Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 39 of 402
Found at i:7848444 original size:82 final size:82
Alignment explanation
Indices: 7848307--7848470 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 82
7848297 TTAAAGATAC
* * *
7848307 CACTTGAATAATTAGAGGCTAGGATACTAACATATGGTACCCCAATAATACTTCAATATGAAACA
1 CACTTGAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAATACTTCAATATGAAACA
*
7848372 CTTTCAAACAAAAAATT
66 CTCTCAAACAAAAAATT
*
7848389 CACTTGAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAATACTTCAATATGAAATA
1 CACTTGAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAATACTTCAATATGAAACA
*
7848454 CTCTCAAGCAAAAAATT
66 CTCTCAAACAAAAAATT
7848471 ATATCGAAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.26
Consensus pattern (82 bp):
CACTTGAATAATTAGAGGCTAGGATACCAACATACGATACCCCAATAATACTTCAATATGAAACA
CTCTCAAACAAAAAATT
Found at i:7851346 original size:23 final size:23
Alignment explanation
Indices: 7851301--7851346 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7851291 CCTTAGCTTC
* *
7851301 AGGGATTGAAATCCTAGATTTTT
1 AGGGATTCAAATCCTAGAATTTT
7851324 AGGGATTCAAATCCCT-GAATTTT
1 AGGGATTCAAAT-CCTAGAATTTT
7851347 TGGTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (23 bp):
AGGGATTCAAATCCTAGAATTTT
Found at i:7852176 original size:57 final size:56
Alignment explanation
Indices: 7852100--7852238 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 56
7852090 CCATCAAGCA
* * **
7852100 AATGTAAATGATTTTGGATATTGCCATCGAAGAGAACTCAAATATCACCA-CTGAGTG
1 AATGCAAATGACTTTGGATATCACCATCGAAG-GAACTCAAATATCACCATC-GAGTG
* * * *
7852157 AATGCAAATGACTTTGGATATCACCCTTGAAGTAACTTAAATATCACCATCGAGTG
1 AATGCAAATGACTTTGGATATCACCATCGAAGGAACTCAAATATCACCATCGAGTG
* * *
7852213 TATGCAGATGTCTTTGGATATCACCA
1 AATGCAAATGACTTTGGATATCACCA
7852239 CCAAAGAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 42 0.61
57 27 0.39
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (56 bp):
AATGCAAATGACTTTGGATATCACCATCGAAGGAACTCAAATATCACCATCGAGTG
Found at i:7852387 original size:14 final size:14
Alignment explanation
Indices: 7852363--7852396 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7852353 CACCAAGAAA
7852363 ATGAA-ATTCAAAC
1 ATGAATATTCAAAC
7852376 ATGAATATTCAAAC
1 ATGAATATTCAAAC
7852390 ATGAATA
1 ATGAATA
7852397 CTTAGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (14 bp):
ATGAATATTCAAAC
Found at i:7856413 original size:24 final size:24
Alignment explanation
Indices: 7856381--7856429 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7856371 TCATAAGATG
7856381 ATGTATTTTAATAGAACAAACTAC
1 ATGTATTTTAATAGAACAAACTAC
* * *
7856405 ATGTGTTTTGATAGAACATACTAC
1 ATGTATTTTAATAGAACAAACTAC
7856429 A
1 A
7856430 CGAATGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (24 bp):
ATGTATTTTAATAGAACAAACTAC
Found at i:7857956 original size:12 final size:11
Alignment explanation
Indices: 7857918--7857948 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7857908 AATAGAAAAC
7857918 TTTTTTTTTTG
1 TTTTTTTTTTG
7857929 TTTTTGTTTTTG
1 TTTTT-TTTTTG
7857941 TTTTTTTT
1 TTTTTTTT
7857949 GCTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:7862050 original size:7 final size:7
Alignment explanation
Indices: 7862040--7862163 Score: 63
Period size: 7 Copynumber: 19.1 Consensus size: 7
7862030 AACCCATCGT
7862040 AACCCTA
1 AACCCTA
*
7862047 AACCTTA
1 AACCCTA
7862054 AA-CC-A
1 AACCCTA
*
7862059 AACCCAA
1 AACCCTA
7862066 AACCCT-
1 AACCCTA
*
7862072 AA-GCTAA
1 AACCCT-A
*
7862079 AAACCTA
1 AACCCTA
*
7862086 AACCTTA
1 AACCCTA
7862093 AA-CC-A
1 AACCCTA
*
7862098 AAACCTA
1 AACCCTA
7862105 AACCCTA
1 AACCCTA
***
7862112 AACTAAA
1 AACCCTA
7862119 AACCCTA
1 AACCCTA
7862126 AACCC--
1 AACCCTA
7862131 AA-CC-A
1 AACCCTA
* *
7862136 AACCTTC
1 AACCCTA
7862143 AACCCTA
1 AACCCTA
7862150 AA-CCTA
1 AACCCTA
7862156 AACCCTA
1 AACCCTA
7862163 A
1 A
7862164 GCCAACCCAA
Statistics
Matches: 87, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
4 2 0.02
5 12 0.14
6 15 0.17
7 56 0.64
8 2 0.02
ACGTcount: A:0.49, C:0.36, G:0.01, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:7862068 original size:19 final size:19
Alignment explanation
Indices: 7862043--7862159 Score: 96
Period size: 19 Copynumber: 6.1 Consensus size: 19
7862033 CCATCGTAAC
* *
7862043 CCTAAACCTTAAACCAAAC
1 CCTAAACCCTAAACCAAAA
* * *
7862062 CCAAAACCCTAAGCTAAAAA
1 CCTAAACCCTAAAC-CAAAA
*
7862082 CCTAAACCTTAAACCAAAA
1 CCTAAACCCTAAACCAAAA
*
7862101 CCTAAACCCTAAACTAAAAA
1 CCTAAACCCTAAAC-CAAAA
7862121 CCCTAAACCC--AACC-AAA
1 -CCTAAACCCTAAACCAAAA
* *
7862138 CCTTCAACCCTAAACCTAAA
1 CC-TAAACCCTAAACCAAAA
7862158 CC
1 CC
7862160 CTAAGCCAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.03
17 9 0.12
19 35 0.45
20 23 0.29
21 9 0.12
ACGTcount: A:0.49, C:0.37, G:0.01, T:0.14
Consensus pattern (19 bp):
CCTAAACCCTAAACCAAAA
Found at i:7862090 original size:6 final size:6
Alignment explanation
Indices: 7862079--7862159 Score: 51
Period size: 6 Copynumber: 12.8 Consensus size: 6
7862069 CCTAAGCTAA
*
7862079 AAACCT AAACCTT AAACCA AAACCT AAACCCT AAA-CT AAAAACCCT AAACC-
1 AAACCT AAACC-T AAACCT AAACCT AAA-CCT AAACCT --AAA-CCT AAACCT
* *
7862130 CAACC- AAACCTT CAACCCT AAACCT AAACC
1 AAACCT AAACC-T -AAACCT AAACCT AAACC
7862160 CTAAGCCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
5 10 0.17
6 25 0.42
7 19 0.32
8 4 0.07
9 2 0.03
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (6 bp):
AAACCT
Found at i:7862093 original size:39 final size:40
Alignment explanation
Indices: 7862040--7862129 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 40
7862030 AACCCATCGT
* *
7862040 AACCCTAAACCTTAAACCAAACCCAAAACCCTAAGCTAAA
1 AACCCTAAACCTTAAACCAAAACCAAAACCCTAAACTAAA
*
7862080 AA-CCTAAACCTTAAACCAAAACCTAAACCCTAAACTAAA
1 AACCCTAAACCTTAAACCAAAACCAAAACCCTAAACTAAA
7862119 AACCCTAAACC
1 AACCCTAAACC
7862130 CAACCAAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.78
40 10 0.22
ACGTcount: A:0.51, C:0.34, G:0.01, T:0.13
Consensus pattern (40 bp):
AACCCTAAACCTTAAACCAAAACCAAAACCCTAAACTAAA
Found at i:7862146 original size:17 final size:16
Alignment explanation
Indices: 7862126--7862182 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
7862116 AAAAACCCTA
7862126 AACCCAACCAAACCTT
1 AACCCAACCAAACCTT
*
7862142 CAACCCTAAACCTAAACCCT
1 -AACCC--AACC-AAACCTT
*
7862162 AAGCCAACCCAAACCTT
1 AACCCAA-CCAAACCTT
7862179 AACC
1 AACC
7862183 TAGTTCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 16 0.50
18 2 0.06
19 8 0.25
20 6 0.19
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (16 bp):
AACCCAACCAAACCTT
Found at i:7862174 original size:37 final size:36
Alignment explanation
Indices: 7862066--7862182 Score: 112
Period size: 37 Copynumber: 3.1 Consensus size: 36
7862056 CCAAACCCAA
* * * *
7862066 AACCCTAAGCTAAAAACCTAAACCTTAAACCAAAACCTA
1 AACCCTAAACTAAAACCCTAAACC--CAACC-AAACCTT
7862105 AACCCTAAACTAAAAACCCTAAACCCAACCAAACCTT
1 AACCCTAAACT-AAAACCCTAAACCCAACCAAACCTT
*
7862142 CAACCCTAAACCT-AAACCCT-AAGCCAACCCAAACCTT
1 -AACCCTAAA-CTAAAACCCTAAACCCAA-CCAAACCTT
7862179 AACC
1 AACC
7862183 TAGTTCTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
36 10 0.14
37 22 0.32
38 13 0.19
39 12 0.17
40 12 0.17
ACGTcount: A:0.47, C:0.38, G:0.02, T:0.14
Consensus pattern (36 bp):
AACCCTAAACTAAAACCCTAAACCCAACCAAACCTT
Found at i:7862671 original size:26 final size:26
Alignment explanation
Indices: 7862629--7862691 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 26
7862619 ATCTTGATCT
7862629 AAAAATAAAATGCTTTG-TTTCTAAAAG
1 AAAAA-AAAATGCTTTGCTTT-TAAAAG
7862656 AAAAAAAAAT-CATTTGCTTTTAAAAG
1 AAAAAAAAATGC-TTTGCTTTTAAAAG
7862682 AAAAGAAAAA
1 AAAA-AAAAA
7862692 AAATTCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.03
26 19 0.58
27 13 0.39
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (26 bp):
AAAAAAAAATGCTTTGCTTTTAAAAG
Found at i:7864315 original size:37 final size:37
Alignment explanation
Indices: 7864262--7864414 Score: 135
Period size: 37 Copynumber: 4.1 Consensus size: 37
7864252 GAGTTGGAAA
* *
7864262 TAATAAGATAGTACATGCATTCCATCTAACGCGTATTT
1 TAATAA-ATAGTACATGCATTCCATCTAACGCATATAT
* * * *
7864300 TAATAAATAATACATGCATTCCATTTCATGCATATAT
1 TAATAAATAGTACATGCATTCCATCTAACGCATATAT
* * * * * *
7864337 TAATAAATAGTAAATGTATTCCATCTCATGCACATCT
1 TAATAAATAGTACATGCATTCCATCTAACGCATATAT
* * * * * *
7864374 CAATAGATAGTACATGCACTCCATCTCATGCACATAT
1 TAATAAATAGTACATGCATTCCATCTAACGCATATAT
7864411 TAAT
1 TAAT
7864415 CGTATTGTCA
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
37 90 0.94
38 6 0.06
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (37 bp):
TAATAAATAGTACATGCATTCCATCTAACGCATATAT
Found at i:7871216 original size:5 final size:5
Alignment explanation
Indices: 7871197--7871291 Score: 81
Period size: 5 Copynumber: 18.6 Consensus size: 5
7871187 AAGGGTATGT
*
7871197 AAAGA GAAA-A AAAGA AAAGA AAAG- AAAGAA AAAGA TAAGAA AAAGA
1 AAAGA -AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAG-A AAAGA
* *
7871243 AATAG- -ATGA AAAGA AAAAA AAAGA AAAGA AAAGA AAAGGA GAAAGA
1 AA-AGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA-GA -AAAGA
7871289 AAA
1 AAA
7871292 TTTTTGATTG
Statistics
Matches: 74, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
3 1 0.01
4 8 0.11
5 45 0.61
6 17 0.23
7 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:7871791 original size:17 final size:16
Alignment explanation
Indices: 7871734--7871804 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 16
7871724 AATCCACTCT
7871734 AAAA-AAAAAAA-GAA
1 AAAATAAAAAAATGAA
*
7871748 AAGA-AAAAAAATGAA
1 AAAATAAAAAAATGAA
*
7871763 AAATTAAGAAAAATGAA
1 AAAATAA-AAAAATGAA
*
7871780 AGAAATGAAAAAAAATAAA
1 A-AAAT--AAAAAAATGAA
7871799 AAAATA
1 AAAATA
7871805 TTAAAGATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
14 10 0.22
15 5 0.11
16 3 0.07
17 10 0.22
18 7 0.15
19 9 0.20
20 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAATGAA
Found at i:7873494 original size:26 final size:27
Alignment explanation
Indices: 7873444--7873499 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
7873434 TCACATGGAA
7873444 CATTTGCATCAAGGAAAAACACATTTG
1 CATTTGCATCAAGGAAAAACACATTTG
**
7873471 CATTTGCATCAA-GAAAAAGGCATTTG
1 CATTTGCATCAAGGAAAAACACATTTG
7873497 CAT
1 CAT
7873500 ATTTGCATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
CATTTGCATCAAGGAAAAACACATTTG
Found at i:7873944 original size:80 final size:79
Alignment explanation
Indices: 7873840--7874038 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 79
7873830 TGAGCACAAA
* * * *
7873840 GATTT-CAAGACCTCTGGACAAAACCTTAAATTTTTCAAAATTTTCTAAGACCTTTAGGAGAAAT
1 GATTTCCAAGGCCTCCGGACAAAACCTTAAATTTTTCAAAATTTT-TAAGACCTTTACGACAAAT
7873904 TTTAAAATTTTGAAC
65 TTTAAAATTTTGAAC
* * * *
7873919 GATTTCCAAGGCCTCCGGGCAAAACCTTAAATTTTTGATAAATTTTTAAGATCTTTACGACAGAT
1 GATTTCCAAGGCCTCCGGACAAAACCTTAAATTTTTCA-AAATTTTTAAGACCTTTACGACAAAT
* *
7873984 TTTAAATTTTTGAAT
65 TTTAAAATTTTGAAC
* * * *
7873999 GATTTCCAGGGTCTCC-AACCAAAACCTTAGAAATTTTCAA
1 GATTTCCAAGGCCTCCGGA-CAAAACCTTA-AATTTTTCAA
7874039 GACCTCTGGT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
79 5 0.05
80 81 0.81
81 14 0.14
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (79 bp):
GATTTCCAAGGCCTCCGGACAAAACCTTAAATTTTTCAAAATTTTTAAGACCTTTACGACAAATT
TTAAAATTTTGAAC
Found at i:7874209 original size:40 final size:40
Alignment explanation
Indices: 7874111--7874343 Score: 154
Period size: 40 Copynumber: 5.8 Consensus size: 40
7874101 TTCTGAATTC
* * * **
7874111 CAAGAACTTAGGGTAAAACCTTAGA-TCTTTGAATGATTCC
1 CAAGACCTTCGGGTAAAACCTTAAACT-TTTGAATGATTTT
* * * *
7874151 CTAGCCCTTCAGGG-AAAACCTTAGATTTTTGAATGATTTT
1 CAAGACCTTC-GGGTAAAACCTTAAACTTTTGAATGATTTT
** * *
7874191 CAAGGTCTTCGGGTAAAACTTTAAACTTCTGAATGATTTCT
1 CAAGACCTTCGGGTAAAACCTTAAACTTTTGAATGATTT-T
* * * *
7874232 AAAGA--TTCCGAGCAAAACCTTAAACTTTTGAATTA-TTT
1 CAAGACCTT-CGGGTAAAACCTTAAACTTTTGAATGATTTT
* * * * *
7874270 CTAAGGCCTCCGAGCAAAACCTTAAACTTTTGAATTA-TTT
1 C-AAGACCTTCGGGTAAAACCTTAAACTTTTGAATGATTTT
* *
7874310 CTAAGACCTTTGGGTAAAACCTTAAATTTTTGAA
1 C-AAGACCTTCGGGTAAAACCTTAAACTTTTGAA
7874344 AAACTCCTAA
Statistics
Matches: 156, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 136 0.87
41 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (40 bp):
CAAGACCTTCGGGTAAAACCTTAAACTTTTGAATGATTTT
Found at i:7874261 original size:80 final size:80
Alignment explanation
Indices: 7874165--7874313 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
7874155 CCCTTCAGGG
* * * * * * *
7874165 AAAACCTTAGATTTTTGAATGATTT-TCAAGGTCTTCGGGTAAAACTTTAAACTTCTGAATGATT
1 AAAACCTTAAACTTTTGAATGATTTCT-AAGGCCTCCGAGCAAAACCTTAAACTTCTGAATGATT
7874229 TCTAAAGATTCCGAGC
65 TCTAAAGATTCCGAGC
* * *
7874245 AAAACCTTAAACTTTTGAATTATTTCTAAGGCCTCCGAGCAAAACCTTAAACTTTTGAATTATTT
1 AAAACCTTAAACTTTTGAATGATTTCTAAGGCCTCCGAGCAAAACCTTAAACTTCTGAATGATTT
7874310 CTAA
66 CTAA
7874314 GACCTTTGGG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 57 0.98
81 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (80 bp):
AAAACCTTAAACTTTTGAATGATTTCTAAGGCCTCCGAGCAAAACCTTAAACTTCTGAATGATTT
CTAAAGATTCCGAGC
Found at i:7874613 original size:21 final size:21
Alignment explanation
Indices: 7874587--7874681 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
7874577 AGGCATCTGA
7874587 GCAAAACATTAGGGCCTCTAG
1 GCAAAACATTAGGGCCTCTAG
* * *
7874608 GCAAAACCTTAAGGCCTC-CG
1 GCAAAACATTAGGGCCTCTAG
* **
7874628 AGCAAAACTTTAAAGCCTCTA-
1 -GCAAAACATTAGGGCCTCTAG
* * * *
7874649 ACAAAACCTTAGGGCCTCCAA
1 GCAAAACATTAGGGCCTCTAG
*
7874670 GCGAAACATTAG
1 GCAAAACATTAG
7874682 ATTTTGAATG
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
20 16 0.28
21 41 0.72
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (21 bp):
GCAAAACATTAGGGCCTCTAG
Found at i:7874631 original size:42 final size:41
Alignment explanation
Indices: 7874576--7874682 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
7874566 ATTGATTTTC
* * * *
7874576 AAGGCATCTGAGCAAAACATTAGGGCCTCTAGGCAAAACCTT
1 AAGGCCTCCGAGCAAAACATTAGAGCCTCTA-ACAAAACCTT
* *
7874618 AAGGCCTCCGAGCAAAACTTTAAAGCCTCTAACAAAACCTT
1 AAGGCCTCCGAGCAAAACATTAGAGCCTCTAACAAAACCTT
* * *
7874659 AGGGCCTCCAAGCGAAACATTAGA
1 AAGGCCTCCGAGCAAAACATTAGA
7874683 TTTTGAATGA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 28 0.52
42 26 0.48
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
AAGGCCTCCGAGCAAAACATTAGAGCCTCTAACAAAACCTT
Found at i:7876981 original size:19 final size:18
Alignment explanation
Indices: 7876957--7877211 Score: 235
Period size: 19 Copynumber: 13.6 Consensus size: 18
7876947 ATTTTCCATG
*
7876957 AAACCCCAAACACCATTCC
1 AAACCCTAAACACCA-TCC
* * *
7876976 AAACCCCAACCACCACCC
1 AAACCCTAAACACCATCC
*
7876994 AAACCCTAAACCACTATCC
1 AAACCCTAAA-CACCATCC
*
7877013 AAACCCCTAACCACCATCC
1 AAA-CCCTAAACACCATCC
* *
7877032 AAACCCCAATCTACCATCC
1 AAACCCTAAAC-ACCATCC
*
7877051 AAACCCTAAACCACCATTC
1 AAACCCTAAA-CACCATCC
* * *
7877070 AGACACTAAACCACCACCC
1 AAACCCTAAA-CACCATCC
*
7877089 AAACCCTTAACCACCATTCC
1 AAACCC-TAAACACCA-TCC
*
7877109 -AACCCTAAACCACTATCC
1 AAACCCTAAA-CACCATCC
7877127 AAACCCTAAACTACCATCC
1 AAACCCTAAAC-ACCATCC
7877146 AAACCCTAAACTACCATCC
1 AAACCCTAAAC-ACCATCC
* *
7877165 AAACCCTAAACACTAAACC
1 AAACCCTAAACAC-CATCC
*
7877184 CAACCCTAAAC-CCATCC
1 AAACCCTAAACACCATCC
7877201 AAACCCTAAAC
1 AAACCCTAAAC
7877212 CAAACACTAA
Statistics
Matches: 196, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
17 13 0.07
18 26 0.13
19 145 0.74
20 12 0.06
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.13
Consensus pattern (18 bp):
AAACCCTAAACACCATCC
Found at i:7877175 original size:7 final size:7
Alignment explanation
Indices: 7877165--7877229 Score: 57
Period size: 7 Copynumber: 9.4 Consensus size: 7
7877155 ACTACCATCC
7877165 AAACCCT
1 AAACCCT
*
7877172 AAACACT
1 AAACCCT
7877179 AAACCC-
1 AAACCCT
7877185 -AACCCT
1 AAACCCT
7877191 AAACCCAT
1 AAACCC-T
7877199 CCAAACCCT
1 --AAACCCT
7877208 AAA-CC-
1 AAACCCT
*
7877213 AAACACT
1 AAACCCT
7877220 AAACCCT
1 AAACCCT
7877227 AAA
1 AAA
7877230 TCAAAAACCT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 8 0.17
6 3 0.06
7 28 0.60
8 1 0.02
9 1 0.02
10 6 0.13
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCCT
Found at i:7877894 original size:25 final size:26
Alignment explanation
Indices: 7877845--7877904 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
7877835 TCTTGATCCA
* * *
7877845 AAAATAAAATGCTTTGTTTCCAAAAG
1 AAAAGAAAATGATTTGTTTCCAAAAC
**
7877871 AAAA-AAAATGATTTGTTTTTAAAAC
1 AAAAGAAAATGATTTGTTTCCAAAAC
7877896 AAAAGAAAA
1 AAAAGAAAA
7877905 AATTTTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (26 bp):
AAAAGAAAATGATTTGTTTCCAAAAC
Found at i:7880768 original size:15 final size:15
Alignment explanation
Indices: 7880725--7880781 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7880715 AAAAATAACC
7880725 TAAAAAAAGTTAAAATAA
1 TAAAAAAA--TAAAA-AA
* * *
7880743 TAATAATAATAATAAT
1 TAA-AAAAATAAAAAA
7880759 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
7880774 TAAAAAAA
1 TAAAAAAA
7880782 CCTAAATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 17 0.53
16 4 0.12
17 4 0.12
18 3 0.09
19 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:7881471 original size:19 final size:20
Alignment explanation
Indices: 7881444--7881486 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7881434 GTGCTTTGGA
*
7881444 TTTGAC-AAAAGCTTTTTTT
1 TTTGACAAAAACCTTTTTTT
*
7881463 TTTGGCAAAAACCTTTTTTT
1 TTTGACAAAAACCTTTTTTT
7881483 TTTG
1 TTTG
7881487 TTTTTTAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTGACAAAAACCTTTTTTT
Found at i:7881660 original size:21 final size:21
Alignment explanation
Indices: 7881622--7881661 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7881612 GTAGGTGCAA
** *
7881622 CTAACAAAGGCAAGTGGGTGG
1 CTAACAAAACCAAATGGGTGG
7881643 CTAACAAAACCAAATGGGT
1 CTAACAAAACCAAATGGGT
7881662 TGCTGCCACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (21 bp):
CTAACAAAACCAAATGGGTGG
Found at i:7882124 original size:20 final size:19
Alignment explanation
Indices: 7882098--7882142 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
7882088 CCCAAACATT
* *
7882098 TTTTTTGTTATTGTTTTTG
1 TTTTTTGTTATTATTATTG
7882117 TGTTTTTGTTATTATTATTG
1 T-TTTTTGTTATTATTATTG
7882137 TTTTTT
1 TTTTTT
7882143 AAGTAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.09, C:0.00, G:0.13, T:0.78
Consensus pattern (19 bp):
TTTTTTGTTATTATTATTG
Found at i:7882527 original size:23 final size:24
Alignment explanation
Indices: 7882478--7882528 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
7882468 AGATAACTTC
*
7882478 AGATATCACTACTAAAGAAGACTT
1 AGATATCACTACTAAAGAAGAATT
*
7882502 AGATATCACTA-TCAAGAA-AATGT
1 AGATATCACTACTAAAGAAGAAT-T
7882525 AGAT
1 AGAT
7882529 GACTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 11 0.46
24 11 0.46
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (24 bp):
AGATATCACTACTAAAGAAGAATT
Found at i:7882730 original size:64 final size:64
Alignment explanation
Indices: 7882660--7882834 Score: 215
Period size: 64 Copynumber: 2.7 Consensus size: 64
7882650 CAGCACAAAT
* *
7882660 TTGAGAAAATTTGGATATCACCACTAAAAAATTTGAAAACAATTTGGATGTCACCACCAAAGAC
1 TTGAGAAAATTTGGATATCGCCACTAAAAATTTTGAAAACAATTTGGATGTCACCACCAAAGAC
* * * * *
7882724 TTGAGAAAATTTGGATATTGCCACTGAATATTTTGAAAACAATTTTGGATTTCACCACCAAAGAT
1 TTGAGAAAATTTGGATATCGCCACTAAAAATTTTGAAAACAA-TTTGGATGTCACCACCAAAGAC
* * ** * *
7882789 TTAAAAAAATTTCAAATATCGCCATTAAAGATTTTGAAAACAATTT
1 TTGAGAAAATTT-GGATATCGCCACTAAAAATTTTGAAAACAATTT
7882835 ATCACAACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 37 0.39
65 33 0.35
66 24 0.26
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (64 bp):
TTGAGAAAATTTGGATATCGCCACTAAAAATTTTGAAAACAATTTGGATGTCACCACCAAAGAC
Found at i:7882738 original size:31 final size:32
Alignment explanation
Indices: 7882660--7882741 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
7882650 CAGCACAAAT
*
7882660 TTGAGAAAATTTGGATATCACCACTAAAAAAT
1 TTGAGAAAATTTGGATATCACCACTAAAAAAC
* * * *
7882692 TTGAAAACAATTTGGATGTCACCAC-CAAAGAC
1 TTGAGAA-AATTTGGATATCACCACTAAAAAAC
7882724 TTGAGAAAATTTGGATAT
1 TTGAGAAAATTTGGATAT
7882742 TGCCACTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 10 0.24
32 16 0.38
33 16 0.38
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (32 bp):
TTGAGAAAATTTGGATATCACCACTAAAAAAC
Found at i:7884534 original size:26 final size:26
Alignment explanation
Indices: 7884495--7884547 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
7884485 TTTTCTTTCC
* *
7884495 CTTTTCTTTCTCTTTTTCCTTCCTTT
1 CTTTTCTTTCTCTTTTTACTTCATTT
* *
7884521 CTTTTTTTTTTCTTTTTACTTCATTT
1 CTTTTCTTTCTCTTTTTACTTCATTT
7884547 C
1 C
7884548 CATGTTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.72
Consensus pattern (26 bp):
CTTTTCTTTCTCTTTTTACTTCATTT
Found at i:7888986 original size:17 final size:18
Alignment explanation
Indices: 7888956--7889002 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
7888946 AATAATAGCA
*
7888956 ATAAAAGTAAAAAAA-AC
1 ATAAAAATAAAAAAATAC
*
7888973 ATAAAAATACAAAAATAC
1 ATAAAAATAAAAAAATAC
*
7888991 AAAAAAACTAAA
1 ATAAAAA-TAAA
7889003 TCGATCAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 13 0.54
18 8 0.33
19 3 0.12
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.13
Consensus pattern (18 bp):
ATAAAAATAAAAAAATAC
Found at i:7889693 original size:21 final size:21
Alignment explanation
Indices: 7889652--7889698 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7889642 TTTACAAAAG
**
7889652 CTTTTTTTTTTGTTTTTTAGA
1 CTTTTTTTTTTGTTTGGTAGA
7889673 CTTTTTTTTTTGTTTGGTAGA
1 CTTTTTTTTTTGTTTGGTAGA
*
7889694 GTTTT
1 CTTTT
7889699 CCCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.15, T:0.72
Consensus pattern (21 bp):
CTTTTTTTTTTGTTTGGTAGA
Found at i:7889705 original size:26 final size:27
Alignment explanation
Indices: 7889676--7889731 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
7889666 TTTTAGACTT
*
7889676 TTTTTTTTGTTT-GGTAGAGTTTTCCC
1 TTTTTTTTGTTTAGGTAGAGTTTCCCC
*
7889702 TTTTTTTTTTTTAGGTAGAGTTTCCCC
1 TTTTTTTTGTTTAGGTAGAGTTTCCCC
7889729 TTT
1 TTT
7889732 GATTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.09, C:0.12, G:0.16, T:0.62
Consensus pattern (27 bp):
TTTTTTTTGTTTAGGTAGAGTTTCCCC
Found at i:7889705 original size:27 final size:27
Alignment explanation
Indices: 7889673--7889741 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
7889663 GTTTTTTAGA
* *
7889673 CTTTTTTTTTTGTTTGGTAGAGTTTTCC
1 CTTTTTTTTTT-TTAGGTAGAGTTTCCC
7889701 CTTTTTTTTTTTTAGGTAGAGTTTCCC
1 CTTTTTTTTTTTTAGGTAGAGTTTCCC
*
7889728 CTTTGATTTTTTTT
1 CTTT-TTTTTTTTT
7889742 CCTTTTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 18 0.49
28 19 0.51
ACGTcount: A:0.09, C:0.12, G:0.14, T:0.65
Consensus pattern (27 bp):
CTTTTTTTTTTTTAGGTAGAGTTTCCC
Found at i:7889737 original size:26 final size:27
Alignment explanation
Indices: 7889688--7889739 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
7889678 TTTTTTGTTT
* **
7889688 GGTAGAGTTTTCCCTTTTTTTTTTTTA
1 GGTAGAGTTTTCCCCTTTGATTTTTTA
7889715 GGTAGAG-TTTCCCCTTTGATTTTTT
1 GGTAGAGTTTTCCCCTTTGATTTTTT
7889740 TTCCTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.12, C:0.13, G:0.17, T:0.58
Consensus pattern (27 bp):
GGTAGAGTTTTCCCCTTTGATTTTTTA
Found at i:7890445 original size:25 final size:25
Alignment explanation
Indices: 7890412--7890465 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
7890402 TTTTTTATTT
7890412 ATTAGTTACTTGTTTAATTTATATA
1 ATTAGTTACTTGTTTAATTTATATA
* * *
7890437 ATTATTTACTTTTTTAATTTCTATA
1 ATTAGTTACTTGTTTAATTTATATA
7890462 ATTA
1 ATTA
7890466 CATTTCCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
ATTAGTTACTTGTTTAATTTATATA
Found at i:7894043 original size:27 final size:26
Alignment explanation
Indices: 7893998--7894070 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
7893988 TAATTTATAA
* *
7893998 TTTTAGTTTTATTTATCTTTGTTTGT-
1 TTTTACTTTTATTTATCTTTATTT-TC
7894024 TTTT-CTATTTACTTTATCTTTATTTTC
1 TTTTACT-TTTA-TTTATCTTTATTTTC
7894051 TTTTACTTTTATTTATCTTT
1 TTTTACTTTTATTTATCTTT
7894071 TTAATTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 18 0.44
27 20 0.49
28 2 0.05
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTACTTTTATTTATCTTTATTTTC
Found at i:7894078 original size:18 final size:16
Alignment explanation
Indices: 7894042--7894097 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
7894032 TTACTTTATC
*
7894042 TTTATTTTCTTTTACT
1 TTTATTTTCTTTTAAT
7894058 TTTATTTATCTTTTTAAT
1 TTTATTT-TC-TTTTAAT
* *
7894076 TTTA-TTTCATTTATT
1 TTTATTTTCTTTTAAT
7894091 TTTATTT
1 TTTATTT
7894098 GTTTATCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.26
16 11 0.32
17 4 0.12
18 10 0.29
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTTCTTTTAAT
Found at i:7896317 original size:14 final size:14
Alignment explanation
Indices: 7896298--7896357 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
7896288 CAAACAAAAT
*
7896298 AAAAAATTGAATTA
1 AAAAAATTAAATTA
7896312 AAAAAATTAAATTA
1 AAAAAATTAAATTA
*
7896326 TAAACAAA--AAAATA
1 -AAA-AAATTAAATTA
*
7896340 AAAAAATAAAACTTA
1 AAAAAATTAAA-TTA
7896355 AAA
1 AAA
7896358 CCTTGTGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.08
13 3 0.08
14 21 0.55
15 8 0.21
16 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAAATTAAATTA
Found at i:7896348 original size:20 final size:20
Alignment explanation
Indices: 7896288--7896349 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
7896278 ATATAAAAAT
* *
7896288 CAAACAAAATAAAAAATTGAAT
1 CAAA-AAAATAAAAAAAT-AAA
* * **
7896310 TAAAAAAATTAAATTATAAA
1 CAAAAAAATAAAAAAATAAA
7896330 CAAAAAAATAAAAAAATAAA
1 CAAAAAAATAAAAAAATAAA
7896350 ACTTAAAACC
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 18 0.60
21 9 0.30
22 3 0.10
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
CAAAAAAATAAAAAAATAAA
Found at i:7897971 original size:22 final size:22
Alignment explanation
Indices: 7897946--7897992 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7897936 CAAAAGTTTT
7897946 CAATTTGAAATTCAAAGATTCA
1 CAATTTGAAATTCAAAGATTCA
* *
7897968 CAATTTGAAATTTAAGGATTCA
1 CAATTTGAAATTCAAAGATTCA
7897990 CAA
1 CAA
7897993 GGTTTCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (22 bp):
CAATTTGAAATTCAAAGATTCA
Found at i:7898089 original size:19 final size:19
Alignment explanation
Indices: 7898065--7898241 Score: 127
Period size: 19 Copynumber: 9.7 Consensus size: 19
7898055 CGTAAGGTTT
*
7898065 AAGATTTACAAAAGATTCA
1 AAGATTCACAAAAGATTCA
* *
7898084 AAGATTCGCAAAAGATTTA
1 AAGATTCACAAAAGATTCA
* *
7898103 AATATTCAC-AAA-TTTCA
1 AAGATTCACAAAAGATTCA
* ***
7898120 AATATTTGTAAAAGATTCA
1 AAGATTCACAAAAGATTCA
**
7898139 AAGATTCGTAAAAGATTC-
1 AAGATTCACAAAAGATTCA
***
7898157 AAGATT-TGTAAA-ATTCA
1 AAGATTCACAAAAGATTCA
*
7898174 AAGGTTCACAAAATGATTCA
1 AAGATTCACAAAA-GATTCA
7898194 AAG-TTCACAAAAGATTCA
1 AAGATTCACAAAAGATTCA
** *
7898212 AAGATTTGC-AAA-TTTCA
1 AAGATTCACAAAAGATTCA
7898229 AAGATTCACAAAA
1 AAGATTCACAAAA
7898242 AAATTCAAAA
Statistics
Matches: 125, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
16 4 0.03
17 28 0.22
18 30 0.24
19 55 0.44
20 8 0.06
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (19 bp):
AAGATTCACAAAAGATTCA
Found at i:7898171 original size:55 final size:54
Alignment explanation
Indices: 7898065--7898250 Score: 189
Period size: 55 Copynumber: 3.4 Consensus size: 54
7898055 CGTAAGGTTT
* * *
7898065 AAGATTTACAAAAGATTCAAAGATTCGCAAAAGATTTAA-ATATTCACAAATTTCA
1 AAGATTCACAAAAGATTCAAAGATTCGCAAAAGATTCAAGAT-TTGA-AAATTTCA
* *** *
7898120 AATATTTGTAAAAGATTCAAAGATTCGTAAAAGATTCAAGATTTGTAAAA-TTCA
1 AAGATTCACAAAAGATTCAAAGATTCGCAAAAGATTCAAGATTTG-AAAATTTCA
* * *
7898174 AAGGTTCACAAAATGATTCAAAG-TTCACAAAAGATTCAAAGATTTGCAAATTTCA
1 AAGATTCACAAAA-GATTCAAAGATTCGCAAAAGATTC-AAGATTTGAAAATTTCA
*
7898229 AAGATTCACAAAAAAATTCAAA
1 AAGATTCAC-AAAAGATTCAAA
7898251 AATAATTTTG
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
54 27 0.25
55 75 0.69
56 7 0.06
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (54 bp):
AAGATTCACAAAAGATTCAAAGATTCGCAAAAGATTCAAGATTTGAAAATTTCA
Found at i:7898458 original size:24 final size:23
Alignment explanation
Indices: 7898431--7898514 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
7898421 AAATTCAAAG
*
7898431 ATTCTCATTCAAAAAATTTTACGA
1 ATTCACATTCAAAAAATTTTA-GA
*
7898455 ATTCACA-TC-CAAAATTTTA-A
1 ATTCACATTCAAAAAATTTTAGA
*
7898475 AGGTTCACATTTAAAAAATTTTAGGA
1 A--TTCACATTCAAAAAATTTTA-GA
*
7898501 ATTCACATCCAAAA
1 ATTCACATTCAAAA
7898515 TTTCAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 2 0.04
22 15 0.31
23 3 0.06
24 26 0.54
26 2 0.04
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (23 bp):
ATTCACATTCAAAAAATTTTAGA
Found at i:7898471 original size:22 final size:21
Alignment explanation
Indices: 7898443--7898517 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 21
7898433 TCTCATTCAA
7898443 AAAATTTTACGAATTCACATCC
1 AAAATTTTA-GAATTCACATCC
**
7898465 AAAATTTTA-AAGGTTCACATTTAA
1 AAAATTTTAGAA--TTCACA--TCC
7898489 AAAATTTTAGGAATTCACATCC
1 AAAATTTTA-GAATTCACATCC
7898511 AAAATTT
1 AAAATTT
7898518 CAAATATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.05
22 23 0.53
24 16 0.37
26 2 0.05
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATTTTAGAATTCACATCC
Found at i:7898491 original size:46 final size:45
Alignment explanation
Indices: 7898329--7898576 Score: 213
Period size: 46 Copynumber: 5.5 Consensus size: 45
7898319 GATTCATAGT
* *
7898329 CAAAATTTCAAAGA-T-GCATGTTCAAAAATTTTAGAAATTCACATC
1 CAAAATTTCAAAGATTCACAT-TTAAAAAATTTTAG-AATTCACATC
* * * * * **
7898374 CAATA-TTCAAAGGTTCGCA-ATAAAAAATCTTAGAGATTTGCATC
1 CAAAATTTCAAAGATTCACATTTAAAAAATTTTAGA-ATTCACATC
* * * *
7898418 AAAAAATTCAAAGATTCTCATTCAAAAAATTTTACGAATTCACATC
1 CAAAATTTCAAAGATTCACATTTAAAAAATTTTA-GAATTCACATC
* *
7898464 CAAAATTTTAAAGGTTCACATTTAAAAAATTTTAGGAATTCACATC
1 CAAAATTTCAAAGATTCACATTTAAAAAATTTTA-GAATTCACATC
* *
7898510 CAAAATTTCAAATATTCACATTT-GAAAATTTCATAG-ATTCACATC
1 CAAAATTTCAAAGATTCACATTTAAAAAATTT--TAGAATTCACATC
* *
7898555 TAAAGTTT-AAAGATTCACATTT
1 CAAAATTTCAAAGATTCACATTT
7898577 GAAACTTAAA
Statistics
Matches: 165, Mismatches: 30, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.01
44 41 0.25
45 39 0.24
46 80 0.48
47 4 0.02
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (45 bp):
CAAAATTTCAAAGATTCACATTTAAAAAATTTTAGAATTCACATC
Found at i:7898541 original size:23 final size:23
Alignment explanation
Indices: 7898511--7898718 Score: 137
Period size: 21 Copynumber: 9.3 Consensus size: 23
7898501 ATTCACATCC
7898511 AAAATTTCAAATATTCACATTTG
1 AAAATTTCAAATATTCACATTTG
* * *
7898534 AAAATTTCATAGATTCACATCT-
1 AAAATTTCAAATATTCACATTTG
* *
7898556 AAAGTTT-AAAGATTCACATTTG
1 AAAATTTCAAATATTCACATTTG
* * *
7898578 -AAACTT-AAATATTCTCATTTA
1 AAAATTTCAAATATTCACATTTG
* * * *
7898599 AAAATTTTAGAGATTCACATAT-
1 AAAATTTCAAATATTCACATTTG
* *
7898621 AAAA-TTCAAATATTTATATTTG
1 AAAATTTCAAATATTCACATTTG
*
7898643 AAAAAAATTT-AAATATTCACATCT-
1 ---AAAATTTCAAATATTCACATTTG
* * **
7898667 AAAA-TTCAAAGATTCGCATTCA
1 AAAATTTCAAATATTCACATTTG
* *
7898689 AAAAGTTCAAATATTCTCATTTG
1 AAAATTTCAAATATTCACATTTG
7898712 AAAATTT
1 AAAATTT
7898719 TTGAGATTCT
Statistics
Matches: 140, Mismatches: 34, Indels: 22
0.71 0.17 0.11
Matches are distributed among these distances:
20 2 0.01
21 53 0.38
22 19 0.14
23 49 0.35
25 15 0.11
26 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.38
Consensus pattern (23 bp):
AAAATTTCAAATATTCACATTTG
Found at i:7898570 original size:21 final size:22
Alignment explanation
Indices: 7898455--7898718 Score: 108
Period size: 21 Copynumber: 11.8 Consensus size: 22
7898445 AATTTTACGA
* *
7898455 ATTCACATCCAAAATTTTAAAG
1 ATTCACATCTAAAATTTCAAAG
* * * *
7898477 GTTCACATTTAAAAAATTT-TAGG
1 ATTCACATCT--AAAATTTCAAAG
* *
7898500 AATTCACATCCAAAATTTCAAAT
1 -ATTCACATCTAAAATTTCAAAG
* *
7898523 ATTCACATTTGAAAATTTCATAG
1 ATTCACATCT-AAAATTTCAAAG
*
7898546 ATTCACATCTAAAGTTT-AAAG
1 ATTCACATCTAAAATTTCAAAG
* * * *
7898567 ATTCACATTTGAAACTT-AAAT
1 ATTCACATCTAAAATTTCAAAG
* * * *
7898588 ATTCTCATTTAAAAATTTTAGAG
1 ATTCACATCT-AAAATTTCAAAG
* *
7898611 ATTCACATATAAAA-TTCAAAT
1 ATTCACATCTAAAATTTCAAAG
* * * *
7898632 ATTTATATTTGAAAAAAATTT-AAAT
1 ATTCACATCT----AAAATTTCAAAG
7898657 ATTCACATCTAAAA-TTCAAAG
1 ATTCACATCTAAAATTTCAAAG
* * * *
7898678 ATTCGCATTCAAAAAGTTCAAAT
1 ATTCACA-TCTAAAATTTCAAAG
* *
7898701 ATTCTCATTTGAAAATTT
1 ATTCACATCT-AAAATTT
7898719 TTGAGATTCT
Statistics
Matches: 179, Mismatches: 47, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
20 2 0.01
21 52 0.29
22 44 0.25
23 50 0.28
24 14 0.08
25 15 0.08
26 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (22 bp):
ATTCACATCTAAAATTTCAAAG
Found at i:7898632 original size:44 final size:44
Alignment explanation
Indices: 7898560--7898692 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
7898550 ACATCTAAAG
* * *
7898560 TTTAAAGATTCACATTTGAAACTT-AAATATTCTCATTTAAAAAT
1 TTTAAAGATTCACATAT-AAAATTCAAATATTCTCATTTAAAAAA
* *
7898604 TTTAGAGATTCACATATAAAATTCAAATATT-TATATTTGAAAAAAA
1 TTTAAAGATTCACATATAAAATTCAAATATTCT-CATTT--AAAAAA
* * * * *
7898650 TTTAAATATTCACATCTAAAATTCAAAGATTCGCATTCAAAAA
1 TTTAAAGATTCACATATAAAATTCAAATATTCTCATTTAAAAA
7898693 GTTCAAATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
43 6 0.08
44 31 0.43
46 35 0.49
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (44 bp):
TTTAAAGATTCACATATAAAATTCAAATATTCTCATTTAAAAAA
Found at i:7898642 original size:65 final size:65
Alignment explanation
Indices: 7898519--7898714 Score: 164
Period size: 65 Copynumber: 3.0 Consensus size: 65
7898509 CCAAAATTTC
* * * * *
7898519 AAATATTCACATTTGAAAATTTCATAGATTCACATCTAAAGTTTAAAGATTCACATTTGAAACTT
1 AAATATTCACATTTAAAAATTTCAGAGATTCACATATAAAATTCAAAGATTCACATTTGAAACTT
* * * * *
7898584 AAATATTCTCATTTAAAAATTTTAGAGATTCACATATAAAATTCAAATATTTATATTTGAAAAAA
1 AAATATTCACATTTAAAAATTTCAGAGATTCACATATAAAATTCAAAGATTCACATTTG----AA
*
7898649 ATTT
62 ACTT
* * * * *
7898653 AAATATTCACATCT-AAAA-TTCAAAGATTCGCAT-TCAAAAAGTTCAAATATTCTCATTTGAAA
1 AAATATTCACATTTAAAAATTTCAGAGATTCACATAT--AAAA-TTCAAAGATTCACATTTGAAA
7898715 ATTTTTGAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
65 52 0.50
66 1 0.01
67 12 0.11
68 8 0.08
69 32 0.30
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (65 bp):
AAATATTCACATTTAAAAATTTCAGAGATTCACATATAAAATTCAAAGATTCACATTTGAAACTT
Found at i:7903787 original size:44 final size:44
Alignment explanation
Indices: 7903709--7903831 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
7903699 ATGCCAATCC
* * *
7903709 AAATAATCAAATAAATTAGTACACATGAAAAATCAAAATCTACA
1 AAATAAACAAATAAATTAATACACATGAAAAATCAAAAGCTACA
* * *
7903753 TAATAAACAAATAAATTAATACGCAT-AAAGAATCATAAGCTACA
1 AAATAAACAAATAAATTAATACACATGAAA-AATCAAAAGCTACA
** * *
7903797 AAATAAACAAATAGGTTAGTCCACATGAAAAATCA
1 AAATAAACAAATAAATTAATACACATGAAAAATCA
7903832 CAAATAATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 3 0.05
44 59 0.91
45 3 0.05
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.22
Consensus pattern (44 bp):
AAATAAACAAATAAATTAATACACATGAAAAATCAAAAGCTACA
Found at i:7906136 original size:12 final size:12
Alignment explanation
Indices: 7906119--7906154 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7906109 GACATGTAAG
7906119 ATTTTGAAAAAC
1 ATTTTGAAAAAC
*
7906131 ATTTTGAAAAAT
1 ATTTTGAAAAAC
7906143 ATTTTGAAAAAC
1 ATTTTGAAAAAC
7906155 TCCCCCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (12 bp):
ATTTTGAAAAAC
Found at i:7907358 original size:129 final size:129
Alignment explanation
Indices: 7907128--7907387 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 129
7907118 TGATAATAGT
7907128 AATATTTCCTAAGCTATCCTATCCAAACAAGAACAAAAAGCTCATATGCATTTAATAAAACATGA
1 AATATTTCCTAAGCTATCCTATCCAAACAAGAACAAAAAGCTCATATGCATTTAATAAAACATGA
*
7907193 ATACTAATGAGCAATAAGGTTCAATTATCATCATGTCATAACAAAGATTATTCAAGTATTTTCC
66 ATACTAATGAGCAATAAGGTTCAATTATCATCATGTCATAACAAAGATTATTCAAGCATTTTCC
7907257 AATATTTCCTAAGCTATCCTATCCAAACAAGAACAAAAAGCTCATATGCATTTAATAAAACATGA
1 AATATTTCCTAAGCTATCCTATCCAAACAAGAACAAAAAGCTCATATGCATTTAATAAAACATGA
7907322 ATACTAATGAGCAATAAGGTTCAATTATCATCATGTCATAACAAAGATTATTCAAGCATTTTCC
66 ATACTAATGAGCAATAAGGTTCAATTATCATCATGTCATAACAAAGATTATTCAAGCATTTTCC
7907386 AA
1 AA
7907388 ACATGATGAA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (129 bp):
AATATTTCCTAAGCTATCCTATCCAAACAAGAACAAAAAGCTCATATGCATTTAATAAAACATGA
ATACTAATGAGCAATAAGGTTCAATTATCATCATGTCATAACAAAGATTATTCAAGCATTTTCC
Found at i:7919239 original size:14 final size:15
Alignment explanation
Indices: 7919216--7919253 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
7919206 ATGCAAATAT
7919216 AAAAAA-AATCATG-
1 AAAAAATAATCATGC
7919229 AAAAAATAATCATGC
1 AAAAAATAATCATGC
7919244 AAATAAATAA
1 AAA-AAATAA
7919254 AATCCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 3 0.14
16 6 0.27
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAAATAATCATGC
Found at i:7922904 original size:24 final size:24
Alignment explanation
Indices: 7922877--7922926 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
7922867 GATAATCTAA
*
7922877 AACATGACAT-AATAATACGATATG
1 AACATGACATGAA-AATAAGATATG
*
7922901 AACATGATATGAAAATAAGATATG
1 AACATGACATGAAAATAAGATATG
7922925 AA
1 AA
7922927 AGTGATGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (24 bp):
AACATGACATGAAAATAAGATATG
Found at i:7936177 original size:16 final size:16
Alignment explanation
Indices: 7936148--7936190 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
7936138 TTCTATTTAT
*
7936148 ATTTGTTTTATGTTTTG
1 ATTT-TTTTTTGTTTTG
7936165 ATTTTTTTTTGTTTTG
1 ATTTTTTTTTGTTTTG
7936181 ATTTTATTTT
1 ATTTT-TTTT
7936191 ATCATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (16 bp):
ATTTTTTTTTGTTTTG
Found at i:7936880 original size:13 final size:13
Alignment explanation
Indices: 7936862--7936891 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7936852 TATAAAAACC
7936862 ATAATAATAACAA
1 ATAATAATAACAA
7936875 ATAATAATAACAA
1 ATAATAATAACAA
7936888 ATAA
1 ATAA
7936892 AATGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAATAATAACAA
Found at i:7942620 original size:27 final size:27
Alignment explanation
Indices: 7942581--7942640 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
7942571 CCCGATTACT
* *
7942581 TCATTTTCAACCTTGATTCAATCTATG
1 TCATTTTCAACCTCGATTCAATCTAGG
* * *
7942608 TCATTTTCGACCTCGGTTCAGTCTAGG
1 TCATTTTCAACCTCGATTCAATCTAGG
7942635 TCATTT
1 TCATTT
7942641 AATTTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (27 bp):
TCATTTTCAACCTCGATTCAATCTAGG
Found at i:7942746 original size:63 final size:63
Alignment explanation
Indices: 7942624--7942751 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 63
7942614 TCGACCTCGG
* * * * *
7942624 TTCAGTCTAGGTCATTTAATTTTTTAATTTGTAGTTTAATCTCGATCATATTATCGACCTTAA
1 TTCAGTCTAGGTCATTTAATTTTTTAACTTATAGTTCAATCTCGATCATATTATAGACCTAAA
* * *
7942687 TTCAGTCTTGGTCATTTAATTTTTTGACTTATGGTTCAATCTCGATCAT-TTCATAGACCTAAA
1 TTCAGTCTAGGTCATTTAATTTTTTAACTTATAGTTCAATCTCGATCATATT-ATAGACCTAAA
7942750 TT
1 TT
7942752 TAGACCATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 2 0.04
63 54 0.96
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.47
Consensus pattern (63 bp):
TTCAGTCTAGGTCATTTAATTTTTTAACTTATAGTTCAATCTCGATCATATTATAGACCTAAA
Found at i:7942967 original size:29 final size:29
Alignment explanation
Indices: 7942917--7942984 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
7942907 TTAATTCTGA
*
7942917 TCATTTCATTAACATTAGTTTAGTCTAAG
1 TCATTTCATTAACATTAGTTTAGTCCAAG
* *
7942946 TCATTTCATTAAC-TTCGATTTAGTCCAGG
1 TCATTTCATTAACATTAG-TTTAGTCCAAG
*
7942975 TCATGTCATT
1 TCATTTCATT
7942985 TCATCAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (29 bp):
TCATTTCATTAACATTAGTTTAGTCCAAG
Found at i:7943055 original size:35 final size:34
Alignment explanation
Indices: 7942945--7943055 Score: 107
Period size: 34 Copynumber: 3.2 Consensus size: 34
7942935 TTTAGTCTAA
* * * * *
7942945 GTCATTTCATTAACTTCGATTTAGTCCAGGTCAT
1 GTCATTTTATCAACTTCGGTTTAGTCCAAGTTAT
* * *
7942979 GTCATTTCATCAACTTTGGTTTAGTCCAA-TTCAG
1 GTCATTTTATCAACTTCGGTTTAGTCCAAGTT-AT
* *
7943013 GTTATTTTATCACCTTACGGTTTAGTCCAAGTTAT
1 GTCATTTTATCAACTT-CGGTTTAGTCCAAGTTAT
7943048 GTCATTTT
1 GTCATTTT
7943056 CAGATTTACA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
33 1 0.02
34 39 0.63
35 20 0.32
36 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (34 bp):
GTCATTTTATCAACTTCGGTTTAGTCCAAGTTAT
Found at i:7943351 original size:37 final size:38
Alignment explanation
Indices: 7943253--7943399 Score: 115
Period size: 34 Copynumber: 3.9 Consensus size: 38
7943243 CAGAATATTC
* *
7943253 TTTTAAAGTGTCATAGCCTCTGGTTAAAGAAGGTTTTTAT
1 TTTTAAAATGTCATAGCCTCTGGTTAAAGGA-G-TTTTAT
* * * *
7943293 TATTTAAAAAGTATTATAGCCTCTAGTTAGAGGAGTTTTA-
1 T-TTT-AAAA-TGTCATAGCCTCTGGTTAAAGGAGTTTTAT
*
7943333 TTTTAAAATGTCATAGCCTCCGGTTAAAGGAG---T-T
1 TTTTAAAATGTCATAGCCTCTGGTTAAAGGAGTTTTAT
* * * *
7943367 TCTTAAAATATCATAGCCTTTGGTTAAAAGAGT
1 TTTTAAAATGTCATAGCCTCTGGTTAAAGGAGT
7943400 CTTTCAAAGT
Statistics
Matches: 86, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
34 28 0.33
37 19 0.22
38 4 0.05
39 3 0.03
40 2 0.02
41 8 0.09
42 4 0.05
43 18 0.21
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (38 bp):
TTTTAAAATGTCATAGCCTCTGGTTAAAGGAGTTTTAT
Found at i:7944795 original size:6 final size:6
Alignment explanation
Indices: 7944784--7944810 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7944774 GAATGTAAGA
7944784 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
7944811 ATATTTTGAT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:7945547 original size:10 final size:10
Alignment explanation
Indices: 7945523--7945556 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7945513 ATTTTTAAAT
*
7945523 AATAATAA-T
1 AATAATAACA
7945532 AATAATAACA
1 AATAATAACA
7945542 AATAATAACA
1 AATAATAACA
7945552 AATAA
1 AATAA
7945557 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAATAACA
Found at i:7946580 original size:14 final size:15
Alignment explanation
Indices: 7946561--7946593 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7946551 TTATTTAATA
7946561 ATTTTTTAAAAATT-
1 ATTTTTTAAAAATTG
*
7946575 ATTTTTTCAAAATTG
1 ATTTTTTAAAAATTG
7946590 ATTT
1 ATTT
7946594 ATACTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTTTTAAAAATTG
Found at i:7950798 original size:5 final size:5
Alignment explanation
Indices: 7950788--7950816 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
7950778 GTGTATGTTG
7950788 ATTTT ATTTT ATTTT ATTTT ATTTT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
7950817 GGTGGGGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
ATTTT
Found at i:7956460 original size:3 final size:3
Alignment explanation
Indices: 7956452--7956477 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7956442 ATTCTGTTTA
7956452 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7956478 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7957406 original size:25 final size:25
Alignment explanation
Indices: 7957352--7957407 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
7957342 TTCTATTTTA
* *
7957352 ATTTTATTTTATTTCTTTTGTGTTT
1 ATTTTATGTTATTTCTTTTGTATTT
7957377 ATTTTATGTTATTT-TTTATGCTATTT
1 ATTTTATGTTATTTCTTT-TG-TATTT
7957403 -TTTTA
1 ATTTTA
7957408 ATATTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (25 bp):
ATTTTATGTTATTTCTTTTGTATTT
Found at i:7957429 original size:16 final size:16
Alignment explanation
Indices: 7957374--7957431 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
7957364 TTCTTTTGTG
*
7957374 TTTATTTTA-TGTTAT
1 TTTATATTATTGTTAT
*
7957389 TTTTTATGCTATT-TT-T
1 TTTATAT--TATTGTTAT
*
7957405 TTAATATTATTGTTAT
1 TTTATATTATTGTTAT
7957421 TTTATATTATT
1 TTTATATTATT
7957432 TACCAGAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
16 17 0.52
17 4 0.12
18 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTATATTATTGTTAT
Found at i:7957521 original size:3 final size:3
Alignment explanation
Indices: 7957513--7957571 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7957503 TAATATGCAA
7957513 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7957561 AAT AAT AAT AA
1 AAT AAT AAT AA
7957572 CAATTTAAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7957604 original size:21 final size:21
Alignment explanation
Indices: 7957579--7957618 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7957569 TAACAATTTA
7957579 AAGAAAATAAAATT-TTATTAC
1 AAGAAAA-AAAATTGTTATTAC
7957600 AAGAAAAAAAATTGTTATT
1 AAGAAAAAAAATTGTTATT
7957619 TAAATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
AAGAAAAAAAATTGTTATTAC
Found at i:7958065 original size:14 final size:15
Alignment explanation
Indices: 7958040--7958092 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
7958030 AATTTTTTAA
*
7958040 AATAATATAATAAAC
1 AATAAAATAATAAAC
*
7958055 AGT-AAATAAT-AAC
1 AATAAAATAATAAAC
*
7958068 AATAAAATAATAAAA
1 AATAAAATAATAAAC
*
7958083 AATACAATAA
1 AATAAAATAA
7958093 AAATAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 5 0.16
14 13 0.42
15 13 0.42
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.23
Consensus pattern (15 bp):
AATAAAATAATAAAC
Found at i:7958100 original size:15 final size:15
Alignment explanation
Indices: 7958038--7958092 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
7958028 TAAATTTTTT
*
7958038 AAAATAATATAATAA
1 AAAATAAAATAATAA
* *
7958053 ACAGT-AAATAAT-A
1 AAAATAAAATAATAA
*
7958066 ACAATAAAATAATAA
1 AAAATAAAATAATAA
*
7958081 AAAATACAATAA
1 AAAATAAAATAA
7958093 AAATAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 5 0.16
14 13 0.41
15 14 0.44
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAAAATAATAA
Found at i:7960653 original size:19 final size:20
Alignment explanation
Indices: 7960614--7960653 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7960604 ACTCATGAGC
*
7960614 TTTAGGAATTAGAATTTTTT
1 TTTAGGAATAAGAATTTTTT
*
7960634 TTTAGGAATAAGGATTTTTT
1 TTTAGGAATAAGAATTTTTT
7960654 GGAAAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (20 bp):
TTTAGGAATAAGAATTTTTT
Found at i:7970114 original size:73 final size:74
Alignment explanation
Indices: 7970006--7970163 Score: 214
Period size: 73 Copynumber: 2.1 Consensus size: 74
7969996 GTCTGGTTAA
* * *
7970006 AAGAGCCTTTTAACATTTAAAGTTTTTTGCTTTTGGTTAAA-AGAGCCATTTAAAG-TTCATTAC
1 AAGAGCCTTTTAACATTTAAAGTTTTTTGCCTTTGGTGAAATA-AGCCATTTAAAGTTTCATAAC
* *
7970069 TTCTAGTCAT
65 CTCTAGTCAG
7970079 AAGAGCCTTTTAA-ATTTAAAGTTTTATTGCCTTTGGTGAAATAAGCCATTTAAAGTTTCATAAC
1 AAGAGCCTTTTAACATTTAAAGTTTT-TTGCCTTTGGTGAAATAAGCCATTTAAAGTTTCATAAC
*
7970143 CTCTAGTTAG
65 CTCTAGTCAG
*
7970153 AAGAGCGTTTT
1 AAGAGCCTTTT
7970164 TTATTTTAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
72 12 0.16
73 38 0.51
74 25 0.33
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (74 bp):
AAGAGCCTTTTAACATTTAAAGTTTTTTGCCTTTGGTGAAATAAGCCATTTAAAGTTTCATAACC
TCTAGTCAG
Found at i:7970324 original size:33 final size:33
Alignment explanation
Indices: 7970259--7970330 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
7970249 AATCCTTTTA
* * *
7970259 ATTTAAAGTTTATTGCCTTTGGTTAAAGGAGCC
1 ATTTAAAGTTTATTGCCTCTAGTCAAAGGAGCC
* *
7970292 ATTTAAAGTTTATTGCCTCTAGTCAGATGAGCC
1 ATTTAAAGTTTATTGCCTCTAGTCAAAGGAGCC
*
7970325 TTTTAA
1 ATTTAA
7970331 CATTTAAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (33 bp):
ATTTAAAGTTTATTGCCTCTAGTCAAAGGAGCC
Found at i:7970362 original size:40 final size:41
Alignment explanation
Indices: 7970291--7970916 Score: 363
Period size: 40 Copynumber: 16.0 Consensus size: 41
7970281 TTAAAGGAGC
* * * *
7970291 CATTTAAAGTTTATTGCCTCTA-GTCAGATGAGCCTTTTAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* *
7970331 CATTTAAAGTTTGTTG-CTTTAGGTTAAATGAG-C------
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * *
7970364 CATTTAAAGTTCGTTGCCTCTA-GTGAGAGGAGCCTTTTAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
*
7970404 CATTTAAAGTTTGTTGTCTCT-GGTTAAAGGAG-CTTTATAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTT-TAA
* * * * ** * **
7970444 -ATTTAAAGTTTGTTACCCCT-GATTAGATAAGCTTTTTTC
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * * *
7970483 CATTTAAAGTTCGTTGTCTCTA--TCAAAAGAG-CTTTCTAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTT-TAA
** * * * *
7970522 -ATTTAAAGTTAATTACCT-TTGGTTAAAGAAGCCTTCTAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* **
7970561 -ATTTAAAGTTTGTTGCCTCTA-GTTAGAGGAGCCTTTTGC
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * *
7970600 CATTTAAAATTTGTTACCATC--GGTTAAAGGAGCCTTCTAA
1 CATTTAAAGTTTGTTGCC-TCTAGGTTAAAGGAGCCTTTTAA
* * **
7970640 -ATTTATAA-TTTATTGCCTCT-GGTTAGAGGAGCCTTTTGC
1 CATTTA-AAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * * *
7970679 CATTTAAAATTTGTTACCT-TCA-GTTAAAGGAGCCTTCTGA
1 CATTTAAAGTTTGTTGCCTCT-AGGTTAAAGGAGCCTTTTAA
*
7970719 -ATTTAAAGTTTGTTGCCTCT-GGTTAAAGGAGCATTTTAA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * * * *
7970758 CATTTAAAGTTTGTTACCT-TTGGTTAGAGAAGCCTTTTGA
1 CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * * * **
7970798 -ATTTAAAGTTTTGTTGCCTTTA-GCTAGAGAAG-CTTTTTG
1 CATTTAAAG-TTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
* * * *
7970837 TATTTAAAGTTTCATTGCTTCTA-GTCAGAA-GAGCCTTTTAA
1 CATTTAAAGTTT-GTTGCCTCTAGGTTA-AAGGAGCCTTTTAA
* *
7970878 CATTTAAAGTTTTGTCGCCTCTA-GTTAAAGGAGCTTTTT
1 CATTTAAAG-TTTGTTGCCTCTAGGTTAAAGGAGCCTTTT
7970917 TAAATTTTCA
Statistics
Matches: 447, Mismatches: 99, Indels: 79
0.72 0.16 0.13
Matches are distributed among these distances:
33 22 0.05
34 5 0.01
37 1 0.00
38 19 0.04
39 155 0.35
40 207 0.46
41 35 0.08
42 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (41 bp):
CATTTAAAGTTTGTTGCCTCTAGGTTAAAGGAGCCTTTTAA
Found at i:7970369 original size:73 final size:73
Alignment explanation
Indices: 7970252--7970436 Score: 268
Period size: 73 Copynumber: 2.6 Consensus size: 73
7970242 TTTTCTCAAT
* *
7970252 CCTTTT-A-ATTTAAAGTTTATTGCCTTTGGTTAAAGGAGCCATTTAAAGTTTATTGCCTCTAGT
1 CCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCCATTTAAAGTTCATTGCCTCTAGT
*
7970315 CAGATGAG
66 CAGAGGAG
* *
7970323 CCTTTTAACATTTAAAGTTTGTTG-CTTTAGGTTAAATGAGCCATTTAAAGTTCGTTGCCTCTAG
1 CCTTTTAACATTTAAAGTTTGTTGCCTTT-GGTTAAAGGAGCCATTTAAAGTTCATTGCCTCTAG
*
7970387 TGAGAGGAG
65 TCAGAGGAG
* *
7970396 CCTTTTAACATTTAAAGTTTGTTGTCTCTGGTTAAAGGAGC
1 CCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
7970437 TTTATAAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
71 6 0.06
72 5 0.05
73 88 0.86
74 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (73 bp):
CCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCCATTTAAAGTTCATTGCCTCTAGT
CAGAGGAG
Found at i:7970625 original size:79 final size:79
Alignment explanation
Indices: 7970534--7970916 Score: 387
Period size: 79 Copynumber: 4.8 Consensus size: 79
7970524 TTAAAGTTAA
*
7970534 TTACCTTTGGTTAAAGAAGCCTTCTAAATTTAAAGTTTGTTGCCTCTAGTTAGAGGAGCCTTTTG
1 TTACCTTCGGTTAAAGAAGCCTTCTAAATTTAAAGTTTGTTGCCTCTAGTTAGAGGAGCCTTTTG
7970599 CCATTTAAAATTTG
66 CCATTTAAAATTTG
* * * *
7970613 TTACCATCGGTTAAAGGAGCCTTCTAAATTTATAA-TTTATTGCCTCTGGTTAGAGGAGCCTTTT
1 TTACCTTCGGTTAAAGAAGCCTTCTAAATTTA-AAGTTTGTTGCCTCTAGTTAGAGGAGCCTTTT
7970677 GCCATTTAAAATTTG
65 GCCATTTAAAATTTG
* * * * * * *
7970692 TTACCTTCAGTTAAAGGAGCCTTCTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGGAGCATTTTA
1 TTACCTTCGGTTAAAGAAGCCTTCTAAATTTAAAGTTTGTTGCCTCTAGTTAGAGGAGCCTTTTG
* *
7970757 ACATTTAAAGTTTG
66 CCATTTAAAATTTG
* * * * * * * *
7970771 TTACCTTTGGTTAGAGAAGCCTTTTGAATTTAAAGTTTTGTTGCCTTTAGCTAGAGAAGCTTTTT
1 TTACCTTCGGTTAAAGAAGCCTTCTAAATTTAAAG-TTTGTTGCCTCTAGTTAGAGGAGCCTTTT
* * *
7970836 G-TATTTAAAGTTTCA
65 GCCATTTAAAATTT-G
* * * * * * *
7970851 TT-GCTTCTAGTCAGAAG-AGCCTTTTAACATTTAAAGTTTTGTCGCCTCTAGTTAAAGGAGCTT
1 TTACCTTC-GGTTA-AAGAAGCCTTCTAA-ATTTAAAG-TTTGTTGCCTCTAGTTAGAGGAGCCT
7970914 TTT
62 TTT
7970917 TAAATTTTCA
Statistics
Matches: 258, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.01
79 182 0.71
80 39 0.15
81 35 0.14
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (79 bp):
TTACCTTCGGTTAAAGAAGCCTTCTAAATTTAAAGTTTGTTGCCTCTAGTTAGAGGAGCCTTTTG
CCATTTAAAATTTG
Found at i:7971139 original size:3 final size:3
Alignment explanation
Indices: 7971131--7971171 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7971121 ATTTTGTTTA
7971131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7971172 AAAAAGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7972018 original size:25 final size:25
Alignment explanation
Indices: 7971984--7972047 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
7971974 GTTTTTCTTT
* *
7971984 TTTTTTTTTTCTATTTTGATTTTGA
1 TTTTATTTTTCTATGTTGATTTTGA
* * *
7972009 TTTTATTTTTTTGTGTTGATTTTTA
1 TTTTATTTTTCTATGTTGATTTTGA
*
7972034 TGTTATTTTT-TATG
1 TTTTATTTTTCTATG
7972048 CTATTTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.12, C:0.02, G:0.11, T:0.75
Consensus pattern (25 bp):
TTTTATTTTTCTATGTTGATTTTGA
Found at i:7972151 original size:13 final size:13
Alignment explanation
Indices: 7972125--7972179 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 13
7972115 ATTCTTTTAT
* *
7972125 AAATAAATCAAAA
1 AAATAAAACTAAA
7972138 AAATAAAACT-AA
1 AAATAAAACTAAA
*
7972150 AACTAAAA-TAAA
1 AAATAAAACTAAA
* *
7972162 ATATAAACCTAAA
1 AAATAAAACTAAA
7972175 AAATA
1 AAATA
7972180 TAACAAGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 1 0.03
12 16 0.48
13 16 0.48
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAAAACTAAA
Found at i:7972157 original size:17 final size:18
Alignment explanation
Indices: 7972137--7972175 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
7972127 ATAAATCAAA
7972137 AAAATAAAACTA-AAA-CT
1 AAAATAAAA-TATAAACCT
7972154 AAAATAAAATATAAACCT
1 AAAATAAAATATAAACCT
7972172 AAAA
1 AAAA
7972176 AATATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATAAAATATAAACCT
Found at i:7972168 original size:18 final size:17
Alignment explanation
Indices: 7972137--7972175 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7972127 ATAAATCAAA
*
7972137 AAAATAAAACTAAAACT
1 AAAATAAAAATAAAACT
*
7972154 AAAATAAAATATAAACCT
1 AAAATAAAA-ATAAAACT
7972172 AAAA
1 AAAA
7972176 AATATAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAAAACT
Found at i:7973034 original size:3 final size:3
Alignment explanation
Indices: 7973026--7973051 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7973016 ATAGAATATG
7973026 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7973052 CGTTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7974202 original size:3 final size:3
Alignment explanation
Indices: 7974194--7974235 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7974184 TACCATGGGG
7974194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7974236 CTATGTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7975014 original size:24 final size:24
Alignment explanation
Indices: 7974968--7975015 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7974958 ATATTTATAA
* * *
7974968 AAAAATTATTTAAATATACAAATT
1 AAAAATAATTTAAAAAAACAAATT
*
7974992 AAAAATAATTTAAAAAAATAAATT
1 AAAAATAATTTAAAAAAACAAATT
7975016 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAATAATTTAAAAAAACAAATT
Found at i:7980845 original size:32 final size:32
Alignment explanation
Indices: 7980809--7980873 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7980799 TGAGTGTCAT
7980809 CAAACCAATTATTATTTACCTTTCCCAGCACC
1 CAAACCAATTATTATTTACCTTTCCCAGCACC
*
7980841 CAAACCAATTATTATTTACCTTTTCCAGCACC
1 CAAACCAATTATTATTTACCTTTCCCAGCACC
7980873 C
1 C
7980874 TAAATAGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.32
Consensus pattern (32 bp):
CAAACCAATTATTATTTACCTTTCCCAGCACC
Found at i:7984695 original size:39 final size:39
Alignment explanation
Indices: 7984636--7984710 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
7984626 CCTAAAATCC
7984636 CAAAATCATGAAAACCTAAAACACTAAAATACCAAACCT
1 CAAAATCATGAAAACCTAAAACACTAAAATACCAAACCT
* ** *
7984675 CAAAATCCT-AAAACCTTAAAACTTTAAAATCCCAAA
1 CAAAATCATGAAAACC-TAAAACACTAAAATACCAAA
7984711 ACCCCAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 6 0.19
39 25 0.81
ACGTcount: A:0.55, C:0.25, G:0.01, T:0.19
Consensus pattern (39 bp):
CAAAATCATGAAAACCTAAAACACTAAAATACCAAACCT
Found at i:7997321 original size:104 final size:105
Alignment explanation
Indices: 7997163--7997439 Score: 255
Period size: 104 Copynumber: 2.7 Consensus size: 105
7997153 ATAACTTGTG
* * *
7997163 GCTCAATCCCGATTATTTTCATTCTCTGACTTATGGCTTAGTCTTAGTCATCTTTATTTCTTGAC
1 GCTCAATCCCGATCATTTTCATTCTCTAACTTATGGCTTAGTCTTAGTCATCTTTATTTCCTGAC
* * * *
7997228 TCACGATTGAGTCCCAGTTATCTTTATTTTTCAACTTGCA
66 TCACGAGTAAGTACCAGTCATCTTTATTTTTCAACTTGCA
* * *
7997268 GCTC-ATCTCGATCATTTTTATTCTCTAACTTACT-GCTTAGT-TCTGGTCATCTTTATTTCCTG
1 GCTCAATCCCGATCATTTTCATTCTCTAACTTA-TGGCTTAGTCT-TAGTCATCTTTATTTCCTG
* * *
7997330 ACTTACGAGTAAGTATCAGTCATCTTTATTTTTCTACTATG--
64 ACTCACGAGTAAGTACCAGTCATCTTTATTTTTCAACT-TGCA
* * * * * * * * *
7997371 GGTC-AGCTC-AGTCATTTTCATTCTCTGACTTGTGGTTTAG-CTTCGATCATCTTTATTTTCTA
1 GCTCAATCCCGA-TCATTTTCATTCTCTAACTTATGGCTTAGTCTTAG-TCATCTTTATTTCCTG
7997433 ACTCACG
64 ACTCACG
7997440 GTTCTATCTC
Statistics
Matches: 142, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
102 4 0.03
103 52 0.37
104 79 0.56
105 7 0.05
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (105 bp):
GCTCAATCCCGATCATTTTCATTCTCTAACTTATGGCTTAGTCTTAGTCATCTTTATTTCCTGAC
TCACGAGTAAGTACCAGTCATCTTTATTTTTCAACTTGCA
Found at i:7997526 original size:29 final size:29
Alignment explanation
Indices: 7997482--7997537 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7997472 ACAGTCCTAA
* *
7997482 TCATTTTTATTCTCTGACTTATAGCTCTG
1 TCATTTTCATTATCTGACTTATAGCTCTG
*
7997511 TCATTTTCATTATCTGACTTATGGCTC
1 TCATTTTCATTATCTGACTTATAGCTC
7997538 AATCTCGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (29 bp):
TCATTTTCATTATCTGACTTATAGCTCTG
Found at i:7999767 original size:3 final size:3
Alignment explanation
Indices: 7999754--7999802 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
7999744 CTTTATGCAA
7999754 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7999800 AAT
1 AAT
7999803 TTTTTAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:8000031 original size:18 final size:19
Alignment explanation
Indices: 8000008--8000046 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
7999998 CTTTTCAAAA
*
8000008 AAATTAATTTAAA-ATAAT
1 AAATTAATTAAAATATAAT
8000026 AAATTAATTAAAATATAAT
1 AAATTAATTAAAATATAAT
8000045 AA
1 AA
8000047 TAATGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTAATTAAAATATAAT
Found at i:8000968 original size:34 final size:33
Alignment explanation
Indices: 8000910--8000993 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 33
8000900 TCATTTTTAT
* *
8000910 TTTTATTATTTGTCTATTTATTAATATATATATATA
1 TTTTATT-TTT-TTTATCTATTAATATATATAT-TA
* *
8000946 TTTTATTTTTTTTATCTATTAATATTTTTATTA
1 TTTTATTTTTTTTATCTATTAATATATATATTA
8000979 -TTTATTTGTTTTTAT
1 TTTTATTT-TTTTTAT
8000994 TTTTTATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 7 0.16
33 9 0.21
34 17 0.40
35 3 0.07
36 7 0.16
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (33 bp):
TTTTATTTTTTTTATCTATTAATATATATATTA
Found at i:8000990 original size:16 final size:15
Alignment explanation
Indices: 8000947--8001013 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
8000937 ATATATATAT
8000947 TTTATTTTTTTTATCTA
1 TTTA-TTTTTTTAT-TA
* *
8000964 TTAATATTTTTATTA
1 TTTATTTTTTTATTA
*
8000979 TTTATTTGTTT-TTA
1 TTTATTTTTTTATTA
8000993 TTT-TTTATTATTATTA
1 TTTATTT-TT-TTATTA
8001009 TTTAT
1 TTTAT
8001014 CTATTTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 3 0.08
14 7 0.17
15 12 0.30
16 14 0.35
17 4 0.10
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTATTA
Found at i:8001018 original size:17 final size:17
Alignment explanation
Indices: 8000998--8001067 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
8000988 TTTTATTTTT
8000998 TATTATTATTATTTATC
1 TATTATTATTATTTATC
*
8001015 TATT-TCTTTTATTTATC
1 TATTAT-TATTATTTATC
* *
8001032 TAATTATTTTTTTGTTATC
1 T-ATTATTATTAT-TTATC
*
8001051 TATTAATA-TATTTATC
1 TATTATTATTATTTATC
8001067 T
1 T
8001068 TTTTTATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
16 7 0.16
17 17 0.39
18 13 0.30
19 7 0.16
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTTATC
Found at i:8001030 original size:30 final size:30
Alignment explanation
Indices: 8000968--8001039 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 30
8000958 TATCTATTAA
* * * *
8000968 TATTTTTATTATTTATTTGTTTTTATTTTT
1 TATTATTATTATTTATCTATTTCTATTTTT
8000998 TATTATTATTATTTATCTATTTCT-TTTATT
1 TATTATTATTATTTATCTATTTCTATTT-TT
8001028 TATCTAATTATT
1 TAT-T-ATTATT
8001040 TTTTTGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 3 0.09
30 25 0.71
31 1 0.03
32 6 0.17
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (30 bp):
TATTATTATTATTTATCTATTTCTATTTTT
Found at i:8001087 original size:91 final size:91
Alignment explanation
Indices: 8000903--8001087 Score: 207
Period size: 91 Copynumber: 2.0 Consensus size: 91
8000893 TTGGCTTTCA
* * *
8000903 TTTTTATTTTTATTATTTGTCTATTTATTAATATATATATATATTTTATTTTTTTTATCTATTAA
1 TTTTTATTATTATTATTTATCTATTTATTAATATATATATATATTTTATTTTTGTTATCTATTAA
* *
8000968 TATTTTTATTATTTATTTGTTTTTAT
66 TATTTTTATTATTTATTTGTGTTAAT
* * * *
8000994 TTTTTATTATTATTATTTATCTATTTCTT-TTATTTATCTA-ATTATT-TTTTTGTTATCTATTA
1 TTTTTATTATTATTATTTATCTATTTATTAATATATATATATATT-TTATTTTTGTTATCTATTA
* *
8001056 ATATATTTATCTTTTTTATTT-TGGTTAAT
65 ATAT-TTT-TATTATTTATTTGT-GTTAAT
8001085 TTT
1 TTT
8001088 CGGTTAAGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
89 22 0.28
90 14 0.18
91 43 0.54
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.70
Consensus pattern (91 bp):
TTTTTATTATTATTATTTATCTATTTATTAATATATATATATATTTTATTTTTGTTATCTATTAA
TATTTTTATTATTTATTTGTGTTAAT
Found at i:8002561 original size:53 final size:54
Alignment explanation
Indices: 8002460--8002561 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 54
8002450 CCAAGGAAAA
*
8002460 AAAAGAAAAAGAAAATTTCTAAATAGACCCAAATAGTGGAAATTTTAGAAATTC
1 AAAAGAAAAAGAAAATTTCTAAATAGACCCAAATAGTGGAAATGTTAGAAATTC
* * * *
8002514 AAAAGAAAAA-AATATTTCTAATTTGACCCAAATGGTGG-AATAGTTAGA
1 AAAAGAAAAAGAAAATTTCTAAATAGACCCAAATAGTGGAAAT-GTTAGA
8002562 TTTATTTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.07
53 29 0.69
54 10 0.24
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (54 bp):
AAAAGAAAAAGAAAATTTCTAAATAGACCCAAATAGTGGAAATGTTAGAAATTC
Found at i:8008191 original size:17 final size:18
Alignment explanation
Indices: 8008171--8008206 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
8008161 CTAAAAGATC
8008171 TAAAAAAACAAA-AAAAA
1 TAAAAAAACAAAGAAAAA
8008188 TAAAAAAACAAAGAAAAA
1 TAAAAAAACAAAGAAAAA
8008206 T
1 T
8008207 GCCACAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.08
Consensus pattern (18 bp):
TAAAAAAACAAAGAAAAA
Found at i:8008577 original size:33 final size:32
Alignment explanation
Indices: 8008539--8008623 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
8008529 ATCAACAATG
8008539 GATGAAAGATGAAAAAAAAAAAAGAAAAAAAAT
1 GATGAAAGATGAAAAAAAAAAAAG-AAAAAAAT
* *
8008572 GATGAAAGGTG-GAAAAAAAAAAGAAAAAAAT
1 GATGAAAGATGAAAAAAAAAAAAGAAAAAAAT
* *
8008603 CAAGAAA-ATGAAAAAAAAAAA
1 GATGAAAGATGAAAAAAAAAAA
8008624 GATGAAAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 2 0.04
31 22 0.49
32 11 0.24
33 10 0.22
ACGTcount: A:0.74, C:0.01, G:0.16, T:0.08
Consensus pattern (32 bp):
GATGAAAGATGAAAAAAAAAAAAGAAAAAAAT
Found at i:8008602 original size:31 final size:30
Alignment explanation
Indices: 8008542--8008625 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
8008532 AACAATGGAT
* *
8008542 GAAAGATGAAAAAAAAAAAAGAAAAAAAATGAT
1 GAAA-ATG-AAAAAAAAAAAG-AAAAAAATCAA
* *
8008575 GAAAGGTGGAAAAAAAAAAGAAAAAAATCAA
1 GAAA-ATGAAAAAAAAAAAGAAAAAAATCAA
8008606 GAAAATGAAAAAAAAAAAGA
1 GAAAATGAAAAAAAAAAAGA
8008626 TGAAAGGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.31
31 13 0.29
32 11 0.24
33 7 0.16
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (30 bp):
GAAAATGAAAAAAAAAAAGAAAAAAATCAA
Found at i:8008625 original size:18 final size:17
Alignment explanation
Indices: 8008584--8008625 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
8008574 TGAAAGGTGG
8008584 AAAAAA-AAAAGAAAAA
1 AAAAAAGAAAAGAAAAA
**
8008600 AATCAAGAAAATGAAAAA
1 AAAAAAGAAAA-GAAAAA
8008618 AAAAAAGA
1 AAAAAAGA
8008626 TGAAAGGAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 12 0.60
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAA
Found at i:8010549 original size:41 final size:41
Alignment explanation
Indices: 8010376--8010589 Score: 182
Period size: 41 Copynumber: 5.3 Consensus size: 41
8010366 ATGATTGTTA
* * **
8010376 AGGAGCAATTTATTTTCCAAATTCGTGGTA-CCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGG-AGCCTCTAATTAG
* * * *
8010417 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTAATTAG
* * * * ** *
8010458 AGGAGC-ATTTATTTTT-GAAGTCATGGTGCTTCTTCTTAC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTAATTAG
* * * *
8010497 AGAAACCATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTAATTAG
* * *
8010538 AGGAGCTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTAATTAG
* *
8010579 GGGAGCCATTT
1 AGGAGCAATTT
8010590 CATGGAGCCT
Statistics
Matches: 140, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
39 20 0.14
40 19 0.14
41 101 0.72
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTAATTAG
Found at i:8010882 original size:6 final size:6
Alignment explanation
Indices: 8010871--8010901 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8010861 CCCAATTGGC
*
8010871 TTTTAT TTTTAT TTTCAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T
8010902 ATTGTCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:8010936 original size:32 final size:33
Alignment explanation
Indices: 8010892--8010965 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
8010882 TTTTCATTTT
*
8010892 TATT-TTTATTATTGTCTATTTATTAATATATA
1 TATTATTTATTATTGTCTATCTATTAATATATA
* * * *
8010924 TATTATTT-TTATTTTTTATCTATTAATATTTT
1 TATTATTTATTATTGTCTATCTATTAATATATA
8010956 TATTATTTAT
1 TATTATTTAT
8010966 CTACTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (33 bp):
TATTATTTATTATTGTCTATCTATTAATATATA
Found at i:8010976 original size:23 final size:23
Alignment explanation
Indices: 8010874--8011047 Score: 96
Period size: 23 Copynumber: 7.7 Consensus size: 23
8010864 AATTGGCTTT
* *
8010874 TATTTTTATTTTCATT-TTTAT-
1 TATTATTATTTTTATTATTTATC
* * * *
8010895 TTTTATTATTGTCTATTTATTAATA
1 TATTATTATT-TTTA-TTATTTATC
*
8010920 TATATATTATTTTTATTTTTTATC
1 TAT-TATTATTTTTATTATTTATC
*
8010944 TATTAATATTTTTATTATTTATC
1 TATTATTATTTTTATTATTTATC
* *
8010967 TACTT-TTATTTTTTATTATTAATA
1 TA-TTATTA-TTTTTATTATTTATC
*
8010991 T-TTATCTATTTCTT-TTGTTTATC
1 TATTAT-TATTT-TTATTATTTATC
*
8011014 TA--ATTATTTTT-TT-GTTATC
1 TATTATTATTTTTATTATTTATC
* *
8011033 TATTAATATATTTAT
1 TATTATTATTTTTAT
8011048 CTTTTTTATT
Statistics
Matches: 118, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
19 7 0.06
20 4 0.03
21 20 0.17
22 7 0.06
23 35 0.30
24 33 0.28
25 5 0.04
26 7 0.06
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTATTATTTTTATTATTTATC
Found at i:8011001 original size:47 final size:52
Alignment explanation
Indices: 8010950--8011057 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 52
8010940 TATCTATTAA
*
8010950 TATTTTTATTATTTATCTACTT-TTATTTT-TTAT-TATT-A-ATATTTATC
1 TATTTTTATTATTTATCTAATTATTATTTTGTTATCTATTAATATATTTATC
* *
8010997 TATTTCTT-TTGTTTATCTAATTATTTTTTTGTTATCTATTAATATATTTATC
1 TATTT-TTATTATTTATCTAATTATTATTTTGTTATCTATTAATATATTTATC
8011049 T-TTTTTATT
1 TATTTTTATT
8011058 TTGATTAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
47 17 0.33
48 8 0.16
49 4 0.08
50 6 0.12
51 6 0.12
52 10 0.20
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (52 bp):
TATTTTTATTATTTATCTAATTATTATTTTGTTATCTATTAATATATTTATC
Found at i:8011037 original size:18 final size:21
Alignment explanation
Indices: 8010997--8011034 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
8010987 AATATTTATC
8010997 TATTTCTTTTGTTTATCTAAT
1 TATTTCTTTTGTTTATCTAAT
8011018 TATTT-TTTTG-TTATCTA
1 TATTTCTTTTGTTTATCTA
8011035 TTAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (21 bp):
TATTTCTTTTGTTTATCTAAT
Found at i:8014094 original size:15 final size:17
Alignment explanation
Indices: 8014068--8014110 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
8014058 TTTCATTTTA
*
8014068 ATTATGTTATTTAT-TC
1 ATTATATTATTTATGTC
8014084 ATT-TATTATTTATGTC
1 ATTATATTATTTATGTC
*
8014100 TTTATATTATT
1 ATTATATTATT
8014111 CTTGATAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 7 0.30
17 7 0.30
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
ATTATATTATTTATGTC
Found at i:8014732 original size:18 final size:17
Alignment explanation
Indices: 8014707--8014740 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
8014697 TAACAAGCAT
8014707 AAAAAAAAAAACAAAAA
1 AAAAAAAAAAACAAAAA
8014724 AAAATAAAAAAACAAAA
1 AAAA-AAAAAAACAAAA
8014741 TTTTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAA
Found at i:8014750 original size:16 final size:17
Alignment explanation
Indices: 8014731--8014763 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8014721 AAAAAAATAA
8014731 AAAAACAAA-ATTTTTC
1 AAAAACAAAGATTTTTC
*
8014747 AAAAATAAAGATTTTTC
1 AAAAACAAAGATTTTTC
8014764 TTAAATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAAACAAAGATTTTTC
Found at i:8015165 original size:21 final size:21
Alignment explanation
Indices: 8015139--8015178 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8015129 AATAGATAAT
**
8015139 ACATGCATTTCATGCACATGC
1 ACATGCATCCCATGCACATGC
8015160 ACATGCATCCCATGCACAT
1 ACATGCATCCCATGCACAT
8015179 CTTAATAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (21 bp):
ACATGCATCCCATGCACATGC
Found at i:8020821 original size:16 final size:18
Alignment explanation
Indices: 8020785--8020822 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
8020775 ATTTTTTTTT
8020785 TTTTTGCATTGTAAATTA
1 TTTTTGCATTGTAAATTA
*
8020803 TTTTTG-ATT-TAATTTA
1 TTTTTGCATTGTAAATTA
8020819 TTTT
1 TTTT
8020823 CAATGCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 3 0.16
18 6 0.32
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.66
Consensus pattern (18 bp):
TTTTTGCATTGTAAATTA
Found at i:8020887 original size:15 final size:15
Alignment explanation
Indices: 8020869--8020897 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8020859 TAATAATAAT
8020869 AATAATAAAATTTTC
1 AATAATAAAATTTTC
8020884 AATAATAAAATTTT
1 AATAATAAAATTTT
8020898 AAGAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATAAAATTTTC
Found at i:8020891 original size:3 final size:3
Alignment explanation
Indices: 8020847--8020876 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
8020837 TTCATGCAAA
8020847 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
8020877 AATTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8021146 original size:14 final size:14
Alignment explanation
Indices: 8021127--8021156 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8021117 TGTATCTTTC
*
8021127 AAAAAAATTAAATT
1 AAAAAAACTAAATT
8021141 AAAAAAACTAAATT
1 AAAAAAACTAAATT
8021155 AA
1 AA
8021157 TTAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAACTAAATT
Done.