAGAGGCGCCAATGGT
33912964 ATTATTTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.24
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGT
Found at i:33913048 original size:15 final size:16
Alignment explanation
Indices: 33913028--33913064 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
33913018 ACAAAATCAA
33913028 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
33913043 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
33913059 ATAAAA
1 ATAAAA
33913065 ATTAAACGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:33913297 original size:8 final size:8
Alignment explanation
Indices: 33913284--33913557 Score: 94
Period size: 8 Copynumber: 33.8 Consensus size: 8
33913274 TTAATTATAA
33913284 AATATTAC
1 AATATTAC
33913292 AATATTCATAC
1 AATA-T--TAC
*
33913303 AAAATTAC
1 AATATTAC
33913311 AATATTCATAC
1 AATA-T--TAC
*
33913322 AAAATTA-
1 AATATTAC
33913329 AA-ATTAC
1 AATATTAC
*
33913336 AAAATTAC
1 AATATTAC
*
33913344 AAAATT-C
1 AATATTAC
**
33913351 -ATACAAAC
1 AATA-TTAC
33913359 AATATTAC
1 AATATTAC
33913367 AATATTCATAC
1 AATA-T--TAC
*
33913378 AAAATTAC
1 AATATTAC
*
33913386 AAAATTAC
1 AATATTAC
33913394 AATATT-C
1 AATATTAC
33913401 -ATA-TA-
1 AATATTAC
33913406 AA-ATTAC
1 AATATTAC
*
33913413 AAAATTAC
1 AATATTAC
33913421 AATATT-C
1 AATATTAC
**
33913428 -ATACAAAC
1 AATA-TTAC
33913436 AATATTAC
1 AATATTAC
33913444 AATATTCATAC
1 AATA-T--TAC
*
33913455 AAAATTAC
1 AATATTAC
*
33913463 AAAATTAC
1 AATATTAC
33913471 AATATT-C
1 AATATTAC
33913478 -ATA-TA-
1 AATATTAC
33913483 AA-ATTAC
1 AATATTAC
33913490 AATATTAC
1 AATATTAC
33913498 AATATTCATAC
1 AATA-T--TAC
* *
33913509 AAAATTAT
1 AATATTAC
*
33913517 AAAATTAC
1 AATATTAC
33913525 AATATTCATAC
1 AATA-T--TAC
*
33913536 AAAATTAC
1 AATATTAC
*
33913544 AAAATTAC
1 AATATTAC
33913552 AATATT
1 AATATT
33913558 CATACAAAAT
Statistics
Matches: 207, Mismatches: 23, Indels: 72
0.69 0.08 0.24
Matches are distributed among these distances:
5 4 0.02
6 21 0.10
7 12 0.06
8 116 0.56
9 12 0.06
10 6 0.03
11 36 0.17
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (8 bp):
AATATTAC
Found at i:33913311 original size:19 final size:19
Alignment explanation
Indices: 33913287--33913730 Score: 181
Period size: 19 Copynumber: 23.3 Consensus size: 19
33913277 ATTATAAAAT
33913287 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
33913306 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
33913325 ATTA-AA-A-T--TACAAA
1 ATTACAATATTCATACAAA
*
33913339 ATTACAAAATTCATACAAACAA
1 ATTACAATATTCATAC--A-AA
33913361 TATTACAATATTCATACAAA
1 -ATTACAATATTCATACAAA
* *
33913381 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
**
33913397 ATT-C-ATATAAAATTACAAA
1 ATTACAATAT-TCA-TACAAA
33913416 ATTACAATATTCATACAAACAA
1 ATTACAATATTCATAC--A-AA
33913438 TATTACAATATTCATACAAA
1 -ATTACAATATTCATACAAA
* *
33913458 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
** *
33913474 ATT-C-ATATAAAATTACAAT
1 ATTACAATAT-TCA-TACAAA
33913493 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
33913512 ATTATAA-AAT--TACAATA
1 ATTACAATATTCATACAA-A
* *
33913529 TTCATACAA-AAT--TACAAA
1 AT--TACAATATTCATACAAA
33913547 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
33913566 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
33913586 A-TACAAAATTAATT-ATAAAATA
1 ATTAC--AA-T-ATTCATACAA-A
33913608 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
33913627 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
33913646 A-TACTAATCA--AAAACTATAA
1 ATTAC-AAT-ATTCATAC-A-AA
* *
33913666 ATATAAAATTAATT-ATAAAATA
1 AT-TACAA-T-ATTCATACAA-A
*
33913688 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
* *
33913707 ATTATAATATTCATATAAA
1 ATTACAATATTCATACAAA
33913726 ATTAC
1 ATTAC
33913731 TAAATTACAA
Statistics
Matches: 331, Mismatches: 39, Indels: 110
0.69 0.08 0.23
Matches are distributed among these distances:
14 12 0.04
15 6 0.02
16 28 0.08
17 9 0.03
18 23 0.07
19 144 0.44
20 31 0.09
21 22 0.07
22 16 0.05
23 38 0.11
25 2 0.01
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:33913315 original size:27 final size:27
Alignment explanation
Indices: 33913287--33913567 Score: 370
Period size: 27 Copynumber: 10.8 Consensus size: 27
33913277 ATTATAAAAT
*
33913287 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAA
* *
33913314 ATT-C-ATA--CAAAATTAAAATTACAAA
1 ATTACAATATTC-ATA-CAAAATTACAAA
* *
33913339 ATTACAAAATTCATAC--AA--ACAAT
1 ATTACAATATTCATACAAAATTACAAA
33913362 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
*
33913389 ATTACAATATTCATATAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
*
33913416 ATTACAATATTCATAC--AA--ACAAT
1 ATTACAATATTCATACAAAATTACAAA
33913439 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
* *
33913466 ATTACAATATTCATATAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAA
*
33913493 ATTACAATATTCATACAAAATTATAAA
1 ATTACAATATTCATACAAAATTACAAA
33913520 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
33913547 ATTACAATATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
33913568 ACTAATCCAA
Statistics
Matches: 221, Mismatches: 19, Indels: 28
0.82 0.07 0.10
Matches are distributed among these distances:
23 40 0.18
24 2 0.01
25 24 0.11
26 2 0.01
27 150 0.68
28 2 0.01
29 1 0.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAA
Found at i:33913340 original size:54 final size:54
Alignment explanation
Indices: 33913276--33913647 Score: 229
Period size: 54 Copynumber: 6.9 Consensus size: 54
33913266 CTAACAAATT
*
33913276 AATTATAAAATATTACAATATTCATACAAAATTACAATATTCATACAAAATTAA
1 AATTACAAAATATTACAATATTCATACAAAATTACAATATTCATACAAAATTAA
*
33913330 AATTAC-AAA-ATTACAAAATTCATACAAACAATATTACAATATTCATACAAAATTACAA
1 AATTACAAAATATTACAATATTCATAC--A-AA-ATTACAATATTCATACAAAATT--AA
** *
33913388 AATTAC--AATATT-C-ATATAAAATTACAAAATTACAATATTCATAC-AAA-CAA
1 AATTACAAAATATTACAATAT-TCA-TACAAAATTACAATATTCATACAAAATTAA
* * * *
33913438 TATTACAATAT-TCATACAA-AAT--TACAAAATTACAATATTCATATAAAATTACA
1 AATTACAAAATAT--TACAATATTCATACAAAATTACAATATTCATACAAAATTA-A
* *
33913491 ATATTACAATAT-TCATACAAAATT-AT--AAAATTACAATATTCATAC------AA
1 A-ATTACAAAATAT--TACAATATTCATACAAAATTACAATATTCATACAAAATTAA
**
33913538 AATTAC-AAA-ATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATT--
1 AATTACAAAATATTACAATATTCATACAAAAT--T-A--C--AA-TATTCATACAAAATTAA
*
33913596 AATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAT
1 AATTACAAAAT-ATTACAATATTCATACAAAATTACAATATTCATACAAAAT
33913648 ACTAATCAAA
Statistics
Matches: 254, Mismatches: 22, Indels: 85
0.70 0.06 0.24
Matches are distributed among these distances:
43 8 0.03
44 2 0.01
45 3 0.01
46 10 0.04
47 2 0.01
48 2 0.01
49 1 0.00
50 28 0.11
51 5 0.02
52 18 0.07
53 22 0.09
54 69 0.27
55 7 0.03
56 28 0.11
57 4 0.02
58 20 0.08
59 4 0.02
61 21 0.08
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.31
Consensus pattern (54 bp):
AATTACAAAATATTACAATATTCATACAAAATTACAATATTCATACAAAATTAA
Found at i:33913365 original size:23 final size:23
Alignment explanation
Indices: 33913334--33913380 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
33913324 AATTAAAATT
33913334 ACAAAATTACAAAATTCATACAA
1 ACAAAATTACAAAATTCATACAA
* *
33913357 ACAATATTACAATATTCATACAA
1 ACAAAATTACAAAATTCATACAA
33913380 A
1 A
33913381 ATTACAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (23 bp):
ACAAAATTACAAAATTCATACAA
Found at i:33913438 original size:77 final size:77
Alignment explanation
Indices: 33913300--33913567 Score: 403
Period size: 77 Copynumber: 3.4 Consensus size: 77
33913290 ACAATATTCA
*
33913300 TACAAAATTACAATATTCATACAAAATTAAAATTACAAAATTACAAAATTCATACAAACAATATT
1 TACAAAATTACAATATTCAT-----A-TAAAATTACAAAATTACAATATTCATACAAACAATATT
33913365 ACAATATTCATACAAAAT
60 ACAATATTCATACAAAAT
33913383 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
33913448 TTCATACAAAAT
66 TTCATACAAAAT
*
33913460 TACAAAATTACAATATTCATATAAAATTACAATATTACAATATTCATACAAA-ATTATAAAATTA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACA--AT---ATTA
33913524 CAATATTCATACAAAAT
61 CAATATTCATACAAAAT
*
33913541 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATATAAAAT
33913568 ACTAATCCAA
Statistics
Matches: 177, Mismatches: 3, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
76 1 0.01
77 106 0.60
78 3 0.02
81 47 0.27
83 20 0.11
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (77 bp):
TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
TTCATACAAAAT
Found at i:33913642 original size:80 final size:80
Alignment explanation
Indices: 33913541--33913733 Score: 332
Period size: 80 Copynumber: 2.4 Consensus size: 80
33913531 CATACAAAAT
*
33913541 TACAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAA
1 TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
33913606 TAATTACAATATTCA
66 TAATTACAATATTCA
*
33913621 TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATATAAAATTAATTATAAAA
1 TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
33913686 TAATTACAATATTCA
66 TAATTACAATATTCA
* * *
33913701 TAAAAAATTATAATATTCATATAAAATTACTAA
1 TACAAAATTACAATATTCATACAAAA-TACTAA
33913734 ATTACAATAT
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 101 0.94
81 6 0.06
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (80 bp):
TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
TAATTACAATATTCA
Found at i:33913724 original size:21 final size:21
Alignment explanation
Indices: 33913599--33913763 Score: 82
Period size: 19 Copynumber: 8.0 Consensus size: 21
33913589 CAAAATTAAT
33913599 TATAAAATAATTACAATATTC
1 TATAAAATAATTACAATATTC
*
33913620 -ATACAA-AATTACAATATTC
1 TATAAAATAATTACAATATTC
* * * **
33913639 ATACAAAATACTAATCAA-AAAC
1 -TATAAAATAATTA-CAATATTC
* *
33913661 TATAAATATAA--A-ATTAAT-
1 TATAAA-ATAATTACAATATTC
33913679 TATAAAATAATTACAATATTC
1 TATAAAATAATTACAATATTC
*
33913700 -ATAAAA-AATTATAATATTC
1 TATAAAATAATTACAATATTC
33913719 ATATAAAATTACTAAATTACAATATTC
1 -TAT-AAA--A-T-AATTACAATATTC
*
33913746 -ATACAA-AATTACAATATT
1 TATAAAATAATTACAATATT
33913764 AATTGTATAA
Statistics
Matches: 110, Mismatches: 16, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
17 4 0.04
18 7 0.06
19 40 0.36
20 16 0.15
21 11 0.10
22 12 0.11
23 3 0.03
24 3 0.03
25 2 0.02
27 12 0.11
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TATAAAATAATTACAATATTC
Found at i:33913764 original size:27 final size:27
Alignment explanation
Indices: 33913705--33913757 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
33913695 TATTCATAAA
* *
33913705 AAATTATAATATTCATATAAAATTACT
1 AAATTACAATATTCATACAAAATTACT
33913732 AAATTACAATATTCATACAAAATTAC
1 AAATTACAATATTCATACAAAATTAC
33913758 AATATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATTACAATATTCATACAAAATTACT
Found at i:33915190 original size:46 final size:45
Alignment explanation
Indices: 33915123--33915402 Score: 312
Period size: 46 Copynumber: 6.6 Consensus size: 45
33915113 TTTGAGTACT
* *
33915123 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
33915169 TCTGATTAAGTGAGAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
33915205 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
33915241 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
33915287 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
33915333 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
33915378 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
33915403 ATCATACGTA
Statistics
Matches: 212, Mismatches: 12, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
36 62 0.29
38 1 0.00
39 1 0.00
40 3 0.01
41 1 0.00
42 4 0.02
43 14 0.07
44 6 0.03
45 20 0.09
46 100 0.47
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:33915205 original size:36 final size:36
Alignment explanation
Indices: 33915159--33915267 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
33915149 GGTAGCTTTA
* * *
33915159 GCTACACTTATCTGATTAAGTGAGAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
33915195 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
33915231 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
33915267 G
1 G
33915268 TTAGCCTTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:33915215 original size:21 final size:20
Alignment explanation
Indices: 33915187--33915252 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
33915177 AGTGAGAAAG
33915187 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
33915207 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
33915223 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
33915243 TGATCAAGTG
1 TGAT-AAGTG
33915253 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:33916854 original size:27 final size:27
Alignment explanation
Indices: 33916816--33916873 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
33916806 CATTTTAGTC
* * *
33916816 TGGTCAGGCCAATCTCTTTGGCACCTT
1 TGGTCAGACCAATCACTTTGACACCTT
33916843 TGGTCAGACCAATCACTTTGACACCTT
1 TGGTCAGACCAATCACTTTGACACCTT
33916870 TGGT
1 TGGT
33916874 GCCGCCAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (27 bp):
TGGTCAGACCAATCACTTTGACACCTT
Found at i:33916881 original size:27 final size:26
Alignment explanation
Indices: 33916816--33916882 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
33916806 CATTTTAGTC
* *
33916816 TGGTCAGGCCAATCTCTTTGGCACCTT
1 TGGTCA-GCCAATCACTTTGACACCTT
33916843 TGGTCAGACCAATCACTTTGACACCTT
1 TGGTCAG-CCAATCACTTTGACACCTT
*
33916870 TGGTGCCGCCAAT
1 TGGT-CAGCCAAT
33916883 GTGATTGGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (26 bp):
TGGTCAGCCAATCACTTTGACACCTT
Found at i:33916930 original size:17 final size:18
Alignment explanation
Indices: 33916908--33916941 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33916898 AGGCTGTTGT
33916908 CAGGTTTTT-TTTTTTTG
1 CAGGTTTTTATTTTTTTG
33916925 CAGGTTTTTATTTTTTT
1 CAGGTTTTTATTTTTTT
33916942 TGGTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.71
Consensus pattern (18 bp):
CAGGTTTTTATTTTTTTG
Found at i:33916999 original size:26 final size:27
Alignment explanation
Indices: 33916946--33917008 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
33916936 TTTTTTTGGT
**
33916946 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATGGATA
33916973 ATATTTTGGTAAATAAAAAAA-GGATA
1 ATATTTTGGTAAATAAAAAAATGGATA
*
33916999 ACATTTTGGT
1 ATATTTTGGT
33917009 TATTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.38
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATGGATA
Found at i:33918517 original size:21 final size:20
Alignment explanation
Indices: 33918493--33918538 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
33918483 AACTAAATTC
33918493 TATTTTTTTAATTTTATAACA
1 TATTTTTTTAATTTTATAA-A
33918514 TA-TTTTTTAATTTTATAAA
1 TATTTTTTTAATTTTATAAA
33918533 T-TTTTT
1 TATTTTT
33918539 ATGTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 16 0.67
21 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTTTTAATTTTATAAA
Found at i:33919701 original size:103 final size:105
Alignment explanation
Indices: 33919494--33919701 Score: 285
Period size: 103 Copynumber: 2.0 Consensus size: 105
33919484 TGAATAGGTG
* * *
33919494 AAATGCTTGGGAAGAAAATTTGGAAAAGCCAGATTAAATAGGCAAAATAAAATTTCCTAAAAGGT
1 AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
** *
33919559 AAATTTGGTGAAACAATCTTGAATAGGTGAAATATAATGC
66 AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
* * * * *
33919599 AAATACTT-GGAAGCAAATTTGGAAAAGTCAGACTAAATAGGCAAAATAAGATGT-CTTAGAGGT
1 AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
* *
33919662 AAATTTGACGAAGCAGTCTTGAAGAGGTGAAATATAATGC
66 AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
33919702 CTTGGAGGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 42 0.47
104 41 0.46
105 7 0.08
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (105 bp):
AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
Found at i:33920051 original size:66 final size:64
Alignment explanation
Indices: 33919938--33920130 Score: 182
Period size: 60 Copynumber: 3.0 Consensus size: 64
33919928 ATAAGAGTAG
* * * * ** *
33919938 ATATATAATTAACTTTCCAA-AGAAGGGGTTTGCCTAAATGAAAGAACTCTGTAATAGTAGATAT
1 ATATATAATGAACTCTCCAATA-AAGGAGTTTACCTAAATGAGTGAACTCCGTAA-AGTAGA-AT
33920002 AT
63 AT
*
33920004 ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCG-AAAGT-G--TAG
1 ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGTAAAGTAGAATAT
* * * *
33920064 GTATATAATGAACTCTCCAATGAAA-AAGTTCACCTAAATGAGTGAACACCGTAAGAGTAGACAT
1 ATATATAATGAACTCTCCAAT-AAAGGAGTTTACCTAAATGAGTGAACTCCGTAA-AGTAGA-AT
33920128 AT
63 AT
33920130 A
1 A
33920131 ATGAACGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
60 45 0.43
61 5 0.05
62 3 0.03
63 2 0.02
64 3 0.03
65 2 0.02
66 44 0.42
67 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (64 bp):
ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGTAAAGTAGAATAT
Found at i:33920099 original size:60 final size:60
Alignment explanation
Indices: 33920004--33920136 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
33919994 GTAGATATAT
* * * *
33920004 ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGAAAGTGTAG
1 ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
* *
33920064 GTATATAATGAACTCTCCAATGAAA-AAGTTCACCTAAATGAGTGAACACCGTAAGAGTAG
1 ATATATAATGAACTCTCCAAT-AAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
*
33920124 ACATATAATGAAC
1 ATATATAATGAAC
33920137 GGTTCACTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (60 bp):
ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
Found at i:33938974 original size:56 final size:60
Alignment explanation
Indices: 33938888--33939025 Score: 187
Period size: 56 Copynumber: 2.3 Consensus size: 60
33938878 CGGATTACTT
* *
33938888 GTCCGGGCTAAATCCATTTTCCACATATTCTTCGGG-GGGCTATATC-A-A-GATCACCC
1 GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACCC
*
33938944 GTCCGGGCTAGAT-CTTTTTCACACATATTCTTTGGGAGGGCTATATCAGGATAGGATCACCC
1 GTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATAGGATCACCC
33939006 GTCCGGGCTAGATCCTTTTT
1 GTCCGGGCTAGATCCTTTTT
33939026 ACCGTCAATT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
55 6 0.08
56 26 0.37
57 10 0.14
60 1 0.01
61 1 0.01
62 21 0.30
63 6 0.08
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (60 bp):
GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATAGGATCACCC
Found at i:33942244 original size:20 final size:20
Alignment explanation
Indices: 33942219--33942276 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
33942209 GAAGATGCGT
33942219 AACAAAGGCACCAAAGTGAA
1 AACAAAGGCACCAAAGTGAA
* * *
33942239 AACAAAGCCA-AAAATGTGCA
1 AACAAAGGCACCAAA-GTGAA
* *
33942259 ATCAGAGGCACCAAAGTG
1 AACAAAGGCACCAAAGTG
33942277 CAATCTCGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (20 bp):
AACAAAGGCACCAAAGTGAA
Found at i:33946283 original size:33 final size:32
Alignment explanation
Indices: 33946206--33946285 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
33946196 CGACATGCCC
* ** * *
33946206 GTGTGGCCCACACGGCCTACTTGCCCTAGCTT
1 GTGTGGCTCACACGGCCTACTACCCCCAGCCT
33946238 GTGTGG-TCCACACGGCCTACCTACCCCCAGCCT
1 GTGTGGCT-CACACGGCCTA-CTACCCCCAGCCT
33946271 GTGTGGCTCACACGG
1 GTGTGGCTCACACGG
33946286 TCTGGTACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 17 0.43
33 22 0.55
34 1 0.03
ACGTcount: A:0.14, C:0.39, G:0.26, T:0.21
Consensus pattern (32 bp):
GTGTGGCTCACACGGCCTACTACCCCCAGCCT
Found at i:33947995 original size:50 final size:50
Alignment explanation
Indices: 33947930--33948108 Score: 259
Period size: 50 Copynumber: 3.6 Consensus size: 50
33947920 AAATCTCATA
* * * ** * *
33947930 TCCCAGATATAGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
**
33947980 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
*
33948030 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
*
33948080 TCCCAAACATGGTCTTACATGGGACCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
33948109 TTACCCAAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 116 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
Found at i:33952888 original size:15 final size:15
Alignment explanation
Indices: 33952870--33952899 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33952860 TTAAAATAAA
*
33952870 TTTTTAACTTTTTAG
1 TTTTTAAATTTTTAG
33952885 TTTTTAAATTTTTAG
1 TTTTTAAATTTTTAG
33952900 AAAACAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTTAAATTTTTAG
Found at i:33955114 original size:45 final size:45
Alignment explanation
Indices: 33954941--33955208 Score: 297
Period size: 45 Copynumber: 5.9 Consensus size: 45
33954931 ATCTTATTTA
* * * *
33954941 TTTTCGACATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
** ***
33954986 TTTTCCG-TCATGTTGCCATAGTGTCTTTCAACTATGGTCTTATTTA
1 TTTT-CGAT-ATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
** * *
33955032 TTTTCTG-TCATGTTTCCATAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTC-GAT-ATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
* *
33955078 TTTTCGATATAATGCCACAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
* *
33955123 TTTTCGATATAGTGCCATAGTGTCTTTCAACTATGGTCTTACACG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
** * *
33955168 TTTTTTATATAATGTCATAGTGCCTTTCAACTATGGTCTTA
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGTCTTA
33955209 CATGTTTGAA
Statistics
Matches: 198, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
45 116 0.59
46 82 0.41
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (45 bp):
TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGTCTTATACG
Found at i:33955232 original size:45 final size:44
Alignment explanation
Indices: 33954948--33955276 Score: 222
Period size: 45 Copynumber: 7.3 Consensus size: 44
33954938 TTATTTTCGA
*
33954948 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTTCCG-T
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTA--CACGTTT--GAT
* * **
33954994 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTATTTATTTTCTG-T
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTA--CACGTT-TGAT
* * * *
33955040 CATGTTTCCATAGTGTCTTTCAACTATGGCCTTATACGTTTTCGAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACG-TTT-GAT
* * * *
33955086 -ATAATGCCACAGTGTCTTTCAACTATGGCCTTATACGTTTTCGAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACG-TTT-GAT
*
33955131 -AT-AGTGCCATAGTGTCTTTCAACTATGGTCTTACACGTTTTTTAT
1 CATGA-TGCCATAGTGTCTTTCAACTATGGTCTTACACG--TTTGAT
* * * *
33955176 -ATAATGTCATAGTGCCTTTCAACTATGGTCTTACATGTTTGAAT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACGTTTG-AT
* * * * * * * * *
33955220 CGTGATGCCATAGCGTATTTTAGCTATAGTCTTACTCTTTTAATT
1 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACGTTTGA-T
33955265 CATGATGCCATA
1 CATGATGCCATA
33955277 ACGCCTTTCA
Statistics
Matches: 240, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
43 3 0.01
44 7 0.03
45 150 0.62
46 76 0.32
47 3 0.01
48 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (44 bp):
CATGATGCCATAGTGTCTTTCAACTATGGTCTTACACGTTTGAT
Found at i:33960829 original size:27 final size:27
Alignment explanation
Indices: 33960798--33960850 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
33960788 AGTAATCAGA
33960798 ACCCTATAAAAAGTATTATGAAATTAT
1 ACCCTATAAAAAGTATTATGAAATTAT
33960825 ACCCTATAAAAAGTATTATGAAATTA
1 ACCCTATAAAAAGTATTATGAAATTA
33960851 ACTTCTGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (27 bp):
ACCCTATAAAAAGTATTATGAAATTAT
Found at i:33961141 original size:60 final size:61
Alignment explanation
Indices: 33961023--33961155 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 61
33961013 ATTAGCCTAA
* * *
33961023 TAACAAATTTAGTCCTCCAATGTTTACACATTTTATTAATTTGATGCTAAATCT-AAAAAT
1 TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
* * ** *
33961083 TCAACAAATTTAGT-CTTCAATGTTTACAAAATTTA-TCATTTAATTTTAATTCTAAAAAAAT
1 T-AACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCT-AAAAAAT
*
33961144 TAATAAATTTAG
1 TAACAAATTTAG
33961156 CCCTAAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 13 0.21
60 29 0.48
61 19 0.31
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (61 bp):
TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
Found at i:33961935 original size:52 final size:52
Alignment explanation
Indices: 33961799--33962007 Score: 226
Period size: 56 Copynumber: 4.0 Consensus size: 52
33961789 CGGGTCTCGA
* *
33961799 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGGCACAAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGATT
* **
33961851 AAAATTTTTTTGGGGGGTTTTGGGACATTGATGATCGGTACCAACTTTATCAGATT
1 --AATTTTTTT--GGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGATT
** * *
33961907 AATTTTTTTTTGGTTTTGGGACACTGATGG-CTAACACCAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGTC-GACACCAACTTTATCAGATT
** * * *
33961959 -ATTTTTTT-TTGTTCTAGGACATTGATGGCCGACACCAACTTTATCAGAT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGAT
33962008 ATATATATAG
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
50 34 0.25
51 10 0.07
52 34 0.25
54 18 0.13
56 40 0.29
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (52 bp):
AATTTTTTTGGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGATT
Found at i:33961985 original size:50 final size:52
Alignment explanation
Indices: 33961890--33962007 Score: 177
Period size: 50 Copynumber: 2.3 Consensus size: 52
33961880 GATGATCGGT
* * *
33961890 ACCAACTTTATCAGATTAATTTTTTTTTGGTTTTGGGACACTGATGGCTAAC
1 ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
* *
33961942 ACCAACTTTATCAGATT-ATTTTTTTTT-GTTCTAGGACATTGATGGCCGAC
1 ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
33961992 ACCAACTTTATCAGAT
1 ACCAACTTTATCAGAT
33962008 ATATATATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 34 0.56
51 10 0.16
52 17 0.28
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (52 bp):
ACCAACTTTATCAGATTAATTTTTTTTTGGTTCTAGGACACTGATGGCCAAC
Found at i:33967314 original size:6 final size:6
Alignment explanation
Indices: 33967303--33967386 Score: 82
Period size: 6 Copynumber: 14.2 Consensus size: 6
33967293 ATATAAAAAT
* * * *
33967303 TTGAAA TTGAAA GTTG-TA TTG-AA TTGAAA TTCAAT TTGAAA TTAAAA
1 TTGAAA TTGAAA -TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
* * *
33967350 TAGGAA TTAAAA TTGAAA TTGAAA TTGAAA TTGAAA T
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA T
33967387 GAATTTATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
5 7 0.11
6 52 0.84
7 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (6 bp):
TTGAAA
Found at i:33967604 original size:12 final size:12
Alignment explanation
Indices: 33967589--33967621 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33967579 TTGAATTTCA
*
33967589 AATTAGAATTGG
1 AATTGGAATTGG
33967601 AATTGGAATTGG
1 AATTGGAATTGG
33967613 AATTGGAAT
1 AATTGGAAT
33967622 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (12 bp):
AATTGGAATTGG
Found at i:33967672 original size:18 final size:17
Alignment explanation
Indices: 33967626--33967665 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
33967616 TGGAATGAAA
*
33967626 TTAAAATGAAATTATAT
1 TTAAAATGAAAATATAT
33967643 TTAAAATGAAAATATAT
1 TTAAAATGAAAATATAT
33967660 TTAAAA
1 TTAAAA
33967666 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTAAAATGAAAATATAT
Found at i:33967677 original size:18 final size:17
Alignment explanation
Indices: 33967639--33967677 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
33967629 AAATGAAATT
* *
33967639 ATATTTAAAATGAAAAT
1 ATATTTAAAAAGAAAAA
33967656 ATATTTAAAAAAGAAAAA
1 ATATTT-AAAAAGAAAAA
33967674 ATAT
1 ATAT
33967678 ATTGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
ATATTTAAAAAGAAAAA
Found at i:33971246 original size:3 final size:3
Alignment explanation
Indices: 33971238--33971285 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
33971228 ATTCCCACTC
* * * *
33971238 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33971286 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:33971286 original size:18 final size:18
Alignment explanation
Indices: 33971239--33971287 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
33971229 TTCCCACTCA
*
33971239 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
33971257 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
33971275 TAATATTAATACT
1 TAATAATAATACT
33971288 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:33971287 original size:12 final size:12
Alignment explanation
Indices: 33971238--33971285 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
33971228 ATTCCCACTC
*
33971238 ATAATAATAATA
1 ATAATACTAATA
33971250 ATAATACTAATA
1 ATAATACTAATA
33971262 ATAATACTAATA
1 ATAATACTAATA
* *
33971274 CTAATATTAATA
1 ATAATACTAATA
33971286 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:33972025 original size:20 final size:20
Alignment explanation
Indices: 33971991--33972030 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33971981 TTCTATTCTG
*
33971991 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
33972011 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
33972031 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:33972197 original size:31 final size:28
Alignment explanation
Indices: 33972161--33972228 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
33972151 TTGTCTTTAT
**
33972161 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
33972191 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
33972220 TTAATTTAT
1 TTAATTTAT
33972229 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:33972245 original size:21 final size:20
Alignment explanation
Indices: 33972207--33972245 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33972197 TAATTTAATA
*
33972207 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
33972227 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
33972246 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:33974990 original size:89 final size:88
Alignment explanation
Indices: 33974888--33975122 Score: 280
Period size: 87 Copynumber: 2.7 Consensus size: 88
33974878 ATTTAATAAA
* ** * * * *
33974888 AAAATATATAATTCGAAA-AATTAATAATATGCAAC-AAATTAAATTTATAGATATAAGAAAACA
1 AAAATATAAAATTCGAAACAACAAACAATACG-AACTAAATTAAATTTACAGATACAA-AAAA-A
* *
33974951 CAAACATTCTAGAATATTAATACACG
63 CAAACATTCTAAAAAATTAATACACG
* *
33974977 AAAATATAAAATTC-AAACAACAAACAATACGGACTAAATTAAATTTACAGATACAAAAAAATAA
1 AAAATATAAAATTCGAAACAACAAACAATACGAACTAAATTAAATTTACAGATACAAAAAAACAA
33975041 ACATTCTAAAAAATTAATACACG
66 ACATTCTAAAAAATTAATACACG
* * **
33975064 AAAATATAAAATTCG-AACAACAAATAATACAAACTAAATTTGATTTACAGATACAAAAA
1 AAAATATAAAATTCGAAACAACAAACAATACGAACTAAATTAAATTTACAGATACAAAAA
33975123 TTTTGAATAG
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
87 77 0.61
88 9 0.07
89 41 0.32
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.25
Consensus pattern (88 bp):
AAAATATAAAATTCGAAACAACAAACAATACGAACTAAATTAAATTTACAGATACAAAAAAACAA
ACATTCTAAAAAATTAATACACG
Found at i:33975061 original size:30 final size:31
Alignment explanation
Indices: 33975027--33975096 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 31
33975017 AAATTTACAG
* *
33975027 ATACAAAAAAATAAACATTCTAA-AA-AATTA
1 ATACAAAAAAATAAA-ATTCGAACAACAAATA
*
33975057 ATACACGAAAATATAAAATTCGAACAACAAATA
1 ATACA--AAAAAATAAAATTCGAACAACAAATA
33975090 ATACAAA
1 ATACAAA
33975097 CTAAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
30 5 0.15
31 8 0.24
32 11 0.33
33 9 0.27
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.20
Consensus pattern (31 bp):
ATACAAAAAAATAAAATTCGAACAACAAATA
Found at i:33982138 original size:3 final size:3
Alignment explanation
Indices: 33982130--33982159 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33982120 TCGAAAAACT
33982130 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33982160 GATCAGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33982704 original size:16 final size:16
Alignment explanation
Indices: 33982683--33982716 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33982673 TCATCTATTT
33982683 AACTAAAAACTCAACC
1 AACTAAAAACTCAACC
33982699 AACTAAAAACTCAACC
1 AACTAAAAACTCAACC
33982715 AA
1 AA
33982717 TGTTTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (16 bp):
AACTAAAAACTCAACC
Found at i:33983551 original size:22 final size:20
Alignment explanation
Indices: 33983511--33983551 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
33983501 ATTAACTTAC
*
33983511 TTATATTATATGTATTTATT
1 TTATATTATATATATTTATT
33983531 TTATATTATAAATATATTTAT
1 TTATATTAT--ATATATTTAT
33983552 AATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATTATATATATTTATT
Found at i:33983576 original size:29 final size:29
Alignment explanation
Indices: 33983542--33983602 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
33983532 TATATTATAA
33983542 ATATATTTATAATA-ACTAAAAATAATACT
1 ATATATTTATAATATACTAAAAATAATA-T
* *
33983571 ATATATTTATTATATATTAAAAATAATAT
1 ATATATTTATAATATACTAAAAATAATAT
33983600 ATA
1 ATA
33983603 GATAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATATTTATAATATACTAAAAATAATAT
Found at i:33985517 original size:42 final size:42
Alignment explanation
Indices: 33985452--33985830 Score: 521
Period size: 42 Copynumber: 9.0 Consensus size: 42
33985442 AGCGTTTACA
* * * *
33985452 GAAAAAATGCCGCTAAAGCTCATGTCCTTTAGCGGTGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
33985494 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTGG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
33985536 GAAAAAACGCCGCTAAAGGA-CATGATCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTTAG
* * *
33985578 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGG
1 G-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
33985621 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * * * *
33985663 GAAAAAAAGCCGCTAAAAATAATGATCTTTAGCGGTGCTTAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * *
33985705 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
33985747 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AG
*
33985790 AAAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 GAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
33985831 CTTCACAAAT
Statistics
Matches: 298, Mismatches: 33, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
42 225 0.76
43 73 0.24
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (42 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:33985594 original size:127 final size:125
Alignment explanation
Indices: 33985452--33985830 Score: 560
Period size: 127 Copynumber: 3.0 Consensus size: 125
33985442 AGCGTTTACA
* * * * * * * *
33985452 GAAAAAATGCCGCTAAAGCTCATGTCCTTTAGCGGTGCTTAGGAAAAAACGCCGCTAATGATCAT
1 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
* *
33985517 GTTCTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGGACATGATCTTTAGCGGCGCTTAG
66 GTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAA-GAAATGATCTTTAGCGGCGCTTAG
33985578 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCA
1 G-AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCA
* * *
33985643 TGTTCTTTAGCGGCGCTTAGGAAAAAAAGCCGCTAAAAATAATGATCTTTAGCGGTGCTTAG
65 TGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGA-AATGATCTTTAGCGGCGCTTAG
33985705 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
1 GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
* * * *
33985770 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTA
66 GTTCTTTAGCGGCGCTT-AGGAAAAAACGCCGCT-AAAGAAATGATCTTTAGCGGCGCTTA
33985831 CTTCACAAAT
Statistics
Matches: 229, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
126 83 0.36
127 143 0.62
128 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (125 bp):
GAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGTTTGGGAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAAATGATCTTTAGCGGCGCTTAG
Found at i:33986283 original size:12 final size:12
Alignment explanation
Indices: 33986266--33986293 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33986256 TTTTGAACCT
33986266 CTGCTTCTCTCA
1 CTGCTTCTCTCA
33986278 CTGCTTCTCTCA
1 CTGCTTCTCTCA
33986290 CTGC
1 CTGC
33986294 GGCCTCTGCT
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:0.07, C:0.43, G:0.11, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCA
Found at i:33986331 original size:21 final size:21
Alignment explanation
Indices: 33986278--33986343 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
33986268 GCTTCTCTCA
* *
33986278 CTGCTTCTCTCACTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
33986299 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
33986320 CTGCTTCCCTCGCTACCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
33986341 CTG
1 CTG
33986344 TTTTAAGTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.05, C:0.45, G:0.18, T:0.32
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:33991897 original size:9 final size:9
Alignment explanation
Indices: 33991858--33992146 Score: 198
Period size: 9 Copynumber: 32.8 Consensus size: 9
33991848 TATGTATTAA
*
33991858 GTAAATTAT
1 GTAAGTTAT
33991867 GTAAGTTAT
1 GTAAGTTAT
*
33991876 GTACGTGTA-
1 GTAAGT-TAT
33991885 -TAAGTTAT
1 GTAAGTTAT
33991893 GTAAGTTAT
1 GTAAGTTAT
*
33991902 GT-A-TTAA
1 GTAAGTTAT
33991909 GTAAGCTATATAT
1 GTAAG---T-TAT
33991922 GTAAG-T-T
1 GTAAGTTAT
33991929 GTATA-TTAT
1 GTA-AGTTAT
*
33991938 GTAACTTAT
1 GTAAGTTAT
33991947 GTAAGTTAT
1 GTAAGTTAT
** *
33991956 CAAAGTAAT
1 GTAAGTTAT
*
33991965 GTATGTTAT
1 GTAAGTTAT
33991974 GTAAG-T-T
1 GTAAGTTAT
33991981 GTAAGTTAT
1 GTAAGTTAT
*
33991990 -TATGTATTAT
1 GTAAG--TTAT
33992000 GTAAGTTAT
1 GTAAGTTAT
33992009 GTAAGTTAT
1 GTAAGTTAT
33992018 GT-A-TTAT
1 GTAAGTTAT
*
33992025 GTAGGTTAT
1 GTAAGTTAT
*
33992034 GTAAGTTGT
1 GTAAGTTAT
*
33992043 GTAAGATAT
1 GTAAGTTAT
*
33992052 TTAAGTTAT
1 GTAAGTTAT
*
33992061 GTAAGTTTT
1 GTAAGTTAT
33992070 GT-A-TTAT
1 GTAAGTTAT
33992077 GTAAGTTAT
1 GTAAGTTAT
33992086 GTAAGTTAT
1 GTAAGTTAT
* *
33992095 GTATGCTAT
1 GTAAGTTAT
33992104 GT-A-TTAT
1 GTAAGTTAT
33992111 GTAAGTTGTTAT
1 GTAA---GTTAT
*
33992123 GTTA-TTAT
1 GTAAGTTAT
33992131 GTAAGTTAT
1 GTAAGTTAT
*
33992140 GCAAGTT
1 GTAAGTT
33992147 TAACCACAAG
Statistics
Matches: 219, Mismatches: 33, Indels: 56
0.71 0.11 0.18
Matches are distributed among these distances:
7 33 0.15
8 26 0.12
9 136 0.62
10 6 0.03
11 3 0.01
12 8 0.04
13 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33991923 original size:71 final size:69
Alignment explanation
Indices: 33991847--33992094 Score: 181
Period size: 71 Copynumber: 3.5 Consensus size: 69
33991837 GTTACATAAT
* *
33991847 TTATGTATTAAGTAAATTATGTAAGTTATGTACGTGTAT-AAGTTATGTAAGTTATGT-A-TTAA
1 TTATGTATT-AGTAAATTATGTAAGTTATGTAAGT-TATAAAGTAATGTAAGTTATGTAAGTT--
33991909 GTAAGCTA
62 GTAAGCTA
* * *
33991917 TATATGTAAGTT-GTATATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTT
1 T-TATGT-A-TTAGTAAATTATGTAAGTTATGTAAGTTAT-AAAGTAATGTAAGTTATGTAAGTT
*
33991981 GTAAGTTA
62 GTAAGCTA
* * * * *
33991989 TTATGTATTATGTAAGTTATGTAAGTTATGT-A-TTATGTAGGTTATGTAAGTTGTGTAAGATAT
1 TTATGTATTA-GTAAATTATGTAAGTTATGTAAGTTAT-AAAGTAATGTAAGTTATGTAAG-T-T
* *
33992052 TTAAGTTA
62 GTAAGCTA
* *
33992060 TGTAAGT-TTTGT--ATTATGTAAGTTATGTAAGTTAT
1 T-TATGTATTAGTAAATTATGTAAGTTATGTAAGTTAT
33992095 GTATGCTATG
Statistics
Matches: 145, Mismatches: 19, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
68 15 0.10
69 24 0.17
70 13 0.09
71 59 0.41
72 29 0.20
73 3 0.02
74 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (69 bp):
TTATGTATTAGTAAATTATGTAAGTTATGTAAGTTATAAAGTAATGTAAGTTATGTAAGTTGTAA
GCTA
Found at i:33991940 original size:16 final size:16
Alignment explanation
Indices: 33991889--33992117 Score: 72
Period size: 16 Copynumber: 13.7 Consensus size: 16
33991879 CGTGTATAAG
*
33991889 TTATGTAAGTTATGTA
1 TTATGTAAGTTATATA
* *
33991905 TTAAGTAAG--CTATA
1 TTATGTAAGTTATATA
*
33991919 -TATGTAAGTTGTATA
1 TTATGTAAGTTATATA
* *
33991934 TTATGTAACTTATGTAA
1 TTATGTAAGTTATAT-A
** * *
33991951 GTTATCAAAGTAATGTATG
1 -TTATGTAAGT--TATATA
*
33991970 TTATGTAAGTTGTAAGTTA
1 TTATGTAAGTTAT-A--TA
*
33991989 TTATGT-A-TTATGTAA
1 TTATGTAAGTTATAT-A
*
33992004 GTTATGTAAGTTATGTA
1 -TTATGTAAGTTATATA
* *
33992021 TTATGTAGGTTATGTAA
1 TTATGTAAGTTATAT-A
* * *
33992038 GTTGTGTAAGATATTTAA
1 -TTATGTAAGTTATAT-A
* *
33992056 GTTATGTAAGTTTTGTA
1 -TTATGTAAGTTATATA
*
33992073 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATAT-A
* * *
33992090 GTTATGTATGCTATGTA
1 -TTATGTAAGTTATATA
33992107 TTATGTAAGTT
1 TTATGTAAGTT
33992118 GTTATGTTAT
Statistics
Matches: 162, Mismatches: 33, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
13 7 0.04
14 4 0.02
15 5 0.03
16 65 0.40
17 11 0.07
18 60 0.37
19 7 0.04
20 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATATA
Found at i:33991994 original size:19 final size:19
Alignment explanation
Indices: 33991970--33992008 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33991960 GTAATGTATG
33991970 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
33991989 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
33992008 T
1 T
33992009 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:33992023 original size:25 final size:25
Alignment explanation
Indices: 33991862--33992146 Score: 192
Period size: 25 Copynumber: 10.8 Consensus size: 25
33991852 TATTAAGTAA
* *
33991862 ATTATGTAAGTTATGTACGTGTAT-A
1 ATTATGTAAGTTATGTAAGT-TATGT
*
33991887 AGTTATGTAAGTTATGTATTAAG-TAAGCT
1 A-TTATGTAAGTTATG---TAAGTTATG-T
33991916 ATATATGTAAG-T-TGTATA-TTATGT
1 AT-TATGTAAGTTATGTA-AGTTATGT
** *
33991940 AACTTATGTAAGTTATCAAAGTAATGT
1 -A-TTATGTAAGTTATGTAAGTTATGT
33991967 ATGTTATGTAAG-T-TGTAAGTTATTATGT
1 A--TTATGTAAGTTATGTAAG---TTATGT
33991995 ATTATGTAAGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTATGT
* *
33992020 ATTATGTAGGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTATGT
* * *
33992045 AAGATATTTAAGTTATGTAAGTTTTGT
1 -A-TTATGTAAGTTATGTAAGTTATGT
33992072 ATTATGTAAGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTATGT
33992097 ATGCTATGT-A-TTATGTAAGTTGTTATGTT
1 AT--TATGTAAGTTATGTAA---GTTATG-T
*
33992126 ATTATGTAAGTTATGCAAGTT
1 ATTATGTAAGTTATGTAAGTT
33992147 TAACCACAAG
Statistics
Matches: 209, Mismatches: 21, Indels: 59
0.72 0.07 0.20
Matches are distributed among these distances:
24 3 0.01
25 78 0.37
26 34 0.16
27 51 0.24
28 21 0.10
29 22 0.11
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
ATTATGTAAGTTATGTAAGTTATGT
Found at i:33992039 original size:34 final size:34
Alignment explanation
Indices: 33991847--33992146 Score: 171
Period size: 34 Copynumber: 8.8 Consensus size: 34
33991837 GTTACATAAT
* * *
33991847 TTATGTATTAAGTAAATTATGTAAGTTATGTACG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
* *
33991881 TGTAT-AAGTTATGTAAGTTATGT-A-TTAAGTAAG
1 T-TATGTA-TTATGTAAGTTATGTAAGTTATGTAAG
* *
33991914 CTA--TA-TATGTAAG-T-TGTATA-TTATGTAAC
1 TTATGTATTATGTAAGTTATGTA-AGTTATGTAAG
** * *
33991943 TTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAG
*
33991979 TTGTAAGTTATTATGT-A-TTATGTAAGTTATGTAAG
1 -T-TATG-TATTATGTAAGTTATGTAAGTTATGTAAG
* *
33992014 TTATGTATTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
* * *
33992048 ATATTTAAGTTATGTAAGTTTTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAG
* *
33992082 TTATGTAAGTTATGTATGCTATGT-A-TTATGTAAGTTG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAA---G
*
33992119 TTATGTTATTATGTAAGTTATGCAAGTT
1 TTATG-TATTATGTAAGTTATGTAAGTT
33992147 TAACCACAAG
Statistics
Matches: 205, Mismatches: 36, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
27 3 0.01
28 1 0.00
29 18 0.09
31 2 0.01
32 11 0.05
33 10 0.05
34 67 0.33
35 34 0.17
36 38 0.19
37 13 0.06
38 7 0.03
39 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (34 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTAAG
Found at i:33992244 original size:16 final size:16
Alignment explanation
Indices: 33992220--33992274 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
33992210 TATAAAAATT
*
33992220 TTATATAAGTTATGTA
1 TTATGTAAGTTATGTA
33992236 TTATGTAAG----GTA
1 TTATGTAAGTTATGTA
**
33992248 ACATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
33992264 TTATGTAAGTT
1 TTATGTAAGTT
33992275 TACATATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
12 10 0.33
16 20 0.67
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:33992257 original size:28 final size:28
Alignment explanation
Indices: 33992222--33992291 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
33992212 TAAAAATTTT
33992222 ATATAAGTTATGTATTATGTAAGGTAAC
1 ATATAAGTTATGTATTATGTAAGGTAAC
* * *
33992250 ATGTAAGTTATGTATTATGTAAGTTTAC
1 ATATAAGTTATGTATTATGTAAGGTAAC
33992278 ATATAAGTTTATGT
1 ATATAAG-TTATGT
33992292 GATAGTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 31 0.84
29 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (28 bp):
ATATAAGTTATGTATTATGTAAGGTAAC
Found at i:33992496 original size:13 final size:13
Alignment explanation
Indices: 33992478--33992510 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33992468 TAAATTTTAG
*
33992478 TAAGTAACGTATT
1 TAAGTAACATATT
33992491 TAAGTAACATATT
1 TAAGTAACATATT
33992504 TAAGTAA
1 TAAGTAA
33992511 TAAATTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TAAGTAACATATT
Found at i:33997197 original size:40 final size:40
Alignment explanation
Indices: 33997153--33997244 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
33997143 CGTTTTTTTC
*
33997153 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGATTTCCCT
1 TAAACGCCGCTAATGCTCACTCTTTAACGGCGATTTCCCT
* *
33997193 TAAACGCCGCTAATGCTCACTCTTTAACGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAACGGCGATTTCCCT
* *
33997233 AAAACGCTGCTA
1 TAAACGCCGCTA
33997245 TTTCTCGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAACGGCGATTTCCCT
Found at i:33997226 original size:23 final size:23
Alignment explanation
Indices: 33997155--33997226 Score: 57
Period size: 23 Copynumber: 3.4 Consensus size: 23
33997145 TTTTTTTCTA
33997155 AACGCCGCTAATGCTCACTCTTT
1 AACGCCGCTAATGCTCACTCTTT
* * * *
33997178 -A-GCGGC-GAT-TTC-C-CTTA
1 AACGCCGCTAATGCTCACTCTTT
33997195 AACGCCGCTAATGCTCACTCTTT
1 AACGCCGCTAATGCTCACTCTTT
*
33997218 AACGGCGCT
1 AACGCCGCT
33997227 TTTCCTAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 12
0.62 0.16 0.22
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 6 0.18
20 4 0.12
21 6 0.18
22 2 0.06
23 11 0.32
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (23 bp):
AACGCCGCTAATGCTCACTCTTT
Found at i:33997930 original size:30 final size:29
Alignment explanation
Indices: 33997878--33997935 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
33997868 AACCTTTTAT
*
33997878 TTTTCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCAAAACTTTTACTCCCTTCCCAC
*
33997906 TTTTCCACTAAAACTTTTATTCCCTTCCCA
1 TTTTCC-C-AAAACTTTTACTCCCTTCCCA
33997936 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
30 13 0.52
31 5 0.20
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.41
Consensus pattern (29 bp):
TTTTCCCAAAACTTTTACTCCCTTCCCAC
Found at i:33999941 original size:23 final size:22
Alignment explanation
Indices: 33999898--33999942 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
33999888 ATGAGATAAT
* * *
33999898 TAAAAATAATAATATTTTTAAA
1 TAAAAATAAAAAAATTATTAAA
33999920 TAAAAATATAAAAAATTATTAAA
1 TAAAAATA-AAAAAATTATTAAA
33999943 AACGAGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAAAATTATTAAA
Found at i:33999958 original size:9 final size:9
Alignment explanation
Indices: 33999946--34000007 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
33999936 TATTAAAAAC
33999946 GAGAGAGTT
1 GAGAGAGTT
*
33999955 GAGAGACTT
1 GAGAGAGTT
*
33999964 GAGAGGGTTT
1 GAGAGAG-TT
* *
33999974 GGGAGAATTT
1 GAGAG-AGTT
*
33999984 GAGAGAATT
1 GAGAGAGTT
*
33999993 GAGGGAGTT
1 GAGAGAGTT
34000002 GAGAGA
1 GAGAGA
34000008 AGGATGTGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
9 28 0.70
10 12 0.30
ACGTcount: A:0.32, C:0.02, G:0.44, T:0.23
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:34000976 original size:14 final size:14
Alignment explanation
Indices: 34000957--34000995 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34000947 TTGTTTTACT
*
34000957 GAAAATGACTTCTG
1 GAAAATGACTTCTA
*
34000971 GAAAATGATTTCTA
1 GAAAATGACTTCTA
*
34000985 GAAAATAACTT
1 GAAAATGACTT
34000996 ACTTTTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:34004971 original size:12 final size:12
Alignment explanation
Indices: 34004954--34004986 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34004944 AATAGGATCA
34004954 ATATATGTATTT
1 ATATATGTATTT
*
34004966 ATATATATATTT
1 ATATATGTATTT
34004978 ATATATGTA
1 ATATATGTA
34004987 GTTGAGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
ATATATGTATTT
Found at i:34006369 original size:8 final size:8
Alignment explanation
Indices: 34006356--34006381 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34006346 CTAAAGTGAT
34006356 TTTTCATA
1 TTTTCATA
34006364 TTTTCATA
1 TTTTCATA
34006372 TTTTCATA
1 TTTTCATA
34006380 TT
1 TT
34006382 CTTTGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTCATA
Found at i:34019102 original size:17 final size:17
Alignment explanation
Indices: 34019080--34019118 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
34019070 TGGCATTGTA
34019080 AAGAACGTTTACATTAC
1 AAGAACGTTTACATTAC
34019097 AAGAACGTTTACATTAC
1 AAGAACGTTTACATTAC
34019114 AAGAA
1 AAGAA
34019119 AGACAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
AAGAACGTTTACATTAC
Found at i:34020718 original size:69 final size:68
Alignment explanation
Indices: 34020592--34020726 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 68
34020582 TTTTAATAGT
* *
34020592 TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTATATTAATTTAATATTAAAGTAATT
34020657 ATC
66 ATC
** *
34020660 TTAATATTAAATTTAATTTAATATTTCTAT-TG-ATAAATATTATATTAATTTTATATTAAAGTA
1 TTAATATTAAATTTAATTTAAT-GCT-TATCTGAAT-AATATTATATTAATTTAATATTAAAGTA
34020723 ATTA
63 ATTA
34020727 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
68 24 0.41
69 32 0.54
70 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATGCTTATCTGAATAATATTATATTAATTTAATATTAAAGTAATT
ATC
Found at i:34023946 original size:26 final size:26
Alignment explanation
Indices: 34023911--34023970 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
34023901 CCTACAGTAT
34023911 TTTCAGAATATCATAACATATATCAA
1 TTTCAGAATATCATAACATATATCAA
* * *
34023937 TTTCAGAATATCATAGCATGTATTAA
1 TTTCAGAATATCATAACATATATCAA
34023963 TTTCAGAA
1 TTTCAGAA
34023971 CACTTACAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTCAGAATATCATAACATATATCAA
Found at i:34031665 original size:26 final size:26
Alignment explanation
Indices: 34031630--34031689 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
34031620 CCTACAGTAT
34031630 TTTCAGAATATCATAACATATATCAA
1 TTTCAGAATATCATAACATATATCAA
* * *
34031656 TTTCAGAATATCATAGCATGTATTAA
1 TTTCAGAATATCATAACATATATCAA
*
34031682 TTTTAGAA
1 TTTCAGAA
34031690 CACTTACAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
TTTCAGAATATCATAACATATATCAA
Found at i:34032579 original size:23 final size:24
Alignment explanation
Indices: 34032541--34032585 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34032531 CAAATCCTAC
*
34032541 CCATCCATCCTCTACACACCATCT
1 CCATCCATACTCTACACACCATCT
*
34032565 CCATCCA-ACTCTACACTCCAT
1 CCATCCATACTCTACACACCAT
34032586 GAGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (24 bp):
CCATCCATACTCTACACACCATCT
Found at i:34033509 original size:13 final size:13
Alignment explanation
Indices: 34033491--34033518 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34033481 ATAAAATTAG
34033491 AAAGATGATAAAT
1 AAAGATGATAAAT
34033504 AAAGATGATAAAT
1 AAAGATGATAAAT
34033517 AA
1 AA
34033519 TAAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:34034527 original size:26 final size:26
Alignment explanation
Indices: 34034488--34034546 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
34034478 TCGTTATATA
34034488 GCTCTTCATAAGCTTCCCGATTAAAG
1 GCTCTTCATAAGCTTCCCGATTAAAG
* * * * *
34034514 GCTCTTTATGAGCTTTCTGATTAATG
1 GCTCTTCATAAGCTTCCCGATTAAAG
34034540 GCTCTTC
1 GCTCTTC
34034547 GGAGCTTTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (26 bp):
GCTCTTCATAAGCTTCCCGATTAAAG
Found at i:34035105 original size:22 final size:22
Alignment explanation
Indices: 34035074--34035115 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34035064 TACACCAAAA
* *
34035074 TAGGCTTTTAGTGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
34035096 TAGGCCTTTAGCGGTGCTTT
1 TAGGCCTTTAGCGGCGCTTT
34035116 GATAAGCGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:34035235 original size:43 final size:43
Alignment explanation
Indices: 34035180--34035279 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
34035170 TTTTAGAGAA
* *
34035180 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAG
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*** *
34035223 AAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
34035266 AAGCGCCGCTAAAG
1 AAACGCCGCTAAAG
34035280 CTCATGATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:34035293 original size:43 final size:43
Alignment explanation
Indices: 34035178--34035319 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
34035168 TCTTTTAGAG
* *** *
34035178 AAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCT
*
34035221 AGAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCT
1 AAAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCT
* * ** * * *
34035264 ACAAGCGCCGCTAAAG-CTCAT-GATTTTTAGCGACGCTTCTACT
1 AAAAACGCCGCTAAAGACT--TGGACCTTTAGCGGCGCTTTTCCT
34035307 AAAAACGCCGCTA
1 AAAAACGCCGCTA
34035320 TGATATTGAC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 79 0.96
44 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCT
Found at i:34035452 original size:7 final size:7
Alignment explanation
Indices: 34035440--34035468 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
34035430 ATTTTTGAAA
34035440 TTTAAAC
1 TTTAAAC
34035447 TTTAAAC
1 TTTAAAC
34035454 TTTAAAC
1 TTTAAAC
34035461 TTTAAAC
1 TTTAAAC
34035468 T
1 T
34035469 ATATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAC
Found at i:34037380 original size:15 final size:15
Alignment explanation
Indices: 34037360--34037390 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34037350 ATTTTTGCAT
34037360 GTTTCCAGTTTTCCC
1 GTTTCCAGTTTTCCC
34037375 GTTTCCAGTTTTCCC
1 GTTTCCAGTTTTCCC
34037390 G
1 G
34037391 CACTTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.32, G:0.16, T:0.45
Consensus pattern (15 bp):
GTTTCCAGTTTTCCC
Found at i:34041358 original size:13 final size:13
Alignment explanation
Indices: 34041340--34041364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34041330 ATTTATCAAT
34041340 TTTTTAAATATAA
1 TTTTTAAATATAA
34041353 TTTTTAAATATA
1 TTTTTAAATATA
34041365 TCAAATGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAATATAA
Found at i:34041661 original size:14 final size:14
Alignment explanation
Indices: 34041644--34041675 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34041634 CTTAAACCTT
34041644 TAACTCCTAACCCC
1 TAACTCCTAACCCC
*
34041658 TAACTGCTAACCCC
1 TAACTCCTAACCCC
34041672 TAAC
1 TAAC
34041676 CCTTCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.22
Consensus pattern (14 bp):
TAACTCCTAACCCC
Found at i:34041795 original size:7 final size:7
Alignment explanation
Indices: 34041785--34041822 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
34041775 CTTAAATTAG
34041785 TAACCCC
1 TAACCCC
34041792 TAACCCC
1 TAACCCC
34041799 TAACCCC
1 TAACCCC
**
34041806 TAACTAC
1 TAACCCC
34041813 TAACCCC
1 TAACCCC
34041820 TAA
1 TAA
34041823 TCCTTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:34041912 original size:54 final size:56
Alignment explanation
Indices: 34041812--34041925 Score: 180
Period size: 54 Copynumber: 2.1 Consensus size: 56
34041802 CCCCTAACTA
* *
34041812 CTAACCCCTAATCCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
34041868 CTAACCCATAAACCTTATTT-A-ATATAAATTAAAATAA-ACTAATTAATCTAAACC
1 CTAACCCATAAACCTTATTTAATATATAAATTAAAA-AACACTAATTAATCTAAACC
34041922 CTAA
1 CTAA
34041926 ACCTTAACCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
54 34 0.62
55 3 0.05
56 18 0.33
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (56 bp):
CTAACCCATAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
Found at i:34042001 original size:21 final size:21
Alignment explanation
Indices: 34041961--34042001 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34041951 AACATTAAAT
* * *
34041961 CCCTAACTCTTAATCTCTAAC
1 CCCTAACACTTAACCCCTAAC
34041982 CCCTAACACTTAACCCCTAA
1 CCCTAACACTTAACCCCTAA
34042002 ATCACAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACACTTAACCCCTAAC
Found at i:34042134 original size:16 final size:14
Alignment explanation
Indices: 34042098--34042132 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34042088 CTAAATTAAT
*
34042098 CATATACCCTAAAC
1 CATATATCCTAAAC
34042112 CATATATCCTAAAC
1 CATATATCCTAAAC
34042126 CATATAT
1 CATATAT
34042133 ATTAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CATATATCCTAAAC
Found at i:34042138 original size:14 final size:14
Alignment explanation
Indices: 34042106--34042140 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34042096 ATCATATACC
*
34042106 CTAAACCATATATC
1 CTAAACCATATATA
34042120 CTAAACCATATATA
1 CTAAACCATATATA
*
34042134 TTAAACC
1 CTAAACC
34042141 CTAAACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CTAAACCATATATA
Found at i:34042508 original size:41 final size:41
Alignment explanation
Indices: 34042463--34042737 Score: 325
Period size: 41 Copynumber: 6.7 Consensus size: 41
34042453 TGCTTTTGCA
* *
34042463 GCGCTTTTTTAAAAATGCCGCTAAAGCCCCGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** **
34042504 GCGCTTCTCCAAAAACGCCGCTAAATTCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* * *
34042545 GCGCTTTTTTAAAAACGTCACTAAAGCCCTAAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** *
34042586 GCGCTTCTCCAAAAACGCCGCTAAATCCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* *
34042627 GCGCTTTTTTAAAAACGCCACTAAAACCCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* ** * ** *
34042668 GCGCTTCTCCAAAAACGTCGCTAATTCCCTGAGCATTTGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* *
34042709 GCGTTTTTTTAAAAACGCCACTAAAGCCC
1 GCGCTTTTTTAAAAACGCCGCTAAAGCCC
34042738 CGAAAGGTCA
Statistics
Matches: 191, Mismatches: 43, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 191 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
GCGCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
Found at i:34042557 original size:82 final size:82
Alignment explanation
Indices: 34042463--34042740 Score: 441
Period size: 82 Copynumber: 3.4 Consensus size: 82
34042453 TGCTTTTGCA
* *
34042463 GCGCTTTTTTAAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
34042528 ATTCCTGAGCATTAGCG
66 ATTCCTGAGCATTAGCG
* **
34042545 GCGCTTTTTTAAAAACGTCACTAAAGCCCTAAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
*
34042610 ATCCCTGAGCATTAGCG
66 ATTCCTGAGCATTAGCG
* * *
34042627 GCGCTTTTTTAAAAACGCCACTAAAACCCTGAGCATTAGCGGCGCTTCTCCAAAAACGTCGCT-A
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
*
34042691 ATTCCCTGAGCATTTGCG
66 ATT-CCTGAGCATTAGCG
*
34042709 GCGTTTTTTTAAAAACGCCACTAAAGCCCCGA
1 GCGCTTTTTTAAAAACGCCACTAAAGCCCCGA
34042741 AAGGTCAGAA
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
81 3 0.02
82 177 0.98
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (82 bp):
GCGCTTTTTTAAAAACGCCACTAAAGCCCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAA
ATTCCTGAGCATTAGCG
Found at i:34044577 original size:16 final size:15
Alignment explanation
Indices: 34044544--34044586 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
34044534 TTTTAATAAG
34044544 ATTTAATATTAAATTA
1 ATTTAATATT-AATTA
34044560 ATTTAATATTAATGTA
1 ATTTAATATTAAT-TA
34044576 A-TTAAT-TTAAT
1 ATTTAATATTAAT
34044587 CATAGTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.19
15 8 0.31
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTAATATTAATTA
Found at i:34050682 original size:18 final size:18
Alignment explanation
Indices: 34050639--34050690 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
34050629 ATGTGAGGTA
* *
34050639 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTGTT
34050657 AGTATTATTATTAGTGTT
1 AGTATTATTATTAGTGTT
* *
34050675 ATTATTATTATGAGTG
1 AGTATTATTATTAGTG
34050691 GGAATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
AGTATTATTATTAGTGTT
Found at i:34050685 original size:6 final size:6
Alignment explanation
Indices: 34050639--34050681 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
34050629 ATGTGAGGTA
* * * *
34050639 AGTATT AATATT AGTATT AGTATT ATTATT AGTGTT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
34050682 TTATGAGTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:34055639 original size:21 final size:21
Alignment explanation
Indices: 34055578--34055625 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34055568 GGTCGAAAAC
**
34055578 TGAACAGAAGGTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
34055599 TTAACAGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
34055620 TGAACA
1 TGAACA
34055626 AAAGCTCGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:34068555 original size:19 final size:20
Alignment explanation
Indices: 34068516--34068556 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34068506 CTTAAGATAG
*
34068516 TAAAATATATTTGGAATAAT
1 TAAAATATATTTAGAATAAT
*
34068536 TAAAATATTTTTAG-ATAAT
1 TAAAATATATTTAGAATAAT
34068555 TA
1 TA
34068557 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
TAAAATATATTTAGAATAAT
Found at i:34076896 original size:21 final size:21
Alignment explanation
Indices: 34076872--34076916 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34076862 CTCGTGTAAC
*
34076872 AATTAACATATACTTCATAAA
1 AATTAACAAATACTTCATAAA
* *
34076893 AATTCAGAAATACTTCATAAA
1 AATTAACAAATACTTCATAAA
34076914 AAT
1 AAT
34076917 ATATATCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
AATTAACAAATACTTCATAAA
Found at i:34080655 original size:50 final size:50
Alignment explanation
Indices: 34080531--34080779 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
34080521 GATAATAACA
* * ** * *
34080531 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
34080582 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
34080632 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
34080682 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAGGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
34080737 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
34080780 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:34080709 original size:100 final size:104
Alignment explanation
Indices: 34080530--34080779 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
34080520 TGATAATAAC
**
34080530 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
34080595 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCGATCTTAAGG
* *
34080632 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
34080695 TCCCAGACATGGTCTTACAGGGGACCTCTCAGGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTC--GATCTTAAGG
* *
34080737 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34080780 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCGATCTTAAGG
Found at i:34080895 original size:13 final size:13
Alignment explanation
Indices: 34080874--34080905 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34080864 GCTTGGATCA
*
34080874 TCATCAAATAAAT
1 TCATAAAATAAAT
34080887 TCATAAAATAAAT
1 TCATAAAATAAAT
34080900 TCATAA
1 TCATAA
34080906 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:34084880 original size:12 final size:12
Alignment explanation
Indices: 34084863--34084892 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34084853 GGACACACGG
34084863 CCGTGTCCTAAC
1 CCGTGTCCTAAC
*
34084875 CCGTGTCCTCAC
1 CCGTGTCCTAAC
34084887 CCGTGT
1 CCGTGT
34084893 AACTCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTAAC
Found at i:34089856 original size:769 final size:765
Alignment explanation
Indices: 34088379--34089913 Score: 3025
Period size: 769 Copynumber: 2.0 Consensus size: 765
34088369 TGAAGTTGTA
34088379 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
1 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
34088444 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
66 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
34088509 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
131 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
34088574 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
196 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
34088639 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
261 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
*
34088704 GTGTCTCGAGCAAGGTGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
326 GTGTCTCGAGCAAGATGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
34088769 TCGTCACAACGTCATGAAGAACAAGATCATCGTCCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
391 TCGTCACAACGTCATGAAGAACAAGATCATCGTCCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
34088834 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
456 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
34088899 TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
521 TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
34088964 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
586 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
34089029 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
651 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
34089094 CTATTTATTTGAATGATGAATAAATAAATAAATAAAGTTAATTTCACATTTCAT
716 CTATTTATTTGAATGATG----AATAAATAAATAAAGTTAATTTCACATTTCAT
34089148 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
1 AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
34089213 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
66 GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
34089278 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
131 AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
34089343 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
196 ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
34089408 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
261 TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
34089473 GTGTCTCGAGCAAGATGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
326 GTGTCTCGAGCAAGATGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
34089538 TCGTCACAACGTCATGAAGAACAAGATCATCGTCCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
391 TCGTCACAACGTCATGAAGAACAAGATCATCGTCCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
34089603 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
456 GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
34089668 TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
521 TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
34089733 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
586 ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
34089798 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
651 CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
34089863 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
716 CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
34089913 A
1 A
34089914 TTATGTCTTG
Statistics
Matches: 765, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
765 33 0.04
769 732 0.96
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (765 bp):
AAGCAGTCAAGTTATTTGGTGAATCGATCTCCTCATCGAGCATTGAATGATAAAGTTCTAGAGGA
GATATGGTTAGGTAATCCTCTCAATTATTCGAATCTTAGAATTTTTGGTTCTTCTGCTTATGCTA
AAATTAGTTAGGGAAAGCTCGACCCAAGAGTCGTTAAACACATCTTTCTGGGATATTCTACCGGT
ACAAAAGGTTTTAAGTTGTAGTGTTTGAAATCCGATAAAATAATTGTTAGTAGAGATGTTAGATT
TGATGAATTTGCCATGTGTCGATTAGAAAATGAGACATTTACTTTTAAAGACATGACAAATCATA
GTGTCTCGAGCAAGATGGAGTCAAAATCCAAAATAGGGGGCGATGTCGTGACGACACGAAGAGCT
TCGTCACAACGTCATGAAGAACAAGATCATCGTCCCAAAGAGAAAGAAAGCGACGTCGTGACGAC
GCGACGAAATCTCGATTCTTGTAAAATTGAAGTTGTTTTGAATTAGTTTGGGACTTCATCTAATC
TTTAGGTACCTTCACCATCTCAGTTAACTAATTATAAGTTGGCTTATGACAGGAAAATGTGAGAA
ATTCGACCACCAAAGAAATATTATGAAGGAAACCTATTGGCTTATGCTCTAAGTGTTGTTGAGAA
CATTGATTCAGTCGATCCTTCTGCTGAGAAATGTGCCCATATTGAAGTAAACATGTAACTATTTT
CTATTTATTTGAATGATGAATAAATAAATAAAGTTAATTTCACATTTCAT
Found at i:34091700 original size:20 final size:21
Alignment explanation
Indices: 34091667--34091707 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
34091657 TTCTATTATT
34091667 TTAATAAGATTTAATATTAAA
1 TTAATAAGATTTAATATTAAA
34091688 TTAATAA-ATTTAATATTAAA
1 TTAATAAGATTTAATATTAAA
34091708 GTGATTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATAAGATTTAATATTAAA
Found at i:34102648 original size:29 final size:30
Alignment explanation
Indices: 34102615--34102676 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
34102605 ACTTAACAAG
* *
34102615 CAAATGCCTCTAAAATAGTAAC-AAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
34102644 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
34102674 CAA
1 CAA
34102677 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:34102729 original size:14 final size:14
Alignment explanation
Indices: 34102710--34102736 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34102700 CAAACAATAA
34102710 CAACATAATAGTAG
1 CAACATAATAGTAG
34102724 CAACATAATAGTA
1 CAACATAATAGTA
34102737 AAATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:34105626 original size:15 final size:15
Alignment explanation
Indices: 34105608--34105638 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34105598 GAGAGAGGAA
34105608 AATAGAAAAAACAAG
1 AATAGAAAAAACAAG
*
34105623 AATAGAAAAAAGAAG
1 AATAGAAAAAACAAG
34105638 A
1 A
34105639 TGAAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (15 bp):
AATAGAAAAAACAAG
Found at i:34110212 original size:25 final size:25
Alignment explanation
Indices: 34110155--34110226 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
34110145 ACACAATTAC
* *
34110155 CCACTTGACAATCCTTTGGGTTCGA
1 CCACTTGGCAATCCTTTGGGTTCAA
34110180 CCACTTGGCAATCCTTTGGGTTCAA
1 CCACTTGGCAATCCTTTGGGTTCAA
* *
34110205 CCACTTGG-AATACTTTGTGTTC
1 CCACTTGGCAATCCTTTGGGTTC
34110227 CATCAAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 12 0.28
25 31 0.72
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
CCACTTGGCAATCCTTTGGGTTCAA
Found at i:34112238 original size:4 final size:4
Alignment explanation
Indices: 34112229--34112262 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
34112219 TTGAATTTAT
34112229 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
34112263 TATATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:34114036 original size:15 final size:15
Alignment explanation
Indices: 34114018--34114048 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34114008 AAGAGAGGAA
34114018 AATAGAAAAAACAAG
1 AATAGAAAAAACAAG
*
34114033 AATAGAAAAAAGAAG
1 AATAGAAAAAACAAG
34114048 A
1 A
34114049 TGAAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (15 bp):
AATAGAAAAAACAAG
Found at i:34117125 original size:6 final size:6
Alignment explanation
Indices: 34117114--34117151 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
34117104 TTTTGTTTGC
34117114 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
34117152 CAGTGTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:34120403 original size:14 final size:15
Alignment explanation
Indices: 34120384--34120412 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34120374 ATCTTAAACA
34120384 AATTTAAT-TTTTTG
1 AATTTAATATTTTTG
34120398 AATTTAATATTTTTG
1 AATTTAATATTTTTG
34120413 TCTAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
AATTTAATATTTTTG
Found at i:34122221 original size:6 final size:6
Alignment explanation
Indices: 34122210--34122234 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34122200 TGTTTTATAA
34122210 CTTTGG CTTTGG CTTTGG CTTTGG C
1 CTTTGG CTTTGG CTTTGG CTTTGG C
34122235 ATTTCTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.32, T:0.48
Consensus pattern (6 bp):
CTTTGG
Found at i:34127041 original size:23 final size:23
Alignment explanation
Indices: 34127014--34127068 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
34127004 AAACTAATCC
34127014 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
34127036 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
34127059 TCTCTCAAAT
1 TCTCTCAAAT
34127069 CCATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Done.