Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 124 of 160
Found at i:23106756 original size:58 final size:56
Alignment explanation
Indices: 23106633--23106764 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 56
23106623 AATCCAAACC
* ** * ***
23106633 CTTAAATCAAAACCCCAAACCTCAAATTTTAAAACTGAAACCCTAAAATGTTCAAA
1 CTTAAATCAAAACCCTAAACCTCAAAGCTTAAAACTCAAACCCTAAAACCCTCAAA
*
23106689 CTCTAAAATCAAAACCCTAAACCTTCCATAGCTTAAAAC-CAAACCCTAAAACCCTCAAAA
1 CT-T-AAATCAAAACCCTAAACC-T-CAAAGCTTAAAACTCAAACCCTAAAACCCTC-AAA
*
23106749 CTTAAATCCAAACCCT
1 CTTAAATCAAAACCCT
23106765 TAAAATCCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
56 2 0.03
57 1 0.02
58 29 0.47
59 15 0.24
60 15 0.24
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (56 bp):
CTTAAATCAAAACCCTAAACCTCAAAGCTTAAAACTCAAACCCTAAAACCCTCAAA
Found at i:23108015 original size:14 final size:14
Alignment explanation
Indices: 23107992--23108033 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
23107982 TGCATGTTAG
23107992 TTGTTATTTTGATT
1 TTGTTATTTTGATT
*
23108006 TTGTTCTTTTGATT
1 TTGTTATTTTGATT
*
23108020 TAT-TTATTTGGATT
1 T-TGTTATTTTGATT
23108034 AATACATTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.69
Consensus pattern (14 bp):
TTGTTATTTTGATT
Found at i:23112962 original size:14 final size:15
Alignment explanation
Indices: 23112943--23112985 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
23112933 GATGGGGCAT
23112943 CAAAAACAAAAAAA-
1 CAAAAACAAAAAAAG
23112957 CAAAAACAAAAAAAG
1 CAAAAACAAAAAAAG
*
23112972 TAAAAA-AAAAAAAG
1 CAAAAACAAAAAAAG
23112986 GGACATCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (15 bp):
CAAAAACAAAAAAAG
Found at i:23114702 original size:41 final size:41
Alignment explanation
Indices: 23114674--23114751 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
23114664 TGAACTGTTC
*
23114674 TCAATCAAGATTTTAAAACCTCTGTTTAAGAGGAACCAATT
1 TCAATCAAGATTTCAAAACCTCTGTTTAAGAGGAACCAATT
*
23114715 TCAATCAAGATTTCAAAGCCTCTGTTT-AGAGGGAACC
1 TCAATCAAGATTTCAAAACCTCTGTTTAAGA-GGAACC
23114752 TTCCTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 3 0.09
41 31 0.91
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (41 bp):
TCAATCAAGATTTCAAAACCTCTGTTTAAGAGGAACCAATT
Found at i:23115240 original size:88 final size:88
Alignment explanation
Indices: 23115091--23115298 Score: 281
Period size: 88 Copynumber: 2.4 Consensus size: 88
23115081 TTCGAGCATG
* * * * * * *
23115091 ATTCTATAAGACCTCCAGGCATAAATTCGATTCACGGTGTTATCTCGATCGATTCTTTATCTTTC
1 ATTCTGTAAGACCTTCGGGCATAAATTTGATTCACGGTATTATCCCGATCAATTCTTTATCTTTC
23115156 GACTTGTGGTGTTATCCCAATCA
66 GACTTGTGGTGTTATCCCAATCA
* * *
23115179 ATTCTGTAAGACCTTCGGGCATAAATTTGATTCGCGGTATTATCCCGATCAATTTTTTATCTTTT
1 ATTCTGTAAGACCTTCGGGCATAAATTTGATTCACGGTATTATCCCGATCAATTCTTTATCTTTC
** * *
23115244 GACTTGTGGTGTTATCTTAGTCG
66 GACTTGTGGTGTTATCCCAATCA
*
23115267 ATTCTGTAAGACCTTCGGGCATAATTTTGATT
1 ATTCTGTAAGACCTTCGGGCATAAATTTGATT
23115299 TGTGGTGTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 105 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (88 bp):
ATTCTGTAAGACCTTCGGGCATAAATTTGATTCACGGTATTATCCCGATCAATTCTTTATCTTTC
GACTTGTGGTGTTATCCCAATCA
Found at i:23115389 original size:22 final size:23
Alignment explanation
Indices: 23115359--23115413 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
23115349 GTTGATTCTA
* *
23115359 TAAGCCCTCCGA-ACATGATTTT
1 TAAGACCTCCGAGACATGATTTC
*
23115381 TAAGACCTCC-AGGCATGATTTC
1 TAAGACCTCCGAGACATGATTTC
23115403 TAAGACCTCCG
1 TAAGACCTCCG
23115414 GGCATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (23 bp):
TAAGACCTCCGAGACATGATTTC
Found at i:23115417 original size:22 final size:22
Alignment explanation
Indices: 23115372--23115418 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
23115362 GCCCTCCGAA
*
23115372 CATGATTTTTAAGACCTCCAGG
1 CATGATTTCTAAGACCTCCAGG
*
23115394 CATGATTTCTAAGACCTCCGGG
1 CATGATTTCTAAGACCTCCAGG
23115416 CAT
1 CAT
23115419 AAATTCGATT
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:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (22 bp):
CATGATTTCTAAGACCTCCAGG
Found at i:23116319 original size:29 final size:29
Alignment explanation
Indices: 23116263--23116320 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
23116253 TTAAATATAA
* * *
23116263 AATACGAAATACAAAAAAATACCAAAAAT
1 AATACAAAATACAAAAAAAGAACAAAAAT
23116292 AATACAAAATACAAAAAAAGGAACAAAAA
1 AATACAAAATACAAAAAAA-GAACAAAAA
23116321 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.10
Consensus pattern (29 bp):
AATACAAAATACAAAAAAAGAACAAAAAT
Found at i:23117738 original size:15 final size:15
Alignment explanation
Indices: 23117715--23117802 Score: 94
Period size: 15 Copynumber: 5.9 Consensus size: 15
23117705 CTAAAACCCC
*
23117715 TAAAATCCAAAATCT
1 TAAAATCCAAAACCT
*
23117730 TAAAGTCCAAAATCC-
1 TAAAATCCAAAA-CCT
*
23117745 TAAAGTCCAAAACCCT
1 TAAAATCCAAAA-CCT
23117761 TAAAAT-CAAAACCCT
1 TAAAATCCAAAA-CCT
23117776 TAAAATCCAAAACCT
1 TAAAATCCAAAACCT
23117791 T-AAAT-CAAAACC
1 TAAAATCCAAAACC
23117803 CAAACCTCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
13 7 0.11
14 4 0.06
15 44 0.67
16 11 0.17
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.20
Consensus pattern (15 bp):
TAAAATCCAAAACCT
Found at i:23117754 original size:30 final size:29
Alignment explanation
Indices: 23117707--23117864 Score: 121
Period size: 30 Copynumber: 5.4 Consensus size: 29
23117697 CTAGGTTTCT
* *
23117707 AAAACCCCTAAAATCCAAAATCTTAAAGTCC
1 AAAA-CCCTAAAATCCAAAACCTTAAAAT-C
* *
23117738 AAAATCCTAAAGTCCAAAACCCTTAAAATC
1 AAAACCCTAAAATCCAAAA-CCTTAAAATC
23117768 AAAACCCTTAAAATCCAAAACCTT-AAATC
1 AAAACCC-TAAAATCCAAAACCTTAAAATC
* **
23117797 AAAACCC--AAA-CCTCAAATTTTAAAATC
1 AAAACCCTAAAATCC-AAAACCTTAAAATC
* *
23117824 GAAATCCTAAAATCTTC-AAA-CTCTAAAATC
1 AAAACCCTAAAATC--CAAAACCT-TAAAATC
23117854 AAAACCCTAAA
1 AAAACCCTAAA
23117865 CCTTCCATAG
Statistics
Matches: 103, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
25 2 0.02
26 8 0.08
27 10 0.10
29 16 0.16
30 44 0.43
31 22 0.21
32 1 0.01
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.21
Consensus pattern (29 bp):
AAAACCCTAAAATCCAAAACCTTAAAATC
Found at i:23117778 original size:46 final size:44
Alignment explanation
Indices: 23117707--23117803 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 44
23117697 CTAGGTTTCT
* *
23117707 AAAACCCCTAAAATCCAAAATCTTAAAGTCCAAAATCC-TAAAGTCC
1 AAAACCCCTAAAATCCAAAACCTTAAAATCCAAAA-CCTTAAA-T-C
*
23117753 AAAACCCTTAAAAT-CAAAACCCTTAAAATCCAAAACCTTAAATC
1 AAAACCCCTAAAATCCAAAA-CCTTAAAATCCAAAACCTTAAATC
23117797 AAAACCC
1 AAAACCC
23117804 AAACCTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 8 0.17
45 8 0.17
46 30 0.65
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.19
Consensus pattern (44 bp):
AAAACCCCTAAAATCCAAAACCTTAAAATCCAAAACCTTAAATC
Found at i:23134864 original size:31 final size:31
Alignment explanation
Indices: 23134826--23134887 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
23134816 TATTTTAAGT
*
23134826 AGAGGCTCAACAATTTTGAAAAATAAAATGC
1 AGAGGCTCAACAACTTTGAAAAATAAAATGC
*
23134857 AGAGGCTCAACGACTTTGAAAAATAAAATGC
1 AGAGGCTCAACAACTTTGAAAAATAAAATGC
23134888 TCCTCTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (31 bp):
AGAGGCTCAACAACTTTGAAAAATAAAATGC
Found at i:23135061 original size:40 final size:39
Alignment explanation
Indices: 23134956--23135078 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 39
23134946 CAACAAGGCT
* * *
23134956 TCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAAAAGC
1 TCTCTAAACAGAGGCACAACAACTTTGAAAAAT-AAAAGC
* * * * *
23134996 TCCTCTAAGCAAAGGTACAATAACTTTGAAAAATAAAGGC
1 T-CTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGC
*
23135036 TCATCTAAACAGATGCACAACAACTTTGAAAAATAAAAGC
1 TC-TCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGC
23135076 TCT
1 TCT
23135079 TCAACAATCA
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 40 0.60
41 25 0.37
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (39 bp):
TCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGC
Found at i:23135278 original size:22 final size:22
Alignment explanation
Indices: 23135253--23135308 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
23135243 TACAAGATTT
23135253 CAAGCTTCGCATTTGCAAATTG
1 CAAGCTTCGCATTTGCAAATTG
*
23135275 CAAGATTCGCATTTGCAAATTG
1 CAAGCTTCGCATTTGCAAATTG
23135297 CAAGAC-TCGCAT
1 CAAG-CTTCGCAT
23135309 CTAACATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (22 bp):
CAAGCTTCGCATTTGCAAATTG
Found at i:23135426 original size:22 final size:22
Alignment explanation
Indices: 23135384--23135426 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23135374 CAAGTTCAAA
* *
23135384 GGTTCATATTTGACAAATTTAG
1 GGTTCATATTCGAAAAATTTAG
23135406 GGTTCATA-TCGAAAAAGTTTA
1 GGTTCATATTCGAAAAA-TTTA
23135427 AGCTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (22 bp):
GGTTCATATTCGAAAAATTTAG
Found at i:23135653 original size:46 final size:46
Alignment explanation
Indices: 23135560--23135850 Score: 327
Period size: 46 Copynumber: 6.3 Consensus size: 46
23135550 AATTCTTTTT
* * * * *
23135560 AAAGATTCTCATTTGAAAA--ACTTAAATATTCTAATTTAAAAAGCTC
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTT-AAGA-CTC
* *
23135606 AAAGGTTCTCATTTGAAAACGTCTCAAATATTCTCATTTAAGACTC
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
* * * * *
23135652 AAATGTTCTCATTTGAGAACGTCTTAACGATTCTCATTTAAAATTC
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
** *
23135698 AAAGGTTCTCATTTGAAAGTGTCTTAAAGATTCTCATTTAAGACTG
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
* ***
23135744 AAAGATTCTCATTTGAAAATACCTTAAAGATT-TCATTTAAGACTC
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
* * * *
23135789 AAAGGTTCTTATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTT
1 AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
*
23135835 AAAGGTTTTCATTTGA
1 AAAGGTTCTCATTTGA
23135851 GGATTCAGGA
Statistics
Matches: 210, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
45 40 0.19
46 152 0.72
47 3 0.01
48 15 0.07
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (46 bp):
AAAGGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTC
Found at i:23135654 original size:21 final size:21
Alignment explanation
Indices: 23135560--23135848 Score: 105
Period size: 21 Copynumber: 12.7 Consensus size: 21
23135550 AATTCTTTTT
* *
23135560 AAAGATTCTCATTTGAAAAACTT
1 AAAGATTCTCATTT--AAGACTC
* * *
23135583 AAATATTCTAATTTAAAAAGCTC
1 AAAGATTCTCATTT-AAGA-CTC
* *
23135606 AAAGGTTCTCATTTGAAAACGTCTC
1 AAAGATTCTCATTT---AA-GACTC
*
23135631 AAATATTCTCATTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
*
23135652 AAATG-TTCTCATTTGAGAACGTC
1 AAA-GATTCTCATTTAAG-AC-TC
* * *
23135675 TTAACGATTCTCATTTAAAATTC
1 --AAAGATTCTCATTTAAGACTC
* * *
23135698 AAAGGTTCTCATTTGAAAGTGTCTT
1 AAAGATTCTCATTT--AA--GACTC
*
23135723 AAAGATTCTCATTTAAGACTG
1 AAAGATTCTCATTTAAGACTC
* *
23135744 AAAGATTCTCATTTGAAAATACCTT
1 AAAGATTCTCATTT---AAGA-CTC
23135769 AAAGATT-TCATTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
* * * *
23135789 AAAGGTTCTTATTTGAAAATGTCTT
1 AAAGATTCTCATTT---AA-GACTC
* *
23135814 AAAGATTTTCATTTAAGACTT
1 AAAGATTCTCATTTAAGACTC
* *
23135835 AAAGGTTTTCATTT
1 AAAGATTCTCATTT
23135849 GAGGATTCAG
Statistics
Matches: 204, Mismatches: 39, Indels: 48
0.70 0.13 0.16
Matches are distributed among these distances:
20 8 0.04
21 72 0.35
22 11 0.05
23 33 0.16
24 13 0.06
25 67 0.33
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGACTC
Found at i:23135827 original size:25 final size:25
Alignment explanation
Indices: 23135698--23135827 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 25
23135688 TTTAAAATTC
* *
23135698 AAAGGTTCTCATTTGAAAGTGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
23135723 AAAGATTCTCATTT---AA-GACTG
1 AAAGATTCTCATTTGAAAATGTCTT
**
23135744 AAAGATTCTCATTTGAAAATACCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
23135769 AAAGATT-TCATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
* *
23135789 AAAGGTTCTTATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
*
23135814 AAAGATTTTCATTT
1 AAAGATTCTCATTT
23135828 AAGACTTAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
20 8 0.10
21 24 0.30
22 1 0.01
24 10 0.13
25 36 0.46
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAAATGTCTT
Found at i:23137219 original size:22 final size:21
Alignment explanation
Indices: 23137195--23137248 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
23137185 CTCTTTTCTT
23137195 TTTTTTCCACTTTTTTTTTCA
1 TTTTTTCCACTTTTTTTTTCA
* *
23137216 TTTTTTCTCTCTTTTTTTTTTA
1 TTTTTTC-CACTTTTTTTTTCA
23137238 TTTTTTCCACT
1 TTTTTTCCACT
23137249 CATTAGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTTCCACTTTTTTTTTCA
Found at i:23148074 original size:2 final size:2
Alignment explanation
Indices: 23148067--23148092 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23148057 TGATTACTTT
23148067 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
23148093 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23148097 original size:2 final size:2
Alignment explanation
Indices: 23148092--23148121 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23148082 ATATATATAT
23148092 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23148122 GAGGGGGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23150400 original size:29 final size:31
Alignment explanation
Indices: 23150334--23150415 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
23150324 AATTTAATAA
* * *
23150334 AAATAAATA-TTTAAGAATTCAATTGATCTG
1 AAATAAAAATTTTAAGAATTTAATTAATCTG
23150364 AAATAAAAATTTTAA-AATTTAATTAAT-TG
1 AAATAAAAATTTTAAGAATTTAATTAATCTG
* *
23150393 CAATAAAAATGTTAAGAATTTAA
1 AAATAAAAATTTTAAGAATTTAA
23150416 ATGATTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 15 0.33
30 25 0.56
31 5 0.11
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (31 bp):
AAATAAAAATTTTAAGAATTTAATTAATCTG
Found at i:23153781 original size:26 final size:27
Alignment explanation
Indices: 23153752--23153804 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
23153742 CTTTCATTCC
*
23153752 TTAAAAATAAAT-ATTATTAAATTTTT
1 TTAAAAATAAATAATTATTAAAATTTT
* * *
23153778 TTAAGATTAATTAATTATTAAAATTTT
1 TTAAAAATAAATAATTATTAAAATTTT
23153805 GCTCCCCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAAAAATAAATAATTATTAAAATTTT
Found at i:23158648 original size:23 final size:23
Alignment explanation
Indices: 23158622--23158681 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
23158612 AAAAAATCAT
23158622 AAAATATAATTTTAAAAT-ATAAA
1 AAAATATAATTTT-AAATGATAAA
* * *
23158645 AAAATAAAAATTTTAGATGTTAAA
1 AAAAT-ATAATTTTAAATGATAAA
23158669 AAAATATAATTTT
1 AAAATATAATTTT
23158682 GGAACATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
AAAATATAATTTTAAATGATAAA
Found at i:23161253 original size:6 final size:6
Alignment explanation
Indices: 23161242--23161271 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
23161232 ATGTAATATT
23161242 TAATTA TAATTA TAAATTA TAATTA TAATT
1 TAATTA TAATTA T-AATTA TAATTA TAATT
23161272 TCATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:23161259 original size:13 final size:13
Alignment explanation
Indices: 23161243--23161269 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23161233 TGTAATATTT
23161243 AATTATAATTATA
1 AATTATAATTATA
23161256 AATTATAATTATA
1 AATTATAATTATA
23161269 A
1 A
23161270 TTTCATAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTATAATTATA
Found at i:23165715 original size:11 final size:11
Alignment explanation
Indices: 23165683--23165729 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
23165673 AAATAATTTT
*
23165683 TTATATTTAAA
1 TTATATTAAAA
23165694 TT-TATTAAAAA
1 TTATATT-AAAA
23165705 TTATATTAAAA
1 TTATATTAAAA
* *
23165716 TAATATAAAAA
1 TTATATTAAAA
23165727 TTA
1 TTA
23165730 AAAATTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 4 0.13
11 22 0.73
12 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:23169860 original size:161 final size:161
Alignment explanation
Indices: 23169646--23169969 Score: 411
Period size: 161 Copynumber: 2.0 Consensus size: 161
23169636 GGCAAAAATG
* ***
23169646 GTCCCAAATAGACGTAAACTACAACTTTTTCACACATATCAATTGTAGAAACTAAGTTCAATCA-
1 GTCCCAAATAGACGTAAACAACAACTTTTTCACACATATCAACCATAGAAACTAAGTTCAAT-AT
* *
23169710 TTCGAACAAGTTTAATATCATGTATTGAAGCTATTC-AAACTGTTAAAATAGAACAATAA-CAAC
65 TTCGAACAAGTTTAATATCATGTATTGAAACTA-TCAAAACTATTAAAATAGAACAATAATCAAC
*
23169773 AATTTTGTATTTTTACCTATTAACGACACAAAAA
129 AA-TTTGCATTTTTACCTATTAACGACACAAAAA
* * * * *
23169807 GTCCTAAATAGACGTAAACAATAACTTTTTCATACATATCAACCATGGAAACTAAGTTTAATATT
1 GTCCCAAATAGACGTAAACAACAACTTTTTCACACATATCAACCATAGAAACTAAGTTCAATATT
* * * ****
23169872 TTGGATAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAATAGAACAATAATTTTTAA
66 TCGAACAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAATAGAACAATAATCAACAA
* *
23169937 TTTGCATTTTTACCTTTTAACGGCACAAAAA
131 TTTGCATTTTTACCTATTAACGACACAAAAA
23169968 GT
1 GT
23169970 TCATTCATTC
Statistics
Matches: 139, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
160 3 0.02
161 134 0.96
162 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
GTCCCAAATAGACGTAAACAACAACTTTTTCACACATATCAACCATAGAAACTAAGTTCAATATT
TCGAACAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAATAGAACAATAATCAACAA
TTTGCATTTTTACCTATTAACGACACAAAAA
Found at i:23175370 original size:49 final size:49
Alignment explanation
Indices: 23175298--23175396 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
23175288 GCTAAGTTTT
*
23175298 AGGATAATTTTCTTGGAGTTTGTAAGACACACATCCATACATTTGACAA
1 AGGATAATTTTATTGGAGTTTGTAAGACACACATCCATACATTTGACAA
23175347 AGGATAATTTTATTGGAGTTTGTAAGACACACATCCATACATTTGACAA
1 AGGATAATTTTATTGGAGTTTGTAAGACACACATCCATACATTTGACAA
23175396 A
1 A
23175397 TAGAGGCGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (49 bp):
AGGATAATTTTATTGGAGTTTGTAAGACACACATCCATACATTTGACAA
Found at i:23175971 original size:179 final size:179
Alignment explanation
Indices: 23175654--23175984 Score: 459
Period size: 179 Copynumber: 1.8 Consensus size: 179
23175644 TTTAATTTTT
* * *
23175654 TGAAAGAATTTGTTAAAGGTATTTTTTGCAAAAAATGCCTTCAATAATACCATCCATTTTTATTA
1 TGAAAAAATTTATTAAAGGTATTTTTTGCAAAAAATGCCTTCAATAATACCATCCATTTTTATCA
* * * *
23175719 GAGGAATATCAGTAAAGGTAATTTTCTATCAAAAATACCTTCAATAATCCTCTTAAATTTTGATA
66 GAGGAATATCAGTAAAGGTAATTTTCTATCAAAAATACCTTCAATAATCCTATTAAAATTTAACA
*
23175784 AAGAGATTATTATAGGCGTTTTTAACTACAAGTGCCTTCAATAATTCCC
131 AAGAGATTATTATAGGCATTTTTAACTACAAGTGCCTTCAATAATTCCC
* * * * * *
23175833 TGAAAAAATTTATTGAAGGTATTTTTTTCATTATAA-GCCTTCAATAATCCCCTCCATTTTTATC
1 TGAAAAAATTTATTAAAGGTATTTTTTGCA-AAAAATGCCTTCAATAATACCATCCATTTTTATC
* * *
23175897 AGAGGAATATCAGTAAAGGTAGTTTTCTTTCAAAAATGCCTTCAATAAT-CTATTAAAAATTTAA
65 AGAGGAATATCAGTAAAGGTAATTTTCTATCAAAAATACCTTCAATAATCCTATT-AAAATTTAA
* *
23175961 CGATGAGATTATTATAGGCATTTT
129 CAAAGAGATTATTATAGGCATTTT
23175985 GACAAAAAAC
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
178 4 0.03
179 124 0.95
180 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (179 bp):
TGAAAAAATTTATTAAAGGTATTTTTTGCAAAAAATGCCTTCAATAATACCATCCATTTTTATCA
GAGGAATATCAGTAAAGGTAATTTTCTATCAAAAATACCTTCAATAATCCTATTAAAATTTAACA
AAGAGATTATTATAGGCATTTTTAACTACAAGTGCCTTCAATAATTCCC
Found at i:23180869 original size:13 final size:13
Alignment explanation
Indices: 23180851--23180896 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
23180841 ATTGGTTTGG
23180851 TGAATGGTGTTTT
1 TGAATGGTGTTTT
**
23180864 TGAATGGT-TTCC
1 TGAATGGTGTTTT
*
23180876 TGAATGATGTTTT
1 TGAATGGTGTTTT
23180889 TGAATGGT
1 TGAATGGT
23180897 CTGCTGAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.20, C:0.04, G:0.28, T:0.48
Consensus pattern (13 bp):
TGAATGGTGTTTT
Found at i:23180879 original size:25 final size:25
Alignment explanation
Indices: 23180851--23180916 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
23180841 ATTGGTTTGG
*
23180851 TGAATGGTGTTTTTGAATGGTTTCC
1 TGAATGGTGTTTTTGAATGGTCTCC
* *
23180876 TGAATGATGTTTTTGAATGGTCTGC
1 TGAATGGTGTTTTTGAATGGTCTCC
23180901 TGAATGGT-TTTTTGAA
1 TGAATGGTGTTTTTGAA
23180917 CACATTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 8 0.22
25 29 0.78
ACGTcount: A:0.20, C:0.06, G:0.27, T:0.47
Consensus pattern (25 bp):
TGAATGGTGTTTTTGAATGGTCTCC
Found at i:23180916 original size:12 final size:12
Alignment explanation
Indices: 23180851--23180916 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
23180841 ATTGGTTTGG
23180851 TGAATGGTGTTTT
1 TGAATGGT-TTTT
**
23180864 TGAATGGTTTCC
1 TGAATGGTTTTT
*
23180876 TGAATGATGTTTT
1 TGAATGGT-TTTT
* **
23180889 TGAATGGTCTGC
1 TGAATGGTTTTT
23180901 TGAATGGTTTTT
1 TGAATGGTTTTT
23180913 TGAA
1 TGAA
23180917 CACATTGTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
12 23 0.57
13 17 0.43
ACGTcount: A:0.20, C:0.06, G:0.27, T:0.47
Consensus pattern (12 bp):
TGAATGGTTTTT
Found at i:23185858 original size:4 final size:4
Alignment explanation
Indices: 23185841--23185900 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
23185831 TTGAAAGAAT
* * **
23185841 AATA AATA ATTA AATA AATA AACA AATA AATA GAATA GTTA AAT- AATAA
1 AATA AATA AATA AATA AATA AATA AATA AATA -AATA AATA AATA AAT-A
23185890 AATAA AATA AA
1 AAT-A AATA AA
23185901 AATACTAAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 3 0.07
4 30 0.67
5 12 0.27
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:23188297 original size:15 final size:16
Alignment explanation
Indices: 23188263--23188302 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
23188253 GTTTTAAAGG
23188263 TTAGGGTTTCAAGATC
1 TTAGGGTTTCAAGATC
* *
23188279 TTAGAGTTTC-AGATT
1 TTAGGGTTTCAAGATC
23188294 TTAGGGTTT
1 TTAGGGTTT
23188303 GGTTGAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (16 bp):
TTAGGGTTTCAAGATC
Found at i:23188403 original size:30 final size:29
Alignment explanation
Indices: 23188362--23188649 Score: 203
Period size: 30 Copynumber: 9.6 Consensus size: 29
23188352 TAAGGCTTGA
23188362 ATTTTAGGGTTTGGAAGGTTTAGGGTTTTG
1 ATTTTAGGGTTT-GAAGGTTTAGGGTTTTG
*
23188392 ATTTTAAGGTTT-AATGGGTTTAGGGTTTTG
1 ATTTTAGGGTTTGAA--GGTTTAGGGTTTTG
* * * **
23188422 ATTCTAGGGTTTTATGGGTTTAGGGTTTCA
1 ATTTTAGGGTTTGA-AGGTTTAGGGTTTTG
* * * *
23188452 AGTCTAGGGTCT-AAGGGTTAGGGTTTTG
1 ATTTTAGGGTTTGAAGGTTTAGGGTTTTG
* *
23188480 ATTTTAGGGTTTAAAGAGTTTAAGGTTTT-
1 ATTTTAGGGTTTGAAG-GTTTAGGGTTTTG
**
23188509 AGTTTT-GTGGTTTGAAGGATTTAGGGTTTCA
1 A-TTTTAG-GGTTTGAAGG-TTTAGGGTTTTG
*
23188540 ATTTTAAGGTTTGGAGGGTTTAAGGTTTAGGGTTTTG
1 ATTTTAGGGTTT-----G---AAGGTTTAGGGTTTTG
23188577 ATTTTAGGGTTTG-AGGTTTAGGGTTTT-
1 ATTTTAGGGTTTGAAGGTTTAGGGTTTTG
* * *
23188604 AGTTTTAGGGTTT-ACGACTTTAGGATTTTG
1 A-TTTTAGGGTTTGAAG-GTTTAGGGTTTTG
23188634 ATTTTAGGGTTTGAAG
1 ATTTTAGGGTTTGAAG
23188650 AAAAAGTGAA
Statistics
Matches: 206, Mismatches: 28, Indels: 48
0.73 0.10 0.17
Matches are distributed among these distances:
27 1 0.00
28 48 0.23
29 28 0.14
30 100 0.49
31 2 0.01
32 1 0.00
35 1 0.00
37 21 0.10
38 4 0.02
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGTTTGAAGGTTTAGGGTTTTG
Found at i:23188418 original size:16 final size:15
Alignment explanation
Indices: 23188378--23188449 Score: 60
Period size: 16 Copynumber: 4.8 Consensus size: 15
23188368 GGGTTTGGAA
23188378 GGTTTAGGGTTT-TG
1 GGTTTAGGGTTTATG
** *
23188392 ATTTTAAGGTTTAATG
1 GGTTTAGGGTTT-ATG
23188408 GGTTTAGGGTTT-T-
1 GGTTTAGGGTTTATG
*
23188421 GATTCTAGGGTTTTATG
1 GGTT-TAGGG-TTTATG
23188438 GGTTTAGGGTTT
1 GGTTTAGGGTTT
23188450 CAAGTCTAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
13 3 0.07
14 15 0.34
15 6 0.14
16 17 0.39
17 3 0.07
ACGTcount: A:0.15, C:0.01, G:0.33, T:0.50
Consensus pattern (15 bp):
GGTTTAGGGTTTATG
Found at i:23188521 original size:88 final size:88
Alignment explanation
Indices: 23188376--23188540 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 88
23188366 TAGGGTTTGG
* * * * * * *
23188376 AAGGTTTAGGGTTTTGATTTTAAGGTTTAATGGGTTTAGGGTTTTGATTCTAGGGTTTTATGGGT
1 AAGGGTTAGGGTTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTTTGATTCTAGGGTTTGAAGGAT
23188441 TTAGGGTTTCAAGTCTAGGGTCT
66 TTAGGGTTTCAAGTCTAGGGTCT
* *
23188464 AAGGGTTAGGGTTTTGATTTTAGGGTTTAAAGAGTTTAAGGTTTT-AGTT-TTGTGGTTTGAAGG
1 AAGGGTTAGGGTTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTTTGA-TTCTAG-GGTTTGAAGG
23188527 ATTTAGGGTTTCAA
64 ATTTAGGGTTTCAA
23188541 TTTTAAGGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 3 0.05
88 63 0.95
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.45
Consensus pattern (88 bp):
AAGGGTTAGGGTTTTGATTTTAAGGTTTAAAGAGTTTAAGGTTTTGATTCTAGGGTTTGAAGGAT
TTAGGGTTTCAAGTCTAGGGTCT
Found at i:23188569 original size:37 final size:35
Alignment explanation
Indices: 23188512--23188602 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 35
23188502 AGGTTTTAGT
*
23188512 TTTGTGGTTTGAAGGATTTAGGGTTTCAATTTTAAGG
1 TTTGAGGTTT-AAGG-TTTAGGGTTTCAATTTTAAGG
** *
23188549 TTTGGAGGGTTTAAGGTTTAGGGTTTTGATTTTAGGG
1 TTT-GA-GGTTTAAGGTTTAGGGTTTCAATTTTAAGG
*
23188586 TTTGAGGTTTAGGGTTT
1 TTTGAGGTTTAAGGTTT
23188603 TAGTTTTAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
35 11 0.23
36 2 0.04
37 24 0.51
38 5 0.11
39 5 0.11
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (35 bp):
TTTGAGGTTTAAGGTTTAGGGTTTCAATTTTAAGG
Found at i:23188573 original size:14 final size:14
Alignment explanation
Indices: 23188364--23188617 Score: 82
Period size: 14 Copynumber: 17.8 Consensus size: 14
23188354 AGGCTTGAAT
23188364 TTTAGGGTTTGGAAGG
1 TTTAGGGTTT--AAGG
* *
23188380 TTTAGGGTTT-TGAT
1 TTTAGGGTTTAAG-G
*
23188394 TTTAAGGTTTAATGGG
1 TTTAGGGTTTAA--GG
* *
23188410 TTTAGGGTTT-TGA
1 TTTAGGGTTTAAGG
*
23188423 TTCTAGGGTTTTATGGG
1 TT-TAGGG-TTTA-AGG
23188440 TTTAGGGTTTCAA-G
1 TTTAGGGTTT-AAGG
* *
23188454 TCTAGGGTCTAAGG
1 TTTAGGGTTTAAGG
* * *
23188468 GTTAGGGTTT-TGAT
1 TTTAGGGTTTAAG-G
23188482 TTTAGGGTTTAAAGAG
1 TTTAGGGTTT-AAG-G
* *
23188498 TTTAAGGTTTTA-G
1 TTTAGGGTTTAAGG
*
23188511 TTTTGTGGTTTGAAGG
1 TTTAG-GGTTT-AAGG
*
23188527 ATTTAGGGTTTCAA-T
1 -TTTAGGGTTT-AAGG
*
23188542 TTTAAGGTTT--GG
1 TTTAGGGTTTAAGG
23188554 ---AGGGTTTAAGG
1 TTTAGGGTTTAAGG
* *
23188565 TTTAGGGTTT-TGAT
1 TTTAGGGTTTAAG-G
*
23188579 TTTAGGGTTTGAGG
1 TTTAGGGTTTAAGG
* *
23188593 TTTAGGGTTTTAGT
1 TTTAGGGTTTAAGG
23188607 TTTAGGGTTTA
1 TTTAGGGTTTA
23188618 CGACTTTAGG
Statistics
Matches: 174, Mismatches: 39, Indels: 52
0.66 0.15 0.20
Matches are distributed among these distances:
9 6 0.03
11 2 0.01
13 12 0.07
14 93 0.53
15 9 0.05
16 44 0.25
17 8 0.05
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:23188586 original size:28 final size:28
Alignment explanation
Indices: 23188554--23188645 Score: 123
Period size: 28 Copynumber: 3.2 Consensus size: 28
23188544 TAAGGTTTGG
23188554 AGGGTTTAAGGTTTAGGGTTTTGATTTT
1 AGGGTTTAAGGTTTAGGGTTTTGATTTT
*
23188582 AGGGTTTGAGGTTTAGGGTTTT-AGTTTT
1 AGGGTTTAAGGTTTAGGGTTTTGA-TTTT
* * *
23188610 AGGGTTTACGACTTTAGGATTTTGATTTT
1 AGGGTTTAAG-GTTTAGGGTTTTGATTTT
23188639 AGGGTTT
1 AGGGTTT
23188646 GAAGAAAAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 33 0.59
29 21 0.38
30 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (28 bp):
AGGGTTTAAGGTTTAGGGTTTTGATTTT
Found at i:23188601 original size:7 final size:7
Alignment explanation
Indices: 23188554--23188617 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
23188544 TAAGGTTTGG
23188554 AGGGTTT
1 AGGGTTT
*
23188561 AAGGTTT
1 AGGGTTT
23188568 AGGGTTT
1 AGGGTTT
* **
23188575 TGATTTT
1 AGGGTTT
23188582 AGGGTTT
1 AGGGTTT
23188589 -GAGGTTT
1 AG-GGTTT
23188596 AGGGTTTT
1 AGGG-TTT
*
23188604 A-GTTTT
1 AGGGTTT
23188610 AGGGTTT
1 AGGGTTT
23188617 A
1 A
23188618 CGACTTTAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
6 5 0.12
7 33 0.77
8 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (7 bp):
AGGGTTT
Found at i:23188641 original size:14 final size:14
Alignment explanation
Indices: 23188565--23188645 Score: 85
Period size: 14 Copynumber: 5.7 Consensus size: 14
23188555 GGGTTTAAGG
23188565 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*
23188579 TTTAGGG-TTTGAGG
1 TTTAGGGTTTTGA-T
23188593 TTTAGGGTTTT-AGT
1 TTTAGGGTTTTGA-T
* *
23188607 TTTAGGGTTTACGAC
1 TTTAGGGTTT-TGAT
*
23188622 TTTAGGATTTTGAT
1 TTTAGGGTTTTGAT
23188636 TTTAGGGTTT
1 TTTAGGGTTT
23188646 GAAGAAAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
13 5 0.09
14 37 0.67
15 12 0.22
16 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:23189463 original size:16 final size:18
Alignment explanation
Indices: 23189442--23189474 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23189432 TCTTCAGAAA
23189442 AAAAATC-CTC-AGCCTC
1 AAAAATCTCTCTAGCCTC
23189458 AAAAATCTCTCTAGCCT
1 AAAAATCTCTCTAGCCT
23189475 TGCTAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.36, C:0.33, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAAATCTCTCTAGCCTC
Found at i:23190436 original size:43 final size:43
Alignment explanation
Indices: 23190392--23190620 Score: 250
Period size: 43 Copynumber: 5.3 Consensus size: 43
23190382 ATTTAAAGGC
* * * *
23190392 TAAAAAACTTTAAATTAAGAAATGAGCTCCTTTATTCAGAGGC
1 TAAACAACTTTAAATTAGGAAATGAGCTCCTCTATTCAGAGGT
* ** * *
23190435 TAAACAACTTTAAATTTGGAAATGAGCTTATCTGTACAGAGGT
1 TAAACAACTTTAAATTAGGAAATGAGCTCCTCTATTCAGAGGT
** * *
23190478 TAAACAACTTTAAATTAAAAAATG-GACTTCTCTATTTAGAGGT
1 TAAACAACTTTAAATTAGGAAATGAG-CTCCTCTATTCAGAGGT
23190521 TAAACAACTTTAAATTAGGAAATGAGCTCCTCTATAT-AGAGGT
1 TAAACAACTTTAAATTAGGAAATGAGCTCCTCTAT-TCAGAGGT
* *
23190564 TAAACAACTTTAAATTAGGAAATTG-GCTCATCTACAT-AGAGGT
1 TAAACAACTTTAAATTAGGAAA-TGAGCTCCTCTA-TTCAGAGGT
*
23190607 TAAACAATTTTAAA
1 TAAACAACTTTAAA
23190621 ATAAAAAATC
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 154 0.97
44 4 0.03
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (43 bp):
TAAACAACTTTAAATTAGGAAATGAGCTCCTCTATTCAGAGGT
Found at i:23190612 original size:129 final size:129
Alignment explanation
Indices: 23190382--23190629 Score: 347
Period size: 129 Copynumber: 1.9 Consensus size: 129
23190372 CAGCTTTTCC
*
23190382 ATTTAAAGGCTAAAAAACTTTAAATTAAGAAATGAGCTCCTTTATTCAGAGGCTAAACAACTTTA
1 ATTTAAAGGCTAAAAAACTTTAAATTAAGAAATGAGCTCCTCTATTCAGAGGCTAAACAACTTTA
* * ** *
23190447 AATTTGGAAATGAGCTTATCTGTACAGAGGTTAAACAACTTTAAATTAAAAAATGGACTTCTCT
66 AATTAGGAAATGAGCTCATCTACACAGAGGTTAAACAACTTTAAAATAAAAAATGGACTTCTCT
* * * * *
23190511 ATTTAGAGGTTAAACAACTTTAAATTAGGAAATGAGCTCCTCTATAT-AGAGGTTAAACAACTTT
1 ATTTAAAGGCTAAAAAACTTTAAATTAAGAAATGAGCTCCTCTAT-TCAGAGGCTAAACAACTTT
* *
23190575 AAATTAGGAAATTG-GCTCATCTACATAGAGGTTAAACAATTTTAAAATAAAAAAT
65 AAATTAGGAAA-TGAGCTCATCTACACAGAGGTTAAACAACTTTAAAATAAAAAAT
23190630 CCTTTAATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 101 0.97
130 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (129 bp):
ATTTAAAGGCTAAAAAACTTTAAATTAAGAAATGAGCTCCTCTATTCAGAGGCTAAACAACTTTA
AATTAGGAAATGAGCTCATCTACACAGAGGTTAAACAACTTTAAAATAAAAAATGGACTTCTCT
Found at i:23193511 original size:43 final size:42
Alignment explanation
Indices: 23193441--23193750 Score: 229
Period size: 43 Copynumber: 7.2 Consensus size: 42
23193431 CAGAACAAAT
* * *
23193441 TAAGAAATGAGCTCTTTTATTCAAAGGCTAAACAACTTTAAAA
1 TAAGAAATGTGCTCCTTTA-TAAAAGGCTAAACAACTTTAAAA
* * *
23193484 TAGGAAATGTGCTCCTTTATACCAAGGCTAAAGAACTTTAAAA
1 TAAGAAATGTGCTCCTTTATA-AAAGGCTAAACAACTTTAAAA
* * *
23193527 T-AGAAAATGGGCT-CTTCTAAAAAAGGCTAAACAATTTTAAAA
1 TAAG-AAATGTGCTCCTT-TATAAAAGGCTAAACAACTTTAAAA
*
23193569 TAAGAAAT-TGACTCCTTTGTACAGAA-GCTAAACAACTTTAAAA
1 TAAGAAATGTG-CTCCTTTATA-A-AAGGCTAAACAACTTTAAAA
** *
23193612 TAAGAAATAG-GCTTTTTTATACAAAGGCTAAACAACGTTAAAAA
1 TAAGAAAT-GTGCTCCTTTATA-AAAGGCTAAACAAC-TTTAAAA
* * ** * *
23193656 TAGGAAATG-GACTTCACTATACAGAGGCTAAACAACTTTAGAA
1 TAAGAAATGTG-CTCCTTTATA-AAAGGCTAAACAACTTTAAAA
* * * *
23193699 CAAAAAAT-TGGCTCCTTTATATAGAGGCTAAACAACTTTAGAA
1 TAAGAAATGT-GCTCCTTTATA-AAAGGCTAAACAACTTTAAAA
*
23193742 TAATAAATG
1 TAAGAAATG
23193751 GGTTTACAAC
Statistics
Matches: 215, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.00
42 34 0.16
43 142 0.66
44 38 0.18
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (42 bp):
TAAGAAATGTGCTCCTTTATAAAAGGCTAAACAACTTTAAAA
Found at i:23193559 original size:85 final size:85
Alignment explanation
Indices: 23193463--23193743 Score: 295
Period size: 87 Copynumber: 3.3 Consensus size: 85
23193453 TCTTTTATTC
*
23193463 AAAGGCTAAACAACTTTAAAATAGGAAATGTG-CTCCTTTATACCA-AGGCTAAAGAACTTTAAA
1 AAAGGCTAAACAACTTTAAAATAGGAAATGTGACTCCTTTATA-CAGAGGCTAAACAACTTTAAA
*
23193526 ATAGAAAATGGGCTCTTCTA-AA
65 ATA-AAAATAGGCTCTT-TATAA
* * * *
23193548 AAAGGCTAAACAATTTTAAAATAAGAAAT-TGACTCCTTTGTACAGAAGCTAAACAACTTTAAAA
1 AAAGGCTAAACAACTTTAAAATAGGAAATGTGACTCCTTTATACAGAGGCTAAACAACTTTAAAA
* *
23193612 TAAGAAATAGGCTTTTTTATAC
66 TAA-AAATAGGC-TCTTTATAA
* * **
23193634 AAAGGCTAAACAACGTTAAAAATAGGAAATG-GACTTCACTATACAGAGGCTAAACAACTTTAGA
1 AAAGGCTAAACAAC-TTTAAAATAGGAAATGTGACTCCTTTATACAGAGGCTAAACAACTTTA-A
* *
23193698 ACA-AAAAATTGGCTCCTTTATAT
64 A-ATAAAAATAGGCT-CTTTATAA
* *
23193721 AGAGGCTAAACAACTTTAGAATA
1 AAAGGCTAAACAACTTTAAAATA
23193744 ATAAATGGGT
Statistics
Matches: 164, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
84 5 0.03
85 64 0.39
86 25 0.15
87 65 0.40
88 4 0.02
89 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (85 bp):
AAAGGCTAAACAACTTTAAAATAGGAAATGTGACTCCTTTATACAGAGGCTAAACAACTTTAAAA
TAAAAATAGGCTCTTTATAA
Found at i:23193824 original size:43 final size:43
Alignment explanation
Indices: 23193760--23193842 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
23193750 GGGTTTACAA
* * * * * *
23193760 CTTTAGAATAAGAAATGGGCTCCTTTATTTAGAGGCTAAAAAT
1 CTTTAAAATAAGAAATAGGCTCATCTATATAGAGACTAAAAAT
*
23193803 CTTTAAAATAGGAAATAGGCTCATCTATATAGAGACTAAA
1 CTTTAAAATAAGAAATAGGCTCATCTATATAGAGACTAAA
23193843 CAAATTTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (43 bp):
CTTTAAAATAAGAAATAGGCTCATCTATATAGAGACTAAAAAT
Found at i:23194210 original size:82 final size:82
Alignment explanation
Indices: 23194073--23194237 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
23194063 GAACAAAGCC
*
23194073 CACTTGGAGCCAGTAAAAAAGCTCGTTAAAGAGCCCATAATATGCATTGATATTTAGGCCTAATA
1 CACTTGGAGCCAGTAAAAAAGCTCGTTAAAGAGCCCATAAAATGCATTGATATTTAGGCCTAATA
23194138 AACAAAAAAAAATGAAA
66 AACAAAAAAAAATGAAA
23194155 CACTTGGAGCCAGTAAAAAAGCTCGTTAAAGAGCCCATAAAATGCATTGATATTTAGGCCTAATA
1 CACTTGGAGCCAGTAAAAAAGCTCGTTAAAGAGCCCATAAAATGCATTGATATTTAGGCCTAATA
23194220 AACAAAAAAAAATGAAA
66 AACAAAAAAAAATGAAA
23194237 C
1 C
23194238 TCATGATTAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (82 bp):
CACTTGGAGCCAGTAAAAAAGCTCGTTAAAGAGCCCATAAAATGCATTGATATTTAGGCCTAATA
AACAAAAAAAAATGAAA
Found at i:23194848 original size:146 final size:145
Alignment explanation
Indices: 23194541--23194895 Score: 391
Period size: 146 Copynumber: 2.4 Consensus size: 145
23194531 TTCGAGGTTG
23194541 GATTTTCATGAAACTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATC
1 GATTTTCATGAAACTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATC
* * * *
23194606 ACAATAATACCTTGAAAATTATGTAATTACTAAAATACCCCTATAAGGGTATTTTTCGTAATTTG
66 ACAACAATACCTTGAAAAGTATGAAATTACTAAAATACCCCTATAAGGGTATTTTTCATAATTTG
*
23194671 GCCTTCCAAAGCTCA
131 ACCTTCCAAAGCTCA
* *
23194686 GATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCAT-ATTTTGGGTGCATTTGAAAT
1 GATTTTCATGAAACTTTT-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAAT
*** * * * * * *
23194750 CATGGCAGTACCTTGAGAAGTGTGAAATTA-TCAAAATA-CCTTCATTAGGGTTTTTTTTCATAA
65 CACAACAATACCTTGAAAAGTATGAAATTACT-AAAATACCCCT-ATAAGGG-TATTTTTCATAA
*** *
23194813 TTTGACCTTTTTAAG-TTA
127 TTTGACCTTCCAAAGCTCA
* *
23194831 GAATTTTCATTAAACTTTTTAGAT-TTCAATCTT-ATAATATTTCATGATTTTTGGTG-TTTTAA
1 G-ATTTTCATGAAAC-TTTTAGATCTT-AAT-TTCATAATATTTCATGATTTTTGGTGCATTTAA
23194893 AAT
62 AAT
23194896 TTCAAAAATG
Statistics
Matches: 177, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
144 4 0.02
145 74 0.42
146 84 0.47
147 15 0.08
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (145 bp):
GATTTTCATGAAACTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTAAAATC
ACAACAATACCTTGAAAAGTATGAAATTACTAAAATACCCCTATAAGGGTATTTTTCATAATTTG
ACCTTCCAAAGCTCA
Found at i:23200021 original size:10 final size:10
Alignment explanation
Indices: 23200006--23200044 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
23199996 AAAATGATCT
23200006 TTTTAATAAA
1 TTTTAATAAA
*
23200016 TTTTAATTAA
1 TTTTAATAAA
23200026 TTTTAA-AAA
1 TTTTAATAAA
*
23200035 TTTTATTAAA
1 TTTTAATAAA
23200045 ACGATAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:23200037 original size:19 final size:19
Alignment explanation
Indices: 23200006--23200043 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23199996 AAAATGATCT
23200006 TTTTAATAAATTTTAATTAA
1 TTTTAATAAATTTT-ATTAA
23200026 TTTTAA-AAATTTTATTAA
1 TTTTAATAAATTTTATTAA
23200044 AACGATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATAAATTTTATTAA
Found at i:23219550 original size:20 final size:20
Alignment explanation
Indices: 23219499--23219557 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
23219489 TATTTGTATG
**
23219499 ATTAATATATTTGTGTGATTT
1 ATTAATATATTTGCATGA-TT
*
23219520 ATAAATATATTTGCATGATT
1 ATTAATATATTTGCATGATT
*
23219540 ATTAATTTATTTGCATGA
1 ATTAATATATTTGCATGA
23219558 ATACCAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (20 bp):
ATTAATATATTTGCATGATT
Found at i:23219566 original size:20 final size:20
Alignment explanation
Indices: 23219527--23219571 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23219517 TTTATAAATA
* **
23219527 TATTTGCATGATTATTAATT
1 TATTTGCATGAATACCAATT
23219547 TATTTGCATGAATACCAATT
1 TATTTGCATGAATACCAATT
23219567 TATTT
1 TATTT
23219572 ATTTGTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (20 bp):
TATTTGCATGAATACCAATT
Found at i:23219626 original size:41 final size:41
Alignment explanation
Indices: 23219581--23219894 Score: 454
Period size: 41 Copynumber: 7.7 Consensus size: 41
23219571 TATTTGTGTG
*
23219581 ATTGCATGATTATATATTTAATGGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* *
23219622 ATTGCTTGATTATATATTTAGTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* * * *
23219663 ATTGCATTATAATATATTTATTTGCATGTGTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* *
23219704 ATTGCATGATAATATATTTAATTGCATGCTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* *
23219745 ATTGCATGATAATATATGT--TTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
*
23219784 ATTGCATGATTATATATTT-ATGTGCATGATTTATATTGTTA
1 ATTGCATGATTATATATTTAAT-TGCATGTTTTATATTGTTA
* * *
23219825 ATTGCATGATTAGATATTTAATTACATGTTTTACATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
*
23219866 ATTGCATAATTATATATTTAATTGCATGT
1 ATTGCATGATTATATATTTAATTGCATGT
23219895 CTATTTGCAT
Statistics
Matches: 246, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.15
40 1 0.00
41 207 0.84
42 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (41 bp):
ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
Found at i:23219786 original size:162 final size:163
Alignment explanation
Indices: 23219581--23219893 Score: 470
Period size: 162 Copynumber: 1.9 Consensus size: 163
23219571 TATTTGTGTG
* *
23219581 ATTGCATGATTATATATTTAATGGCATGTTTTATATTGTTAATTGCTTGATTATATATTTA-GTT
1 ATTGCATGATAATATATTT-ATGGCATGTTTTATATTGTTAATTGCATGATTATATATTTATG-T
* * * * * *
23219645 GCATGTTTTATATTGTTAATTGCATTATAATATATTTATTTGCATGTGTTATATTGTTAATTGCA
64 GCATGATTTATATTGTTAATTGCATGATAAGATATTTAATTACATGTGTTACATTGTTAATTGCA
*
23219710 TGATAATATATTTAATTGCATGCTTTATATTGTTA
129 TAATAATATATTTAATTGCATGCTTTATATTGTTA
23219745 ATTGCATGATAATATATGTT-T-GCATGTTTTATATTGTTAATTGCATGATTATATATTTATGTG
1 ATTGCATGATAATATAT-TTATGGCATGTTTTATATTGTTAATTGCATGATTATATATTTATGTG
* *
23219808 CATGATTTATATTGTTAATTGCATGATTAGATATTTAATTACATGTTTTACATTGTTAATTGCAT
65 CATGATTTATATTGTTAATTGCATGATAAGATATTTAATTACATGTGTTACATTGTTAATTGCAT
*
23219873 AATTATATATTTAATTGCATG
130 AATAATATATTTAATTGCATG
23219894 TCTATTTGCA
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
162 115 0.85
163 2 0.01
164 16 0.12
165 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (163 bp):
ATTGCATGATAATATATTTATGGCATGTTTTATATTGTTAATTGCATGATTATATATTTATGTGC
ATGATTTATATTGTTAATTGCATGATAAGATATTTAATTACATGTGTTACATTGTTAATTGCATA
ATAATATATTTAATTGCATGCTTTATATTGTTA
Found at i:23219819 original size:121 final size:122
Alignment explanation
Indices: 23219568--23219894 Score: 462
Period size: 121 Copynumber: 2.7 Consensus size: 122
23219558 ATACCAATTT
* * *
23219568 ATTTAT-TTGTGTGATTGCATGATTATATATTTAATGGCATGTTTTATATTGTTAATTGCTTGAT
1 ATTTATATTGT-TAATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGAT
* * *
23219632 TATATATTTAGTTGCATGTTTTATATTGTTAATTGCATTATAATATATTTATTTGCATG
65 TATATATGTA-TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATGTGCATG
* *
23219691 -TGTTATATTGTTAATTGCATGATAATATATTTAATTGCATGCTTTATATTGTTAATTGCATGAT
1 AT-TTATATTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGAT
* *
23219755 AATATATGT-TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTATGTGCATG
65 TATATATGTATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATGTGCATG
* * * *
23219812 ATTTATATTGTTAATTGCATGATTAGATATTTAATTACATGTTTTACATTGTTAATTGCATAATT
1 ATTTATATTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATT
*
23219877 ATATATTTAATTGCATGT
66 ATATATGT-ATTGCATGT
23219895 CTATTTGCAT
Statistics
Matches: 181, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
121 108 0.60
122 2 0.01
123 67 0.37
124 4 0.02
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (122 bp):
ATTTATATTGTTAATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATT
ATATATGTATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATGTGCATG
Found at i:23219942 original size:32 final size:30
Alignment explanation
Indices: 23219906--23219973 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 30
23219896 TATTTGCATA
* *
23219906 ATTATTAATTTATTTATTTGCGTGATTATAT
1 ATTATTAATATATTTATTTGCATGATTAT-T
23219937 GATTATTAATATATTTATTTGCATGATTATT
1 -ATTATTAATATATTTATTTGCATGATTATT
23219968 ATTATT
1 ATTATT
23219974 GCATGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 6 0.18
31 1 0.03
32 27 0.79
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (30 bp):
ATTATTAATATATTTATTTGCATGATTATT
Found at i:23219985 original size:19 final size:18
Alignment explanation
Indices: 23219946--23219999 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
23219936 TGATTATTAA
23219946 TATATTTATTTGCATGA-T
1 TATATTTA-TTGCATGATT
23219964 TAT-TATTATTGCATGATTT
1 TATAT-TTATTGCATGA-TT
23219983 TATATTTATTGCATGAT
1 TATATTTATTGCATGAT
23220000 ATCATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.28
18 7 0.22
19 15 0.47
20 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (18 bp):
TATATTTATTGCATGATT
Found at i:23224628 original size:9 final size:8
Alignment explanation
Indices: 23224602--23224626 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23224592 AGACATAAAA
23224602 TATTTTTT
1 TATTTTTT
23224610 TATTTTTT
1 TATTTTTT
23224618 TATTTTTT
1 TATTTTTT
23224626 T
1 T
23224627 TAACTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:23224848 original size:16 final size:16
Alignment explanation
Indices: 23224827--23224862 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23224817 CTTAGTAAGA
**
23224827 ATTTTTATTTAAATAT
1 ATTTTTATAAAAATAT
23224843 ATTTTTATAAAAATAT
1 ATTTTTATAAAAATAT
23224859 ATTT
1 ATTT
23224863 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTTATAAAAATAT
Found at i:23224895 original size:24 final size:25
Alignment explanation
Indices: 23224865--23224911 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
23224855 ATATATTTAA
23224865 AAATAATAAAT-AAATAAAATAATT
1 AAATAATAAATAAAATAAAATAATT
23224889 AAATAATAAATAAAATAAAATAA
1 AAATAATAAATAAAATAAAATAA
23224912 AAATACCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (25 bp):
AAATAATAAATAAAATAAAATAATT
Found at i:23224916 original size:20 final size:20
Alignment explanation
Indices: 23224864--23224916 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
23224854 AATATATTTA
23224864 AAAATAATAAATAAATAAAAT
1 AAAATAA-AAATAAATAAAAT
*
23224885 -AATTAAATAATAAATAAAAT
1 AAAATAAA-AATAAATAAAAT
23224905 AAAATAAAAATA
1 AAAATAAAAATA
23224917 CCAGAAGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:23229968 original size:30 final size:32
Alignment explanation
Indices: 23229901--23229968 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
23229891 TATTAAAAAT
* * *
23229901 TTATTT-ATATACAAATTAAAAGTTTAATGGT
1 TTATTTGATATACAAATTAAAAGATTAAAGGA
23229932 TTATTTGA-ATACAAATTAAAA-ATTAAAGGA
1 TTATTTGATATACAAATTAAAAGATTAAAGGA
23229962 TTATTTG
1 TTATTTG
23229969 GGTGTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 13 0.39
31 19 0.58
32 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (32 bp):
TTATTTGATATACAAATTAAAAGATTAAAGGA
Found at i:23240197 original size:16 final size:16
Alignment explanation
Indices: 23240178--23240294 Score: 87
Period size: 16 Copynumber: 7.1 Consensus size: 16
23240168 TCAATAATGG
23240178 ATGAAAAAAATAAAAA
1 ATGAAAAAAATAAAAA
*
23240194 ATGAAAAAAATGTGAAAA
1 ATGAAAAAAA--TAAAAA
*
23240212 ATGAAAAAATATGAAAA
1 ATGAAAAAA-ATAAAAA
23240229 ATG-AAAAAATGAAAAA
1 ATGAAAAAAAT-AAAAA
* *
23240245 AGTG--AAAAATGAGAA
1 A-TGAAAAAAATAAAAA
*
23240260 ATGTAAAAAAATGAAAAT
1 ATG-AAAAAAAT-AAAAA
* *
23240278 GTGAAAAAAAGAAAAA
1 ATGAAAAAAATAAAAA
23240294 A
1 A
23240295 AAAGAGAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
14 2 0.02
15 6 0.07
16 30 0.37
17 24 0.30
18 18 0.22
19 1 0.01
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
ATGAAAAAAATAAAAA
Found at i:23240203 original size:17 final size:17
Alignment explanation
Indices: 23240181--23240287 Score: 94
Period size: 17 Copynumber: 6.4 Consensus size: 17
23240171 ATAATGGATG
*
23240181 AAAAAAATAAAAAATGA
1 AAAAAAATGAAAAATGA
*
23240198 AAAAAATGTGAAAAATGA
1 AAAAAA-ATGAAAAATGA
*
23240216 AAAAATATGAAAAATG-
1 AAAAAAATGAAAAATGA
*
23240232 -AAAAAATGAAAAAAG-
1 AAAAAAATGAAAAATGA
** * *
23240247 TGAAAAATGAGAAATGT
1 AAAAAAATGAAAAATGA
*
23240264 AAAAAAATGAAAATGTGA
1 AAAAAAATGAAAA-ATGA
23240282 AAAAAA
1 AAAAAA
23240288 GAAAAAAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
15 13 0.18
16 12 0.17
17 25 0.35
18 22 0.31
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (17 bp):
AAAAAAATGAAAAATGA
Found at i:23240233 original size:24 final size:24
Alignment explanation
Indices: 23240183--23240276 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 24
23240173 AATGGATGAA
23240183 AAAAAT-AAAAAATGAAAAAAATGTG
1 AAAAATGAAAAAATGAAAAAAA--TG
*
23240208 AAAAATGAAAAAAT-ATGAAAAATG
1 AAAAATGAAAAAATGA-AAAAAATG
23240232 AAAAAATGAAAAAAGTG--AAAAATG
1 -AAAAATGAAAAAA-TGAAAAAAATG
*
23240256 AGAAATGTAAAAAAATGAAAA
1 AAAAATG--AAAAAATGAAAA
23240277 TGTGAAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.10
24 11 0.19
25 26 0.45
26 15 0.26
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (24 bp):
AAAAATGAAAAAATGAAAAAAATG
Found at i:23240270 original size:41 final size:41
Alignment explanation
Indices: 23240183--23240286 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 41
23240173 AATGGATGAA
*
23240183 AAAAAT-AAAAAATGAAAAAAATGTGAAAAATGAAAAAATATG
1 AAAAATGAAAAAATG-AAAAAATGTGAAAAATGAAAAAATA-A
**
23240225 AAAAATGAAAAAATGAAAAAA-GTGAAAAATGAGAAATGTAA
1 AAAAATGAAAAAATGAAAAAATGTGAAAAATGA-AAAAATAA
**
23240266 AAAAATGAAAATGTGAAAAAA
1 AAAAATGAAAAAATGAAAAAA
23240287 AGAAAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 30 0.55
42 17 0.31
43 8 0.15
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.15
Consensus pattern (41 bp):
AAAAATGAAAAAATGAAAAAATGTGAAAAATGAAAAAATAA
Found at i:23240271 original size:10 final size:9
Alignment explanation
Indices: 23240178--23240295 Score: 87
Period size: 9 Copynumber: 14.1 Consensus size: 9
23240168 TCAATAATGG
23240178 ATGAAAAAA
1 ATGAAAAAA
23240187 AT--AAAAA
1 ATGAAAAAA
23240194 ATGAAAAAA
1 ATGAAAAAA
**
23240203 ATGTGAAAA
1 ATGAAAAAA
23240212 ATGAAAAAA
1 ATGAAAAAA
23240221 TATG--AAAA
1 -ATGAAAAAA
23240229 ATG-AAAAA
1 ATGAAAAAA
23240237 ATGAAAAAA
1 ATGAAAAAA
*
23240246 GTG--AAAA
1 ATGAAAAAA
*
23240253 ATG--AGAA
1 ATGAAAAAA
23240260 ATGTAAAAAA
1 ATG-AAAAAA
*
23240270 ATG-AAAAT
1 ATGAAAAAA
*
23240278 GTGAAAAAA
1 ATGAAAAAA
23240287 A-GAAAAAA
1 ATGAAAAAA
23240295 A
1 A
23240296 AAGAGAAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
7 22 0.25
8 25 0.28
9 32 0.36
10 9 0.10
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:23242057 original size:34 final size:33
Alignment explanation
Indices: 23241964--23242058 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 33
23241954 ATGAATCTTG
*
23241964 AATCTTGCAAATCTAAATTCTTATGAAGCTAAAA
1 AATCTTGCAAAT-TAAATTCTTACGAAGCTAAAA
* * * * *
23241998 ATTTTTTCTAATTTAAATTCATACGAAGCTAAAA
1 AATCTTGC-AAATTAAATTCTTACGAAGCTAAAA
23242032 AATCTTGCAAATATGAAATT-TTACGAA
1 AATCTTGCAAAT-T-AAATTCTTACGAA
23242059 TAAAATTCTT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
33 3 0.06
34 36 0.77
35 8 0.17
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (33 bp):
AATCTTGCAAATTAAATTCTTACGAAGCTAAAA
Found at i:23242154 original size:18 final size:18
Alignment explanation
Indices: 23242127--23242174 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
23242117 AATCTTTGCA
* *
23242127 TCTTACGAATTTGAAAAT
1 TCTTATGAATCTGAAAAT
23242145 TCTTATGAATCTGAAAAT
1 TCTTATGAATCTGAAAAT
*
23242163 TCTTGTGAATCT
1 TCTTATGAATCT
23242175 TTGAATTACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TCTTATGAATCTGAAAAT
Found at i:23245240 original size:8 final size:8
Alignment explanation
Indices: 23245223--23245257 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
23245213 AAAACTTAAA
23245223 TTTAAAAT
1 TTTAAAAT
*
23245231 TTTAAGAT
1 TTTAAAAT
23245239 TTTAAAAT
1 TTTAAAAT
23245247 TTTAAAAT
1 TTTAAAAT
23245255 TTT
1 TTT
23245258 TTTCTTGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (8 bp):
TTTAAAAT
Found at i:23250949 original size:17 final size:19
Alignment explanation
Indices: 23250917--23250953 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
23250907 AGGGTTGGTT
23250917 GAGAGCTAAAAGAAAAAAA
1 GAGAGCTAAAAGAAAAAAA
23250936 GAGA-CTAAAA-AAAAAAA
1 GAGAGCTAAAAGAAAAAAA
23250953 G
1 G
23250954 CTTTACGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (19 bp):
GAGAGCTAAAAGAAAAAAA
Found at i:23256262 original size:3 final size:3
Alignment explanation
Indices: 23256256--23256308 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
23256246 ATGTCACTAC
* * *
23256256 TAT TAT TGT TAT TAC TA- TAT TATT TATT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
23256302 TAT TAT T
1 TAT TAT T
23256309 TATATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.79
4 7 0.16
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23256292 original size:25 final size:25
Alignment explanation
Indices: 23256258--23256311 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
23256248 GTCACTACTA
*
23256258 TTATTGTTATTACTA-TATTATTTAT
1 TTATTATTATTACTATTATTA-TTAT
* *
23256283 TTATTATTATTATTATTGTTATTAT
1 TTATTATTATTACTATTATTATTAT
23256308 TTAT
1 TTAT
23256312 ATTTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (25 bp):
TTATTATTATTACTATTATTATTAT
Found at i:23256413 original size:14 final size:13
Alignment explanation
Indices: 23256394--23256427 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
23256384 GCTATTACTA
23256394 TTTTTTTTT-CTT
1 TTTTTTTTTCCTT
23256406 TCTTTTTTTTCCTT
1 T-TTTTTTTTCCTT
23256420 TTTTTTTT
1 TTTTTTTT
23256428 CAATTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 15 0.75
14 4 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTCCTT
Found at i:23257169 original size:5 final size:5
Alignment explanation
Indices: 23257151--23257214 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
23257141 GATCGCAGGT
* * * *
23257151 TTTTT TTTTCA TTTTA TTTTA TTTTA TTTT- TATTT- TTTGA TTTGA TTTGA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
*
23257201 TTTTA TTCTA TTTT
1 TTTTA TTTTA TTTT
23257215 TAACCCATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
4 3 0.06
5 44 0.86
6 4 0.08
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:23257340 original size:18 final size:19
Alignment explanation
Indices: 23257315--23257358 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
23257305 AAAATGATTC
*
23257315 AATAAAAAAAATCTTTTCT
1 AATAAAAAAAATCTTTTCA
23257334 AATAAAAAAAATCTTTTCA
1 AATAAAAAAAATCTTTTCA
23257353 AATAAA
1 AATAAA
23257359 GTTTTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAAAAAAATCTTTTCA
Found at i:23273882 original size:175 final size:173
Alignment explanation
Indices: 23273589--23274073 Score: 557
Period size: 175 Copynumber: 2.8 Consensus size: 173
23273579 CCTAGACTAG
* * * * *
23273589 ATCATTTCATATGATTCATGG-TTCTATCCCGATCATCTATTTTTGACCTCGACTAGATCTTGGC
1 ATCATTTCATATGATTCATGGTTTC-ATCTCGATCATTTA-TTTTGACCTCGACTTGATCATGGT
* * * * * *
23273653 CACTTTATTTTGACTCATGATTTTTTTTCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCAT
64 CACTTCATTTTGACTCATG-TTTTATCTCGATCACTTGATCTTGACTCAGTCCAGATCATTTTAT
* * *
23273718 ATGATTCATGGTTTTGTCCC-AGTTACTTGATCTTAGCTCAGTCCAA
128 ATGATTCATGGTTTTGTCCCGA-TCACTTAATCTTAGCTCAATCCAA
**
23273764 ATCATTTCATATGATTTGTGGTTTCATCTCGATCATTTAGTTTTGACCTCGACTTGATCATGGTC
1 ATCATTTCATATGATTCATGGTTTCATCTCGATCATTTA-TTTTGACCTCGACTTGATCATGGTC
* * * * *
23273829 ACTTCATTTTAACTCATAGTTTTGTCTCGATTATTTGATCTTGACTTAGTCCAGATCATTTTATA
65 ACTTCATTTTGACTCAT-GTTTTATCTCGATCACTTGATCTTGACTCAGTCCAGATCATTTTATA
* * *
23273894 TGATTCATGGTTTTGTTCCGATCACTTAATCTTGGCTCAATCCAG
129 TGATTCATGGTTTTGTCCCGATCACTTAATCTTAGCTCAATCCAA
* * * * *
23273939 ATCATTCCATACGATTCATGGTTTCATCTCGATCATTTATTTTCAACCTCAAC-TGAGTCCTGGT
1 ATCATTTCATATGATTCATGGTTTCATCTCGATCATTTATTTT-GACCTCGACTTGA-TCATGGT
**
23274003 CACTTCATTTTGACTTGTGGTTTTATC-CTGATCACTTGATCTT-AGCTCAGTCCAGATCATTTT
64 CACTTCATTTTGACTCAT-GTTTTATCTC-GATCACTTGATCTTGA-CTCAGTCCAGATCATTTT
23274066 ATATGATT
126 ATATGATT
23274074 TGTGGTTTCG
Statistics
Matches: 264, Mismatches: 39, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
174 9 0.03
175 250 0.95
176 5 0.02
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (173 bp):
ATCATTTCATATGATTCATGGTTTCATCTCGATCATTTATTTTGACCTCGACTTGATCATGGTCA
CTTCATTTTGACTCATGTTTTATCTCGATCACTTGATCTTGACTCAGTCCAGATCATTTTATATG
ATTCATGGTTTTGTCCCGATCACTTAATCTTAGCTCAATCCAA
Found at i:23274358 original size:3 final size:3
Alignment explanation
Indices: 23274352--23274426 Score: 111
Period size: 3 Copynumber: 25.3 Consensus size: 3
23274342 TTGATGTCAC
23274352 TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23274399 TAT TAT TAT T-T TCAT TAT T-T TCAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT T-AT TAT T
23274427 TTTTATTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.09
3 57 0.85
4 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23274427 original size:9 final size:8
Alignment explanation
Indices: 23274352--23274435 Score: 93
Period size: 9 Copynumber: 10.1 Consensus size: 8
23274342 TTGATGTCAC
23274352 TATTATTAT
1 TATTATT-T
23274361 TATTATTT
1 TATTATTT
23274369 TATTA--T
1 TATTATTT
23274375 TATTATTAT
1 TATTATT-T
23274384 TATTATTAT
1 TATTATT-T
23274393 TATTATTAT
1 TATTATT-T
23274402 TATTATTT
1 TATTATTT
23274410 TCATTATTT
1 T-ATTATTT
23274419 TCATTATTT
1 T-ATTATTT
23274428 T-TTATTT
1 TATTATTT
23274435 T
1 T
23274436 TTCTTCTTTC
Statistics
Matches: 71, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.08
7 7 0.10
8 8 0.11
9 50 0.70
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTATTT
Found at i:23275420 original size:17 final size:18
Alignment explanation
Indices: 23275400--23275440 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23275390 AAACTGATTC
*
23275400 AATAAAAAAA-ATTTTCT
1 AATAAAAAAATATTTTCA
23275417 AATAAAAAAATATTTTCA
1 AATAAAAAAATATTTTCA
23275435 AATAAA
1 AATAAA
23275441 GTTTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAAAAATATTTTCA
Found at i:23276887 original size:16 final size:17
Alignment explanation
Indices: 23276862--23276905 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23276852 TTTATTTTCC
*
23276862 ATGCACTTTAAA-ATTT
1 ATGCAATTTAAATATTT
* *
23276878 ATGTAATTTAAATTTTT
1 ATGCAATTTAAATATTT
23276895 ATGCAATTTAA
1 ATGCAATTTAA
23276906 TTTCATGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (17 bp):
ATGCAATTTAAATATTT
Found at i:23276907 original size:16 final size:16
Alignment explanation
Indices: 23276816--23276908 Score: 64
Period size: 16 Copynumber: 5.6 Consensus size: 16
23276806 ATTTTCAAGT
23276816 AATTTAA-TTTTATGC
1 AATTTAATTTTTATGC
* *
23276831 TTTAATTTACTTTTGATGC
1 ---AATTTAATTTTTATGC
*
23276850 AATTT-ATTTTCCATGC
1 AATTTAATTTT-TATGC
* ** *
23276866 ACTTTAAAATTTATGT
1 AATTTAATTTTTATGC
23276882 AATTTAAATTTTTATGC
1 AATTT-AATTTTTATGC
23276899 AATTTAATTT
1 AATTTAATTT
23276909 CATGCAAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
15 4 0.07
16 25 0.43
17 16 0.28
18 6 0.10
19 7 0.12
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (16 bp):
AATTTAATTTTTATGC
Found at i:23279764 original size:1 final size:1
Alignment explanation
Indices: 23279758--23279782 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
23279748 TCTCTCTGTT
23279758 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
23279783 GGGTATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23284852 original size:2 final size:2
Alignment explanation
Indices: 23284845--23284872 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23284835 GTTATACTAC
23284845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23284873 TGGATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23286480 original size:16 final size:16
Alignment explanation
Indices: 23286455--23286496 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
23286445 TTGGTCATTA
23286455 AATAAAAAATATATAT
1 AATAAAAAATATATAT
*
23286471 AATAATAAATATATA-
1 AATAAAAAATATATAT
23286486 AATTAAAAAAT
1 AA-TAAAAAAT
23286497 TGAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAAAAATATATAT
Found at i:23288035 original size:371 final size:369
Alignment explanation
Indices: 23287163--23288162 Score: 1522
Period size: 372 Copynumber: 2.7 Consensus size: 369
23287153 AGGAGGCAAG
*
23287163 TGTCACGGGTGGAGACTTAAGCTCCGAACC-CGTACGGCTCTGGGACCTGGGCATTCACCCTTCC
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCACG--CGGCTCTGGGACCTGGGCATTCACCCTTCC
* * *
23287227 GGCATCCCAGAGT-AGCCTGACCGCCATGGTTCACACCTTTGTGAGGTATTGTCCGCTCTGACCC
64 GGCATCCCAGA-TCAGCCT-ACCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTG-CCC
* * *
23287291 TCCTGGCCTCACGGTTTTGTCCTACAAAAAGCGCCTCACAAGGCGGAGGTGGTGTGAACCTTTTT
126 CCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTT
* *
23287356 ATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAGGTTCGTGACA
191 ATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGAACTCTTCCTTAGGTCCGTGACA
* *
23287421 TTCTCCCGCACCCAACCTCGTGACGCCCCTCGTCACGAAGGCTGTCCACCCTGCCTACCTCCCTC
256 TTCTCCCGCACCCAACCTCGTGACGACCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTC
*
23287486 AAGGTGCTTGGCGTGGATCGAACGGTTTAGGGCTAGCTCTGATACCACT
321 AAGGTGCTTGACGTGGATCGAACGGTTTAGGGCTAGCTCTGATACCACT
* * *
23287535 TGTCACGAGTCGAGACTTAAGCTCCGAACCCAAGCGGCTCTGGGACCCGGGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAA-CCACGCGGCTCTGGGACCTGGGCATTCACCCTTCCG
* * * *
23287600 GCATCCCAGATCAGTCTTCCTGTAACGGTTCACACCCTTGTGAGGTATTGTTCGCTCTGCCCCCC
65 GCATCCCAGATCAGCCTACC-GTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTG-CCCCC
* * * *
23287665 CTGGTCTCACGGTTTTATCCTACAAAAGGCGTCTCACAAGGCGGAGATGGTGTGAACCCTTTTAT
128 CTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTAT
* * * *
23287730 ACCCCAGTGACCCTCCTATTATGTTCAATGTGAGATTCAGAACTCCTCCTTAGGTCCGTGACATT
193 ACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGAACTCTTCCTTAGGTCCGTGACATT
* * * *
23287795 CTCCCGCACCTAACCTCGTGAC-ACCCTCGTCACGGAGGCTGGCCACCCTGCCTACCTCTCTCGA
258 CTCCCGCACCCAACCTCGTGACGACCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCAA
23287859 GGTGCTTGACGTGGATCGAACGGTTTAGGGCTAGCTCTGATACCACT
323 GGTGCTTGACGTGGATCGAACGGTTTAGGGCTAGCTCTGATACCACT
* * *
23287906 TGTCACGGGTTGAGACTTAAGCTCCGAACTCACGCGGCTCCGGGACTTGGGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAAC-CACGCGGCTCTGGGACCTGGGCATTCACCCTTCCG
* * * *
23287971 GCATCCTAGATCAACCTAACGTCACGGTTCACACCCTTGTGAGGTATTGTCCACTCTGGCCCCCC
65 GCATCCCAGATCAGCCTACCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCT-GCCCCCC
*
23288036 TGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCAGAGGTGGTGTGAACCCTTTTATA
129 TGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATA
23288101 CCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCA-AGACTCTTCCTTAGGTCCGTGACA
194 CCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGA-ACTCTTCCTTAGGTCCGTGACA
23288163 CAAGCACTTA
Statistics
Matches: 566, Mismatches: 55, Indels: 16
0.89 0.09 0.03
Matches are distributed among these distances:
369 1 0.00
370 157 0.28
371 159 0.28
372 246 0.43
373 2 0.00
374 1 0.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (369 bp):
TGTCACGGGTCGAGACTTAAGCTCCGAACCACGCGGCTCTGGGACCTGGGCATTCACCCTTCCGG
CATCCCAGATCAGCCTACCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGCCCCCCTG
GCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACC
CCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGAACTCTTCCTTAGGTCCGTGACATTCTC
CCGCACCCAACCTCGTGACGACCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCCTCAAGGT
GCTTGACGTGGATCGAACGGTTTAGGGCTAGCTCTGATACCACT
Found at i:23288481 original size:6 final size:6
Alignment explanation
Indices: 23288470--23288505 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
23288460 CAATAAACCT
* *
23288470 GTAAAA GTAAAA GTAAAA GTAAAA GCAAAA GCAAAA
1 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
23288506 AATAAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.67, C:0.06, G:0.17, T:0.11
Consensus pattern (6 bp):
GTAAAA
Found at i:23289243 original size:19 final size:20
Alignment explanation
Indices: 23289221--23289260 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
23289211 TGTATATGAA
*
23289221 TTTTAATATTT-TTTTGTTG
1 TTTTAATATTTATATTGTTG
*
23289240 TTTTGATATTTATATTGTTG
1 TTTTAATATTTATATTGTTG
23289260 T
1 T
23289261 CAATTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTAATATTTATATTGTTG
Found at i:23289695 original size:22 final size:22
Alignment explanation
Indices: 23289669--23289714 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23289659 TTAAAATTAA
*
23289669 ATATTATATTT-TGATTTAGTAT
1 ATATTA-ATTTATAATTTAGTAT
*
23289691 ATATTAATTTATAATTTTGTAT
1 ATATTAATTTATAATTTAGTAT
23289713 AT
1 AT
23289715 GAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
ATATTAATTTATAATTTAGTAT
Found at i:23294261 original size:22 final size:24
Alignment explanation
Indices: 23294230--23294286 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 24
23294220 AAAAAACCAG
* *
23294230 TAAAAGGAAAAACTAGG-CAAAAA
1 TAAAAAGAAAAACTAGGTAAAAAA
23294253 -AAAAAGAAAAACTAGGTAAAAAA
1 TAAAAAGAAAAACTAGGTAAAAAA
23294276 TAAAAAGAAAA
1 TAAAAAGAAAA
23294287 TTAAAACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 15 0.50
23 5 0.17
24 10 0.33
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (24 bp):
TAAAAAGAAAAACTAGGTAAAAAA
Found at i:23296778 original size:3 final size:3
Alignment explanation
Indices: 23296718--23296766 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
23296708 AAAATTATTA
*
23296718 AAT AAT AAA AGAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23296765 AA
1 AA
23296767 ATTTCAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 38 0.90
4 3 0.07
5 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:23296962 original size:14 final size:13
Alignment explanation
Indices: 23296933--23297029 Score: 67
Period size: 14 Copynumber: 7.4 Consensus size: 13
23296923 CTCAAAATTG
23296933 AAACCCT-AAATA
1 AAACCCTAAAATA
23296945 AAACCCTAAAACTA
1 AAACCCTAAAA-TA
*
23296959 AAACCCTAAAATTG
1 AAACCCTAAAA-TA
* *
23296973 AAATCCT-AAATG
1 AAACCCTAAAATA
*
23296985 AAACCTTAAAAATTA
1 AAACCCT-AAAA-TA
*
23297000 AAA-CCT-AAATC
1 AAACCCTAAAATA
*
23297011 ATACCCTAAAATTA
1 AAACCCTAAAA-TA
23297025 AAACC
1 AAACC
23297030 TTAGTTGAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
11 3 0.05
12 20 0.30
13 9 0.14
14 30 0.45
15 4 0.06
ACGTcount: A:0.55, C:0.23, G:0.02, T:0.21
Consensus pattern (13 bp):
AAACCCTAAAATA
Found at i:23296970 original size:40 final size:40
Alignment explanation
Indices: 23296894--23297008 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
23296884 AATTTTTTGA
* * * *
23296894 AAACCTTAAATGATACCTTAAAACTAAATCTC-AAAATTG
1 AAACCCTAAATGAAACCTTAAAACTAAAACCCTAAAATTG
* *
23296933 AAACCCTAAATAAAACCCTAAAACTAAAACCCTAAAATTG
1 AAACCCTAAATGAAACCTTAAAACTAAAACCCTAAAATTG
* *
23296973 AAATCCTAAATGAAACCTTAAAAATTAAAA-CCTAAA
1 AAACCCTAAATGAAACCTT-AAAACTAAAACCCTAAA
23297009 TCATACCCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 26 0.41
40 29 0.45
41 9 0.14
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.23
Consensus pattern (40 bp):
AAACCCTAAATGAAACCTTAAAACTAAAACCCTAAAATTG
Found at i:23296988 original size:26 final size:25
Alignment explanation
Indices: 23296893--23297030 Score: 100
Period size: 26 Copynumber: 5.3 Consensus size: 25
23296883 TAATTTTTTG
* * *
23296893 AAAACCTTAAATGATACCTTAAAACT
1 AAAACC-TAAATGAAACCCTAAAATT
* *
23296919 AAATCTCAAAATTGAAACCCT-AAA-T
1 AAAAC-CTAAA-TGAAACCCTAAAATT
*
23296944 AAAACCCTAAAACTAAAACCCTAAAATT
1 AAAA-CCT-AAA-TGAAACCCTAAAATT
* *
23296972 GAAATCCTAAATGAAACCTTAAAAATT
1 -AAAACCTAAATGAAACCCT-AAAATT
* *
23296999 AAAACCTAAATCATACCCTAAAATT
1 AAAACCTAAATGAAACCCTAAAATT
23297024 AAAACCT
1 AAAACCT
23297031 TAGTTGAAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
25 18 0.20
26 44 0.49
27 20 0.22
28 4 0.04
29 3 0.03
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAACCTAAATGAAACCCTAAAATT
Found at i:23297046 original size:26 final size:25
Alignment explanation
Indices: 23296893--23297051 Score: 99
Period size: 26 Copynumber: 6.1 Consensus size: 25
23296883 TAATTTTTTG
* *
23296893 AAAACCTTAAATGATACCTTAAAACT
1 AAAACC-TAAATGAAACCTTAAAATT
* * *
23296919 AAATCTCAAAATTGAAACCCT-AAA-T
1 AAAAC-CTAAA-TGAAACCTTAAAATT
* *
23296944 AAAACCCTAAAACTAAAACCCTAAAATT
1 AAAA-CCT-AAA-TGAAACCTTAAAATT
*
23296972 GAAATCCTAAATGAAACCTTAAAAATT
1 -AAAACCTAAATGAAACCTT-AAAATT
* * *
23296999 AAAACCTAAATCATACCCTAAAATT
1 AAAACCTAAATGAAACCTTAAAATT
**
23297024 AAAACCTTAGTTGAAACCTT-AAATT
1 AAAACC-TAAATGAAACCTTAAAATT
23297049 AAA
1 AAA
23297052 CTTTGCAACC
Statistics
Matches: 104, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
25 25 0.24
26 52 0.50
27 20 0.19
28 4 0.04
29 3 0.03
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAACCTAAATGAAACCTTAAAATT
Found at i:23298276 original size:15 final size:15
Alignment explanation
Indices: 23298250--23298297 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
23298240 CATGTTAGTT
*
23298250 TTTATCTTATTTTGA
1 TTTATTTTATTTTGA
23298265 TTT-TTGTTATTTGTGA
1 TTTATT-TTATTT-TGA
*
23298281 TTTATTTTATTGTGA
1 TTTATTTTATTTTGA
23298296 TT
1 TT
23298298 GATATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 1 0.04
15 14 0.50
16 11 0.39
17 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (15 bp):
TTTATTTTATTTTGA
Found at i:23310663 original size:9 final size:9
Alignment explanation
Indices: 23310631--23310661 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23310621 AAACTAACAT
23310631 TTATAATTA
1 TTATAATTA
23310640 TTATAATTA
1 TTATAATTA
*
23310649 TTATTATTA
1 TTATAATTA
23310658 TTAT
1 TTAT
23310662 TAAAAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTATAATTA
Found at i:23310798 original size:3 final size:3
Alignment explanation
Indices: 23310790--23310828 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
23310780 CAGTGAAAAG
23310790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23310829 CATTTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23310911 original size:3 final size:3
Alignment explanation
Indices: 23310903--23310961 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
23310893 TTTTTAAAAC
* * * * *
23310903 ATT ATT ATT GTT ATT GTC ATT -TA ATT ATT ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23310950 ATT AATT ATT AT
1 ATT -ATT ATT AT
23310962 AAAAAAACAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 40 0.91
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:23310946 original size:15 final size:16
Alignment explanation
Indices: 23310926--23310961 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
23310916 TTGTCATTTA
23310926 ATTATTATTATTAA-T
1 ATTATTATTATTAATT
23310941 ATTATTATTATTAATT
1 ATTATTATTATTAATT
23310957 ATTAT
1 ATTAT
23310962 AAAAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATTATTAATT
Found at i:23312065 original size:13 final size:14
Alignment explanation
Indices: 23312047--23312076 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23312037 TTTTTTTATT
23312047 ATTATTAATTT-TA
1 ATTATTAATTTGTA
23312060 ATTATTAATTTGTA
1 ATTATTAATTTGTA
23312074 ATT
1 ATT
23312077 TTTTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
ATTATTAATTTGTA
Found at i:23314064 original size:2 final size:2
Alignment explanation
Indices: 23314057--23314088 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23314047 GGATGAAGTT
*
23314057 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23314089 GTAATTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23323954 original size:18 final size:17
Alignment explanation
Indices: 23323872--23323959 Score: 61
Period size: 18 Copynumber: 5.0 Consensus size: 17
23323862 ATTATTTAAC
*
23323872 ATTAATAAAATTAATAA
1 ATTATTAAAATTAATAA
* * *
23323889 ATAATTAAAAAATATTAA
1 ATTATT-AAAATTAATAA
***
23323907 ATTATTTTTATATAA-AA
1 ATTATTAAAAT-TAATAA
*
23323924 TAATATTAAAATTAATAA
1 -ATTATTAAAATTAATAA
23323942 ATTATTAAAAATTAATAA
1 ATTATT-AAAATTAATAA
23323960 TAAAAACTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
17 15 0.29
18 36 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATTAAAATTAATAA
Found at i:23333081 original size:22 final size:22
Alignment explanation
Indices: 23333046--23333101 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
23333036 AAAAATATTT
23333046 TTAATTAAAATTTTAAAGTAAAA
1 TTAATT-AAATTTTAAAGTAAAA
** *
23333069 TTAATTAAATTTTTTATTAAAA
1 TTAATTAAATTTTAAAGTAAAA
*
23333091 ATAATTAAATT
1 TTAATTAAATT
23333102 AAAAGATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAATTAAATTTTAAAGTAAAA
Found at i:23333189 original size:13 final size:14
Alignment explanation
Indices: 23333164--23333196 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
23333154 ATTTTGATAT
23333164 AATTTTCTAATAAA
1 AATTTTCTAATAAA
*
23333178 TATTTT-TAATAAA
1 AATTTTCTAATAAA
23333191 AATTTT
1 AATTTT
23333197 ATCATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTTCTAATAAA
Found at i:23339464 original size:17 final size:18
Alignment explanation
Indices: 23339442--23339476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23339432 TTGCTTAATT
*
23339442 TAAAATT-AGTAAAATAA
1 TAAAATTAAATAAAATAA
23339459 TAAAATTAAATAAAATAA
1 TAAAATTAAATAAAATAA
23339477 AAATAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAATTAAATAAAATAA
Found at i:23340298 original size:3 final size:3
Alignment explanation
Indices: 23340292--23340361 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
23340282 AAAAAAAAAA
*
23340292 AAT AAT AAT AAT AAT AAT AAT -AT ACT AAT AAT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
23340337 AAT AAT -AT AAT CAT AGT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
23340362 ACACCAATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 8 0.15
3 47 0.85
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23340322 original size:17 final size:16
Alignment explanation
Indices: 23340292--23340343 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
23340282 AAAAAAAAAA
23340292 AATAATA-ATAATAAT
1 AATAATATATAATAAT
23340307 AATAATATACTAATAAT
1 AATAATATA-TAATAAT
23340324 AATAATATA-ATATAAT
1 AATAATATATA-ATAAT
23340340 AATA
1 AATA
23340344 TAATCATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.24
16 10 0.29
17 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATATATAATAAT
Found at i:23342702 original size:15 final size:15
Alignment explanation
Indices: 23342679--23342718 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
23342669 AGTAAGCGAA
*
23342679 GCATGAATCTTATAG
1 GCATAAATCTTATAG
23342694 GCATAAATCTTATAG
1 GCATAAATCTTATAG
23342709 GCATAAATCT
1 GCATAAATCT
23342719 GGCATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (15 bp):
GCATAAATCTTATAG
Found at i:23345633 original size:12 final size:12
Alignment explanation
Indices: 23345613--23345643 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23345603 ATTTTTTTTA
*
23345613 ATTTTTATATTT
1 ATTTATATATTT
23345625 ATTTATATATTT
1 ATTTATATATTT
23345637 ATTTATA
1 ATTTATA
23345644 AATATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTATATATTT
Found at i:23346629 original size:31 final size:32
Alignment explanation
Indices: 23346569--23346629 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
23346559 AATAATAAAA
* *
23346569 AAAATTTTGAAACCCTCAAAACCTTAAACCTT
1 AAAATTTTGAAACCATCAAAACCTAAAACCTT
23346601 AAAA-TTTGAAACCAT-AAAACCTCAAAACC
1 AAAATTTTGAAACCATCAAAACCT-AAAACC
23346630 CTCAACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.49, C:0.25, G:0.03, T:0.23
Consensus pattern (32 bp):
AAAATTTTGAAACCATCAAAACCTAAAACCTT
Found at i:23346641 original size:23 final size:23
Alignment explanation
Indices: 23346615--23346705 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
23346605 TTTGAAACCA
*
23346615 TAAAACCTCAAAACCCTCAACAT
1 TAAAACCTTAAAACCCTCAACAT
* *
23346638 TAAAACCTTAAAATCCT-AAAAT
1 TAAAACCTTAAAACCCTCAACAT
* * * *
23346660 TCGAAACCTTTAAACCCTAAAACCT
1 T-AAAACCTTAAAACCCT-CAACAT
23346685 TAAAACCTTTAAAACCCTCAA
1 TAAAACC-TTAAAACCCTCAA
23346706 AACCCTAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
22 5 0.09
23 28 0.53
24 7 0.13
25 13 0.25
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (23 bp):
TAAAACCTTAAAACCCTCAACAT
Found at i:23346648 original size:8 final size:8
Alignment explanation
Indices: 23346586--23346839 Score: 81
Period size: 8 Copynumber: 32.8 Consensus size: 8
23346576 TGAAACCCTC
23346586 AAAACCTT
1 AAAACCTT
23346594 -AAACCTT
1 AAAACCTT
*
23346601 AAAA-TTT
1 AAAACCTT
* *
23346608 GAAACCAT
1 AAAACCTT
*
23346616 AAAACCTC
1 AAAACCTT
*
23346624 AAAACCCT
1 AAAACCTT
* *
23346632 -CAACATT
1 AAAACCTT
23346639 AAAACCTT
1 AAAACCTT
23346647 AAAATCC-T
1 AAAA-CCTT
23346655 AAAA--TT
1 AAAACCTT
*
23346661 CGAAACCTT
1 -AAAACCTT
* *
23346670 TAAACCCT
1 AAAACCTT
23346678 AAAACCTT
1 AAAACCTT
23346686 AAAACCTTT
1 AAAACC-TT
*
23346695 AAAACCCTC
1 AAAA-CCTT
*
23346704 AAAACCCT
1 AAAACCTT
*
23346712 -AAACCCT
1 AAAACCTT
23346719 -AAACCTT
1 AAAACCTT
* *
23346726 ATATACC-C
1 A-AAACCTT
*
23346734 AAAACCCT
1 AAAACCTT
*
23346742 -AAACCCT
1 AAAACCTT
* * *
23346749 GAAATCTC
1 AAAACCTT
23346757 AAAACCCTT
1 AAAA-CCTT
* *
23346766 AAATCCCT
1 AAAACCTT
23346774 -AAACCTT
1 AAAACCTT
*
23346781 AAATA-CTC
1 AAA-ACCTT
23346789 AAAACCTT
1 AAAACCTT
*
23346797 -AAACCCT
1 AAAACCTT
*
23346804 GAAACCTT
1 AAAACCTT
* *
23346812 GAAATCC-C
1 -AAAACCTT
23346820 AAAACC--
1 AAAACCTT
23346826 AAAACCTT
1 AAAACCTT
23346834 AAAACC
1 AAAACC
23346840 CAGGACCCTG
Statistics
Matches: 179, Mismatches: 45, Indels: 44
0.67 0.17 0.16
Matches are distributed among these distances:
6 7 0.04
7 60 0.34
8 81 0.45
9 29 0.16
10 2 0.01
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAACCTT
Found at i:23346682 original size:16 final size:16
Alignment explanation
Indices: 23346578--23346839 Score: 104
Period size: 16 Copynumber: 16.8 Consensus size: 16
23346568 AAAAATTTTG
23346578 AAACCCTCAAAACCTT-
1 AAACCCT-AAAACCTTA
* * *
23346594 AAACCTTAAAA-TTTG
1 AAACCCTAAAACCTTA
* *
23346609 AAACCATAAAACCTCA
1 AAACCCTAAAACCTTA
* *
23346625 AAACCCT-CAACATTA
1 AAACCCTAAAACCTTA
*
23346640 AAACCTTAAAATCC-TA
1 AAACCCTAAAA-CCTTA
** * *
23346656 AAATTC-GAAACCTTT
1 AAACCCTAAAACCTTA
23346671 AAACCCTAAAACCTTA
1 AAACCCTAAAACCTTA
* *
23346687 AAACCTTTAAAACCCTCA
1 AAACC-CTAAAA-CCTTA
*
23346705 AAACCCT-AAACCCT-
1 AAACCCTAAAACCTTA
* * *
23346719 AAACCTTATATACC-CA
1 AAACCCTA-AAACCTTA
* *
23346735 AAACCCTAAACCCTGA
1 AAACCCTAAAACCTTA
* *
23346751 AATCTC-AAAACCCTTA
1 AAACCCTAAAA-CCTTA
*
23346767 AATCCCT-AAACCTTA
1 AAACCCTAAAACCTTA
*
23346782 AATACTC-AAAACCTT-
1 AA-ACCCTAAAACCTTA
*
23346797 AAACCCTGAAACCTTGA
1 AAACCCTAAAACCTT-A
*
23346814 AATCCC-AAAACC--A
1 AAACCCTAAAACCTTA
*
23346827 AAACCTTAAAACC
1 AAACCCTAAAACC
23346840 CAGGACCCTG
Statistics
Matches: 179, Mismatches: 47, Indels: 42
0.67 0.18 0.16
Matches are distributed among these distances:
13 5 0.03
14 19 0.11
15 57 0.32
16 77 0.43
17 12 0.07
18 9 0.05
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACCCTAAAACCTTA
Found at i:23346707 original size:9 final size:9
Alignment explanation
Indices: 23346666--23346711 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
23346656 AAATTCGAAA
*
23346666 CCTTTAAAC
1 CCTTAAAAC
23346675 CC-TAAAA-
1 CCTTAAAAC
23346682 CCTTAAAAC
1 CCTTAAAAC
*
23346691 CTTTAAAAC
1 CCTTAAAAC
*
23346700 CCTCAAAAC
1 CCTTAAAAC
23346709 CCT
1 CCT
23346712 AAACCCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 2 0.06
8 9 0.29
9 20 0.65
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (9 bp):
CCTTAAAAC
Found at i:23346717 original size:7 final size:7
Alignment explanation
Indices: 23346705--23346783 Score: 59
Period size: 7 Copynumber: 10.4 Consensus size: 7
23346695 AAAACCCTCA
23346705 AAACCCT
1 AAACCCT
23346712 AAACCCT
1 AAACCCT
*
23346719 AAACCTT
1 AAACCCT
*
23346726 ATATACCCA
1 A-A-ACCCT
23346735 AAACCCT
1 AAACCCT
23346742 AAACCCT
1 AAACCCT
* *
23346749 GAAATCTCA
1 -AAA-CCCT
23346758 AAACCCTT
1 AAACCC-T
23346766 AAATCCCT
1 AAA-CCCT
*
23346774 AAACCTT
1 AAACCCT
23346781 AAA
1 AAA
23346784 TACTCAAAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 33 0.58
8 15 0.26
9 9 0.16
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:23346777 original size:55 final size:53
Alignment explanation
Indices: 23346701--23346860 Score: 171
Period size: 55 Copynumber: 3.0 Consensus size: 53
23346691 CTTTAAAACC
*
23346701 CTCAAAACCCTAAACCCTAAACCTTATATACCCAAAACCCTAAACCCTGAAAT
1 CTCAAAACCCTAAACCCTAAACCTTAAATACCCAAAACCCTAAACCCTGAAAT
* * *
23346754 CTCAAAACCCTTAAATCCCTAAACCTTAAATACTCAAAACCTTAAACCCTGAAAC
1 CTCAAAACCC-TAAA-CCCTAAACCTTAAATACCCAAAACCCTAAACCCTGAAAT
* * * * ** *
23346809 CTTGAAATCCC-AAAACCAAAACCTTAAA-ACCCAGGACCCTGAAACCTTGAAA
1 C-TCAAAACCCTAAACCCTAAACCTTAAATACCCAAAACCCT-AAACCCTGAAA
23346861 CCTTAAAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
52 8 0.09
53 32 0.36
54 7 0.08
55 36 0.40
56 7 0.08
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (53 bp):
CTCAAAACCCTAAACCCTAAACCTTAAATACCCAAAACCCTAAACCCTGAAAT
Done.