Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 209 of 226
Found at i:65889858 original size:15 final size:15
Alignment explanation
Indices: 65889813--65889860 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
65889803 CAATTTTATT
65889813 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
65889830 TTACAATTATAAATATA
1 TT--AATAATAAATATA
65889847 TTAATAATAAATAT
1 TTAATAATAAATAT
65889861 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:65893689 original size:6 final size:6
Alignment explanation
Indices: 65893678--65893705 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65893668 AATTAATAAA
65893678 GGCATG GGCATG GGCATG GGCATG GGCA
1 GGCATG GGCATG GGCATG GGCATG GGCA
65893706 ATAAAGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.14
Consensus pattern (6 bp):
GGCATG
Found at i:65901887 original size:25 final size:25
Alignment explanation
Indices: 65901857--65901906 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
65901847 CTCATTTCCA
*
65901857 TTTCTCTTATTTGCCATTTCAATAT
1 TTTCTCATATTTGCCATTTCAATAT
*
65901882 TTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATATTTGCCATTTCAATAT
65901907 CAATCACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTCTCATATTTGCCATTTCAATAT
Found at i:65905604 original size:50 final size:50
Alignment explanation
Indices: 65905524--65905716 Score: 289
Period size: 50 Copynumber: 3.8 Consensus size: 50
65905514 ATTTGGGTAA
*
65905524 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
1 AGAGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
*
65905574 AGAGTTCCCATGTAAGACCATGTCTCGGACATGGCGTTGGCACCGAAATG
1 AGAGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
* * *
65905624 AGAGGTT-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGA-GTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
** *
65905674 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
65905717 TGTTATTATC
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
50 93 0.72
51 37 0.28
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGTTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
Found at i:65906577 original size:30 final size:30
Alignment explanation
Indices: 65906533--65906595 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
65906523 ACTTAACAAG
*
65906533 CAAATGCCTCTAAAATAATGACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
65906563 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
65906593 CAA
1 CAA
65906596 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:65912753 original size:34 final size:35
Alignment explanation
Indices: 65912710--65912781 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
65912700 TGATGAAAGT
65912710 AAACTTTTTTAAAGAAATATGTAATGTAAAAGATA
1 AAACTTTTTTAAAGAAATATGTAATGTAAAAGATA
65912745 AAACTTTTTTAAAGAAATATGTAATGTAAAAGATA
1 AAACTTTTTTAAAGAAATATGTAATGTAAAAGATA
65912780 AA
1 AA
65912782 TGATAATTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (35 bp):
AAACTTTTTTAAAGAAATATGTAATGTAAAAGATA
Found at i:65913058 original size:2 final size:2
Alignment explanation
Indices: 65913016--65913042 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65913006 ACATACATAC
65913016 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
65913043 ATGAGGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65914157 original size:44 final size:43
Alignment explanation
Indices: 65914061--65914399 Score: 218
Period size: 44 Copynumber: 7.8 Consensus size: 43
65914051 ACTTGATGCG
* * * *
65914061 ATCTGCTCTACTGCAACTTCAGAGAGGTAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTCA
* * * *
65914105 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TACTTCA
* * *
65914149 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--TACTTCA
* * ** * * *
65914193 TTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-ATTACTTCA
** * * ** * * *
65914237 GCCTGCTCTACTGCAACCTCAGGGAGATAAGA-CCTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTACTTCA
** * * *
65914278 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTCA
* * * * * **
65914322 ATCCGCTACACTACAACTTTAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TACTTCA
*
65914366 ATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
65914400 TGCCATCTTC
Statistics
Matches: 221, Mismatches: 64, Indels: 20
0.72 0.21 0.07
Matches are distributed among these distances:
40 1 0.00
41 27 0.12
43 9 0.04
44 176 0.80
45 7 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTACTTCA
Found at i:65914552 original size:128 final size:127
Alignment explanation
Indices: 65914390--65914930 Score: 839
Period size: 128 Copynumber: 4.2 Consensus size: 127
65914380 AACTTCAGGG
*
65914390 AGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCC-GCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * *
65914455 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTTCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
65914518 AGATAAGATTCGCCGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATTTGTAATTTCTA
1 AGATAAGATTTGCCG-CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
65914583 ACCTACTCCACTGCTGACCAGAGACATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
*
65914646 AGATAAGATTTGCCGCTTTCGATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCCGC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * * *
65914711 ACCTACTTCACTACTGACCAGGAACATAGGACTTGAGGCTTAAATCTGCTTTCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
65914774 AGATAAGATTTACCGCTTTCGATCTGCTCCGTTACCGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCCGC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
65914839 ACCTACTCCACTGCTAACCAGGGACATAGGACTTGTGGCTTGAATCTGCTTCCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
*
65914902 AGATAAGATTTGTCGCTTCCGATCTGCTC
1 AGATAAGATTTGCCGCTT-CGATCTGCTC
65914931 TGTAATTTCT
Statistics
Matches: 375, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
127 3 0.01
128 372 0.99
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (127 bp):
AGATAAGATTTGCCGCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAA
CCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:65915005 original size:103 final size:103
Alignment explanation
Indices: 65914826--65915014 Score: 342
Period size: 103 Copynumber: 1.8 Consensus size: 103
65914816 GGAGACAAGA
* *
65914826 TCTGTAATTTCCAACCTACTCCACTGCTAACCAGGGACATAGGACTTGTGGCTTGAATCTGCTTC
1 TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGAAATAGGACTTGTGGCTTGAATCTGCTTC
65914891 CTTACACTTGAAGATAAGATTTGTCGCTTCCGATCTGC
66 CTTACACTTGAAGATAAGATTTGTCGCTTCCGATCTGC
*
65914929 TCTGTAATTTCTAACCTACTCCACTACTAACCAGGGAAATAGGACTTGTGGCTTGAATCTGCTTC
1 TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGAAATAGGACTTGTGGCTTGAATCTGCTTC
*
65914994 CTTACACTTGAAGGTAAGATT
66 CTTACACTTGAAGATAAGATT
65915015 CACCGTCTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 82 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (103 bp):
TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGAAATAGGACTTGTGGCTTGAATCTGCTTC
CTTACACTTGAAGATAAGATTTGTCGCTTCCGATCTGC
Found at i:65916397 original size:7 final size:7
Alignment explanation
Indices: 65916378--65916429 Score: 61
Period size: 7 Copynumber: 7.0 Consensus size: 7
65916368 TTAGCCTCTC
65916378 CATTTTT
1 CATTTTT
65916385 -ACTTTTT
1 CA-TTTTT
65916392 CATTTTTT
1 CA-TTTTT
65916400 CATTTTT
1 CATTTTT
65916407 CATTTTTT
1 CA-TTTTT
65916415 CATTTTT
1 CATTTTT
65916422 CATATTTT
1 CAT-TTTT
65916430 TTTGACTCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 1 0.03
7 20 0.50
8 19 0.47
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:65916398 original size:8 final size:8
Alignment explanation
Indices: 65916387--65916430 Score: 65
Period size: 7 Copynumber: 5.6 Consensus size: 8
65916377 CCATTTTTAC
65916387 TTTTTCAT
1 TTTTTCAT
65916395 TTTTTCA-
1 TTTTTCAT
65916402 TTTTTCAT
1 TTTTTCAT
65916410 TTTTTCA-
1 TTTTTCAT
65916417 TTTTTCAT
1 TTTTTCAT
65916425 ATTTTT
1 -TTTTT
65916431 TTGACTCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.42
8 14 0.42
9 5 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:65916405 original size:15 final size:15
Alignment explanation
Indices: 65916378--65916430 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
65916368 TTAGCCTCTC
*
65916378 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
65916392 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
65916407 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
65916422 CATATTTTT
1 CAT-TTTTT
65916431 TTGACTCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 8 0.22
15 23 0.64
16 5 0.14
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:65918995 original size:2 final size:2
Alignment explanation
Indices: 65918949--65918979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
65918939 ACATACATAC
65918949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65918980 ATGAGGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65931239 original size:3 final size:3
Alignment explanation
Indices: 65931231--65931279 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
65931221 AGTCCCCATT
65931231 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65931279 T
1 T
65931280 ATATACATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65931481 original size:12 final size:12
Alignment explanation
Indices: 65931464--65931492 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
65931454 TATGCATACC
65931464 TACATATTTTAA
1 TACATATTTTAA
65931476 TACATATTTTAA
1 TACATATTTTAA
65931488 TACAT
1 TACAT
65931493 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:65932856 original size:39 final size:40
Alignment explanation
Indices: 65932755--65932858 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 40
65932745 GGTTCGCTGT
65932755 AATGGAATAGATGTGTAATAGTAATTCAATTGTTTGGTTG
1 AATGGAATAGATGTGTAATAGTAATTCAATTGTTTGGTTG
* *
65932795 AATGGAATGGAATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTG
1 AATGGAATAG-AT-G---TGTAATAGTAATTCAAT-TGTTTGGTTG
65932839 AATGGAAT-GATGTTGTAATA
1 AATGGAATAGATG-TGTAATA
65932859 ACATAAGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
39 7 0.13
40 9 0.16
41 3 0.05
42 3 0.05
43 2 0.04
44 22 0.40
45 9 0.16
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (40 bp):
AATGGAATAGATGTGTAATAGTAATTCAATTGTTTGGTTG
Found at i:65932932 original size:6 final size:6
Alignment explanation
Indices: 65932921--65932949 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
65932911 AGGTAGATGA
65932921 TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATT
65932950 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:65933171 original size:59 final size:59
Alignment explanation
Indices: 65932975--65933173 Score: 178
Period size: 59 Copynumber: 3.4 Consensus size: 59
65932965 TATTAATATA
* * *
65932975 AATAATAAATAATTTAAT--CATAT--TTTAACATAATTATTATTAAATATAATTTAAT
1 AATAATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * * * * **
65933030 AAAAAATATATAATTTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAAT
1 -AATAATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAAT
* *
65933092 GATAATATATAATACT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
65933151 AATAATATATAATTTAATAAAAT
1 AATAATATATAATTTAATAAAAT
65933174 TCAATATAAT
Statistics
Matches: 108, Mismatches: 23, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
56 16 0.15
58 4 0.04
59 38 0.35
60 9 0.08
61 24 0.22
62 15 0.14
63 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
AATAATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:65933613 original size:113 final size:114
Alignment explanation
Indices: 65933362--65933656 Score: 294
Period size: 113 Copynumber: 2.6 Consensus size: 114
65933352 TTTTGGTTAT
* * * ** *
65933362 GCGCCGCAAAATCTCA-AGACCAAAACGCATCGTTTTTGTATTGATGTATACAATAATTAGTGGC
1 GCGCCGCAAAATATCATA-ACCAAAACGCATAGTTTTGGTATTGATGTATATTAGAATTAGTGGC
* ** * * * **
65933426 GATTATGATAAAACGCCGCTAAAGCAAGTAATAGCGGCGCATTGTGGGAA
65 GCTTACAAAAAAACGCCGCTAAAACAAGTAATAGCGGCGCATTCTGAAAA
* * * * *
65933476 GCACCGCAAAA-ATCTTAACGAAAACGCATTGTTTTGGTATCGATGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATATCATAACCAAAACGCATAGTTTTGGTATTGATGTATATTAGAATTAGTGGCG
* *
65933540 CTTACAAAAAAACGCCAG-TAAAACAAGTATTAGCGGCG-TTTACT-AAAA
66 CTTACAAAAAAACGCC-GCTAAAACAAGTAATAGCGGCGCATT-CTGAAAA
* * * * *
65933588 GCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGGTG
1 GCGCCGCAAAATATCATAACCAAAACGCATAGTTTTGGTATTGATGTATATTAGAATTAGTGGCG
65933653 CTTA
66 CTTA
65933657 ATAGAAGTGC
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
112 14 0.10
113 121 0.82
114 12 0.08
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (114 bp):
GCGCCGCAAAATATCATAACCAAAACGCATAGTTTTGGTATTGATGTATATTAGAATTAGTGGCG
CTTACAAAAAAACGCCGCTAAAACAAGTAATAGCGGCGCATTCTGAAAA
Found at i:65933860 original size:114 final size:114
Alignment explanation
Indices: 65933681--65934243 Score: 445
Period size: 114 Copynumber: 4.9 Consensus size: 114
65933671 AAAAATGTTA
* * * * *
65933681 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-GTTAAAAACGCCG
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACG-GAAAAACGCCG
** * * *
65933744 CTAAAGTATAAAATTAGCGGCGATTTTTTAGAATCACCGCAAGATATGCAC
64 CTAAAGTATACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGCAC
* *
65933795 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
* ** * * *
65933860 AAAG-AGTACTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATAT-TTCTTA-
66 AAAGTA-TACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGC--AC
* * * * *
65933909 ACCAAAACTCA-ACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGTTTAC-AATAAAACGCC
1 ACCAAAACGCAGA-G-TTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGA-AAAACGCC
* *
65933972 GCTAAA-TATCAGTATTAGCGGCGC--TTTCAGTTAAGCGCCGCAAGATATGCAC
63 GCTAAAGTAT-ACTATTAGCGGCGCTTTTTTAG--AAGCGCCGCAAGATATGCAC
* * * * * *
65934024 ACCAAAACACAGAGTTTGGTATTGAGGTATATTAGAATTAGTGACGCTTATTGG-AAAACGCTGC
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTA-CGGAAAAACGCCGC
* **
65934088 TAAAGTATACTATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTA-
65 TAAAGTATACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATAT-GCAC
** * * ** * * * * *
65934138 ACTGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCG-TTCAC-GAGAAATCACC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATAATAGAATTAGTGGCGCTT-ACGGA-AAAACGCC
* *
65934201 GCTAAA-TCATATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
63 GCTAAAGT-ATACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAA
65934244 AAGATCTTTA
Statistics
Matches: 358, Mismatches: 65, Indels: 51
0.76 0.14 0.11
Matches are distributed among these distances:
113 37 0.10
114 159 0.44
115 155 0.43
116 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
AAAGTATACTATTAGCGGCGCTTTTTTAGAAGCGCCGCAAGATATGCAC
Found at i:65934238 original size:229 final size:229
Alignment explanation
Indices: 65933678--65934243 Score: 592
Period size: 229 Copynumber: 2.5 Consensus size: 229
65933668 ACAAAAAATG
* ** * * **
65933678 TTAACCAAAACGCAGCGGTTT-GGTCTCGATGTATAATACAATTAGTGGCGTT-AGTTA-AAAAC
1 TTAACCAAAACGCAAC-GTTTAAATCTTGATGTATAATAGAATTAGTGGCGTTCA-CAAGAAAAC
* ** * * * * *
65933740 GCCGCTAAAGTAT-AAAATTAGCGGCGATTTTTTAGAATCACCGCAAGATATGCACACCAAAACG
64 ACCGCTAAA-TATCAGTATTAGCGGCGCTTTTTTATAAGCGCCGCAAGATATGCACACCAAAACA
* * *
65933804 CAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTAC
128 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGACGCTTACGGAAAAACGCCGCTAAAGAGTAC
* * * *
65933869 TATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTC
193 TATTAGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
* *** * * * *
65933906 TTAACCAAAACTCAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGTTTACAATAAAACGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGTTCACAAGAAAACAC
**
65933971 CGCTAAATATCAGTATTAGCGGCGCTTTCAGT-TAAGCGCCGCAAGATATGCACACCAAAACACA
66 CGCTAAATATCAGTATTAGCGGCGCTTT-TTTATAAGCGCCGCAAGATATGCACACCAAAACACA
* *
65934035 GAGTTTGGTATTGAGGTATATTAGAATTAGTGACGCTTATTGG-AAAACGCTGCTAAAGTA-TAC
130 GAGTTTGGTATTGAGGTATATTAGAATTAGTGACGCTTA-CGGAAAAACGCCGCTAAAG-AGTAC
**
65934098 TATTAGCGGCGC-TTTCTTAGAAGCGCCGCAAGATATA
193 TATTAGCGGCGCGTTT-GGAGAAGCGCCGCAAGATATA
** ** * * * *
65934135 TTAACTGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCGTTCACGAGAAATCAC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGTTCACAAGAAAACAC
*
65934200 CGCTAAATCAT-ATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
66 CGCTAAAT-ATCAGTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
65934244 AAGATCTTTA
Statistics
Matches: 283, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
227 4 0.01
228 51 0.18
229 222 0.78
230 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (229 bp):
TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCGTTCACAAGAAAACAC
CGCTAAATATCAGTATTAGCGGCGCTTTTTTATAAGCGCCGCAAGATATGCACACCAAAACACAG
AGTTTGGTATTGAGGTATATTAGAATTAGTGACGCTTACGGAAAAACGCCGCTAAAGAGTACTAT
TAGCGGCGCGTTTGGAGAAGCGCCGCAAGATATA
Found at i:65935857 original size:44 final size:44
Alignment explanation
Indices: 65935794--65935888 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 44
65935784 GAAATTCTTG
* *
65935794 CTCCTTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGC
1 CTCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGC
* *
65935838 CTCCTTCTTGCCGAATTTCTTGAAATCCGAAATCCCTAAATCGC
1 CTCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGC
65935882 CTCCTTC
1 CTCCTTC
65935889 CTCCTTCCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.34
Consensus pattern (44 bp):
CTCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGC
Found at i:65937535 original size:10 final size:10
Alignment explanation
Indices: 65937520--65937545 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
65937510 ACGAAAAATA
65937520 TATTTTGTTT
1 TATTTTGTTT
65937530 TATTTTGTTT
1 TATTTTGTTT
65937540 TATTTT
1 TATTTT
65937546 TAATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
TATTTTGTTT
Found at i:65937627 original size:34 final size:35
Alignment explanation
Indices: 65937584--65937676 Score: 145
Period size: 34 Copynumber: 2.7 Consensus size: 35
65937574 TAAAGTTATA
65937584 TTTTAAATATTTTATTTTATTTTAATCACGAAT-T
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
65937618 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
**
65937653 TTTTAAATATTAAATTTT-TTTTAA
1 TTTTAAATATTTTATTTTATTTTAA
65937677 AGTTCAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 37 0.69
35 17 0.31
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:65937714 original size:18 final size:17
Alignment explanation
Indices: 65937683--65937738 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
65937673 TTAAAGTTCA
65937683 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
65937700 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
65937718 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
65937734 AATTT
1 AATTT
65937739 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:65937758 original size:29 final size:33
Alignment explanation
Indices: 65937688--65937760 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
65937678 GTTCAAATTT
*
65937688 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
65937722 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
65937751 CATAACTTAC
1 CATAACTTAC
65937761 ATAACTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 15 0.39
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:65937810 original size:19 final size:19
Alignment explanation
Indices: 65937788--65937825 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65937778 ATATATAGTT
65937788 TTTATATATATATTTAAAA
1 TTTATATATATATTTAAAA
*
65937807 TTTATATATATTTTTAAAA
1 TTTATATATATATTTAAAA
65937826 ATTGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:65938014 original size:24 final size:24
Alignment explanation
Indices: 65937980--65938038 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
65937970 CACAACTTAC
* * *
65937980 ATAACCAACATAATGACTTATATA
1 ATAACCTACATAATAACTTACATA
65938004 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAACTTACATA
65938028 ATAA--TACATAA
1 ATAACCTACATAA
65938039 CATACATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 7 0.22
24 25 0.78
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:65938016 original size:12 final size:12
Alignment explanation
Indices: 65937980--65938031 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
65937970 CACAACTTAC
*
65937980 ATAACCAACATA
1 ATAACCTACATA
* * *
65937992 ATGACTTATATA
1 ATAACCTACATA
65938004 ATAACCTACATA
1 ATAACCTACATA
*
65938016 ATAACTTACATA
1 ATAACCTACATA
65938028 ATAA
1 ATAA
65938032 TACATAACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:65938062 original size:37 final size:37
Alignment explanation
Indices: 65938015--65938138 Score: 139
Period size: 37 Copynumber: 3.4 Consensus size: 37
65938005 TAACCTACAT
65938015 AATAACTTACATAATAATACATAACATACATAAATTA
1 AATAACTTACATAATAATACATAACATACATAAATTA
* * *
65938052 AATAAGTTACATAAT-ACACA-AA-A-ACAAAAATTTA
1 AATAACTTACATAATAATACATAACATACATAAA-TTA
* * * *
65938086 CATAACTTATATAATAATACATACCGTACATAAATTA
1 AATAACTTACATAATAATACATAACATACATAAATTA
*
65938123 AATAAGTTACATAATA
1 AATAACTTACATAATA
65938139 CACAAAAACA
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
33 6 0.09
34 16 0.23
35 6 0.09
36 5 0.07
37 30 0.43
38 6 0.09
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (37 bp):
AATAACTTACATAATAATACATAACATACATAAATTA
Found at i:65938068 original size:25 final size:24
Alignment explanation
Indices: 65938040--65938140 Score: 59
Period size: 25 Copynumber: 4.2 Consensus size: 24
65938030 AATACATAAC
65938040 ATACATAAATTAAATAAGTTACATA
1 ATACATAAA-TAAATAAGTTACATA
* * * *
65938065 ATACACAAAAACAAAAATTTACAT-
1 ATACATAAATA-AATAAGTTACATA
* *
65938089 A-ACTTATAT-AATAA--TACATA
1 ATACATAAATAAATAAGTTACATA
*
65938109 CCGTACATAAATTAAATAAGTTACATA
1 --ATACATAAA-TAAATAAGTTACATA
65938136 ATACA
1 ATACA
65938141 CAAAAACAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 18
0.64 0.15 0.21
Matches are distributed among these distances:
19 5 0.09
21 4 0.07
23 9 0.17
24 3 0.06
25 27 0.50
27 6 0.11
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (24 bp):
ATACATAAATAAATAAGTTACATA
Found at i:65938100 original size:34 final size:33
Alignment explanation
Indices: 65938016--65938172 Score: 116
Period size: 34 Copynumber: 4.5 Consensus size: 33
65938006 AACCTACATA
* * *
65938016 ATAACTTACATAATAATACATAACATACATAAATTAA
1 ATAACTTACATAAT-ACACA-AA-A-ACAAAAATTAC
*
65938053 ATAAGTTACATAATACACAAAAACAAAAATTTAC
1 ATAACTTACATAATACACAAAAACAAAAA-TTAC
* * ** * *
65938087 ATAACTTATATAATAATACATACCGTACATAAATTAA
1 ATAACTTACATAAT-ACACA-A--AAACAAAAATTAC
*
65938124 ATAAGTTACATAATACACAAAAACAAAAACTTAC
1 ATAACTTACATAATACACAAAAACAAAAA-TTAC
*
65938158 ATAACTTATATAATA
1 ATAACTTACATAATA
65938173 TCCTACATCC
Statistics
Matches: 94, Mismatches: 20, Indels: 15
0.73 0.16 0.12
Matches are distributed among these distances:
33 12 0.13
34 32 0.34
35 7 0.07
36 9 0.10
37 28 0.30
38 6 0.06
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (33 bp):
ATAACTTACATAATACACAAAAACAAAAATTAC
Found at i:65938100 original size:71 final size:71
Alignment explanation
Indices: 65938016--65938172 Score: 278
Period size: 71 Copynumber: 2.2 Consensus size: 71
65938006 AACCTACATA
*
65938016 ATAACTTACATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
1 ATAACTTATATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
*
65938081 ATTTAC
66 ACTTAC
* *
65938087 ATAACTTATATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
1 ATAACTTATATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
65938152 ACTTAC
66 ACTTAC
65938158 ATAACTTATATAATA
1 ATAACTTATATAATA
65938173 TCCTACATCC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (71 bp):
ATAACTTATATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
ACTTAC
Found at i:65938189 original size:95 final size:95
Alignment explanation
Indices: 65938090--65938416 Score: 516
Period size: 95 Copynumber: 3.6 Consensus size: 95
65938080 AATTTACATA
*
65938090 ACTTATATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
1 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
*
65938155 TACATAACTTATATAATATCCTACATCCCT
66 TACATAACTTACATAATATCCTACATCCCT
*
65938185 ACTTACATAATAATACATATCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
1 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
65938250 TACATAACTTACATAATATCCTACATCCCT
66 TACATAACTTACATAATATCCTACATCCCT
*
65938280 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACT
1 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
65938345 TACATAACTTACAT-A-A---T--A-----
66 TACATAACTTACATAATATCCTACATCCCT
* *
65938363 ACTTACATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAA
1 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAA
65938417 TAAGGTTAAA
Statistics
Matches: 224, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
83 51 0.23
88 1 0.00
90 1 0.00
93 1 0.00
94 1 0.00
95 169 0.75
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.28
Consensus pattern (95 bp):
ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACT
TACATAACTTACATAATATCCTACATCCCT
Found at i:65938262 original size:34 final size:33
Alignment explanation
Indices: 65938219--65938362 Score: 86
Period size: 34 Copynumber: 4.5 Consensus size: 33
65938209 CATAAATTAA
*
65938219 ATAAGTTACATAATACACAAAAACAAAAACTTAC
1 ATAACTTACATAATAC-CAAAAACAAAAACTTAC
* * * ***
65938253 ATAACTTACATAATATCCTACATC-CCTACTTAC
1 ATAACTTACATAATA-CCAAAAACAAAAACTTAC
** * *
65938286 ATAA--TA-ATACATACC--GTACATAAA-TTAA
1 ATAACTTACATA-ATACCAAAAACAAAAACTTAC
* *
65938314 ATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 ATAACTTACATAAT-ACCAAAAACAAAAACTTAC
65938348 ATAACTTACATAATA
1 ATAACTTACATAATA
65938363 ACTTACATAA
Statistics
Matches: 80, Mismatches: 20, Indels: 21
0.66 0.17 0.17
Matches are distributed among these distances:
28 8 0.10
29 1 0.01
30 9 0.11
31 10 0.12
33 17 0.21
34 34 0.43
35 1 0.01
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (33 bp):
ATAACTTACATAATACCAAAAACAAAAACTTAC
Found at i:65938324 original size:37 final size:37
Alignment explanation
Indices: 65938282--65938411 Score: 109
Period size: 37 Copynumber: 3.3 Consensus size: 37
65938272 ACATCCCTAC
*
65938282 TTACATAATAATACATACCGTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
* * * *
65938319 TTACATAATAA-ACAAAAACAAAAACTTACATAACTTACATAATAAC
1 TTACATAATAATAC--ATAC-----CCTACATAAATT--A-AATAAG
*
65938365 TTACATAATAATGCATACCCTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
65938402 TTACATAATA
1 TTACATAATA
65938412 CACAATAAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
36 2 0.03
37 26 0.36
38 4 0.05
40 10 0.14
43 10 0.14
45 4 0.05
46 16 0.22
47 1 0.01
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.28
Consensus pattern (37 bp):
TTACATAATAATACATACCCTACATAAATTAAATAAG
Found at i:65938365 original size:12 final size:12
Alignment explanation
Indices: 65938348--65938375 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65938338 AAAAACTTAC
65938348 ATAACTTACATA
1 ATAACTTACATA
65938360 ATAACTTACATA
1 ATAACTTACATA
65938372 ATAA
1 ATAA
65938376 TGCATACCCT
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:65938453 original size:12 final size:12
Alignment explanation
Indices: 65938436--65938462 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
65938426 AAACATAGTG
65938436 TAACTTACATAA
1 TAACTTACATAA
65938448 TAACTTACATAA
1 TAACTTACATAA
65938460 TAA
1 TAA
65938463 TACATACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:65938469 original size:87 final size:83
Alignment explanation
Indices: 65938280--65938497 Score: 283
Period size: 83 Copynumber: 2.6 Consensus size: 83
65938270 CTACATCCCT
* *
65938280 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACT
1 ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACA
65938345 TACATAACTTACATAATA
66 TACATAACTTACATAATA
* * **
65938363 ACTTACATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAATAAGGTTAAAA
1 ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAA-AA--ACAAAA
**
65938428 ACATAGTGTAACTTACATAATA
63 ACATA-CATAACTTACATAATA
* * * *
65938450 ACTTACATAATAATACATACTCTACATAATAATACATAACTTACATAA
1 ACTTACATAATAATACATACCCTACATAA-ATTAAATAAGTTACATAA
65938498 GACATAACTT
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
83 51 0.44
84 2 0.02
86 8 0.07
87 41 0.35
88 15 0.13
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (83 bp):
ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACA
TACATAACTTACATAATA
Found at i:65938477 original size:19 final size:19
Alignment explanation
Indices: 65938447--65938513 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
65938437 AACTTACATA
65938447 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
65938466 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
65938485 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
65938501 ATAACTTACATAA
1 ATAACTTACATAA
65938514 GTTTCATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:65938494 original size:9 final size:9
Alignment explanation
Indices: 65938447--65938576 Score: 107
Period size: 9 Copynumber: 14.9 Consensus size: 9
65938437 AACTTACATA
65938447 ATAACTTAC
1 ATAACTTAC
65938456 ATAA-TAATAC
1 ATAACT--TAC
65938466 AT-ACTCTAC
1 ATAACT-TAC
65938475 ATAA-TAATAC
1 ATAACT--TAC
65938485 ATAACTTAC
1 ATAACTTAC
*
65938494 ATAA--GAC
1 ATAACTTAC
65938501 ATAACTTAC
1 ATAACTTAC
* *
65938510 ATAAGTTTC
1 ATAACTTAC
65938519 ATAA--TAC
1 ATAACTTAC
*
65938526 ACAACTTAC
1 ATAACTTAC
*
65938535 ACAACTTAC
1 ATAACTTAC
65938544 ATAACTTAC
1 ATAACTTAC
65938553 ATAACTTAC
1 ATAACTTAC
65938562 ATAA--TAC
1 ATAACTTAC
65938569 ATAACTTA
1 ATAACTTA
65938577 TTCCTAAATC
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
7 18 0.18
8 1 0.01
9 66 0.66
10 14 0.14
11 1 0.01
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:65938497 original size:16 final size:17
Alignment explanation
Indices: 65938447--65938576 Score: 117
Period size: 16 Copynumber: 7.5 Consensus size: 17
65938437 AACTTACATA
65938447 ATAACTTACATAATAATAC
1 ATAACTTACATAAT--TAC
65938466 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAAT--TAC
*
65938485 ATAACTTACATAA-GAC
1 ATAACTTACATAATTAC
*
65938501 ATAACTTACATAAGTTTC
1 ATAACTTACATAA-TTAC
*
65938519 ATAA--TACACAACTTAC
1 ATAACTTACATAA-TTAC
*
65938535 ACAACTTACATAACTTAC
1 ATAACTTACATAA-TTAC
65938553 ATAACTTACATAA-TAC
1 ATAACTTACATAATTAC
65938569 ATAACTTA
1 ATAACTTA
65938577 TTCCTAAATC
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
16 38 0.40
18 31 0.32
19 24 0.25
20 3 0.03
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAACTTACATAATTAC
Found at i:65938521 original size:25 final size:25
Alignment explanation
Indices: 65938482--65938572 Score: 105
Period size: 25 Copynumber: 3.6 Consensus size: 25
65938472 TACATAATAA
*
65938482 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAATACATAACT
* * *
65938507 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAATACATAACT
*
65938532 TACACAACTTACATAACTTACATAACT
1 TACATAACTTACATAA--TACATAACT
65938559 TACATAA--TACATAA
1 TACATAACTTACATAA
65938573 CTTATTCCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 41 0.75
27 14 0.25
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:65944260 original size:21 final size:21
Alignment explanation
Indices: 65944221--65944289 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
65944211 CAACAACTTA
** * *
65944221 AAGCAGATGCGGCAACGAGGG
1 AAGCAGATGCCACAGCGAGAG
*
65944242 AAGCAGATGCTACAGCGAGAG
1 AAGCAGATGCCACAGCGAGAG
* *
65944263 AAACAGAGGCCACAGCGAGAG
1 AAGCAGATGCCACAGCGAGAG
65944284 AAGCAG
1 AAGCAG
65944290 CGAGAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.36, T:0.04
Consensus pattern (21 bp):
AAGCAGATGCCACAGCGAGAG
Found at i:65944292 original size:12 final size:12
Alignment explanation
Indices: 65944275--65944300 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65944265 ACAGAGGCCA
65944275 CAGCGAGAGAAG
1 CAGCGAGAGAAG
65944287 CAGCGAGAGAAG
1 CAGCGAGAGAAG
65944299 CA
1 CA
65944301 ACGATAAAAG
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:0.42, C:0.19, G:0.38, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:65945032 original size:42 final size:42
Alignment explanation
Indices: 65944739--65945051 Score: 366
Period size: 42 Copynumber: 7.4 Consensus size: 42
65944729 CGTTTGTGAA
* **
65944739 ATAAGCGCCGCTAAATAACACT-A-CTATTAGCGGCGTTTTTGA
1 ATAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTC
* * * *
65944781 ACAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTCCC
1 ATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-T-TC
*
65944825 A-AAGCGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* * *
65944865 CTAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCTTTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTC
* *
65944908 CTAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* *
65944950 CTAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
*
65944992 ATAAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC
*
65945035 TATAAGCGCCGCAAAAG
1 -ATAAGCGCCGCTAAAG
65945052 TTAGCGACGT
Statistics
Matches: 243, Mismatches: 18, Indels: 18
0.87 0.06 0.06
Matches are distributed among these distances:
40 1 0.00
41 32 0.13
42 116 0.48
43 77 0.32
44 17 0.07
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (42 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:65946665 original size:49 final size:49
Alignment explanation
Indices: 65946593--65946696 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
65946583 AGAAAAAAAC
* * *
65946593 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
65946642 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
*
65946691 ATATTA
1 AAATTA
65946697 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:65948704 original size:27 final size:28
Alignment explanation
Indices: 65948665--65948735 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
65948655 TCAATAATAA
*
65948665 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
65948694 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
65948724 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
65948736 CAAATTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:65956612 original size:87 final size:87
Alignment explanation
Indices: 65956464--65956638 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
65956454 AGCGCTATCG
65956464 TGCGTTGAGAAAAATTCCTAACCATCAATGCAAATGCTCATTTTTTTTAGTCTACCATCTTCAGT
1 TGCGTTGAGAAAAATTCCTAACCATCAATGCAAATGCTCATTTTTTTTAGTCTACCATCTTCAGT
*
65956529 TCGATTGGAATGGGTGAGAAGA
66 TCGATTGGAATGGGTAAGAAGA
* *
65956551 TGCGTTGAGCAAAATTCCTAACCATCAATGCAAATGCTCATTTTTTTTAGTCTACCTTCTTCAGT
1 TGCGTTGAGAAAAATTCCTAACCATCAATGCAAATGCTCATTTTTTTTAGTCTACCATCTTCAGT
65956616 TCGATTGGAATGGGTAAGAAGA
66 TCGATTGGAATGGGTAAGAAGA
65956638 T
1 T
65956639 TTCTTTTTGA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
TGCGTTGAGAAAAATTCCTAACCATCAATGCAAATGCTCATTTTTTTTAGTCTACCATCTTCAGT
TCGATTGGAATGGGTAAGAAGA
Found at i:65958331 original size:44 final size:46
Alignment explanation
Indices: 65958278--65958370 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 46
65958268 TACAACATCT
*
65958278 ATTCCATTCAACCAAA-TACAAAAATACT-ATTACAACTCTATTCC
1 ATTCCATTCAACCAAACAACAAAAATACTAATTACAACTCTATTCC
* ** * *
65958322 ATTCCATTCAACGAAACAACTGAATTACTAATTATAACTCTATTCC
1 ATTCCATTCAACCAAACAACAAAAATACTAATTACAACTCTATTCC
65958368 ATT
1 ATT
65958371 ACAGCTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 15 0.37
45 8 0.20
46 18 0.44
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAACAAAAATACTAATTACAACTCTATTCC
Found at i:65958381 original size:16 final size:16
Alignment explanation
Indices: 65958352--65958402 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
65958342 TGAATTACTA
*
65958352 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
* * *
65958368 ATTACAGCTTTATTAC
1 ATTACAACTCTATTCC
*
65958384 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
65958400 ATT
1 ATT
65958403 CTCCCTAACC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:65958674 original size:26 final size:25
Alignment explanation
Indices: 65958627--65958677 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
65958617 TTAGATGGAT
65958627 GATTATTGTTATTAAAATTTTAATAG
1 GATTATTGTTA-TAAAATTTTAATAG
65958653 GATTATTGTTA-AAAATAATTTAATA
1 GATTATTGTTATAAAAT--TTTAATA
65958678 AAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.22
26 18 0.78
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (25 bp):
GATTATTGTTATAAAATTTTAATAG
Found at i:65958681 original size:14 final size:14
Alignment explanation
Indices: 65958662--65958690 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65958652 GGATTATTGT
65958662 TAAAAATAATTTAA
1 TAAAAATAATTTAA
65958676 TAAAAATAATTTAA
1 TAAAAATAATTTAA
65958690 T
1 T
65958691 CATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:65959063 original size:24 final size:25
Alignment explanation
Indices: 65959034--65959092 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
65959024 GGCCCGGCCC
*
65959034 ATTTTTAAAATAAATATTAAAAA-TT
1 ATTTTTAAAATAAA-AATAAAAATTT
65959059 A-TTTTAAAATAAAAATAAAAATTT
1 ATTTTTAAAATAAAAATAAAAATTT
65959083 ATTTTTAAAA
1 ATTTTTAAAA
65959093 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.23
24 15 0.48
25 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTTAAAATAAAAATAAAAATTT
Found at i:65980038 original size:17 final size:18
Alignment explanation
Indices: 65979971--65980040 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 18
65979961 AAAAATTAAA
65979971 AAAAATATTCTTTAAAAAAT
1 AAAAATA-T-TTTAAAAAAT
*
65979991 AAAAAAATTTATGAAAAAAT
1 AAAAATATTT-T-AAAAAAT
* *
65980011 AAAACT-CTTT-AAAAAT
1 AAAAATATTTTAAAAAAT
65980027 AAAAATATTTTAAA
1 AAAAATATTTTAAA
65980041 TATATAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 11 0.28
17 3 0.08
18 5 0.12
19 4 0.10
20 17 0.43
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATATTTTAAAAAAT
Found at i:65980501 original size:14 final size:16
Alignment explanation
Indices: 65980473--65980526 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
65980463 ATTTAAACAA
* *
65980473 AAAAACATAAAAATTT
1 AAAAATATATAAATTT
*
65980489 AAAAAT-TATAATTTT
1 AAAAATATATAAATTT
* *
65980504 TAAAATATATAAAATT
1 AAAAATATATAAATTT
65980520 AAAAATA
1 AAAAATA
65980527 AAAATTCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATATATAAATTT
Found at i:65980523 original size:31 final size:31
Alignment explanation
Indices: 65980474--65980555 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
65980464 TTTAAACAAA
* * *
65980474 AAAACATAAAAATTTAAAAATTATAATT-TTT
1 AAAATATAAAAA-TTAAAAATAAAAATTCTTT
65980505 AAAATATATAAAATTAAAAATAAAAATTCTTT
1 AAAATATA-AAAATTAAAAATAAAAATTCTTT
65980537 AAAAT-TCAAAAATTAAAAA
1 AAAATAT-AAAAATTAAAAA
65980556 AATGATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 32 0.71
32 13 0.29
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAATATAAAAATTAAAAATAAAAATTCTTT
Found at i:65980569 original size:31 final size:32
Alignment explanation
Indices: 65980474--65980590 Score: 82
Period size: 31 Copynumber: 3.6 Consensus size: 32
65980464 TTTAAACAAA
* * *
65980474 AAAACATA-AAAATTTAAAAATTATAA-TTTTT
1 AAAATATATAAAA-TTAAAAATAAAAATTTTTT
*
65980505 AAAATATATAAAATTAAAAATAAAAATTCTTT
1 AAAATATATAAAATTAAAAATAAAAATTTTTT
* *
65980537 AAAAT-TCA-AAAATTAAAAA-AATGATTTTTTT
1 AAAATAT-ATAAAATTAAAAATAA-AAATTTTTT
*
65980568 AAAAATATTTTAAAATATAAAAA
1 -AAAATA-TATAAAAT-TAAAAA
65980591 ATTCCAAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
30 2 0.03
31 36 0.52
32 19 0.28
34 6 0.09
35 6 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (32 bp):
AAAATATATAAAATTAAAAATAAAAATTTTTT
Found at i:65983108 original size:23 final size:23
Alignment explanation
Indices: 65983078--65983124 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
65983068 ATAGTGATGA
*
65983078 TACATAGAAATAGTAAACTATTT
1 TACATAGAAACAGTAAACTATTT
65983101 TACATAGAAACAGTAAACTATTT
1 TACATAGAAACAGTAAACTATTT
65983124 T
1 T
65983125 TTAAAGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.34
Consensus pattern (23 bp):
TACATAGAAACAGTAAACTATTT
Found at i:65985280 original size:84 final size:84
Alignment explanation
Indices: 65985184--65985352 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
65985174 ATGAGTCCCT
65985184 CTACCTTTGTAGCTTTTGGCTCTAGAATGGGTGAGTCGACCCTCCTTGCACCACTATCCTCACCT
1 CTACCTTTGTAGCTTTTGGCTCTAGAATGGGTGAGTCGACCCTCCTTGCACCACTATCCTCACCT
65985249 CTCTCATTGATACCATGTA
66 CTCTCATTGATACCATGTA
65985268 CTACCTTTGTAGCTTTTGGCTCTAGAATGGGTGAGTCGACCCTCCTTGCACCACTATCCTCACCT
1 CTACCTTTGTAGCTTTTGGCTCTAGAATGGGTGAGTCGACCCTCCTTGCACCACTATCCTCACCT
65985333 CTCTCATTGATACCATGTA
66 CTCTCATTGATACCATGTA
65985352 C
1 C
65985353 CAACAAGAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (84 bp):
CTACCTTTGTAGCTTTTGGCTCTAGAATGGGTGAGTCGACCCTCCTTGCACCACTATCCTCACCT
CTCTCATTGATACCATGTA
Found at i:65992919 original size:16 final size:16
Alignment explanation
Indices: 65992898--65992931 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
65992888 ATACAAGCAT
65992898 TTTCATTATGTTTTAG
1 TTTCATTATGTTTTAG
65992914 TTTCATTATGTTTTAG
1 TTTCATTATGTTTTAG
65992930 TT
1 TT
65992932 AAGTTTTCTT
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:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTCATTATGTTTTAG
Found at i:65995323 original size:23 final size:23
Alignment explanation
Indices: 65995297--65995342 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65995287 ACAAACAACA
65995297 AATAATCTACTATTACTCCTACT
1 AATAATCTACTATTACTCCTACT
65995320 AATAATCTACTATTACTCCTACT
1 AATAATCTACTATTACTCCTACT
65995343 TCTAACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAATCTACTATTACTCCTACT
Found at i:65999783 original size:18 final size:17
Alignment explanation
Indices: 65999736--65999783 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
65999726 ACAAAAGAAG
*
65999736 ATTTAGAGGTTCTAAAA
1 ATTTAGAGGTTTTAAAA
65999753 AGTTTAGA-GTTTTAAAA
1 A-TTTAGAGGTTTTAAAA
65999770 ATTTAGAGGATTTT
1 ATTTAGAGG-TTTT
65999784 GAGACAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 11 0.41
18 10 0.37
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (17 bp):
ATTTAGAGGTTTTAAAA
Found at i:66012035 original size:22 final size:22
Alignment explanation
Indices: 66012009--66012063 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
66011999 TACAGAGGTG
66012009 ATGTCGAGACACACCAGGTCCT
1 ATGTCGAGACACACCAGGTCCT
* *
66012031 GTGTCGTGACACACCAGGTCCT
1 ATGTCGAGACACACCAGGTCCT
*
66012053 ATGTCGCGACA
1 ATGTCGAGACA
66012064 TCGATGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (22 bp):
ATGTCGAGACACACCAGGTCCT
Found at i:66013283 original size:39 final size:39
Alignment explanation
Indices: 66013240--66013316 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
66013230 TCCATGTTAC
*
66013240 ATTGTCTTGTCACA-CTATTGATTTGATGATTGCTTCCAT
1 ATTGTCTTGTCACATC-ATTGATTTGATGATTACTTCCAT
* *
66013279 ATTGTCTTGTTACATCATTGATTTGATGGTTACTTCCA
1 ATTGTCTTGTCACATCATTGATTTGATGATTACTTCCA
66013317 AGTTGCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.97
40 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.47
Consensus pattern (39 bp):
ATTGTCTTGTCACATCATTGATTTGATGATTACTTCCAT
Found at i:66019588 original size:29 final size:29
Alignment explanation
Indices: 66019541--66019631 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
66019531 AAAATTATTT
* *
66019541 AAAAA-ATTTAAAA-TGAATAAAAGTTATA
1 AAAAATATTTAAAATTTAATAAAA-ATATA
* *
66019569 AAAATTA-TTAAACTTTAATAAAAATATA
1 AAAAATATTTAAAATTTAATAAAAATATA
* *
66019597 AAAAATATTTAAAATTTAGTAAAAAGTAGA
1 AAAAATATTTAAAATTTAATAAAAA-TATA
66019627 AAAAA
1 AAAAA
66019632 ATATAAATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 19 0.37
29 24 0.47
30 8 0.16
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAATATTTAAAATTTAATAAAAATATA
Found at i:66020050 original size:8 final size:8
Alignment explanation
Indices: 66020022--66020061 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
66020012 TTTTATAGTT
66020022 TATTTTTC
1 TATTTTTC
66020030 TATTGTTTC
1 TATT-TTTC
66020039 -ATTTTTC
1 TATTTTTC
66020046 TATTTTTCC
1 TATTTTT-C
66020055 TATTTTT
1 TATTTTT
66020062 TTCTAGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.14
8 13 0.45
9 12 0.41
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (8 bp):
TATTTTTC
Found at i:66020060 original size:16 final size:16
Alignment explanation
Indices: 66020008--66020053 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
66019998 AGTAAAATTA
*
66020008 CATTTTT-TATAGTTT
1 CATTTTTCTATTGTTT
66020023 -ATTTTTCTATTGTTT
1 CATTTTTCTATTGTTT
66020038 CATTTTTCTATT-TTT
1 CATTTTTCTATTGTTT
66020053 C
1 C
66020054 CTATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
15 11 0.39
16 11 0.39
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (16 bp):
CATTTTTCTATTGTTT
Found at i:66022100 original size:17 final size:16
Alignment explanation
Indices: 66022078--66022129 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
66022068 ATAAGTTTAC
* *
66022078 AAAAATAATTATTTGAA
1 AAAAATTATT-TTTAAA
66022095 AAAAATTATTTTTAAA
1 AAAAATTATTTTTAAA
66022111 AAAAATTATTTTTTAAA
1 AAAAATTA-TTTTTAAA
66022128 AA
1 AA
66022130 GTAAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAAATTATTTTTAAA
Found at i:66022112 original size:16 final size:16
Alignment explanation
Indices: 66022078--66022129 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
66022068 ATAAGTTTAC
* *
66022078 AAAAATAATTATTTGAA
1 AAAAATTATT-TTTAAA
66022095 AAAAATTATTTTTAAA
1 AAAAATTATTTTTAAA
*
66022111 AAAAATTATTTTTTAA
1 AAAAATTATTTTTAAA
66022127 AAA
1 AAA
66022130 GTAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 23 0.72
17 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAAATTATTTTTAAA
Found at i:66026918 original size:13 final size:13
Alignment explanation
Indices: 66026900--66026924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66026890 AAAAAATCAT
66026900 AAAAATTATAAAC
1 AAAAATTATAAAC
66026913 AAAAATTATAAA
1 AAAAATTATAAA
66026925 AAATTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTATAAAC
Found at i:66026945 original size:18 final size:17
Alignment explanation
Indices: 66026922--66026972 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
66026912 CAAAAATTAT
*
66026922 AAAAAATTTTATTTTTTA
1 AAAAAATTATA-TTTTTA
66026940 AAAAAATTATATTTTT-
1 AAAAAATTATATTTTTA
*
66026956 AAAATATTATAATTTTT
1 AAAAAATTAT-ATTTTT
66026973 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 9 0.30
17 11 0.37
18 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAAAATTATATTTTTA
Found at i:66026964 original size:16 final size:17
Alignment explanation
Indices: 66026923--66026972 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
66026913 AAAAATTATA
*
66026923 AAAAATTTTAT-TTTTT
1 AAAAATATTATATTTTT
*
66026939 AAAAAAATTATATTTTT
1 AAAAATATTATATTTTT
66026956 -AAAATATTATAATTTTT
1 AAAAATATTAT-ATTTTT
66026973 TATTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 18 0.62
17 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAAAATATTATATTTTT
Found at i:66032732 original size:26 final size:25
Alignment explanation
Indices: 66032690--66032748 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
66032680 TTACCCCCAA
*
66032690 TAAAATTTGACAATTTTACCCTTGG
1 TAAAATTTGACAATTTTACCATTGG
* * *
66032715 TAAAATCTTGACGATTTTTCTATTGG
1 TAAAAT-TTGACAATTTTACCATTGG
66032741 TAAAATTT
1 TAAAATTT
66032749 CAAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (25 bp):
TAAAATTTGACAATTTTACCATTGG
Found at i:66037727 original size:26 final size:27
Alignment explanation
Indices: 66037698--66037759 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
66037688 TATGCCCAAC
*
66037698 AAAATTTTGAA-AATTTTACCCTTGAT
1 AAAATTTTGAACAATTTTACCCCTGAT
* * *
66037724 AAAATTTT-AACGATTTTGCCCCTGGT
1 AAAATTTTGAACAATTTTACCCCTGAT
66037750 AAAATTTTGA
1 AAAATTTTGA
66037760 GAAAATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 27 0.90
27 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAATTTTGAACAATTTTACCCCTGAT
Found at i:66038880 original size:31 final size:30
Alignment explanation
Indices: 66038845--66038909 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
66038835 TTATTTAATA
66038845 CATTAAAGAAATTGAGTTTACGATAATTATT
1 CATTAAA-AAATTGAGTTTACGATAATTATT
* *
66038876 CATT--AATATTGAGTTTATGATAATTATT
1 CATTAAAAAATTGAGTTTACGATAATTATT
66038904 CATTAA
1 CATTAA
66038910 TATTAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 25 0.83
29 1 0.03
31 4 0.13
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (30 bp):
CATTAAAAAATTGAGTTTACGATAATTATT
Found at i:66038886 original size:28 final size:28
Alignment explanation
Indices: 66038855--66038913 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
66038845 CATTAAAGAA
66038855 ATTGAGTTTACGATAATTATTCATTAAT
1 ATTGAGTTTACGATAATTATTCATTAAT
*
66038883 ATTGAGTTTATGATAATTATTCATTAAT
1 ATTGAGTTTACGATAATTATTCATTAAT
66038911 ATT
1 ATT
66038914 AAATGTCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (28 bp):
ATTGAGTTTACGATAATTATTCATTAAT
Found at i:66039747 original size:27 final size:27
Alignment explanation
Indices: 66039695--66039770 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 27
66039685 TAGGGTCTAG
*
66039695 GGGTTCTAAAAAAATAATATTGACGAGTT
1 GGGTTCTAAAAAAA-AAT-TTGACGAGAT
66039724 GGGTTCTGAAAAAAAAATTT-ACGAGAT
1 GGGTTCT-AAAAAAAAATTTGACGAGAT
*
66039751 GGGTTCTAAAGAAATAATTT
1 GGGTTCTAAA-AAAAAATTT
66039771 TGAAGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 3 0.07
27 21 0.49
28 2 0.05
29 10 0.23
30 7 0.16
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTTCTAAAAAAAAATTTGACGAGAT
Found at i:66046218 original size:25 final size:24
Alignment explanation
Indices: 66046181--66046251 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
66046171 AAGAGCTTTT
*
66046181 CGTTATACAGCTCACATGAGCTTCC
1 CGTTATA-TGCTCACATGAGCTTCC
*
66046206 CGTTATATGGCTCGA-AAGAGCTTCC
1 CGTTATAT-GCTC-ACATGAGCTTCC
66046231 CGTTTATATGCTCACATGAGC
1 CG-TTATATGCTCACATGAGC
66046252 ATTTTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 1 0.03
25 31 0.79
26 7 0.18
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (24 bp):
CGTTATATGCTCACATGAGCTTCC
Found at i:66051143 original size:18 final size:19
Alignment explanation
Indices: 66051120--66051156 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
66051110 AAACGAATTA
*
66051120 TATTTTT-TCTCTTATTTT
1 TATTTTTATCTATTATTTT
66051138 TATTTTTATCTATTATTTT
1 TATTTTTATCTATTATTTT
66051157 GTTTTTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTATCTATTATTTT
Found at i:66051973 original size:27 final size:25
Alignment explanation
Indices: 66051943--66052028 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 25
66051933 TGTTATTATT
66051943 ATTATTATTAATTAGTTTAATATTTTC
1 ATTATTATT-ATTA-TTTAATATTTTC
* *
66051970 ATTATTATTATTA-TTATTATTATC
1 ATTATTATTATTATTTAATATTTTC
* *
66051994 ATTATTATTATTATTACTACTACTTTC
1 ATTATTATTATTATT--TAATATTTTC
66052021 ATTATTAT
1 ATTATTAT
66052029 CGATATTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 22 0.43
25 1 0.02
26 4 0.08
27 24 0.47
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (25 bp):
ATTATTATTATTATTTAATATTTTC
Found at i:66052028 original size:3 final size:3
Alignment explanation
Indices: 66051935--66052009 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
66051925 CCTTTTTGTG
* *
66051935 TTA TTA TTA TTA TTA TTAA TTA GT- TTA ATA TT- TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
66051980 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66052010 CTACTACTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
2 3 0.05
3 54 0.87
4 5 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:66052085 original size:2 final size:2
Alignment explanation
Indices: 66052078--66052106 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66052068 ATTTACCTAT
66052078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66052107 TATTTTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66056689 original size:25 final size:25
Alignment explanation
Indices: 66056667--66056723 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
66056657 ATTGGCTCGT
66056667 AAGAGCTTCCCGTTATACAGCTCAC
1 AAGAGCTTCCCGTTATACAGCTCAC
* * ** *
66056692 ATGAGTTTCCCGTTATATGGCTCAA
1 AAGAGCTTCCCGTTATACAGCTCAC
66056717 AAGAGCT
1 AAGAGCT
66056724 ACTCGTTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (25 bp):
AAGAGCTTCCCGTTATACAGCTCAC
Found at i:66060949 original size:76 final size:76
Alignment explanation
Indices: 66060850--66061087 Score: 226
Period size: 76 Copynumber: 3.1 Consensus size: 76
66060840 AGGACGTATA
*
66060850 CACACATTTAATATTGTCAGTTTATCCGACTAGCGCTGGACACAAATCTCTATTGGTTAA-TCTG
1 CACACATTTAATATTGTCAGTTTATCCGACTAGCGCTGGACACAAATCTCTATTAGTTAATTC-G
**
66060914 ACTAGTGTTGGG
65 ACTAGTACTGGG
* * ** * * * * * * *
66060926 CACATATTTAATATCGTTGGTTTATCCGATTAGTGTTGGGCATAAATCTTTATTAGTTAATTCGG
1 CACACATTTAATATTGTCAGTTTATCCGACTAGCGCTGGACACAAATCTCTATTAGTTAATTCGA
66060991 CTAGTACTGGG
66 CTAGTACTGGG
* * * * * * * ** *
66061002 CGCACATTTAATATTGTCAGTTTATCCGACTAGTGTTGGGCGCAAATCTTTGTCGGTTAATTCAA
1 CACACATTTAATATTGTCAGTTTATCCGACTAGCGCTGGACACAAATCTCTATTAGTTAATTCGA
*
66061067 CTAGTGCTGGG
66 CTAGTACTGGG
*
66061078 TACACATTTA
1 CACACATTTA
66061088 GTATCGTCGA
Statistics
Matches: 131, Mismatches: 30, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
76 129 0.98
77 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (76 bp):
CACACATTTAATATTGTCAGTTTATCCGACTAGCGCTGGACACAAATCTCTATTAGTTAATTCGA
CTAGTACTGGG
Found at i:66062630 original size:17 final size:17
Alignment explanation
Indices: 66062608--66062642 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66062598 AGTAAAAAAT
* *
66062608 GATAAAAGTATAATTTA
1 GATAAAAATAGAATTTA
66062625 GATAAAAATAGAATTTA
1 GATAAAAATAGAATTTA
66062642 G
1 G
66062643 GAAAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (17 bp):
GATAAAAATAGAATTTA
Found at i:66062731 original size:13 final size:13
Alignment explanation
Indices: 66062715--66062741 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66062705 AGCAGAGAAT
66062715 TGTGAGAAATGTG
1 TGTGAGAAATGTG
66062728 TGTGAGAAATGTG
1 TGTGAGAAATGTG
66062741 T
1 T
66062742 TGGGGGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (13 bp):
TGTGAGAAATGTG
Found at i:66064815 original size:9 final size:9
Alignment explanation
Indices: 66064788--66064855 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
66064778 CTTTTAAAAT
*
66064788 AATTTTAAT
1 AATTTTAAA
*
66064797 GATTTT-AA
1 AATTTTAAA
66064805 AATTTTAAA
1 AATTTTAAA
66064814 AATAAATTT-AA
1 AAT---TTTAAA
**
66064825 AATTCTTTGA
1 AATT-TTAAA
66064835 AATTTTAAA
1 AATTTTAAA
66064844 AATTTTAAA
1 AATTTTAAA
66064853 AAT
1 AAT
66064856 AATTAAATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
8 7 0.15
9 27 0.57
10 5 0.11
11 5 0.11
12 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (9 bp):
AATTTTAAA
Found at i:66074417 original size:31 final size:31
Alignment explanation
Indices: 66074382--66074441 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
66074372 GTTTTTTGAA
*
66074382 CTATTCAAAAGTTTTTATTTAAGTCACTGAG
1 CTATTCAAAAGTTTTTATTTAAATCACTGAG
*
66074413 CTATTCAAATGTTTTTATTTAAATCACTG
1 CTATTCAAAAGTTTTTATTTAAATCACTG
66074442 GGTTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (31 bp):
CTATTCAAAAGTTTTTATTTAAATCACTGAG
Found at i:66074672 original size:6 final size:6
Alignment explanation
Indices: 66074657--66074688 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
66074647 ATTGAATTGT
66074657 AGAA-G AGAATG AGAATG AGAATG AGAATG AGA
1 AGAATG AGAATG AGAATG AGAATG AGAATG AGA
66074689 GCTTTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.53, C:0.00, G:0.34, T:0.12
Consensus pattern (6 bp):
AGAATG
Found at i:66075046 original size:21 final size:21
Alignment explanation
Indices: 66075022--66075064 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66075012 TTTTTTCAAA
*
66075022 TCGAATCGAGTGAAATGAAAT
1 TCGAATCGAGTCAAATGAAAT
* * *
66075043 TCGAGTTGAGTCAAGTGAAAT
1 TCGAATCGAGTCAAATGAAAT
66075064 T
1 T
66075065 GTTCAAGTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGAATCGAGTCAAATGAAAT
Found at i:66075175 original size:3 final size:3
Alignment explanation
Indices: 66075169--66075202 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
66075159 TTCAAAGAAA
66075169 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
66075203 TATTAGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66075310 original size:19 final size:20
Alignment explanation
Indices: 66075286--66075332 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
66075276 ATATTCTTTA
*
66075286 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
66075305 GAATTTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
*
66075325 AAATTTTT
1 GAATTTTT
66075333 TATTGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:66077982 original size:18 final size:18
Alignment explanation
Indices: 66077927--66077984 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 18
66077917 AGTTTTTTAA
66077927 TGTTTTTTGCTTAGAAAAT
1 TGTTTTTT-CTTAGAAAAT
*
66077946 TGTTTGTTTATTCAAAGAAAAT
1 TGTTT-TTTCTT---AGAAAAT
66077968 TGTTTTTTCTTAGAAAA
1 TGTTTTTTCTTAGAAAA
66077985 GATGTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 6 0.18
19 7 0.21
20 3 0.09
21 5 0.15
22 12 0.36
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (18 bp):
TGTTTTTTCTTAGAAAAT
Found at i:66078487 original size:33 final size:33
Alignment explanation
Indices: 66078423--66078488 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
66078413 TGACTATTGA
* * * * **
66078423 GGAGGGTGATGTTGAAGGGGTGGAAGTTGATGG
1 GGAGAGTGATGATGAAGGAGTAGAAACTGATGG
66078456 GGAGAGTGATGATGAAGGAGTAGAAACTGATGG
1 GGAGAGTGATGATGAAGGAGTAGAAACTGATGG
66078489 TGATGGTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (33 bp):
GGAGAGTGATGATGAAGGAGTAGAAACTGATGG
Found at i:66081584 original size:16 final size:16
Alignment explanation
Indices: 66081563--66081601 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
66081553 GTTTTTGGCT
66081563 TGTATAGCATGAATAG
1 TGTATAGCATGAATAG
** *
66081579 TGTATAGGGTGAATGG
1 TGTATAGCATGAATAG
66081595 TGTATAG
1 TGTATAG
66081602 ACTAATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTATAGCATGAATAG
Found at i:66081992 original size:212 final size:210
Alignment explanation
Indices: 66081625--66082048 Score: 679
Period size: 212 Copynumber: 2.0 Consensus size: 210
66081615 TTTTGTAAAG
* * *
66081625 TACATTTATCCAAATTGCAAAGGGGAAATCATATGCTTAAATGATCAAATTTGTCTTCTTAGTCT
1 TACATTTATCCAAATCGCAAAGGGGAAATCATATGCTTAAATGATCAAAGTCGTCTTCTTAGTCT
* *
66081690 TATGTTTATTGTTACTGCATTATTTATTAAGCTAAATTAAATTAGGCATAAACAACAAATATTAG
66 TATGTTTATTGTTACTACATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTAG
* * *
66081755 CCATTACTTCCAATCATTATGTTAAATTACATAAAAAAAACAACCAATATTGGTTAATCAACATT
131 CCATTACTTCCAAGCATAATGTTAAATTACAT--AAAAAACAACCAATATTGGTCAATCAACATT
*
66081820 TGCAACTGCTAGCTGCA
194 TGCAACTGCTAACTGCA
* * *
66081837 TACATTTATCCAAATCGCAATGGGGAAATCATATGCTTAAATTATCAAGGTCGTCCTT-TTAGTC
1 TACATTTATCCAAATCGCAAAGGGGAAATCATATGCTTAAATGATCAAAGTCGT-CTTCTTAGTC
*
66081901 TTATGTTTATTGTTACTACATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTG
65 TTATGTTTATTGTTACTACATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTA
* *
66081966 GTCATTACTTCCAAGCATAATGTTAAATTACATAAAAAACAACCAATATTTGTCAATCAACATTT
130 GCCATTACTTCCAAGCATAATGTTAAATTACATAAAAAACAACCAATATTGGTCAATCAACATTT
66082031 GCAACTGCTAACTGCA
195 GCAACTGCTAACTGCA
66082047 TA
1 TA
66082049 TGCCTCTTAC
Statistics
Matches: 196, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
210 47 0.24
212 146 0.74
213 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (210 bp):
TACATTTATCCAAATCGCAAAGGGGAAATCATATGCTTAAATGATCAAAGTCGTCTTCTTAGTCT
TATGTTTATTGTTACTACATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTAG
CCATTACTTCCAAGCATAATGTTAAATTACATAAAAAACAACCAATATTGGTCAATCAACATTTG
CAACTGCTAACTGCA
Found at i:66083652 original size:16 final size:16
Alignment explanation
Indices: 66083631--66083665 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66083621 TGTTCTTTTA
66083631 TTGTTTTCATTTGATT
1 TTGTTTTCATTTGATT
* *
66083647 TTGTTTTCCTTTGTTT
1 TTGTTTTCATTTGATT
66083663 TTG
1 TTG
66083666 AAAAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.14, T:0.71
Consensus pattern (16 bp):
TTGTTTTCATTTGATT
Found at i:66089096 original size:5 final size:5
Alignment explanation
Indices: 66089088--66089116 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
66089078 AAAAAGGGGA
66089088 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
66089117 AAGAACCCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:66089626 original size:17 final size:17
Alignment explanation
Indices: 66089604--66089637 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66089594 AGATGATGAG
66089604 AAATGAAAAAGTGAAAA
1 AAATGAAAAAGTGAAAA
*
66089621 AAATGAAAAATTGAAAA
1 AAATGAAAAAGTGAAAA
66089638 GTAAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
AAATGAAAAAGTGAAAA
Found at i:66091210 original size:132 final size:132
Alignment explanation
Indices: 66091060--66091893 Score: 1116
Period size: 132 Copynumber: 6.3 Consensus size: 132
66091050 AGAGAAGCAA
* *
66091060 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * *
66091125 CTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGAAGCAGCGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
66091190 AG
131 AG
* *
66091192 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
*
66091257 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGCAGCAGCGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
66091322 AG
131 AG
* * * * * *
66091324 ATTGAAGATTTTAGATCTTACCTTCCT--GCA-TAGACAGCGAAGCAGATCGAAGATGGCGGATT
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGCAGATT
66091386 TTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGC
62 TTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGC
66091450 GGAATAG
126 GGAATAG
* * * *
66091457 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGACAGATTTTCC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* *
66091522 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAGTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
66091587 AG
131 AG
* * * * * *
66091589 ATTGAAGATTTTAGATCTTACCTTCCT--GCA-TAGACAGCGAAGCAGATCGAAGATGGCGGATT
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGCAGATT
* ***
66091651 TTACCT-CCTCGTAGTTACAGTGGAGTACATTGAAGCC-GTAATTCTA-TCTCCCTGGTTGGCAG
62 TTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAG
*
66091713 TGGAATAG
125 CGGAATAG
* *
66091721 ATTGAAGATTTCAGATCTTATCTCCCTAAGCGGTAGTGGAGCAGATCGAAGATGGCTA-ATTTTA
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC-AGATTTTA
* * *** *
66091785 CCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCCCCCTGGTTGGCAGTGGA
65 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGCGGA
66091849 ATAG
129 ATAG
66091853 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66091894 TAGACTGATG
Statistics
Matches: 633, Mismatches: 48, Indels: 42
0.88 0.07 0.06
Matches are distributed among these distances:
129 6 0.01
130 6 0.01
131 54 0.09
132 391 0.62
133 164 0.26
134 3 0.00
135 6 0.01
136 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (132 bp):
ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
AG
Found at i:66091411 original size:265 final size:265
Alignment explanation
Indices: 66091100--66091872 Score: 1250
Period size: 265 Copynumber: 2.9 Consensus size: 265
66091090 CAGTAGTGGG
* *
66091100 GCAGATCAAAGATGGCAGATTTTACCTCCAT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 GCAGATCGAAGATGGCGGATTTTACCTCC-TCGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
66091164 TTTACTTCCCTGGGAAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
65 TCTACTTCCCTGGGAAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
*
66091229 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
130 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
66091294 ATTTTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGAC
195 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGAC
66091359 AGCGAA
260 AGCGAA
66091365 GCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
*
66091430 CTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTG
66 CTACTTCCCTGGGAAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTG
* * *
66091495 GAGCAGATCAAAAATGACAGATTTTCCCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
131 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
*
66091560 GTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGACA
196 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGACA
66091625 GCGAA
261 GCGAA
*
66091630 GCAGATCGAAGATGGCGGATTTTACCTCCTCGTAGTTACAGTGGAGTACATTGAAGCC-GTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
*** * * *
66091694 CTA-TCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCGGTAGT
66 CTACT-TCCCTGGGAAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
* *
66091758 GGAGCAGATCGAAGATGGCTA-ATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGT
130 GGAGCAGATCAAAGATGGC-AGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* *** *
66091822 AATTCTA-TCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTA
194 AATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTA
66091873 TCTCCCTAAG
Statistics
Matches: 475, Mismatches: 29, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
263 2 0.00
264 163 0.34
265 310 0.65
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (265 bp):
GCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
CTACTTCCCTGGGAAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTG
GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGACA
GCGAA
Found at i:66091705 original size:397 final size:395
Alignment explanation
Indices: 66091060--66091893 Score: 1169
Period size: 397 Copynumber: 2.1 Consensus size: 395
66091050 AGAGAAGCAA
* * *
66091060 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGACAGATTTTAC
* *
66091125 CTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGAAGCAGCGGAAT
66 CTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAAGTCTACTTCCCTGGGAAGCAGCGGAAT
** *
66091190 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTT
131 AGATTGAAGATTTCAGATCTTACCTCCCT-AGCAGTAGAGGAGCAGATCAAAGATGGCGGATTTT
* *
66091255 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGCAGCAGCGGA
195 ACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGA
* * * * *
66091320 ATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCGGAT
260 ATAGATTGAAGATTTCAGATCTTACCTCCCT-AAGAGACAGCGAAGCAGATCGAAGATGGCGAAT
* *
66091385 TTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGCA
324 TTTACCTCCCT-GGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-CCCCTGGGCAGCA
66091448 GCGGAATAG
387 GCGGAATAG
*
66091457 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGACAGATTTTCC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGACAGATTTTAC
* * *
66091522 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAGTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAAGTCTACTTCCCTGGGAAGCAGCGGAAT
* * *
66091587 AGATTGAAGATTTTAGATCTTACCTTCCT-GCA-TAGACAGCGAAGCAGATCGAAGATGGCGGAT
131 AGATTGAAGATTTCAGATCTTACCTCCCTAGCAGTAG--AG-G-AGCAGATCAAAGATGGCGGAT
***
66091650 TTTACCT-CCTCGTAGTTACAGTGGAGTACATTGAAGCC-GTAATTCTA-TCTCCCTGGTTGGCA
192 TTTACCTCCCT-GTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCA
* * * ** * *
66091712 GTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCGGTAGTGGAGCAGATCGAAGATGGC
255 GCGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGAGACAGCGAAGCAGATCGAAGATGGC
* ***
66091777 TAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGTTGG
320 GAATTTTACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAG
*
66091842 CAGTGGAATAG
385 CAGCGGAATAG
*
66091853 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAG
66091894 TAGACTGATG
Statistics
Matches: 389, Mismatches: 40, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
394 3 0.01
395 3 0.01
396 126 0.32
397 204 0.52
398 53 0.14
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (395 bp):
ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGACAGATTTTAC
CTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAAGTCTACTTCCCTGGGAAGCAGCGGAAT
AGATTGAAGATTTCAGATCTTACCTCCCTAGCAGTAGAGGAGCAGATCAAAGATGGCGGATTTTA
CCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAA
TAGATTGAAGATTTCAGATCTTACCTCCCTAAGAGACAGCGAAGCAGATCGAAGATGGCGAATTT
TACCTCCCTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAGCAGCGG
AATAG
Found at i:66093484 original size:25 final size:25
Alignment explanation
Indices: 66093442--66093507 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 25
66093432 TTGTATATAG
66093442 TTTATATATATATATATACATTCATAT
1 TTTATA-AT-TATATATACATTCATAT
* ** * *
66093469 TTTATAATTATTTATATTTTCCTGT
1 TTTATAATTATATATACATTCATAT
66093494 TTTATAATTCATAT
1 TTTATAATT-ATAT
66093508 GTTTATACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 21 0.66
26 5 0.16
27 6 0.19
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTATAATTATATATACATTCATAT
Found at i:66096130 original size:2 final size:2
Alignment explanation
Indices: 66096123--66096153 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66096113 GTGATATTTA
66096123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66096154 ATTCAAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66108421 original size:35 final size:35
Alignment explanation
Indices: 66108381--66108461 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
66108371 GAGAGCGATT
66108381 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
1 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
66108416 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
1 GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
66108451 GAGCAATACAT
1 GAGCAATACAT
66108462 AATTGAATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (35 bp):
GAGCAATACATGTTAGAAAATATAGTAGAAAAGCA
Found at i:66111524 original size:2 final size:2
Alignment explanation
Indices: 66111517--66111545 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66111507 TTACCACTTT
66111517 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66111546 TTACCACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66118380 original size:153 final size:153
Alignment explanation
Indices: 66118211--66118497 Score: 438
Period size: 153 Copynumber: 1.9 Consensus size: 153
66118201 TATTTAAATG
* * *
66118211 TTTATTTTTTACTTTATAACACCATGTCTAAAATG-GACATTTTATTTTTTAAAAGCACTTTTTG
1 TTTATTTGTTACTTTATAACACCATATCTAAAATGAG-CATTTTATTTCTTAAAAGCACTTTTTG
*
66118275 AC-GACAATACT-AACACTTAAATCTTAAA-CTAAACTTTTCAAAACTACTCCTCAAAATCACTT
65 ACAG-CAATACTAAACACTTAAATCTTAAATC-AAAATTTTCAAAACTACTCCTCAAAATCACTT
66118337 TTCTAAAATACTTTTTAAAATAGGCAT
128 TT-TAAAATACTTTTTAAAATAGGCAT
*
66118364 TTTATTTGTTACTTTATAACACCATATCTAAAATGAGCATTTTATTTCTTAAAATCACTTTTTGA
1 TTTATTTGTTACTTTATAACACCATATCTAAAATGAGCATTTTATTTCTTAAAAGCACTTTTTGA
* * *
66118429 CAGCAATACTAAACACTTAAATTTTAAATCAAAATTTTTAAAACTACTTCTCAAAATCACTTTTT
66 CAGCAATACTAAACACTTAAATCTTAAATCAAAATTTTCAAAACTACTCCTCAAAATCACTTTTT
66118494 AAAA
131 AAAA
66118498 GCACTTTGTC
Statistics
Matches: 122, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
153 72 0.59
154 49 0.40
155 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (153 bp):
TTTATTTGTTACTTTATAACACCATATCTAAAATGAGCATTTTATTTCTTAAAAGCACTTTTTGA
CAGCAATACTAAACACTTAAATCTTAAATCAAAATTTTCAAAACTACTCCTCAAAATCACTTTTT
AAAATACTTTTTAAAATAGGCAT
Found at i:66121453 original size:31 final size:31
Alignment explanation
Indices: 66121415--66121477 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
66121405 ATATACTTGG
66121415 CTATATGCCTTTACTAGAGTAGCCTCACTAT
1 CTATATGCCTTTACTAGAGTAGCCTCACTAT
66121446 CTATATGCCTTTACTAGAGTAGCCTCACTAT
1 CTATATGCCTTTACTAGAGTAGCCTCACTAT
66121477 C
1 C
66121478 ACAACAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (31 bp):
CTATATGCCTTTACTAGAGTAGCCTCACTAT
Found at i:66125829 original size:27 final size:27
Alignment explanation
Indices: 66125796--66125938 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
66125786 TCATCTCCTA
*
66125796 GGGTATTTTGGTCATTTTACCCTATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
* *
66125823 GGGTATTTCGATCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATGG
* **
66125850 CGGTATTTCAATCATTTTACCCTATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
** * * *
66125877 GGGTATTTTAGTCATTTTATCTTATGA
1 GGGTATTTCGGTCATTTTACCCTATGG
* *
66125904 GGGTATTTCGGTCATTTTATCTTATGG
1 GGGTATTTCGGTCATTTTACCCTATGG
*
66125931 CGGTATTT
1 GGGTATTT
66125939 TTGTTATTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATGG
Found at i:66125939 original size:54 final size:53
Alignment explanation
Indices: 66125794--66125951 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 53
66125784 TTTCATCTCC
* *
66125794 TAGGGTATTTTGGTCATTTTACCCTATGGGGGTA-TTTCGATCATTTTACCCTA
1 TAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAG-TCATTTTACCCTA
** * *
66125847 TAGCGGTATTTCAATCATTTTACCCTATGGGGGTATTTTAGTCATTTTATCTTA
1 TAG-GGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTA
* * * * *
66125901 TGAGGGTATTTCGGTCATTTTATCTTATGGCGGTATTTTTGTTATTTTACC
1 T-AGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACC
66125952 TATTTTAAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.03
54 79 0.90
55 6 0.07
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.47
Consensus pattern (53 bp):
TAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTA
Found at i:66128628 original size:37 final size:36
Alignment explanation
Indices: 66128533--66128628 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 36
66128523 GTCTCCAATT
* * *
66128533 TCACATTTTAATTCAATTTCACTTTTTCACTTCCAA
1 TCACAATTCAATTCAATTTCACTTTTCCACTTCCAA
* * *
66128569 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTCCAA
*
66128606 GTCA-ATATTCATTTCAATTTCAC
1 -TCACA-ATTCAATTCAATTTCAC
66128629 ACGTATATTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
36 12 0.24
37 26 0.53
38 11 0.22
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (36 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTCCAA
Found at i:66129416 original size:8 final size:7
Alignment explanation
Indices: 66129400--66129476 Score: 50
Period size: 7 Copynumber: 10.9 Consensus size: 7
66129390 ACTTTACTTT
66129400 ATATATA
1 ATATATA
66129407 ATATTATA
1 ATA-TATA
66129415 ATAATATA
1 AT-ATATA
66129423 ATATATA
1 ATATATA
66129430 ATA-ATA
1 ATATATA
* *
66129436 AAACATA
1 ATATATA
*
66129443 ATAAAT-
1 ATATATA
* *
66129449 ATCTTTA
1 ATATATA
* *
66129456 TTATTTA
1 ATATATA
66129463 ATAATATA
1 AT-ATATA
66129471 ATATAT
1 ATATAT
66129477 TTATTAAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
6 8 0.15
7 28 0.51
8 18 0.33
9 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:66139135 original size:25 final size:25
Alignment explanation
Indices: 66139078--66139135 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
66139068 AGGGTCATAC
*
66139078 GGCCATGTCCCACCCCCATGTGCTA
1 GGCCGTGTCCCACCCCCATGTGCTA
** *
66139103 GGTTGTGTCCCACGCCCATGTGCTA
1 GGCCGTGTCCCACCCCCATGTGCTA
66139128 GGCCGTGT
1 GGCCGTGT
66139136 AACTCTCTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.12, C:0.36, G:0.28, T:0.24
Consensus pattern (25 bp):
GGCCGTGTCCCACCCCCATGTGCTA
Found at i:66146762 original size:51 final size:52
Alignment explanation
Indices: 66146682--66146780 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 52
66146672 TGAAATAGTT
* *
66146682 TGAAGTAGTTGCTTGTCGCTAAAGAATTGAGAAATTATATATA-TTGTGATC
1 TGAAGTAGGTGCTTGTCGATAAAGAATTGAGAAATTATATATAGTTGTGATC
* *
66146733 TGAAGTAGGTGCTTGTCTATAAA-ACATTGAGAATTTATATATAGTTGT
1 TGAAGTAGGTGCTTGTCGATAAAGA-ATTGAGAAATTATATATAGTTGT
66146781 AGTTTAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 1 0.02
51 37 0.88
52 4 0.10
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (52 bp):
TGAAGTAGGTGCTTGTCGATAAAGAATTGAGAAATTATATATAGTTGTGATC
Found at i:66149616 original size:16 final size:17
Alignment explanation
Indices: 66149597--66149628 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66149587 TTATGGAAGA
66149597 GAAATAA-TAGTTGGAT
1 GAAATAATTAGTTGGAT
66149613 GAAATAATTAGTTGGA
1 GAAATAATTAGTTGGA
66149629 ATAGATCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (17 bp):
GAAATAATTAGTTGGAT
Found at i:66157796 original size:41 final size:41
Alignment explanation
Indices: 66157739--66157926 Score: 295
Period size: 41 Copynumber: 4.6 Consensus size: 41
66157729 AGTAAGATGA
* *
66157739 TTCAGACTTTAAGTCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
66157780 TTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
66157821 TTTAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
66157862 TTCTGACTTTACGTCTAGCAGGCTTAATACCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
66157903 TTCTGACTTTAAGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
66157927 AATTGCTGGT
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
Found at i:66157962 original size:123 final size:123
Alignment explanation
Indices: 66157743--66157980 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 123
66157733 AGATGATTCA
* * * *
66157743 GACTTTAAGTCTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTGAT
1 GACTTTAAGTCTAGCAGGCTTAATACCGGTGAAATATTTCAGACTTTAAGTCTAGCAGGCTTAAT
* * * *
66157808 GCCAGTGAAATATTTTAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAATATTTCT
66 GCCAGTGAAATATATCAGACTTTAAGCCTAGCAGGC-TAAGTGCCGGTGAAATATTTCT
* *
66157866 GACTTTACGTCTAGCAGGCTTAATACCGGTGAAATATTTCTGACTTTAAGTCTAGCAGGC-TAAT
1 GACTTTAAGTCTAGCAGGCTTAATACCGGTGAAATATTTCAGACTTTAAGTCTAGCAGGCTTAA-
** * * ** *
66157930 TGCTGGTGTACTGA-ATCAGGTTTTAAGCCTAGCAGGCTAAGTGCTGGTGAA
65 TGCCAGTGAAAT-ATATCAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAA
66157981 TCTGTTTAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
122 5 0.05
123 89 0.94
124 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (123 bp):
GACTTTAAGTCTAGCAGGCTTAATACCGGTGAAATATTTCAGACTTTAAGTCTAGCAGGCTTAAT
GCCAGTGAAATATATCAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATATTTCT
Found at i:66158626 original size:2 final size:2
Alignment explanation
Indices: 66158551--66158606 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
66158541 NNNNNNNNAC
66158551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66158593 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
66158607 CACACAGATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.