Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 10 of 10
Found at i:1414819 original size:2 final size:2
Alignment explanation
Indices: 1414812--1414836 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1414802 GAGCTTTATA
1414812 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1414837 TTTATCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1418159 original size:16 final size:15
Alignment explanation
Indices: 1418121--1418152 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1418111 TCCTCAATCA
1418121 TTTTCTTTTTTTTCT
1 TTTTCTTTTTTTTCT
1418136 TTTTCTTTTTTTT-T
1 TTTTCTTTTTTTTCT
1418150 TTT
1 TTT
1418153 GGTCTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTCTTTTTTTTCT
Found at i:1418571 original size:14 final size:14
Alignment explanation
Indices: 1418548--1418590 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
1418538 TTTCGATTAT
1418548 TTTTTATTTAA-ATA
1 TTTTT-TTTAATATA
1418562 TTTATTTTTAATATA
1 TTT-TTTTTAATATA
1418577 TTTTTTTTAATATA
1 TTTTTTTTAATATA
1418591 AGTATAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTTTAATATA
Found at i:1421432 original size:19 final size:20
Alignment explanation
Indices: 1421389--1421439 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1421379 TATAAGCCAA
**
1421389 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
1421409 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
1421428 TGTATCGATACA
1 TGTATCGATACA
1421440 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:1421519 original size:20 final size:21
Alignment explanation
Indices: 1421472--1421524 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1421462 GCCAATGACC
**
1421472 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
1421493 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
1421513 TGTATCGATACA
1 TGTATCGATACA
1421525 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:1421530 original size:13 final size:13
Alignment explanation
Indices: 1421512--1421536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1421502 ACATTTGGTC
1421512 ATGTATCGATACA
1 ATGTATCGATACA
1421525 ATGTATCGATAC
1 ATGTATCGATAC
1421537 TGTGCAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1421552 original size:20 final size:20
Alignment explanation
Indices: 1421527--1421576 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1421517 TCGATACAAT
1421527 GTATCGATACTGTGCAACAC
1 GTATCGATACTGTGCAACAC
*
1421547 GTATCGATACTGTGCAACAT
1 GTATCGATACTGTGCAACAC
1421567 GTATCGATAC
1 GTATCGATAC
1421577 AATTAAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (20 bp):
GTATCGATACTGTGCAACAC
Found at i:1425713 original size:20 final size:20
Alignment explanation
Indices: 1425669--1425726 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1425659 ATTTCAATGA
***
1425669 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
1425689 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1425709 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1425727 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:1425783 original size:13 final size:13
Alignment explanation
Indices: 1425765--1425789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1425755 ATTACTCAAA
1425765 TGTATCGATACAT
1 TGTATCGATACAT
1425778 TGTATCGATACA
1 TGTATCGATACA
1425790 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1425854 original size:52 final size:52
Alignment explanation
Indices: 1425798--1425917 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1425788 CACTGATCTT
*
1425798 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1425850 TGTATCGATATATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1425902 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1425918 AACAACTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1431631 original size:67 final size:67
Alignment explanation
Indices: 1431523--1431655 Score: 266
Period size: 67 Copynumber: 2.0 Consensus size: 67
1431513 ATTAGGAAGA
1431523 GCAAATGTACTCAGGGTACTTTTCCTAGTATTTTCCCTCAAGGATAAATAAGATTTCATGCCAAG
1 GCAAATGTACTCAGGGTACTTTTCCTAGTATTTTCCCTCAAGGATAAATAAGATTTCATGCCAAG
1431588 TT
66 TT
1431590 GCAAATGTACTCAGGGTACTTTTCCTAGTATTTTCCCTCAAGGATAAATAAGATTTCATGCCAAG
1 GCAAATGTACTCAGGGTACTTTTCCTAGTATTTTCCCTCAAGGATAAATAAGATTTCATGCCAAG
1431655 T
66 T
1431656 CTTCTGATGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (67 bp):
GCAAATGTACTCAGGGTACTTTTCCTAGTATTTTCCCTCAAGGATAAATAAGATTTCATGCCAAG
TT
Found at i:1432602 original size:2 final size:2
Alignment explanation
Indices: 1432595--1432627 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1432585 TTCTGATGTG
*
1432595 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1432628 TCGAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1432610 original size:12 final size:12
Alignment explanation
Indices: 1432590--1432627 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1432580 TGTTCTTCTG
*
1432590 ATGTGTATATAT
1 ATGTATATATAT
1432602 ATGTATATATAT
1 ATGTATATATAT
*
1432614 ATATATATATAT
1 ATGTATATATAT
1432626 AT
1 AT
1432628 TCGAATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:1435541 original size:28 final size:30
Alignment explanation
Indices: 1435482--1435541 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
1435472 CTTGTAATAT
*
1435482 TTATATGTAAATGGTAATACTTTTTTGTAA
1 TTATATGTAAATGGTAATACTTTTATGTAA
*
1435512 TTATATGTAAA-GGTAAT-GTTTTATGTAA
1 TTATATGTAAATGGTAATACTTTTATGTAA
1435540 TT
1 TT
1435542 GTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 11 0.39
29 6 0.21
30 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (30 bp):
TTATATGTAAATGGTAATACTTTTATGTAA
Found at i:1435637 original size:58 final size:57
Alignment explanation
Indices: 1435524--1435656 Score: 194
Period size: 58 Copynumber: 2.3 Consensus size: 57
1435514 ATATGTAAAG
* * * * * *
1435524 GTAATGTTTTATGTAATTGTAATATTTTTTATAATTGATAATGTTTGTATGTAATTA
1 GTAATGTTTTATGTAATTGCAATATTTTTTATAACTAATAACGTTTATATATAATTA
*
1435581 GTAATATTTTATGTAACTTGCAATATTTTTTATAACTAATAACGTTTATATATAATTA
1 GTAATGTTTTATGTAA-TTGCAATATTTTTTATAACTAATAACGTTTATATATAATTA
1435639 GTAATGTTTTATGTAATT
1 GTAATGTTTTATGTAATT
1435657 ACATGTAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 17 0.25
58 50 0.75
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (57 bp):
GTAATGTTTTATGTAATTGCAATATTTTTTATAACTAATAACGTTTATATATAATTA
Found at i:1435657 original size:19 final size:19
Alignment explanation
Indices: 1435524--1435657 Score: 103
Period size: 19 Copynumber: 7.0 Consensus size: 19
1435514 ATATGTAAAG
1435524 GTAATGTTTTATGTAATT-
1 GTAATGTTTTATGTAATTA
* * *
1435542 GTAATATTTTTTATAATT-
1 GTAATGTTTTATGTAATTA
1435560 GATAATGTTTGTATGTAATTA
1 G-TAATGTTT-TATGTAATTA
*
1435581 GTAATATTTTATGTAACTT-
1 GTAATGTTTTATGTAA-TTA
* * * * *
1435600 GCAATATTTTTTATAACTA
1 GTAATGTTTTATGTAATTA
* * *
1435619 ATAACGTTTATATATAATTA
1 GTAATGTTT-TATGTAATTA
1435639 GTAATGTTTTATGTAATTA
1 GTAATGTTTTATGTAATTA
1435658 CATGTAAATA
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
18 17 0.19
19 41 0.46
20 31 0.34
21 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (19 bp):
GTAATGTTTTATGTAATTA
Found at i:1437167 original size:98 final size:98
Alignment explanation
Indices: 1436960--1437151 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
1436950 AGGTCTTTTG
* * *
1436960 ACATCAACATTTGGATATTTCTTAATAGTACTTAGCTTTTTTGATAAATAAAATATTTAACAAAA
1 ACATCAACATTTGGATATTTCTTAATAATACTTAGCTTTTTTGATAAATAAAAAAATTAACAAAA
* *
1437025 TAAGTAAATTAAAAAAAATAAATTTATGTATTC
66 TAAATAAATTAAAAAAAATAAATTTATATATTC
*
1437058 ACATCAACATTTGGATATTTCTTAATAATACTTAGCTTTTTTGATAAATAAAAAAATTGACAAAA
1 ACATCAACATTTGGATATTTCTTAATAATACTTAGCTTTTTTGATAAATAAAAAAATTAACAAAA
1437123 -AAATAAATT-AAAAAAAT-AATTTATATATT
66 TAAATAAATTAAAAAAAATAAATTTATATATT
1437152 TATATTATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 11 0.12
96 8 0.09
97 8 0.09
98 61 0.69
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (98 bp):
ACATCAACATTTGGATATTTCTTAATAATACTTAGCTTTTTTGATAAATAAAAAAATTAACAAAA
TAAATAAATTAAAAAAAATAAATTTATATATTC
Found at i:1437533 original size:19 final size:20
Alignment explanation
Indices: 1437482--1437535 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1437472 ATTGTAGATC
1437482 TATTTAAATTTAAAATTATT
1 TATTTAAATTTAAAATTATT
1437502 TATTTAAATTTAAAA-T-TT
1 TATTTAAATTTAAAATTATT
1437520 TATTTAATATTTAAAA
1 TATTTAA-ATTTAAAA
1437536 AAATAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.27
19 9 0.27
20 15 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTAAATTTAAAATTATT
Found at i:1437694 original size:21 final size:23
Alignment explanation
Indices: 1437657--1437708 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
1437647 ATATTTTTAT
1437657 TAATTA-TTAATTATATATGATA
1 TAATTATTTAATTATATATGATA
*
1437679 TAA-TATTTAATT-TATATTATA
1 TAATTATTTAATTATATATGATA
1437700 TAATTATTT
1 TAATTATTT
1437709 CTTTTATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TAATTATTTAATTATATATGATA
Found at i:1437708 original size:22 final size:22
Alignment explanation
Indices: 1437653--1437724 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
1437643 CATAATATTT
1437653 TTAT-TAATTA-TTAATTATATA
1 TTATATAATTATTTAATT-TATA
*
1437674 TGATATAA-TATTTAATTTATA
1 TTATATAATTATTTAATTTATA
*
1437695 TTATATAATTATTT-CTTT-TA
1 TTATATAATTATTTAATTTATA
*
1437715 TTCTATAATT
1 TTATATAATT
1437725 TAACAAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.25
21 19 0.43
22 14 0.32
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TTATATAATTATTTAATTTATA
Found at i:1439340 original size:39 final size:39
Alignment explanation
Indices: 1439262--1439428 Score: 112
Period size: 39 Copynumber: 4.3 Consensus size: 39
1439252 AACTAACTTT
* * *
1439262 AAAGATTTAGTTTTGATG--AAAAT-GTAAAATAAATCTTA
1 AAAGCTTTA-TTTTGATGTAAAAATATTAAAAT-AATTTTA
*
1439300 AAAGTTTTATTTTGATGTAAAAATATTAAAATAATTTTA
1 AAAGCTTTATTTTGATGTAAAAATATTAAAATAATTTTA
* * *** *
1439339 AAAGCTTGATTTTGATGTGAAAGCGTAAAAATAATCTTTA
1 AAAGCTTTATTTTGATGTAAAAATATTAAAATAAT-TTTA
* * * * *
1439379 AAA-CTTAATTTTTA-ATATAAAATATTAAAATGACTTTA
1 AAAGCTTTATTTTGATGTA-AAAATATTAAAATAATTTTA
*
1439417 AAAG-TTCATTTT
1 AAAGCTTTATTTT
1439429 CGTCATAAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
37 8 0.08
38 23 0.23
39 58 0.57
40 13 0.13
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (39 bp):
AAAGCTTTATTTTGATGTAAAAATATTAAAATAATTTTA
Found at i:1439860 original size:26 final size:25
Alignment explanation
Indices: 1439810--1439861 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
1439800 TTAACTTAAA
*
1439810 TTAAATAATAATATTTAAATGATAAT
1 TTAAATAATAATATATAAA-GATAAT
1439836 TTAAATAATAATAATATATAA-ATAAT
1 TTAAATAATAAT-ATATA-AAGATAAT
1439862 AAATAAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 17 0.74
27 4 0.17
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAATAATAATATATAAAGATAAT
Found at i:1446574 original size:6 final size:6
Alignment explanation
Indices: 1446563--1446588 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1446553 AATAAAACCC
1446563 AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
1446589 TAATCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:1447881 original size:41 final size:41
Alignment explanation
Indices: 1447819--1447897 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
1447809 TAAGAAACTT
* * *
1447819 AAAAGATTGATTAGGATAAAACCATAAGAGTCAATGAATGA
1 AAAAAATTGATTAGGACAAAACCATAAAAGTCAATGAATGA
1447860 AAAAAATTGATCTA-GACAAAACCATAAAAGTCAATGAA
1 AAAAAATTGAT-TAGGACAAAACCATAAAAGTCAATGAA
1447898 GGGTGACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (41 bp):
AAAAAATTGATTAGGACAAAACCATAAAAGTCAATGAATGA
Found at i:1448294 original size:41 final size:42
Alignment explanation
Indices: 1448209--1448322 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 42
1448199 GGGAAAACTA
* * * **
1448209 TTGATTGGGATGAAACCATACGAGTCAAC-ATATGAGAAGTG
1 TTGATCGGGATGAAACCATACGAGTCAACAAAAAGAGAAAAG
* *
1448250 TTGATCGGGATAAAACCATACGAGTTAACAAAAAG-GAAAAG
1 TTGATCGGGATGAAACCATACGAGTCAACAAAAAGAGAAAAG
* * *
1448291 TTGACCGAGATGAAACCATATGAGTCAACAAA
1 TTGATCGGGATGAAACCATACGAGTCAACAAA
1448323 GAATAACCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 57 0.95
42 3 0.05
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (42 bp):
TTGATCGGGATGAAACCATACGAGTCAACAAAAAGAGAAAAG
Found at i:1448830 original size:40 final size:40
Alignment explanation
Indices: 1448724--1448879 Score: 145
Period size: 40 Copynumber: 3.9 Consensus size: 40
1448714 TAAGTAAAAA
* ** *
1448724 AGGTTGACTAGAGCTAAACCATTTTAGTCAACAAATTA-AA
1 AGGTTGACTAGGGCTAAACCATTACA-TCAACAAATTAGAG
* ** *
1448764 AGGGTTAACTAGGGCTAAACTGTTACATCAATAAATTAGAG
1 A-GGTTGACTAGGGCTAAACCATTACATCAACAAATTAGAG
* * * *
1448805 AGGTTGGCTAGGGCTAAACCATTACATTTAGCCAATTAGAG
1 AGGTTGACTAGGGCTAAACCATTACA-TCAACAAATTAGAG
*
1448846 TGGTTGACTAGGG-TAAACCATTACAATCAACAAA
1 AGGTTGACTAGGGCTAAACCATTAC-ATCAACAAA
1448880 GGATGACTAT
Statistics
Matches: 91, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 48 0.53
41 43 0.47
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (40 bp):
AGGTTGACTAGGGCTAAACCATTACATCAACAAATTAGAG
Found at i:1448999 original size:105 final size:106
Alignment explanation
Indices: 1448838--1449089 Score: 269
Period size: 105 Copynumber: 2.4 Consensus size: 106
1448828 ACATTTAGCC
* * * * * * *
1448838 AATTAGAGTGGTTGACTAGGG-TAAACCATTACAATCAACAAAGGATGACTATGATGAAACTTAA
1 AATTAGAGGGGTTGACCAGGGCTAAACCATTATAGTCAACAAAGGATAACTACGATGAAACCTAA
* * ** * *
1448902 GTTGAAAAA-GGTTGACTAGGGCTAAACCATTATAGCCAATA
66 G-TAAAAAAGGGTTGACCAAAGCTAAACCATTACAGCCAACA
*
1448943 AGTTAGAGGGGTTGACCAGGGCTAAA-CATTATAGTCAACTAAAGG-TAACTACGATGAAACCTA
1 AATTAGAGGGGTTGACCAGGGCTAAACCATTATAGTCAAC-AAAGGATAACTACGATGAAACCTA
* **
1449006 AGTAAAAAAGGGTTGACCAAAGCTAAACTATTACAGTTAACA
65 AGTAAAAAAGGGTTGACCAAAGCTAAACCATTACAGCCAACA
* * * *
1449048 AATTAAAAGGGTTGACCAAGGCTAAACCAGTATAGTCAACAA
1 AATTAGAGGGGTTGACCAGGGCTAAACCATTATAGTCAACAA
1449090 GTTAGAAAAG
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
104 6 0.05
105 94 0.78
106 21 0.17
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (106 bp):
AATTAGAGGGGTTGACCAGGGCTAAACCATTATAGTCAACAAAGGATAACTACGATGAAACCTAA
GTAAAAAAGGGTTGACCAAAGCTAAACCATTACAGCCAACA
Found at i:1449089 original size:41 final size:41
Alignment explanation
Indices: 1449011--1449089 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
1449001 ACCTAAGTAA
* * *
1449011 AAAAGGGTTGACCAAAGCTAAACTATTACAGTTAACAAATT
1 AAAAGGGTTGACCAAAGCTAAACCAGTACAGTCAACAAATT
* *
1449052 AAAAGGGTTGACCAAGGCTAAACCAGTATAGTCAACAA
1 AAAAGGGTTGACCAAAGCTAAACCAGTACAGTCAACAA
1449090 GTTAGAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAAGGGTTGACCAAAGCTAAACCAGTACAGTCAACAAATT
Found at i:1449103 original size:41 final size:41
Alignment explanation
Indices: 1449011--1449104 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
1449001 ACCTAAGTAA
* * * *
1449011 AAAAGGGTTGACCAAAGCTAAACTATTACAGTTAACAAATT
1 AAAAGAGTTGACCAAAGCTAAACCAGTACAGTCAACAAATT
* * * *
1449052 AAAAGGGTTGACCAAGGCTAAACCAGTATAGTCAACAAGTT
1 AAAAGAGTTGACCAAAGCTAAACCAGTACAGTCAACAAATT
1449093 AGAAA-AGTTGAC
1 A-AAAGAGTTGAC
1449105 TAGGGTGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 42 0.93
42 3 0.07
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAAGAGTTGACCAAAGCTAAACCAGTACAGTCAACAAATT
Found at i:1449208 original size:65 final size:65
Alignment explanation
Indices: 1449095--1449257 Score: 197
Period size: 65 Copynumber: 2.5 Consensus size: 65
1449085 AACAAGTTAG
* * * *
1449095 AAAAGTTGACTAGGGTGAAACAT-TAGTCGAAAAGGATTGAACATGGCTAAACTAGTACAGTCAA
1 AAAAGTTGACTAGGATGAAACCTATA-TCGAAAAAGATTGAACAGGGCTAAACTAGTACAGTCAA
1449159 CT
65 -T
* * *
1449161 AAAAG-TGACTAGGATGAAACCTATATCGAGAAAAG-TTGACCAGGGCTAAACTAGTATAGTTAA
1 AAAAGTTGACTAGGATGAAACCTATATCGA-AAAAGATTGAACAGGGCTAAACTAGTACAGTCAA
1449224 T
65 T
* *
1449225 TAAAGTTGACTAGGATGAAACCTAAATCGAAAA
1 AAAAGTTGACTAGGATGAAACCTATATCGAAAA
1449258 GGGTCGATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
64 8 0.09
65 66 0.78
66 11 0.13
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (65 bp):
AAAAGTTGACTAGGATGAAACCTATATCGAAAAAGATTGAACAGGGCTAAACTAGTACAGTCAAT
Found at i:1450637 original size:33 final size:33
Alignment explanation
Indices: 1450594--1450681 Score: 140
Period size: 33 Copynumber: 2.7 Consensus size: 33
1450584 CCCAGATGTT
*
1450594 TCGATACATATTACTTTGTATCGATATATTATA
1 TCGATACATATTGCTTTGTATCGATATATTATA
* *
1450627 TCGATGCATATTGCTTTGTATCGATATATTGTA
1 TCGATACATATTGCTTTGTATCGATATATTATA
*
1450660 TTGATACATATTGCTTTGTATC
1 TCGATACATATTGCTTTGTATC
1450682 AATACATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (33 bp):
TCGATACATATTGCTTTGTATCGATATATTATA
Found at i:1452339 original size:3 final size:3
Alignment explanation
Indices: 1452331--1452378 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
1452321 AACCATCAAA
* * *
1452331 GAT GAT GAT GAA GAT GAT GAT GAA GAT GAT GAT AAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1452379 AAAGAAGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1452344 original size:12 final size:12
Alignment explanation
Indices: 1452329--1452377 Score: 82
Period size: 12 Copynumber: 4.1 Consensus size: 12
1452319 TCAACCATCA
1452329 AAGATGATGATG
1 AAGATGATGATG
1452341 AAGATGATGATG
1 AAGATGATGATG
1452353 AAGATGATGAT-
1 AAGATGATGATG
1452364 AATGATGATGATG
1 AA-GATGATGATG
1452377 A
1 A
1452378 TAAAGAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.06
12 32 0.91
13 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (12 bp):
AAGATGATGATG
Found at i:1457539 original size:13 final size:13
Alignment explanation
Indices: 1457521--1457546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1457511 CAATTTTTTG
1457521 TGTATCGATACAT
1 TGTATCGATACAT
1457534 TGTATCGATACAT
1 TGTATCGATACAT
1457547 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1457562 original size:32 final size:33
Alignment explanation
Indices: 1457501--1457564 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1457491 TACAAGCCAA
** *
1457501 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
1457534 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
1457565 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:1457631 original size:20 final size:20
Alignment explanation
Indices: 1457606--1457679 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1457596 CATCCTTTTT
1457606 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1457626 ATGTATCGATACATTTTTTTTC
1 ATGTATCGATACA--TTGCAAC
1457648 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1457668 ATGTATCGATAC
1 ATGTATCGATAC
1457680 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1457646 original size:41 final size:42
Alignment explanation
Indices: 1457585--1457679 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
1457575 CTGCCAAGAA
1457585 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
**
1457626 ATGTATCGATACATTTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
1457668 ATGTATCGATAC
1 ATGTATCGATAC
1457680 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 19 0.37
42 32 0.63
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
Found at i:1458287 original size:48 final size:48
Alignment explanation
Indices: 1458232--1458327 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
1458222 AAAATTTACG
1458232 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1458280 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1458328 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:1460186 original size:13 final size:13
Alignment explanation
Indices: 1460168--1460232 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
1460158 ATAATCACCC
*
1460168 TGTATCGATACAG
1 TGTATCGATACAA
1460181 TGTATCGATACAA
1 TGTATCGATACAA
*
1460194 TGTATCGATACAG
1 TGTATCGATACAA
1460207 TGTATCGATACAA
1 TGTATCGATACAA
1460220 TGTATCGATACAA
1 TGTATCGATACAA
1460233 GGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1460197 original size:26 final size:26
Alignment explanation
Indices: 1460168--1460231 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
1460158 ATAATCACCC
1460168 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1460194 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1460220 TGTATCGATACA
1 TGTATCGATACA
1460232 AGGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:1462306 original size:15 final size:15
Alignment explanation
Indices: 1462286--1462316 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1462276 ATTTCGTTTG
*
1462286 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1462301 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1462316 G
1 G
1462317 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1466396 original size:13 final size:13
Alignment explanation
Indices: 1466378--1466403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1466368 CAATTTTTTG
1466378 TGTATCGATACAT
1 TGTATCGATACAT
1466391 TGTATCGATACAT
1 TGTATCGATACAT
1466404 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1466419 original size:32 final size:33
Alignment explanation
Indices: 1466358--1466421 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1466348 TACAAGCCAA
** *
1466358 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
1466391 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
1466422 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:1466488 original size:20 final size:20
Alignment explanation
Indices: 1466463--1466536 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1466453 CATCCTTTTT
1466463 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1466483 ATGTATCGATACATTTTTTTTC
1 ATGTATCGATACA--TTGCAAC
1466505 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1466525 ATGTATCGATAC
1 ATGTATCGATAC
1466537 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1466503 original size:41 final size:42
Alignment explanation
Indices: 1466442--1466536 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
1466432 CTGCCAAGAA
1466442 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
**
1466483 ATGTATCGATACATTTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
1466525 ATGTATCGATAC
1 ATGTATCGATAC
1466537 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 19 0.37
42 32 0.63
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCCTTTTTCATGTATCGATACATTGCAAC
Found at i:1467983 original size:20 final size:20
Alignment explanation
Indices: 1467958--1467996 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1467948 TATGTGGGGA
1467958 CGAATCCATTTCTCATCGTT
1 CGAATCCATTTCTCATCGTT
1467978 CGAATCCATTTCTCATCGT
1 CGAATCCATTTCTCATCGT
1467997 CCCTAGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (20 bp):
CGAATCCATTTCTCATCGTT
Found at i:1468170 original size:18 final size:18
Alignment explanation
Indices: 1468126--1468178 Score: 79
Period size: 19 Copynumber: 2.9 Consensus size: 18
1468116 AATTTCAACG
1468126 ATTTGTATCGATACAAAA
1 ATTTGTATCGATACAAAA
*
1468144 ATGTTGTATCGATACATAA
1 AT-TTGTATCGATACAAAA
*
1468163 GTTTGTATCGATACAA
1 ATTTGTATCGATACAA
1468179 TGTATCGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACAAAA
Found at i:1468248 original size:13 final size:13
Alignment explanation
Indices: 1468230--1468254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1468220 ATTACCCAAA
1468230 TGTATCGATACAT
1 TGTATCGATACAT
1468243 TGTATCGATACA
1 TGTATCGATACA
1468255 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1468307 original size:52 final size:52
Alignment explanation
Indices: 1468263--1468391 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1468253 CACTGATCTT
*
1468263 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1468315 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1468367 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1468392 TCATATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1476894 original size:20 final size:18
Alignment explanation
Indices: 1476840--1476884 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
1476830 AGGGAAGGGG
*
1476840 AAAAGAAAAGAAAGGGAAGAA
1 AAAAGAAAA-AAA--GAAAAA
1476861 AAAAGAAAAAAAGAAAAA
1 AAAAGAAAAAAAGAAAAA
1476879 AAAAGA
1 AAAAGA
1476885 GAGAAGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
20 3 0.13
21 9 0.39
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAGAAAAA
Found at i:1477772 original size:17 final size:17
Alignment explanation
Indices: 1477750--1477784 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1477740 AAGTTTGATC
1477750 ATTATAAGATGAAATTA
1 ATTATAAGATGAAATTA
1477767 ATTATAAGATGAAATTA
1 ATTATAAGATGAAATTA
1477784 A
1 A
1477785 AATCACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTATAAGATGAAATTA
Found at i:1478790 original size:16 final size:17
Alignment explanation
Indices: 1478765--1478798 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1478755 TAGGTGTTTC
*
1478765 AAATTGTAATTA-AAAT
1 AAATTCTAATTATAAAT
1478781 AAATTCTAATTATAAAT
1 AAATTCTAATTATAAAT
1478798 A
1 A
1478799 TGTGAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTCTAATTATAAAT
Found at i:1480952 original size:27 final size:27
Alignment explanation
Indices: 1480922--1480978 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
1480912 AGTCACAAGA
1480922 AAATGATAGTATTTCAACTTTAAAGGT
1 AAATGATAGTATTTCAACTTTAAAGGT
*
1480949 AAATGATAGTATTTCGACTTTAAAGGT
1 AAATGATAGTATTTCAACTTTAAAGGT
1480976 AAA
1 AAA
1480979 CTCACAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (27 bp):
AAATGATAGTATTTCAACTTTAAAGGT
Found at i:1482199 original size:20 final size:19
Alignment explanation
Indices: 1482156--1482202 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1482146 TTATGTTTTA
**
1482156 TATCGATACATGTTCATAG
1 TATCGATACATGCACATAG
*
1482175 TATCGATACATGCACAATTG
1 TATCGATACATGCAC-ATAG
1482195 TATCGATA
1 TATCGATA
1482203 TATAAAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (19 bp):
TATCGATACATGCACATAG
Found at i:1482260 original size:20 final size:20
Alignment explanation
Indices: 1482235--1482288 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1482225 CTACCACTGT
*
1482235 TTGTATCGATACATGGT-ATA
1 TTGTATCGATACATGATGA-A
*
1482255 TTGTATCGATATATGATGAA
1 TTGTATCGATACATGATGAA
*
1482275 TTGGATCGATACAT
1 TTGTATCGATACAT
1482289 TGCTTCAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1482881 original size:23 final size:23
Alignment explanation
Indices: 1482805--1482896 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
1482795 AGCTTAAACG
1482805 ATGCAAATTTTAGGCTTAGTTTC
1 ATGCAAATTTTAGGCTTAGTTTC
** ** *
1482828 AAACATTTTTTTGTG-TTAGTTTC
1 ATGCAAATTTTAG-GCTTAGTTTC
*
1482851 AT--ATATTTTAGGCTTAGTTTC
1 ATGCAAATTTTAGGCTTAGTTTC
*
1482872 ATGCAAATTTTAGGGTTAGTTTC
1 ATGCAAATTTTAGGCTTAGTTTC
1482895 AT
1 AT
1482897 ATTGGATTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.02
21 17 0.31
23 36 0.65
24 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (23 bp):
ATGCAAATTTTAGGCTTAGTTTC
Found at i:1482890 original size:44 final size:44
Alignment explanation
Indices: 1482811--1482898 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
1482801 AACGATGCAA
** * *
1482811 ATTTTAGGCTTAGTTTCAAACATTTTTTTGTGTTAGTTTCATAT
1 ATTTTAGGCTTAGTTTCAAACAAATTTTAGGGTTAGTTTCATAT
**
1482855 ATTTTAGGCTTAGTTTCATGCAAATTTTAGGGTTAGTTTCATAT
1 ATTTTAGGCTTAGTTTCAAACAAATTTTAGGGTTAGTTTCATAT
1482899 TGGATTGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (44 bp):
ATTTTAGGCTTAGTTTCAAACAAATTTTAGGGTTAGTTTCATAT
Found at i:1484600 original size:24 final size:23
Alignment explanation
Indices: 1484553--1484600 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1484543 TTAAATAAAA
* *
1484553 ATTTTATTTTTAAAATTATTTTT
1 ATTTTATTTTTAAAAATATATTT
1484576 ATTTTATTTTTAAATAATATATTT
1 ATTTTATTTTTAAA-AATATATTT
1484600 A
1 A
1484601 AAAAGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTATTTTTAAAAATATATTT
Found at i:1489306 original size:9 final size:9
Alignment explanation
Indices: 1489273--1489305 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1489263 ACTCCCTTCA
1489273 AGAAAAAGG
1 AGAAAAAGG
1489282 AGAAAAAGG
1 AGAAAAAGG
1489291 AGAAAAAGG
1 AGAAAAAGG
1489300 -GAAAAA
1 AGAAAAA
1489306 AATGGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (9 bp):
AGAAAAAGG
Found at i:1492262 original size:18 final size:17
Alignment explanation
Indices: 1492219--1492253 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1492209 TTTGATAATT
*
1492219 AATAAATATATTTAAAA
1 AATAAATATATATAAAA
1492236 AATATAATATATATAAAA
1 AATA-AATATATATAAAA
1492254 TATTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAATATATATAAAA
Found at i:1492276 original size:34 final size:34
Alignment explanation
Indices: 1492236--1492356 Score: 99
Period size: 34 Copynumber: 3.6 Consensus size: 34
1492226 ATATTTAAAA
1492236 AATATAATATATATAAAATATTAAATAATTATAT
1 AATATAATATATATAAAATATTAAATAATTATAT
* * * * * *
1492270 GATATAATATAGATATATATTTTAAA-ATTTATGT
1 AATATAATATATATA-AAATATTAAATAATTATAT
*
1492304 AATATGAAT-TAT-TAATATATTAAAT-A-TATAT
1 AATAT-AATATATATAAAATATTAAATAATTATAT
* *
1492335 AAATATAATATATTTTAAATAT
1 -AATATAATATATATAAAATAT
1492357 AATTATAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
31 7 0.10
32 17 0.25
33 8 0.12
34 25 0.37
35 11 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (34 bp):
AATATAATATATATAAAATATTAAATAATTATAT
Found at i:1492329 original size:22 final size:21
Alignment explanation
Indices: 1492304--1492388 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 21
1492294 AAATTTATGT
1492304 AATATGAATTATTAATATATTA
1 AATAT-AATTATTAATATATTA
*
1492326 AATATATATAAATATAATATATTTTA
1 AATATA-AT-TAT-TAATATA--TTA
*
1492352 AATATAATTA-TAATATA-AA
1 AATATAATTATTAATATATTA
1492371 AATATAA-TATTAATATAT
1 AATATAATTATTAATATAT
1492389 GAAGTATATA
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 1 0.02
22 14 0.26
23 2 0.04
24 8 0.15
25 2 0.04
26 9 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (21 bp):
AATATAATTATTAATATATTA
Found at i:1493417 original size:29 final size:27
Alignment explanation
Indices: 1493364--1493454 Score: 80
Period size: 28 Copynumber: 3.4 Consensus size: 27
1493354 TACCCATTTG
* *
1493364 TTTGTAAAAAATGGTGGTTATTTTGTGT
1 TTTGTCAAAAATGGTGGTTATTTTGT-A
1493392 TTTGTCAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT--TTTGTA
* * * *
1493420 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTGTA
1493445 TTTGTCAAAA
1 TTTGTCAAAA
1493455 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
25 11 0.20
26 2 0.04
27 1 0.02
28 35 0.65
29 5 0.09
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGTA
Found at i:1493423 original size:28 final size:28
Alignment explanation
Indices: 1493364--1493433 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
1493354 TACCCATTTG
* *
1493364 TTTGTAAAAAATGGTGGTTATTTTGTGT
1 TTTGTCAAAAATGGTGGTTATTTTGTGA
1493392 TTTGTCAAAAATGGTGGTT-TCCTTTGT-A
1 TTTGTCAAAAATGGTGGTTAT--TTTGTGA
*
1493420 TTTGTCAAATATGG
1 TTTGTCAAAAATGG
1493434 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 31 0.84
29 5 0.14
ACGTcount: A:0.24, C:0.06, G:0.23, T:0.47
Consensus pattern (28 bp):
TTTGTCAAAAATGGTGGTTATTTTGTGA
Found at i:1496016 original size:21 final size:22
Alignment explanation
Indices: 1495987--1496032 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1495977 TGTTCAAACA
** *
1495987 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1496009 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1496030 AGT
1 AGT
1496033 TTCAACAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1497977 original size:28 final size:27
Alignment explanation
Indices: 1497918--1498007 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
1497908 CACCCATTTG
*
1497918 TTTGTCAAAAATGGTGGTTATTTTATG
1 TTTGTCAAAAATGGTGGTTATTTTATA
*
1497945 TTTGTCAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT--TTTATA
* * * *
1497973 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
1497998 TTTGTCAAAA
1 TTTGTCAAAA
1498008 TTTGTGACTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.06
27 19 0.35
28 21 0.39
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:1498088 original size:20 final size:20
Alignment explanation
Indices: 1498063--1498108 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1498053 AAATAGAGGC
*
1498063 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
1498083 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
1498103 TCCCTC
1 TCCCTC
1498109 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:1498589 original size:13 final size:13
Alignment explanation
Indices: 1498571--1498595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1498561 CATAAAGTAT
1498571 TGTATCGATACAA
1 TGTATCGATACAA
1498584 TGTATCGATACA
1 TGTATCGATACA
1498596 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1498593 original size:33 final size:33
Alignment explanation
Indices: 1498551--1498617 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1498541 TTCAACGATT
1498551 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
*** *
1498584 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
1498617 T
1 T
1498618 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:1498676 original size:13 final size:13
Alignment explanation
Indices: 1498658--1498682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1498648 ATTACTTAAA
1498658 TGTATCGATACAT
1 TGTATCGATACAT
1498671 TGTATCGATACA
1 TGTATCGATACA
1498683 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1508314 original size:42 final size:44
Alignment explanation
Indices: 1508234--1508317 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 44
1508224 TGGAAAATGT
*
1508234 TGCCAATATGCTTGATTCACGGCCAGCTACATTGGACTTAAAGG
1 TGCCAATATGCTTGATTCAAGGCCAGCTACATTGGACTTAAAGG
* *
1508278 TGCCAATGTGC-TG-TTCAAGGTCAGCCTACA-TGGACTTAAA
1 TGCCAATATGCTTGATTCAAGGCCAG-CTACATTGGACTTAAA
1508318 TATGAAGGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 19 0.53
43 7 0.19
44 10 0.28
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
TGCCAATATGCTTGATTCAAGGCCAGCTACATTGGACTTAAAGG
Found at i:1508523 original size:27 final size:26
Alignment explanation
Indices: 1508493--1508563 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 26
1508483 GTTTGCATCA
* *
1508493 ACTTGTGTGCTTTGAAGGTTGCTACTG
1 ACTTGTG-GCTTTGAAAGTTGCCACTG
1508520 ACTTGTGGGCTTTGAAAGTTGCCACTG
1 ACTTGT-GGCTTTGAAAGTTGCCACTG
1508547 ACTTGTGGCTTTTGAAA
1 ACTTGTGGC-TTTGAAA
1508564 CGGGTGCCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (26 bp):
ACTTGTGGCTTTGAAAGTTGCCACTG
Found at i:1510342 original size:1 final size:1
Alignment explanation
Indices: 1510336--1510442 Score: 88
Period size: 1 Copynumber: 107.0 Consensus size: 1
1510326 GGTGGACCCC
** * * * * * * *
1510336 TTTTTTTTTGCTTTTTTTTTTTGTTTGTTTGTTTTTTTTTTGTTTTTTTTGTTTTGTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** **
1510401 TTTTTTTTTTGTTTTGGTTTTTTTTTTTTTTGCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1510443 GTGGTAGGAC
Statistics
Matches: 82, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:1510372 original size:19 final size:17
Alignment explanation
Indices: 1510336--1510442 Score: 119
Period size: 18 Copynumber: 6.1 Consensus size: 17
1510326 GGTGGACCCC
*
1510336 TTTTTTTTTGCTTTTTT
1 TTTTTTTTTGTTTTTTT
*
1510353 TTTTTGTTTGTTTGTTTT
1 TTTTTTTTTGTTT-TTTT
1510371 TTTTTTGTTT-TTTTTGTT
1 TTTTTT-TTTGTTTTT-TT
*
1510389 TTGTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTT
*
1510406 TTTTTGTTTTG-GTTTTT
1 TTTTT-TTTTGTTTTTTT
1510423 TTTTTTTTTGCTTTTTTT
1 TTTTTTTTTG-TTTTTTT
1510441 TT
1 TT
1510443 GTGGTAGGAC
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.07
17 32 0.42
18 36 0.47
19 3 0.04
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTT
Found at i:1510372 original size:20 final size:19
Alignment explanation
Indices: 1510339--1510444 Score: 110
Period size: 19 Copynumber: 5.4 Consensus size: 19
1510329 GGACCCCTTT
1510339 TTTTTTGCTTTTTTTTTTTG
1 TTTTTTG-TTTTTTTTTTTG
*
1510359 TTTGTTTGTTTTTTTTTTGTT
1 TTT-TTTGTTTTTTTTTT-TG
*
1510380 TTTTTTGTTTTGTTTTTTG
1 TTTTTTGTTTTTTTTTTTG
*
1510399 TTTTTT-TTTTTTGTTTTGG
1 TTTTTTGTTTTTT-TTTTTG
1510418 TTTTTT-TTTTTTTTGCTTT-
1 TTTTTTGTTTTTTTT--TTTG
1510437 TTTTTTGT
1 TTTTTTGT
1510445 GGTAGGACGC
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.09
19 30 0.41
20 29 0.39
21 8 0.11
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTTTG
Found at i:1510376 original size:32 final size:30
Alignment explanation
Indices: 1510336--1510444 Score: 128
Period size: 32 Copynumber: 3.4 Consensus size: 30
1510326 GGTGGACCCC
1510336 TTTTTTTTTGCTTTTTTTTTTTGTTTGTTTGT
1 TTTTTTTTTG-TTTTTTTTTTTGTTT-TTTGT
1510368 TTTTTTTTTGTTTTTTTTGTTTTGTTTTTTGTTT
1 TTTTTTTTTG-TTTTTTT-TTTTGTTTTTTG--T
* *
1510402 TTTTTTTTTGTTTTGGTTTTTTTTTTTTTTGC
1 TTTTTTTTTGTTTT--TTTTTTTGTTTTTTGT
1510434 TTTTTTTTTGT
1 TTTTTTTTTGT
1510445 GGTAGGACGC
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
32 32 0.46
33 12 0.17
34 22 0.32
35 3 0.04
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (30 bp):
TTTTTTTTTGTTTTTTTTTTTGTTTTTTGT
Found at i:1510381 original size:25 final size:24
Alignment explanation
Indices: 1510347--1510431 Score: 127
Period size: 25 Copynumber: 3.5 Consensus size: 24
1510337 TTTTTTTTGC
*
1510347 TTTTTTTTTTTGTTTG-TTTGTTT
1 TTTTTTTTTTTTTTTGTTTTGTTT
1510370 TTTTTTTGTTTTTTTTGTTTTGTTT
1 TTTTTTT-TTTTTTTTGTTTTGTTT
*
1510395 TTTGTTTTTTTTTTTTGTTTTGGTT
1 TTT-TTTTTTTTTTTTGTTTTGTTT
1510420 TTTTTTTTTTTT
1 TTTTTTTTTTTT
1510432 GCTTTTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
23 7 0.12
24 17 0.30
25 29 0.51
26 4 0.07
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (24 bp):
TTTTTTTTTTTTTTTGTTTTGTTT
Found at i:1510440 original size:25 final size:22
Alignment explanation
Indices: 1510347--1510442 Score: 104
Period size: 24 Copynumber: 4.2 Consensus size: 22
1510337 TTTTTTTTGC
*
1510347 TTTTTTTTTTTGTTTGTTTGTTT
1 TTTTTTTTTTTTTTTGTTT-TTT
1510370 TTTTTTTGTTTTTTTTGTTTTGTT
1 TTTTTTT-TTTTTTTTGTTTT-TT
*
1510394 TTTTGTTTTTTTTTTT-TGTTTTG
1 TTTT-TTTTTTTTTTTGT-TTTTT
* *
1510417 GTTTTTTTTTTTTTTGCTTTTT
1 TTTTTTTTTTTTTTTGTTTTTT
1510439 TTTT
1 TTTT
1510443 GTGGTAGGAC
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
22 18 0.29
23 13 0.21
24 28 0.45
25 3 0.05
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTGTTTTTT
Found at i:1511294 original size:1 final size:1
Alignment explanation
Indices: 1510566--1511278 Score: 553
Period size: 1 Copynumber: 713.0 Consensus size: 1
1510556 GTTGATTGGG
** * *** * *
1510566 TTTTTTTTTGGTTTGTTTTTTTTTTTTTTTTTTTTTTGGGTTTTTTTTTGTTTTTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** * * * * **
1510631 TTTTTTTTGCTTTTTTTGGTTTTTTTGGTTTTTTTTGTTTTGTTTTGTTTTTGTTTTTTTGGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1510696 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1510761 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*** **** * ** * *
1510826 TTTTTGGGTTTTTTTTTTTGCGGTTTTTTGTGGTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *** * ** ** * **
1510891 GGTTTTTTGTTTTGTTGGCTTTTGTTTGGTTTGGTTTTTTTTTTTGTTTTTGGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*** ** * * * *
1510956 TTTTTGGCTTTTTTTGGTTTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** ** ** * ** ** **** ***
1511021 TTTGGTTGGTTTGGTTTTTTTTTTTTTTTTTGGTTTTGTTTTGCTGATTTGGGGTTTTTTTGGCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * **
1511086 TTTTGTTGTTTTTTGTTTTTTTGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *** * * *
1511151 TTTTTTTTTTTTTTTTTGTGTTTTTTCTGCCTTTTTTTTTGTTTTTTTTTTTGTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** ** * *
1511216 TTGTTTTTTTTTGGTTTTTTTTTTTTTTTTTGGTTTTTTTTTTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1511279 CCCTTTGGTG
Statistics
Matches: 587, Mismatches: 125, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 587 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Done.