Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 120 of 185
Found at i:37557490 original size:125 final size:125
Alignment explanation
Indices: 37557268--37557645 Score: 630
Period size: 125 Copynumber: 3.0 Consensus size: 125
37557258 TTAGGGATTT
* *
37557268 TAGGTCATGGAAGAAATAATTTCGAGTTAACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
37557333 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
* *
37557393 TAGGTCCTGGAAGAAAAAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
37557458 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
* * * *
37557518 TAGCTCATGGAAGAAATAATTTCGAGTTGATGTTTCTAAGCAAATAGTATAAAATTGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
37557583 AGAATGCTGTTTGAGAAGAATTTGTGAAAGCGCGCCCTTGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
37557643 TAG
1 TAG
37557646 CATGTTTGGG
Statistics
Matches: 235, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 235 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAG
Found at i:37560887 original size:22 final size:22
Alignment explanation
Indices: 37560861--37561482 Score: 552
Period size: 23 Copynumber: 28.5 Consensus size: 22
37560851 CTAGTTTAAA
* * *
37560861 GTTTTAAAATTAAGGGTTAAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
37560883 GTTTTTAAGTTAAGGGTTTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
** *
37560905 GTTTTTAA-TTAAATTAGTTTAAG
1 GTTTTTAAGTT-AA-GGGTTTAGG
*
37560928 GTTTTTAAGTTAAGGG-TTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
37560949 G--TTTAGGGTT-AGGGTTTAGA
1 GTTTTTA-AGTTAAGGGTTTAGG
** *
37560969 GTTTTTAA-TTAAATTAGTTTAGA
1 GTTTTTAAGTT-AA-GGGTTTAGG
*
37560992 GTTTTTAAGTTAAGGGTTTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
37561014 ATTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
*
37561037 GTTTTTAATTTAAGGG-TT-GG
1 GTTTTTAAGTTAAGGGTTTAGG
**
37561057 TGTTTTTAAGTTAAGGG-TTAAA
1 -GTTTTTAAGTTAAGGGTTTAGG
*
37561079 GTTTTTAAGTTGAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
37561100 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
**
37561122 GTTTTTAA-TTAA-ATTAGTTAGG
1 GTTTTTAAGTTAAGGGT--TTAGG
*
37561144 GTTTATAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
**
37561166 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
* *
37561189 GTTTTTAGGTTTAAAGGTTTAGG
1 GTTTTTAAG-TTAAGGGTTTAGG
**
37561212 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
37561235 GTTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
37561256 G--TTTAAGGTTTAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
*
37561277 GTTTTTAAATT-A--GTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
37561296 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
37561318 GTTTTTAATTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
37561339 GTTTTTAAGTTAAGAG-TTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
*
37561360 GTTTTTAAGTTAAGGGTTTATG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
37561382 GTTTTTAATTTTAAGGATTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
**
37561405 GTTTTT-AGTTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
37561428 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
37561450 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
37561473 GTTTTTAAGT
1 GTTTTTAAGT
37561483 AATAACTCAA
Statistics
Matches: 496, Mismatches: 65, Indels: 78
0.78 0.10 0.12
Matches are distributed among these distances:
19 30 0.06
20 20 0.04
21 121 0.24
22 151 0.30
23 159 0.32
24 13 0.03
25 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (22 bp):
GTTTTTAAGTTAAGGGTTTAGG
Found at i:37561095 original size:42 final size:41
Alignment explanation
Indices: 37560822--37561482 Score: 207
Period size: 45 Copynumber: 15.2 Consensus size: 41
37560812 ATCAAATAAA
* * *
37560822 TTTAAGTTAAGGGTTACGGTTTTTAAGTTCTA-GTTTAAAGTT
1 TTTAAGTTAAGGGTT-GGGTTTTTAAGTT-AAGGGTTAAAGTT
* * *
37560864 TTAAAATTAAGGGTTAAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTT--GGGTTTTTAAGTTAAGGG-TTAAAGTT
* * * *
37560908 TTTAA-TTAAATTAGTTTAAGGTTTTTAAGTTAAGGGTT-AAG-G
1 TTTAAGTT-AA--GGGTT-GGGTTTTTAAGTTAAGGGTTAAAGTT
* * * * *
37560950 TTTAGGGTT-AGGGTTTAGAGTTTTTAA-TTAAATTAGTTTAGAGTT
1 TTTA-AGTTAAGGG-TT-GGGTTTTTAAGTT-AA--GGGTTAAAGTT
* * * **
37560995 TTTAAGTTAAGGGTTTAAGATTTTTAATTTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TT-GGGTTTTTAA-GTTAAGGG-TTAAAGTT
*
37561040 TTTAATTTAAGGGTTGGTGTTTTTAAGTTAAGGGTTAAAGTT
1 TTTAAGTTAAGGGTTGG-GTTTTTAAGTTAAGGGTTAAAGTT
* **
37561082 TTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTT-GGGTTTTTAAGTTAAGGG-TTAAAGTT
** * **
37561125 TTTAA-TTAAATTAGTTAGGGTTTATAAGTTAAGGGTTTAGGGTT
1 TTTAAGTT-AA-GGGTT-GGGTTTTTAAGTTAAGGG-TTAAAGTT
* * * * **
37561169 TTTAA-TTAAATTAGTTTAGGGTTTTTAGGTTTAAAGGTTTAGGGTT
1 TTTAAGTT-AA--GGGTT-GGGTTTTTAAG-TT-AAGGGTTAAAGTT
* * **
37561215 TTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTT--AGGG
1 TTTAAGTT-AA--GGGTT-GGGTTTTTAAGTTAAGGGTTAAAGTT
* * * **
37561257 TTTAAGGTTTAGGGTTTAGGGTTTTTAAATT-A-GTTTAGGGTT
1 TTTAA-GTTAAGGG-TT-GGGTTTTTAAGTTAAGGGTTAAAGTT
* **
37561299 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGG-TT-GGGTTTTTAAGTTAAGGGTTAAAGTT
* * **
37561342 TTTAAGTTAAGAGTTAAGGTTTTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTT-GGGTTTTTAAGTTAAGGG-TTAAAGTT
* * * * **
37561385 TTTAATTTTAAGGATTTAGGGTTTTT-AGTTAAATTAGTTTAGGGTT
1 TTTAA-GTTAAGG-GTT-GGGTTTTTAAGTT-AA--GGGTTAAAGTT
* **
37561431 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TT-GGGTTTTTAA-GTTAAGGG-TTAAAGTT
37561476 TTTAAGT
1 TTTAAGT
37561483 AATAACTCAA
Statistics
Matches: 496, Mismatches: 80, Indels: 83
0.75 0.12 0.13
Matches are distributed among these distances:
40 6 0.01
41 38 0.08
42 103 0.21
43 77 0.16
44 90 0.18
45 115 0.23
46 58 0.12
47 9 0.02
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (41 bp):
TTTAAGTTAAGGGTTGGGTTTTTAAGTTAAGGGTTAAAGTT
Found at i:37561299 original size:7 final size:7
Alignment explanation
Indices: 37561247--37561280 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
37561237 TTTTAAGTTA
37561247 AGGG-TT
1 AGGGTTT
37561253 AGGGTTT
1 AGGGTTT
*
37561260 AAGGTTT
1 AGGGTTT
37561267 AGGGTTT
1 AGGGTTT
37561274 AGGGTTT
1 AGGGTTT
37561281 TTAAATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:37563577 original size:23 final size:24
Alignment explanation
Indices: 37563540--37563588 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
37563530 TTACGGTTTA
* * *
37563540 AAAATTTTTTTAAAAAA-AAATTT
1 AAAATTATTTAAAAAAAGAAAGTT
37563563 AAAATTATTTAAAAAAAGAAAGTT
1 AAAATTATTTAAAAAAAGAAAGTT
37563587 AA
1 AA
37563589 GAGAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAATTATTTAAAAAAAGAAAGTT
Found at i:37563648 original size:11 final size:11
Alignment explanation
Indices: 37563634--37563710 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
37563624 TTAAATATGG
37563634 ATTTGAGAGAA
1 ATTTGAGAGAA
*
37563645 ATTTG-GAAGGA
1 ATTTGAG-AGAA
37563656 ATTTGAGAGCAA
1 ATTTGAGAG-AA
37563668 A-TTGAGAGGAA
1 ATTTGAGA-GAA
37563679 ATTT-AGAGAA
1 ATTTGAGAGAA
*
37563689 AATTGAGAAGAA
1 ATTTGAG-AGAA
37563701 ATTTGAGAGA
1 ATTTGAGAGA
37563711 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
10 7 0.13
11 32 0.58
12 16 0.29
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:37563695 original size:33 final size:35
Alignment explanation
Indices: 37563634--37563709 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 35
37563624 TTAAATATGG
* * *
37563634 ATTTGAGA-GAAATTTGGAAGGAATTTGAG-AGCAA
1 ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAG-AA
37563668 A-TTGAGAGGAAATTTAG-AGAAAATTGAGAAGAA
1 ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAGAA
37563701 ATTTGAGAG
1 ATTTGAGAG
37563710 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAGAA
Found at i:37563951 original size:42 final size:42
Alignment explanation
Indices: 37563904--37564003 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
37563894 AGTAAAGCGT
*
37563904 GCTGACGTGGCCGCGACTTGCTAGTGCGTCCCCTGACATCGC
1 GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
* *
37563946 GCTGACGTGGCCACGACTTGCTGGCGCGTCCCCTGACATCGC
1 GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
*
37563988 GCTGACGTGGACGCGA
1 GCTGACGTGGCCGCGA
37564004 TTTTTCAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.13, C:0.35, G:0.33, T:0.19
Consensus pattern (42 bp):
GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
Found at i:37571424 original size:50 final size:50
Alignment explanation
Indices: 37571320--37571507 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 50
37571310 TAAAAAGATT
**
37571320 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATT-GC--CACCGAG---ATGAGAGGTC
* *
37571376 CCATGTAAGACCATGTCTAGGACATGGCGTTGCCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
** * * ** * **
37571426 CCCCGTAAGACCATGTCTGGGACATGTCATAGGTACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
** *
37571476 CCATGTAAGACCATACCTGGGATATGGCATTG
1 CCATGTAAGACCATGTCTGGGACATGGCATTG
37571508 GTAGTACAAG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.67
53 5 0.05
55 2 0.02
56 29 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
Found at i:37576273 original size:62 final size:59
Alignment explanation
Indices: 37576206--37576351 Score: 150
Period size: 59 Copynumber: 2.4 Consensus size: 59
37576196 CAATTTTAGT
* * * * **
37576206 CACATTGGAGCTTGAATTTTTTATTATTATCTAAACTAGGCCTTGAACTTGGTAATTATTCC
1 CACATTGGAGCTTGAA-CTTTT-TT-TTATCCAAACTAGACCCTGAACTTGACAATTATTCC
* * **
37576268 CACATTGGGGCTTGGACTTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCC
1 CACATTGGAGCTTGAACTTTTTTTTATCCAAACTAGACCCTGAACTTGACAATTATTCC
*
37576327 CACATTGG-GACTTGACCTTTTTTTT
1 CACATTGGAG-CTTGAACTTTTTTTT
37576352 TGTCCAAGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
58 1 0.01
59 50 0.70
60 2 0.03
61 4 0.06
62 14 0.20
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (59 bp):
CACATTGGAGCTTGAACTTTTTTTTATCCAAACTAGACCCTGAACTTGACAATTATTCC
Found at i:37576322 original size:59 final size:60
Alignment explanation
Indices: 37576249--37576362 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 60
37576239 AACTAGGCCT
** *
37576249 TGAACTTGGTAATTATTCCCACATTGGGGCTTGGA-C-TTTTTTTTATCCAAGTTAGACCC
1 TGAACTTGACAATTATTCCCACATTGGGACTT-GACCTTTTTTTTTATCCAAGTTAGACCC
*
37576308 TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTGTCCAAGTTA
1 TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTATCCAAGTTA
37576363 ATCCTTGGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 2 0.04
59 30 0.61
60 17 0.35
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (60 bp):
TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTATCCAAGTTAGACCC
Found at i:37581129 original size:17 final size:17
Alignment explanation
Indices: 37581107--37581141 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
37581097 CAATTCAGTT
37581107 AATTTTAAAGTTTTTAA
1 AATTTTAAAGTTTTTAA
*
37581124 AATTTTAAATTTTTTAA
1 AATTTTAAAGTTTTTAA
37581141 A
1 A
37581142 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTTAAAGTTTTTAA
Found at i:37594748 original size:21 final size:22
Alignment explanation
Indices: 37594712--37594762 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
37594702 ACTGTTGTTG
* *
37594712 AGAGGAAAGTTGTTGCTGTAGA
1 AGAGGAAAGTTATTGCTGAAGA
37594734 AGAGG-AAGTTATTGCTGAAGA
1 AGAGGAAAGTTATTGCTGAAGA
*
37594755 AGAAGAAA
1 AGAGGAAA
37594763 TTACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.22
Consensus pattern (22 bp):
AGAGGAAAGTTATTGCTGAAGA
Found at i:37595238 original size:17 final size:17
Alignment explanation
Indices: 37595216--37595251 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
37595206 ATAAGCATAC
*
37595216 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
37595233 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
37595250 AT
1 AT
37595252 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:37595262 original size:16 final size:17
Alignment explanation
Indices: 37595216--37595262 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
37595206 ATAAGCATAC
*
37595216 ATTGTCATTGCATTTTT
1 ATTGTCAGTGCATTTTT
* *
37595233 ATTGTCATTACATTTTT
1 ATTGTCAGTGCATTTTT
*
37595250 A-TGTTAGTGCATT
1 ATTGTCAGTGCATT
37595263 GGGGACAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (17 bp):
ATTGTCAGTGCATTTTT
Found at i:37600623 original size:5 final size:5
Alignment explanation
Indices: 37600613--37600671 Score: 82
Period size: 5 Copynumber: 11.4 Consensus size: 5
37600603 ATGAAGGAAG
* *
37600613 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GAGAGAT GATAT GATAA
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT --GATAT GATAT GATAT
37600665 GATAT GA
1 GATAT GA
37600672 AACGTAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 44 0.92
7 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (5 bp):
GATAT
Found at i:37603173 original size:25 final size:24
Alignment explanation
Indices: 37603128--37603174 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
37603118 TTGGTTAATA
* * *
37603128 GGGAGTGATTTTAGGAGATAATGG
1 GGGAGAGATTTTAGAAAATAATGG
37603152 GGGAGAGATTATTAGAAAATAAT
1 GGGAGAGATT-TTAGAAAATAAT
37603175 TTGATTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (24 bp):
GGGAGAGATTTTAGAAAATAATGG
Found at i:37605776 original size:26 final size:26
Alignment explanation
Indices: 37605747--37605805 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
37605737 GTAAGTGATT
*
37605747 TGAAATTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
* *
37605773 TGAAACTGATATATGTTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
37605799 TGAAACT
1 TGAAACT
37605806 AGTGTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTC
Found at i:37611097 original size:25 final size:25
Alignment explanation
Indices: 37611063--37611112 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
37611053 TTGCTGCCAA
37611063 AATTTCCATTATGTTTCCCCTTCCG
1 AATTTCCATTATGTTTCCCCTTCCG
37611088 AATTTCCATTATGTTTCCCCTTCCG
1 AATTTCCATTATGTTTCCCCTTCCG
37611113 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.08, T:0.44
Consensus pattern (25 bp):
AATTTCCATTATGTTTCCCCTTCCG
Found at i:37612670 original size:23 final size:24
Alignment explanation
Indices: 37612639--37612683 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
37612629 ATATCCTCCC
*
37612639 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
37612662 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
37612684 CAAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:37618409 original size:5 final size:5
Alignment explanation
Indices: 37618399--37618442 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
37618389 GGGGTAGGAC
* * *
37618399 ATGAT ATGAT ATGTT ATGTT ATGAT ATGAT ATGAT AAGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
37618443 AATGTACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:37621224 original size:88 final size:88
Alignment explanation
Indices: 37621111--37621283 Score: 301
Period size: 88 Copynumber: 2.0 Consensus size: 88
37621101 ATTCTTTCCA
37621111 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
1 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
**
37621176 TAATAAATTTGGTAAAATATTTC
66 TAATAAATTCAGTAAAATATTTC
* * *
37621199 AAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATAT
1 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
37621264 TAATAAATTCAGTAAAATAT
66 TAATAAATTCAGTAAAATAT
37621284 ATACAATTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (88 bp):
AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
TAATAAATTCAGTAAAATATTTC
Found at i:37622619 original size:24 final size:24
Alignment explanation
Indices: 37622579--37622666 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 24
37622569 ACGAAAGAAG
* *
37622579 GAGATGAAGA-CAGAGACGGGGGTG
1 GAGATGAAGATGA-AGACGGGGGTC
*
37622603 GAGATGAAGATGAAGACGAGGGTC
1 GAGATGAAGATGAAGACGGGGGTC
* * * * * *
37622627 AAGTTGATGATGAATACAGAGGTC
1 GAGATGAAGATGAAGACGGGGGTC
*
37622651 GAGGTGAAGATGAAGA
1 GAGATGAAGATGAAGA
37622667 AGATAATCAT
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 48 0.98
25 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.41, T:0.15
Consensus pattern (24 bp):
GAGATGAAGATGAAGACGGGGGTC
Found at i:37624647 original size:323 final size:323
Alignment explanation
Indices: 37624055--37624702 Score: 1145
Period size: 323 Copynumber: 2.0 Consensus size: 323
37624045 TTTTAGGATA
37624055 TGCATTTTCAGTAGACGCATGCTTCAAAGGGTCTTTAGTGTGCTTGAAAATATACCCAGGATTAT
1 TGCATTTTCAGTAGACGCATGCTTCAAAGGGTCTTTAGTGTGCTTGAAAATATACCCAGGATTAT
37624120 TGGGGTAAGGGATCTTAGCAGGATTTGAATTATGATGGATAGAAAGCGCGTCGAGTTGGGCGAGC
66 TGGGGTAAGGGATCTTAGCAGGATTTGAATTATGATGGATAGAAAGCGCGTCGAGTTGGGCGAGC
* *
37624185 TTTCCTACTGACATGTTAGGGAAAGCACGCCTACCTAGACGCATTTTCCACTAGATACAAAGAAA
131 TTTCCTACTGACACGTTAGGGAAAACACGCCTACCTAGACGCATTTTCCACTAGATACAAAGAAA
** * *
37624250 GCACGTTCAGCTAAGTGCGCTATCCCTGACATGTCAGTAGGAAAGCTCGCCCAGCTGAACGTGCT
196 GCACGTTCAGCTAAGCACGCTATCCCTGACATGTCAGCAGGAAAGCTCGCCCAGCTGAACGTACT
*
37624315 TTTTGTCCACCACCATTCAAAGCCTACCAAGGTGCCCGGAGCCTGGGAATCATGGGTAAGATT
261 TTCTGTCCACCACCATTCAAAGCCTACCAAGGTGCCCGGAGCCTGGGAATCATGGGTAAGATT
*
37624378 TGCATTTTCAGTAGACGCATGCTTCAAAGGGTCTTTAGTGTGCTTGAAAATGTACCC-GAGATTA
1 TGCATTTTCAGTAGACGCATGCTTCAAAGGGTCTTTAGTGTGCTTGAAAATATACCCAG-GATTA
37624442 TTGGGGTAAGGGATCTTAGCAGGATTTGAATTATGATGGATAGAAAGCGCGTCGAGTTGGGCGAG
65 TTGGGGTAAGGGATCTTAGCAGGATTTGAATTATGATGGATAGAAAGCGCGTCGAGTTGGGCGAG
* *
37624507 CTTTCCTATTGACACGTTAGGGAAAACACGCCTACCTAGACGTATTTTCCACTAGATACAAAGAA
130 CTTTCCTACTGACACGTTAGGGAAAACACGCCTACCTAGACGCATTTTCCACTAGATACAAAGAA
* * * *
37624572 CGCACGTTCAGCTAAGCACGCTATCCCTGACATGTCAGCAGGAAAGCTCGCCTAGTTGAATGTAC
195 AGCACGTTCAGCTAAGCACGCTATCCCTGACATGTCAGCAGGAAAGCTCGCCCAGCTGAACGTAC
*
37624637 TTTCTGTCCACCACCATTCAAAGCCTACCAAGGTGCTCGGAGCCTGGGAATCATGGGTAAGATT
260 TTTCTGTCCACCACCATTCAAAGCCTACCAAGGTGCCCGGAGCCTGGGAATCATGGGTAAGATT
37624701 TG
1 TG
37624703 AGGCTCCTCT
Statistics
Matches: 309, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
322 1 0.00
323 308 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (323 bp):
TGCATTTTCAGTAGACGCATGCTTCAAAGGGTCTTTAGTGTGCTTGAAAATATACCCAGGATTAT
TGGGGTAAGGGATCTTAGCAGGATTTGAATTATGATGGATAGAAAGCGCGTCGAGTTGGGCGAGC
TTTCCTACTGACACGTTAGGGAAAACACGCCTACCTAGACGCATTTTCCACTAGATACAAAGAAA
GCACGTTCAGCTAAGCACGCTATCCCTGACATGTCAGCAGGAAAGCTCGCCCAGCTGAACGTACT
TTCTGTCCACCACCATTCAAAGCCTACCAAGGTGCCCGGAGCCTGGGAATCATGGGTAAGATT
Found at i:37626013 original size:16 final size:15
Alignment explanation
Indices: 37625992--37626021 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37625982 TTTCCCCTTT
37625992 AAAACCCTAAGAAATA
1 AAAACCCTAA-AAATA
37626008 AAAACCCTAAAAAT
1 AAAACCCTAAAAAT
37626022 CCTAAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAAAATA
Found at i:37634363 original size:14 final size:16
Alignment explanation
Indices: 37634344--37634376 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
37634334 TTTTCCTTGA
37634344 TTTTTCTTT-TG-ATT
1 TTTTTCTTTCTGTATT
37634358 TTTTTCTTTCTGTATT
1 TTTTTCTTTCTGTATT
37634374 TTT
1 TTT
37634377 GGCTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTCTGTATT
Found at i:37642038 original size:87 final size:87
Alignment explanation
Indices: 37641887--37642242 Score: 532
Period size: 87 Copynumber: 4.1 Consensus size: 87
37641877 AGATCAGTGA
* * *
37641887 AGATTGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
37641952 CTTCCTACATTAACAGCGAAGT
66 CTTCCTACATTGACAGCGAAGC
* *
37641974 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGCATTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
37642039 CTTCCTTCATTGACAGCGAAGC
66 CTTCCTACATTGACAGCGAAGC
*
37642061 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
37642126 CTTCCTGCATTGACAGCGAAGC
66 CTTCCTACATTGACAGCGAAGC
* * * * *
37642148 AGATCAAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * * * *
37642213 CCTCCTGCGTCGACAGTGAAGC
66 CTTCCTACATTGACAGCGAAGC
37642235 AGATCGAA
1 AGATCGAA
37642243 GACGGCGAAT
Statistics
Matches: 246, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 246 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
CTTCCTACATTGACAGCGAAGC
Found at i:37642082 original size:43 final size:43
Alignment explanation
Indices: 37642034--37642170 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
37642024 GATAACAGAT
* *
37642034 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCAAAAATAAAGC
* * * * * * * *
37642077 CTTGCC-T-CTATCGGTTG-CAGTGGAGCTGGTTAAAGATAACAGAT
1 CTTGCCTTCCT-TC-ATTGACAGCGAAGCAGATCAAAAATAA-AG-C
*
37642121 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAAATAAAGC
1 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCAAAAATAAAGC
37642164 CTTGCCT
1 CTTGCCT
37642171 CCATCGGTTG
Statistics
Matches: 68, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
41 2 0.03
42 17 0.25
43 18 0.26
44 11 0.16
45 18 0.26
46 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTTCATTGACAGCGAAGCAGATCAAAAATAAAGC
Found at i:37642386 original size:131 final size:130
Alignment explanation
Indices: 37642232--37642654 Score: 623
Period size: 131 Copynumber: 3.2 Consensus size: 130
37642222 TCGACAGTGA
**
37642232 AGCAGATCGAAGACGGCGAATCTTATCTTACCCAATAGTAGGGAAACAGATTTAAGCCATAAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTT-CCCAGGAGTAGGGAAACAGATTTAAGCCATAAGTC
* * * *
37642297 CTATGTTCATGACCAGCAGTGGAGTAGGTTGGAAATTATAGATCTTGTCCCCCTAAGCAGTAGCG
65 CTATGTCCATGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCG
37642362 G
130 G
*
37642363 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACTGATTTAAGCCACT-AGT
1 AGCAGATCGAAGACGGCGAATCTTATCTT-CCCAGGAGTAGGGAAACAGATTTAAGCCA-TAAGT
* * * *
37642427 CCTATGTCCCTGACCAGCATTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAGTAGTAGC
64 CCTATGTCCATGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGC
37642492 GG
129 GG
** * *
37642494 AGCAGATCGAAGACGGAAAATCTTACCTTCCCTAGGAGTAGGGAAACAGATTTAAGCCGTAAGTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTCCC-AGGAGTAGGGAAACAGATTTAAGCCATAAGTC
* * * *
37642559 CTATGTCCTTGACCAGCAGTGGAATAGGTTGGAAACTACAGATATTGTCTCCCTAAGCAGTAGCA
65 CTATGTCCATGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCG
37642624 G
130 G
*
37642625 AGCAGATCGAAGACGGTGAATCTTATCTTC
1 AGCAGATCGAAGACGGCGAATCTTATCTTC
37642655 AAGTGTAAGG
Statistics
Matches: 262, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
130 4 0.02
131 257 0.98
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (130 bp):
AGCAGATCGAAGACGGCGAATCTTATCTTCCCAGGAGTAGGGAAACAGATTTAAGCCATAAGTCC
TATGTCCATGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
Found at i:37642883 original size:44 final size:44
Alignment explanation
Indices: 37642812--37642895 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
37642802 TGAGAAAAAA
* * *
37642812 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGTCGAT
1 AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGTCGAT
*** *
37642856 AATCCTATCTCCCCGAGGTTGTGGTGGAACGGATTAAAGT
1 AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGT
37642896 AATGGATCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCCGAGGTTACAGTGGAACAGATTAAAGTCGAT
Found at i:37643327 original size:26 final size:22
Alignment explanation
Indices: 37643275--37643336 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 22
37643265 TAAGCCCAGT
*
37643275 TAGCCCAAACCCAAAATTAACC
1 TAGCCCAAACCTAAAATTAACC
37643297 TAGCCCAAACCTAAACCCATTAAGCC
1 TAGCCCAAACCTAAA---ATTAA-CC
*
37643323 TAGCCCTAACCTAA
1 TAGCCCAAACCTAA
37643337 TCAGCCCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 14 0.41
25 5 0.15
26 15 0.44
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACCTAAAATTAACC
Found at i:37643622 original size:14 final size:16
Alignment explanation
Indices: 37643603--37643635 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
37643593 TTTTCCTTGA
37643603 TTTTTCTTT-TG-ATT
1 TTTTTCTTTCTGTATT
37643617 TTTTTCTTTCTGTATT
1 TTTTTCTTTCTGTATT
37643633 TTT
1 TTT
37643636 GATTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTCTGTATT
Found at i:37644441 original size:21 final size:22
Alignment explanation
Indices: 37644401--37644442 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37644391 GATTTGATCC
37644401 TTATTTCAATCTATTCATTTTT
1 TTATTTCAATCTATTCATTTTT
37644423 TTATTT-AAT-TATCTCATTTT
1 TTATTTCAATCTAT-TCATTTT
37644443 GTTGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 10 0.53
22 6 0.32
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTCAATCTATTCATTTTT
Found at i:37645931 original size:25 final size:25
Alignment explanation
Indices: 37645875--37645931 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
37645865 TAGATATAAG
37645875 TATATAAAAGTTAGGAAGTAAAATA
1 TATATAAAAGTTAGGAAGTAAAATA
* * * *
37645900 AAAATAAAAGCTTATGTA-TAAAATA
1 TATATAAAAG-TTAGGAAGTAAAATA
37645925 TATATAA
1 TATATAA
37645932 GCAAACGTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (25 bp):
TATATAAAAGTTAGGAAGTAAAATA
Found at i:37646505 original size:23 final size:22
Alignment explanation
Indices: 37646475--37646519 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
37646465 AAATTAAATC
37646475 TCTAAGATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
37646498 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
37646520 AAGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:37646522 original size:19 final size:19
Alignment explanation
Indices: 37646475--37646551 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
37646465 AAATTAAATC
*
37646475 TCTAAGATTGCAAAATCATA
1 TCTAAGATTGC-ATATCATA
37646495 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
37646517 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
37646536 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
37646552 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37681299 original size:25 final size:27
Alignment explanation
Indices: 37681230--37681301 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
37681220 TGGGTGTTGC
*
37681230 GTTATATAGTATATATATTTGAGTGGGTT
1 GTTATATA-TATA-ATATATGAGTGGGTT
* *
37681259 GTTGTATATATAATATATGCGTGGGTT
1 GTTATATATATAATATATGAGTGGGTT
37681286 -TTAT-TATATAATATAT
1 GTTATATATATAATATAT
37681302 ATAGGTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 12 0.31
26 3 0.08
27 13 0.33
28 4 0.10
29 7 0.18
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (27 bp):
GTTATATATATAATATATGAGTGGGTT
Found at i:37684391 original size:5 final size:5
Alignment explanation
Indices: 37684381--37684408 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37684371 GTAATTAGTC
37684381 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
37684409 CAAAATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:37685409 original size:33 final size:33
Alignment explanation
Indices: 37685363--37685493 Score: 156
Period size: 33 Copynumber: 4.0 Consensus size: 33
37685353 TTTGGTCTGT
* * *
37685363 TGGTTGGACTAGCTCTTATGAACACTGGTGTGG
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* *
37685396 TAGTTGGATTAGCTCTTATGAGCACTGGTATGA
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* * *
37685429 TGGTTGGATTAACTCTTATGAGCATTGGCGT-A
1 TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
* *
37685461 TTGGTTGGATTAGCTCTTCTGAGCATTGGTGTG
1 -TGGTTGGATTAGCTCTTATGAGCACTGGTGTG
37685494 CTAGAGGGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 82 0.99
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (33 bp):
TGGTTGGATTAGCTCTTATGAGCACTGGTGTGA
Found at i:37691584 original size:63 final size:65
Alignment explanation
Indices: 37691514--37691667 Score: 206
Period size: 63 Copynumber: 2.4 Consensus size: 65
37691504 AATAGTATAA
* *
37691514 TATATATACACATGTGGTTCGAATGTATGTTTC-AATTTCTTTGAGCTGAATTTAATGTTATGAA
1 TATATATACACATGTGGTTCGAATGTATGTTACAAATTT-TTTGAGCTGAACTTAATGTTATGAA
37691578 T
65 T
* ** *
37691579 TATATAT--ATATGACGTTCGAATGTATGTTACAAATTTTTTTAGCTGAACTTAATGTTATGAAT
1 TATATATACACATGTGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
37691642 TATATATACATACATGTGGTTCGAAT
1 TATATATAC--ACATGTGGTTCGAAT
37691668 ATGTGTTTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
63 51 0.68
64 5 0.07
65 7 0.09
67 12 0.16
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (65 bp):
TATATATACACATGTGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
Found at i:37696411 original size:26 final size:26
Alignment explanation
Indices: 37696375--37696426 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
37696365 AAATGTGAAG
* * *
37696375 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTCCTAAGTACTAATTCCCCGA
37696401 GGGGTTCCTAAGTACTAATTCCCCGA
1 GGGGTTCCTAAGTACTAATTCCCCGA
37696427 ATCATTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (26 bp):
GGGGTTCCTAAGTACTAATTCCCCGA
Found at i:37703886 original size:42 final size:42
Alignment explanation
Indices: 37703827--37703963 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
37703817 ATTCATTGGT
*
37703827 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* * *
37703869 GGTTGCTAAGTGCTGATTCC-CC--A-ATT-CAT-T---AGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
37703902 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
37703944 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
37703964 CCAGAGGGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 22 0.28
34 2 0.03
36 2 0.03
37 4 0.05
38 4 0.05
39 2 0.03
41 2 0.03
42 40 0.51
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:37703943 original size:74 final size:75
Alignment explanation
Indices: 37703791--37703966 Score: 309
Period size: 75 Copynumber: 2.4 Consensus size: 75
37703781 TGATTCCTCC
* * *
37703791 AAGGGGTTGCTAAGTGCTGATT-CCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
37703855 TTAAATGTGA
66 TTAAATGTGA
37703865 AAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
37703930 TTAAATGTGA
66 TTAAATGTGA
*
37703940 AGGGGGTTGCTAAGTGCTGATTCCCCA
1 AAGGGGTTGCTAAGTGCTGATTCCCCA
37703967 GAGGGGTTGC
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 22 0.23
75 75 0.77
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:37703989 original size:102 final size:102
Alignment explanation
Indices: 37703866--37704066 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
37703856 TAAATGTGAA
* *
37703866 AGGGGTTGCTAAGTGCTGATTCCCC-AATTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AGGGGTTGCTAAGTACTGATTCCCCGAA-TCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATC
*
37703930 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCAG
65 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAG
* *
37703968 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATCT
*
37704033 TAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCC
66 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
37704067 TAACTCATTG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 90 0.98
103 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTACTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAG
Found at i:37704065 original size:177 final size:176
Alignment explanation
Indices: 37703763--37704101 Score: 581
Period size: 177 Copynumber: 1.9 Consensus size: 176
37703753 ACTGAATATA
* *
37703763 AAGGGGGTTGCTAAGTGCTGATTCCTCCAAGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCTCCAAGGGGTTGCTAAGTACTGATTCCCGAATCATTGGTG
*
37703828 GTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAA
66 GTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAA
* *
37703893 TTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
131 CTCATTAGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTG
37703939 AAGGGGGTTGCTAAGTGCTGATTCC-CCAGAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCTCCA-AGGGGTTGCTAAGTACTGATT-CCCGAATCATTGG
* *
37704003 TGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCT
64 TGGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
*
37704068 AACTCATTGGTGGTTGCTAAGTGCTGAATCCACC
129 AACTCATTAGTGGTTGCTAAGTGCTGAATCCACC
37704102 AATAACGGAT
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
175 3 0.02
176 45 0.29
177 105 0.69
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (176 bp):
AAGGGGGTTGCTAAGTGCTGATTCCTCCAAGGGGTTGCTAAGTACTGATTCCCGAATCATTGGTG
GTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAA
CTCATTAGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTG
Found at i:37708307 original size:24 final size:25
Alignment explanation
Indices: 37708264--37708310 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
37708254 ATTTTTTATT
*
37708264 TTGATGAATATTTTGAGTTGTGTCA
1 TTGATGAACATTTTGAGTTGTGTCA
*
37708289 TTGATGAACA-TTTGTGTTGTGT
1 TTGATGAACATTTTGAGTTGTGT
37708311 GATGTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (25 bp):
TTGATGAACATTTTGAGTTGTGTCA
Found at i:37709017 original size:63 final size:63
Alignment explanation
Indices: 37708933--37709067 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 63
37708923 GTATAATATA
* * * * *
37708933 TATATATACATGTGGTTCGAATGTATGTTTC-AATTTCTTTGAGTTGAATTTAATGTTATGAAT
1 TATATATATATGAGGTTCGAATGTATGTTACAAATTT-TTTGAGCTGAACTTAATGTTATGAAT
*
37708996 TATATATATATGAGGTTCGAATGTATGTTACAAATTTTTTTAGCTGAACTTAATGTTATGAAT
1 TATATATATATGAGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
37709059 TATATATAT
1 TATATATAT
37709068 GTGTGTGTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 60 0.92
64 5 0.08
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.47
Consensus pattern (63 bp):
TATATATATATGAGGTTCGAATGTATGTTACAAATTTTTTGAGCTGAACTTAATGTTATGAAT
Found at i:37711310 original size:12 final size:12
Alignment explanation
Indices: 37711293--37711317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37711283 ACTAATTTGG
37711293 AGTAGTGGTTAA
1 AGTAGTGGTTAA
37711305 AGTAGTGGTTAA
1 AGTAGTGGTTAA
37711317 A
1 A
37711318 TGTGTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (12 bp):
AGTAGTGGTTAA
Found at i:37712804 original size:33 final size:33
Alignment explanation
Indices: 37712766--37712865 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
37712756 TATAATATAG
37712766 ATATATAGGTTTAATGGTTTTGTTTTATCTAGT
1 ATATATAGGTTTAATGGTTTTGTTTTATCTAGT
* * * * *
37712799 ATATATA-----AAT-GTAATTATATAATATAG-
1 ATATATAGGTTTAATGGT-TTTGTTTTATCTAGT
37712826 ATATATAGGTTTAATGGTTTTGTTTTATCTAGT
1 ATATATAGGTTTAATGGTTTTGTTTTATCTAGT
37712859 ATATATA
1 ATATATA
37712866 AATGTATACT
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
27 9 0.18
28 12 0.24
32 12 0.24
33 16 0.33
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (33 bp):
ATATATAGGTTTAATGGTTTTGTTTTATCTAGT
Found at i:37712821 original size:60 final size:60
Alignment explanation
Indices: 37712752--37712871 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
37712742 CGTGAGTTTT
37712752 ATTATATAATATAGATATATAGGTTTAATGGTTTTGTTTTATCTAGTATATATAAATGTA
1 ATTATATAATATAGATATATAGGTTTAATGGTTTTGTTTTATCTAGTATATATAAATGTA
37712812 ATTATATAATATAGATATATAGGTTTAATGGTTTTGTTTTATCTAGTATATATAAATGTA
1 ATTATATAATATAGATATATAGGTTTAATGGTTTTGTTTTATCTAGTATATATAAATGTA
37712872 TACTGGACTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (60 bp):
ATTATATAATATAGATATATAGGTTTAATGGTTTTGTTTTATCTAGTATATATAAATGTA
Found at i:37714355 original size:54 final size:54
Alignment explanation
Indices: 37714297--37714520 Score: 344
Period size: 54 Copynumber: 4.1 Consensus size: 54
37714287 TCTAACAGTC
37714297 ATTTTACCCTATGGGGGTATTTCGATCATTTTATCC-TATG-GGGTTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTA-CCTTATGAGGG-TATTTTGGTT
* *
37714351 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
* * *
37714405 ATTTTACCCTATGGGGGTATTTCGGTTATTTTACCTTATGAGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
** *
37714459 ATTTTACCCTATATGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
37714513 ATTTTACC
1 ATTTTACC
37714521 TATTTTAGGG
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
53 2 0.01
54 152 0.97
55 3 0.02
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTTGGTT
Found at i:37714418 original size:81 final size:80
Alignment explanation
Indices: 37714294--37714520 Score: 314
Period size: 81 Copynumber: 2.8 Consensus size: 80
37714284 GGGTCTAACA
* *
37714294 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTTATTTTGGTTATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGG-TATTTTGGTTATTTTACC
*
37714359 CTATGGGGGTATTTCG
65 CTATGAGGGTATTTCG
* * * *
37714375 GTCATTTTACCTTATGAGGGTATTT-TAGTTATTTTACCCTATGGGGGTATTTCGGTTATTTTAC
1 GTCATTTTACCCTATGAGGGTATTTCGA-TCATTTTACCCTAT-GGGGTATTTTGGTTATTTTAC
* *
37714439 CTTATGAGGGTATTTTG
64 CCTATGAGGGTATTTCG
37714456 GTCATTTTACCCTAT-ATGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGGTTATTTTAC
1 GTCATTTTACCCTATGA-GGGTATTTCGATCATTTTACCCTATG-GGGTATTTTGGTTATTTTAC
37714520 C
64 C
37714521 TATTTTAGGG
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 120 0.94
82 5 0.04
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (80 bp):
GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGTATTTTGGTTATTTTACCC
TATGAGGGTATTTCG
Found at i:37714516 original size:27 final size:27
Alignment explanation
Indices: 37714294--37714520 Score: 269
Period size: 27 Copynumber: 8.4 Consensus size: 27
37714284 GGGTCTAACA
*
37714294 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
37714321 ATCATTTTATCCTATG-GGGTTATTTTG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* *
37714348 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
37714375 GTCATTTTACCTTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
37714402 GTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
37714429 GTTATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
37714456 GTCATTTTACCCTAT-ATGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
37714483 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
37714510 GTTATTTTACC
1 GTCATTTTACC
37714521 TATTTTAGGG
Statistics
Matches: 169, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.02
27 161 0.95
28 4 0.02
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:37729117 original size:66 final size:66
Alignment explanation
Indices: 37729009--37729204 Score: 374
Period size: 66 Copynumber: 3.0 Consensus size: 66
37728999 AACCACAGAT
* *
37729009 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACGGGTAAATGCGAATTTGGTGATATGGTCTTAA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
37729074 A
66 A
37729075 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
37729140 A
66 A
37729141 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTA
1 TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTA
37729205 GATTTGGGGT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (66 bp):
TGAAAGCGAAAAGCTATTTTGTAAATGTATGACTGGTGAATGCGAATTTGGTGATATGGTCTTAA
A
Found at i:37729624 original size:10 final size:9
Alignment explanation
Indices: 37729598--37729645 Score: 62
Period size: 10 Copynumber: 5.2 Consensus size: 9
37729588 AATTGAAATC
37729598 TTAAATTTT
1 TTAAATTTT
*
37729607 TTATATTTT
1 TTAAATTTT
37729616 TTAGAATTTT
1 TTA-AATTTT
37729626 TT-AATTTT
1 TTAAATTTT
37729634 TTATAATTTT
1 TTA-AATTTT
37729644 TT
1 TT
37729646 TAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.24
9 11 0.32
10 15 0.44
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTAAATTTT
Found at i:37729632 original size:18 final size:19
Alignment explanation
Indices: 37729601--37729645 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
37729591 TGAAATCTTA
37729601 AATTTTTTATATTTTTTAG
1 AATTTTTTATATTTTTTAG
*
37729620 AATTTTTTA-ATTTTTTAT
1 AATTTTTTATATTTTTTAG
37729638 AATTTTTT
1 AATTTTTT
37729646 TAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
AATTTTTTATATTTTTTAG
Found at i:37730833 original size:117 final size:117
Alignment explanation
Indices: 37730625--37730855 Score: 401
Period size: 117 Copynumber: 2.0 Consensus size: 117
37730615 ACCTTGATGC
* *
37730625 TTTGATTCTTTCATGATAGATTGATTTCGAGGCAATATGAAGAGCAACTTAATTATGGCACCAGA
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
37730690 ATTTTGCTAGTGATATATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
66 ATTTTGCTAGTGATATATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
*
37730742 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGTACCA-A
1 TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
* *
37730806 AGTTTTGCTAGTGATGTATGCTTCAATCCAATTTCAATTAACAGATGTTA
66 A-TTTTGCTAGTGATATATGCTCCAATCCAATTTCAATTAACAGATGTTA
37730856 TATCCACATG
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
116 2 0.02
117 106 0.98
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (117 bp):
TTTGATTCTTTCATGATAGATTGATTTCAAGGCAATATGAACAGCAACTTAATTATGGCACCAGA
ATTTTGCTAGTGATATATGCTCCAATCCAATTTCAATTAACAGATGTTAAAG
Found at i:37742253 original size:58 final size:58
Alignment explanation
Indices: 37742163--37742280 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
37742153 TCGTTTTGTA
*
37742163 TTTTAACAATTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
*
37742221 TTTTAACAACTGGGATGAAAATATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
1 TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
37742279 TT
1 TT
37742281 AGGAACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (58 bp):
TTTTAACAACTGGGATGAAAAAATATATATTTATCAGCCAAAGCAAATCAATGCAAAT
Found at i:37742605 original size:2 final size:2
Alignment explanation
Indices: 37742598--37742622 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37742588 AAAAATAAAT
37742598 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
37742623 AAACAAAACC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37747194 original size:21 final size:21
Alignment explanation
Indices: 37747170--37747223 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
37747160 CGTGTGCATG
37747170 GGTCACACGGCCTTGCGGATA
1 GGTCACACGGCCTTGCGGATA
* *
37747191 GGTCACACAGCCTTGTGGATA
1 GGTCACACGGCCTTGCGGATA
37747212 GGTCACACGGCC
1 GGTCACACGGCC
37747224 ATGGGTGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.19
Consensus pattern (21 bp):
GGTCACACGGCCTTGCGGATA
Found at i:37748655 original size:15 final size:15
Alignment explanation
Indices: 37748637--37748677 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
37748627 ATCTGAACTC
37748637 TTCTCATCTC-TTCTT
1 TTCTC-TCTCATTCTT
*
37748652 TTCTCTCTCATTTTT
1 TTCTCTCTCATTCTT
37748667 TTCTCT-TCATT
1 TTCTCTCTCATT
37748678 TCCCTTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (15 bp):
TTCTCTCTCATTCTT
Found at i:37755802 original size:25 final size:25
Alignment explanation
Indices: 37755774--37755832 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
37755764 AATTTTTCTC
* *
37755774 TTAAATTTTT-ATTTTATTTAATTA
1 TTAAATTTTTCAATTTATTGAATTA
*
37755798 TTTAATTTTTCAATTTATTGAATTA
1 TTAAATTTTTCAATTTATTGAATTA
37755823 TTAATATTTT
1 TTAA-ATTTT
37755833 ATACTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 15 0.52
26 5 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTAAATTTTTCAATTTATTGAATTA
Found at i:37761363 original size:26 final size:26
Alignment explanation
Indices: 37761334--37761460 Score: 123
Period size: 26 Copynumber: 4.9 Consensus size: 26
37761324 ATGTGACTGA
*
37761334 TAGCAGGCTTTGAGCTGGTGGTTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * **
37761360 TAGCAAGCTTTGAGCTAGTGGCT-GAT
1 TAGCAGGCTTTGAGCTGGTGATTAG-T
*
37761386 TAGTAGGCTTTGAG-TCGGTGATTAGT
1 TAGCAGGCTTTGAGCT-GGTGATTAGT
* *
37761412 TAGCAGGCTTTGAGCCGATGATTAGT
1 TAGCAGGCTTTGAGCTGGTGATTAGT
* * *
37761438 TAGTAGGCTTTGAGTTGATGATT
1 TAGCAGGCTTTGAGCTGGTGATT
37761461 TATATAACAG
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.02
26 80 0.96
27 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCTGGTGATTAGT
Found at i:37761441 original size:52 final size:53
Alignment explanation
Indices: 37761326--37761460 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 53
37761316 TAGTGAGTAT
* * *
37761326 GTGACTGA-TAGCAGGCTTTGAG-CTGGTGGTTAGTTAGCAAGCTTTGAGCTA
1 GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAGCGA
* *
37761377 GTGGCTGATTAGTAGGCTTTGAGTC-GGTGATTAGTTAGCAGGCTTTGAGCCGA
1 GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAG-CGA
* *
37761430 -TGA-TTAGTTAGTAGGCTTTGAGT-TGATGATT
1 GTGACTGA-TTAGTAGGCTTTGAGTCTGGTGATT
37761461 TATATAACAG
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
51 9 0.13
52 59 0.83
53 3 0.04
ACGTcount: A:0.21, C:0.11, G:0.33, T:0.35
Consensus pattern (53 bp):
GTGACTGATTAGTAGGCTTTGAGTCTGGTGATTAGTTAGCAAGCTTTGAGCGA
Found at i:37762850 original size:12 final size:12
Alignment explanation
Indices: 37762833--37762862 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37762823 GGACACACGA
37762833 CCGTGTCTGTGC
1 CCGTGTCTGTGC
*
37762845 CCGTGTTTGTGC
1 CCGTGTCTGTGC
37762857 CCGTGT
1 CCGTGT
37762863 AACTCTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (12 bp):
CCGTGTCTGTGC
Found at i:37765744 original size:11 final size:11
Alignment explanation
Indices: 37765713--37765749 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
37765703 CATGGAAATG
*
37765713 ATTATTTATAA
1 ATTATTTATGA
37765724 ATTATTTATGA
1 ATTATTTATGA
37765735 ATTATTTATG-
1 ATTATTTATGA
37765745 ATTAT
1 ATTAT
37765750 GTTTGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
ATTATTTATGA
Found at i:37775754 original size:14 final size:14
Alignment explanation
Indices: 37775735--37775766 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37775725 AAAATAGTGG
37775735 TTTCGGGACCACTA
1 TTTCGGGACCACTA
37775749 TTTCGGGACCACTA
1 TTTCGGGACCACTA
37775763 TTTC
1 TTTC
37775767 CAAGCAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (14 bp):
TTTCGGGACCACTA
Found at i:37784604 original size:24 final size:24
Alignment explanation
Indices: 37784576--37784629 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
37784566 TGGATCTCTA
37784576 GAGCTTCCC-AATATTGGCTCGCAT
1 GAGCTTCCCGAATA-TGGCTCGCAT
**
37784600 GAGCTTCCCGAATATGGCTCTTAT
1 GAGCTTCCCGAATATGGCTCGCAT
37784624 GAGCTT
1 GAGCTT
37784630 TCTGTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGAATATGGCTCGCAT
Found at i:37784669 original size:25 final size:24
Alignment explanation
Indices: 37784550--37784694 Score: 73
Period size: 25 Copynumber: 5.9 Consensus size: 24
37784540 GGCTCTTTCA
* *
37784550 TGAGTTTCCCGATTA-ATGGATCTCT
1 TGAGCTTCCCG-TTATATGGCTC-CT
* ** *
37784575 AGAGCTTCCCAATAT-TGGCTCGCA
1 TGAGCTTCCCGTTATATGGCTC-CT
* *
37784599 TGAGCTTCCCG-AATATGGCTCTT
1 TGAGCTTCCCGTTATATGGCTCCT
* * * *
37784622 ATGAGCTTTCTGTTACATAGCTCACT
1 -TGAGCTTCCCGTTATATGGCTC-CT
*
37784648 TGAGCTTCCCGTTATATGGCTCCGA
1 TGAGCTTCCCGTTATATGGCTCC-T
*
37784673 AGAGCTTCCCGTT-TATGTGCTC
1 TGAGCTTCCCGTTATATG-GCTC
37784695 TTATGAGAAT
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
23 2 0.02
24 37 0.42
25 49 0.55
26 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATATGGCTCCT
Found at i:37786423 original size:14 final size:14
Alignment explanation
Indices: 37786404--37786432 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37786394 TGCAACATAG
37786404 CATCCTTTATTGAC
1 CATCCTTTATTGAC
37786418 CATCCTTTATTGAC
1 CATCCTTTATTGAC
37786432 C
1 C
37786433 GAAAATGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.41
Consensus pattern (14 bp):
CATCCTTTATTGAC
Found at i:37803147 original size:9 final size:9
Alignment explanation
Indices: 37803133--37803166 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
37803123 GATCAAGTAA
37803133 AATTAAATT
1 AATTAAATT
37803142 AATTAAATT
1 AATTAAATT
*
37803151 AATCAAATT
1 AATTAAATT
37803160 AATTAAA
1 AATTAAA
37803167 ATAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AATTAAATT
Found at i:37813756 original size:13 final size:13
Alignment explanation
Indices: 37813738--37813764 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37813728 GATTAAGAGG
37813738 ACAAAAATAAATA
1 ACAAAAATAAATA
37813751 ACAAAAATAAATA
1 ACAAAAATAAATA
37813764 A
1 A
37813765 ATGAACTAAA
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:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
ACAAAAATAAATA
Found at i:37829486 original size:45 final size:45
Alignment explanation
Indices: 37829436--37829523 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
37829426 AACAAATACT
* *
37829436 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGGC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
*
37829481 CGGTGGAATCAGCACATAGCAATCACCTTACTAATCAATGATG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATG
37829524 TTCGGTTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGGC
Found at i:37829598 original size:51 final size:50
Alignment explanation
Indices: 37829535--37829720 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
37829525 TCGGTTCACA
*
37829535 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGATACACG
* * * * * *
37829586 TAGTAGCTTGCACATAGTACTACACACGTGATCGAAACTATCTGGA-ACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCT-GATACACG
* * * * *
37829637 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATACACG
37829686 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
37829721 CACTTTCACT
Statistics
Matches: 111, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.34
50 2 0.02
51 66 0.59
52 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATACACG
Found at i:37829710 original size:100 final size:101
Alignment explanation
Indices: 37829533--37829716 Score: 307
Period size: 100 Copynumber: 1.8 Consensus size: 101
37829523 GTTCGGTTCA
* * *
37829533 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
37829598 CATAGTACTACACACGTGATCGAAACTATCTGGAACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGAACG
* *
37829635 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
37829699 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
37829717 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 43 0.56
102 34 0.44
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGAACG
Found at i:37831086 original size:61 final size:61
Alignment explanation
Indices: 37831019--37831148 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
37831009 ATTTATTTAG
* * *
37831019 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAGTATTTTATTAAATTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
* * *
37831080 ATATTAATATGATACATTAAATTTAATTTAATATTTACCTATATAATATTTTATTAATTTA
1 ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
37831141 ATATTAAT
1 ATATTAAT
37831149 GTGATTAACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (61 bp):
ATATTAATATGAGACATTAAATTTAATTTAATATTTACCTAAATAATATTTTATTAAATTA
Found at i:37831140 original size:31 final size:30
Alignment explanation
Indices: 37831041--37831145 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 30
37831031 GATATTAAAT
* *
37831041 TTAATTTAATATTTATCTAAATAGTATTTTA
1 TTAATTTAATATTTA-CTATATAATATTTTA
* * * **
37831072 TTAAATTAATA-TTAATATGAT-ACATTAAA
1 TTAATTTAATATTTACTAT-ATAATATTTTA
37831101 TTTAATTTAATATTTACCTATATAATATTTTA
1 -TTAATTTAATATTTA-CTATATAATATTTTA
37831133 TTAATTTAATATT
1 TTAATTTAATATT
37831146 AATGTGATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
29 6 0.11
30 15 0.26
31 28 0.49
32 8 0.14
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTTACTATATAATATTTTA
Found at i:37834682 original size:21 final size:21
Alignment explanation
Indices: 37834657--37834697 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37834647 ATTTTTAGGA
37834657 TTTTAAAT-ATAAAATATTTAT
1 TTTTAAATCATAAAA-ATTTAT
*
37834678 TTTTATATCATAAAAATTTA
1 TTTTAAATCATAAAAATTTA
37834698 AATTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAATCATAAAAATTTAT
Found at i:37835454 original size:15 final size:15
Alignment explanation
Indices: 37835427--37835460 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37835417 CATACATATT
37835427 AAATAAATAAAAATA
1 AAATAAATAAAAATA
37835442 AAATCAAAT-AAAATA
1 AAAT-AAATAAAAATA
37835457 AAAT
1 AAAT
37835461 TCAGTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:37836922 original size:14 final size:14
Alignment explanation
Indices: 37836905--37836931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37836895 ATCATTAGCC
37836905 TTATATTATTATTG
1 TTATATTATTATTG
37836919 TTATATTATTATT
1 TTATATTATTATT
37836932 TTTTTTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTG
Found at i:37837034 original size:24 final size:23
Alignment explanation
Indices: 37837003--37837047 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
37836993 TATACATACC
* *
37837003 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
37837026 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
37837048 CTTCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:37837299 original size:23 final size:23
Alignment explanation
Indices: 37837256--37837299 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
37837246 GTCAATTTAT
* *
37837256 TTATGTATTTATTTATATGCTCC
1 TTATGTATTTACTTAAATGCTCC
37837279 TTAT-TATTTACTTAAAGTGCT
1 TTATGTATTTACTTAAA-TGCT
37837300 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (23 bp):
TTATGTATTTACTTAAATGCTCC
Found at i:37837346 original size:18 final size:18
Alignment explanation
Indices: 37837299--37837342 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37837289 CTTAAAGTGC
* *
37837299 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
37837317 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
37837335 TTT-CTTTT
1 TTTACTTTT
37837343 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:37839179 original size:3 final size:3
Alignment explanation
Indices: 37839171--37839244 Score: 64
Period size: 3 Copynumber: 24.7 Consensus size: 3
37839161 TTTTATTTAT
* *
37839171 TTA TTA TTA -TA TTA -TA CTA TTA CTTGT TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA TTA TTA
* *
37839216 TTA TTA TTA TTGA -TA TTG TAA TTA TTA TT
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT
37839245 TTCATGTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 5 0.09
3 48 0.83
4 5 0.09
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:37841865 original size:28 final size:28
Alignment explanation
Indices: 37841833--37841888 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37841823 ATCACAAATC
37841833 CCCTTAATATATCTTAGATTACATTTTA
1 CCCTTAATATATCTTAGATTACATTTTA
37841861 CCCTTAATATATCTTAGATTACATTTTA
1 CCCTTAATATATCTTAGATTACATTTTA
37841889 ATCCATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
CCCTTAATATATCTTAGATTACATTTTA
Found at i:37841921 original size:16 final size:15
Alignment explanation
Indices: 37841900--37841949 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
37841890 TCCATCTACT
*
37841900 AAAAAATGAAAAAAC
1 AAAAAAAGAAAAAAC
37841915 AAAAAAAGAAAAAA-
1 AAAAAAAGAAAAAAC
37841929 ATGAAAAAAGAAAAAAAC
1 A--AAAAAAG-AAAAAAC
37841947 AAA
1 AAA
37841950 TTAACCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.03
15 13 0.43
16 9 0.30
17 6 0.20
18 1 0.03
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAAAAGAAAAAAC
Found at i:37841931 original size:24 final size:24
Alignment explanation
Indices: 37841900--37841945 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
37841890 TCCATCTACT
37841900 AAAAAATGAAAAAACAAAAAAAGA
1 AAAAAATGAAAAAACAAAAAAAGA
*
37841924 AAAAAATGAAAAAAGAAAAAAA
1 AAAAAATGAAAAAACAAAAAAA
37841946 CAAATTAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.04
Consensus pattern (24 bp):
AAAAAATGAAAAAACAAAAAAAGA
Found at i:37841945 original size:8 final size:8
Alignment explanation
Indices: 37841908--37841945 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
37841898 CTAAAAAATG
*
37841908 AAAAAACA
1 AAAAAAGA
37841916 AAAAAAGA
1 AAAAAAGA
37841924 AAAAAATG-
1 AAAAAA-GA
37841932 AAAAAAGA
1 AAAAAAGA
37841940 AAAAAA
1 AAAAAA
37841946 CAAATTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 1 0.04
8 25 0.93
9 1 0.04
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:37842623 original size:3 final size:3
Alignment explanation
Indices: 37842615--37842667 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
37842605 CAACTAAATC
37842615 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37842663 TAA TA
1 TAA TA
37842668 GTCTGATTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37843072 original size:30 final size:31
Alignment explanation
Indices: 37843015--37843080 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
37843005 CGAAACAAAG
*
37843015 AAAAAACATGTTGAGAGACAAGTAACTCTAATCT
1 AAAAAACACGTTGAGAGAC-A--AACTCTAATCT
37843049 AAAAAACACGTTGAGAGAC-AACTCTAATCT
1 AAAAAACACGTTGAGAGACAAACTCTAATCT
37843079 AA
1 AA
37843081 GAGTCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 13 0.42
34 18 0.58
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (31 bp):
AAAAAACACGTTGAGAGACAAACTCTAATCT
Found at i:37848851 original size:21 final size:21
Alignment explanation
Indices: 37848793--37848902 Score: 123
Period size: 23 Copynumber: 5.1 Consensus size: 21
37848783 CCTGATTAGT
37848793 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
37848813 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
37848834 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
*
37848857 ATACAACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
37848878 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
37848901 AT
1 AT
37848903 CAGTAAAGCC
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
20 8 0.11
21 26 0.35
23 40 0.54
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:37849230 original size:16 final size:17
Alignment explanation
Indices: 37849209--37849240 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37849199 TAATAATAAT
37849209 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
37849225 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
37849241 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:37849482 original size:8 final size:8
Alignment explanation
Indices: 37849469--37849512 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
37849459 TGGTCTCTGT
37849469 TTCTTTTC
1 TTCTTTTC
*
37849477 TTCTTTTGT
1 TTCTTTT-C
37849486 TTCTTTTC
1 TTCTTTTC
*
37849494 TTCTTTTGT
1 TTCTTTT-C
37849503 TTCTTTTC
1 TTCTTTTC
37849511 TT
1 TT
37849513 TTATGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:37849488 original size:17 final size:17
Alignment explanation
Indices: 37849466--37849512 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
37849456 GAATGGTCTC
37849466 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTCTTCTTT
37849483 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTCTTCTTT
37849500 TGTTTCTTTTCTT
1 TGTTTCTTTTCTT
37849513 TTATGTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTCTTCTTT
Found at i:37849491 original size:9 final size:9
Alignment explanation
Indices: 37849466--37849509 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
37849456 GAATGGTCTC
37849466 TGTTTCTTT
1 TGTTTCTTT
*
37849475 T-CTTCTTT
1 TGTTTCTTT
37849483 TGTTTCTTT
1 TGTTTCTTT
*
37849492 T-CTTCTTT
1 TGTTTCTTT
37849500 TGTTTCTTT
1 TGTTTCTTT
37849509 T
1 T
37849510 CTTTTATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (9 bp):
TGTTTCTTT
Found at i:37849533 original size:3 final size:3
Alignment explanation
Indices: 37849525--37849562 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
37849515 ATGTATTAGT
*
37849525 TAA TAA TAA TAA CAA TATA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
37849563 TTTAATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37849731 original size:30 final size:27
Alignment explanation
Indices: 37849695--37849759 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
37849685 TTTCCTATAA
*
37849695 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
37849725 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
37849752 TATAATAT
1 TATAATAT
37849760 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:37849761 original size:16 final size:17
Alignment explanation
Indices: 37849725--37849761 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37849715 TAATATAATT
37849725 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
37849742 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
37849757 TATAA
1 TATAA
37849762 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:37850466 original size:43 final size:44
Alignment explanation
Indices: 37850392--37850481 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
37850382 AACTTTGTTT
* * *
37850392 TTAGTTTACCACTTAAACTTTGATTAGTGTAGATTCTTTTAA-A
1 TTAGTTTACCACTTAAAATTTGATTAATGTAGATTATTTTAATA
* *
37850435 TTAGTTTCCCACTTAAAATCTT-ATTAATGTAGTTTATTTTAATA
1 TTAGTTTACCACTTAAAAT-TTGATTAATGTAGATTATTTTAATA
37850479 TTA
1 TTA
37850482 TGTGACCTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (44 bp):
TTAGTTTACCACTTAAAATTTGATTAATGTAGATTATTTTAATA
Found at i:37859192 original size:19 final size:19
Alignment explanation
Indices: 37859164--37859201 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37859154 CCACTGTCAC
37859164 CCACCATAATCAATTTTGT
1 CCACCATAATCAATTTTGT
*
37859183 CCACCGTAATCAATTTTGT
1 CCACCATAATCAATTTTGT
37859202 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
CCACCATAATCAATTTTGT
Found at i:37859497 original size:17 final size:17
Alignment explanation
Indices: 37859477--37859535 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
37859467 TCAGCATGAT
*
37859477 TAAACAATTCAATAATA
1 TAAATAATTCAATAATA
* *
37859494 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
37859510 TGAAATTTAATTCAATAATA
1 T-AAA--TAATTCAATAATA
37859530 TAAATA
1 TAAATA
37859536 GTAGACATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
19 9 0.27
20 5 0.15
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:37859639 original size:25 final size:25
Alignment explanation
Indices: 37859610--37859663 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
37859600 AAAAGGGAAA
* *
37859610 AAAAATTTGAGGGGTTTGGCGGAAGT
1 AAAAGTTTG-GGGGTTTGGAGGAAGT
37859636 AAAAGTTTTGGGGGTTTGGAGGAAGT
1 AAAAG-TTTGGGGGTTTGGAGGAAGT
37859662 AA
1 AA
37859664 TTTTTTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.39, T:0.28
Consensus pattern (25 bp):
AAAAGTTTGGGGGTTTGGAGGAAGT
Found at i:37859898 original size:14 final size:14
Alignment explanation
Indices: 37859876--37859906 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37859866 ATTTGTATAG
*
37859876 AAAATTTTATATTA
1 AAAAATTTATATTA
37859890 AAAAATTTATATTA
1 AAAAATTTATATTA
37859904 AAA
1 AAA
37859907 GTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATTTATATTA
Found at i:37861565 original size:16 final size:16
Alignment explanation
Indices: 37861544--37861575 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37861534 TCTTGCTTTT
37861544 TCTTGAAATCTCTCAA
1 TCTTGAAATCTCTCAA
37861560 TCTTGAAATCTCTCAA
1 TCTTGAAATCTCTCAA
37861576 AAATCGAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
TCTTGAAATCTCTCAA
Found at i:37867382 original size:31 final size:32
Alignment explanation
Indices: 37867323--37867387 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
37867313 GGCAAATTAC
37867323 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
37867355 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
37867386 AA
1 AA
37867388 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:37872966 original size:14 final size:14
Alignment explanation
Indices: 37872949--37872982 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
37872939 TTTTTTTACA
37872949 CTTTTTTTCTTCTT
1 CTTTTTTTCTTCTT
37872963 CTTTTTTTCTTCTT
1 CTTTTTTTCTTCTT
37872977 CTTTTT
1 CTTTTT
37872983 CTTTTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTTTTCTTCTT
Found at i:37872975 original size:17 final size:18
Alignment explanation
Indices: 37872949--37872988 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37872939 TTTTTTTACA
37872949 CTTTTT-TTCTTCTTCTT
1 CTTTTTCTTCTTCTTCTT
*
37872966 -TTTTTCTTCTTCTTTTT
1 CTTTTTCTTCTTCTTCTT
37872983 CTTTTT
1 CTTTTT
37872989 GCTGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 10 0.50
18 5 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
CTTTTTCTTCTTCTTCTT
Found at i:37873595 original size:31 final size:32
Alignment explanation
Indices: 37873535--37873599 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
37873525 GGCAAATTAC
37873535 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
* *
37873567 AAGAGTAATTGAATCCTACT-TAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
37873598 AA
1 AA
37873600 ATTATCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:37875122 original size:78 final size:76
Alignment explanation
Indices: 37874993--37875136 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 76
37874983 AAACTGTAGG
37874993 TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAAAATGTATTTTGGTATGTTT
1 TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAAAATGTATTTTGGTATGTTT
37875058 TTTGTGCAAGT
66 TTTGTGCAAGT
***
37875069 TTGAGAACGTGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTGGTATGTATTTTGGTATGT
1 TTGAGAAC--GTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAAAATGTATTTTGGTATGT
37875134 TTT
64 TTT
37875137 CGTCTAGGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 8 0.13
78 55 0.87
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (76 bp):
TTGAGAACGTGCAATGTTTACTTTGGATGGATAATTTGATGCTTAAAATGTATTTTGGTATGTTT
TTTGTGCAAGT
Found at i:37875586 original size:15 final size:15
Alignment explanation
Indices: 37875566--37875595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37875556 TTCACTATTA
*
37875566 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
37875581 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
37875596 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:37876703 original size:13 final size:13
Alignment explanation
Indices: 37876685--37876717 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
37876675 GTTCAACTAG
37876685 AGAATTTGATTAA
1 AGAATTTGATTAA
37876698 AGAATTTGATTAA
1 AGAATTTGATTAA
37876711 AGAATTT
1 AGAATTT
37876718 TCTTGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (13 bp):
AGAATTTGATTAA
Found at i:37883989 original size:80 final size:80
Alignment explanation
Indices: 37883846--37884065 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 80
37883836 TGTTATACTC
* * * *
37883846 TCTGTCT-GCTTGTTTCGGTTGTATTAGCTCTTATGAGCTTCTGTCTGGCT-TGTTTCGATTAGA
1 TCTGTCTAGCATGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGG-TGTGTTTCAATTAGA
*
37883909 TTAGCTCTTATGAGCT
65 TTAGCTCTTATGAGCG
* * * *
37883925 TCTGTCTATCATGTTTCAGTTGGATTAACTCTTATGAGATTCGGTCTGGTGTGTTTCAATTAGAT
1 TCTGTCTAGCATGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATTAGAT
37883990 TAGCTCTTATGAGCG
66 TAGCTCTTATGAGCG
* * * *
37884005 TCTGTCTGGCGTGTTTCGGTTGGATTAACTCGTATGAGCTTTTGTCTGGTGTG-TTCAATTA
1 TCTGTCTAGCATGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATTA
37884066 ATCTAATGAT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 16 0.13
80 106 0.87
ACGTcount: A:0.15, C:0.16, G:0.24, T:0.45
Consensus pattern (80 bp):
TCTGTCTAGCATGTTTCGGTTGGATTAACTCTTATGAGCTTCTGTCTGGTGTGTTTCAATTAGAT
TAGCTCTTATGAGCG
Found at i:37884059 original size:40 final size:40
Alignment explanation
Indices: 37883846--37884059 Score: 227
Period size: 40 Copynumber: 5.4 Consensus size: 40
37883836 TGTTATACTC
* *
37883846 TCTGTCTGCT-TGTTTCGGTTGTATTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
37883885 TCTGTCTGGCT-TGTTTCGATTAGATTAGCTCTTATGAGCT
1 TCTGTCTGG-TGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * * * *
37883925 TCTGTCT-ATCATGTTTCAGTTGGATTAACTCTTATGAGAT
1 TCTGTCTGGT-GTGTTTCGGTTGGATTAGCTCTTATGAGCT
* ** * *
37883965 TCGGTCTGGTGTGTTTCAATTAGATTAGCTCTTATGAGCG
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * *
37884005 TCTGTCTGGCGTGTTTCGGTTGGATTAACTCGTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
*
37884045 TTTGTCTGGTGTGTT
1 TCTGTCTGGTGTGTT
37884060 CAATTAATCT
Statistics
Matches: 143, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 8 0.06
40 133 0.93
41 1 0.01
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:37891382 original size:21 final size:21
Alignment explanation
Indices: 37891353--37891392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37891343 CCCTAACATG
37891353 TAATATGGACTTTAAAAAAGT
1 TAATATGGACTTTAAAAAAGT
* * *
37891374 TAATTTGGAGTTTTAAAAA
1 TAATATGGACTTTAAAAAA
37891393 CAAATTAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (21 bp):
TAATATGGACTTTAAAAAAGT
Found at i:37893022 original size:21 final size:21
Alignment explanation
Indices: 37892974--37893023 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37892964 CATATTTTCT
**
37892974 TGTTGCCTCTGTTGCCCTTGC
1 TGTTGCCTCTGTTGCCCTCAC
*
37892995 TGCTGCCTCTGCTT-CCCTCAC
1 TGTTGCCTCTG-TTGCCCTCAC
37893016 TGTTGCCT
1 TGTTGCCT
37893024 TCGCTTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.02, C:0.38, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTTGCCTCTGTTGCCCTCAC
Found at i:37900680 original size:16 final size:16
Alignment explanation
Indices: 37900643--37900682 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
37900633 TTAATAAAAT
* *
37900643 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
37900659 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
37900675 TAAAATTA
1 TAAAATTA
37900683 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:37900761 original size:59 final size:59
Alignment explanation
Indices: 37900693--37900832 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
37900683 TCAAATTATT
*
37900693 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
37900752 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
37900811 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
37900833 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:37900826 original size:9 final size:9
Alignment explanation
Indices: 37900814--37900841 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
37900804 TTTATCAAAT
37900814 TATTAATTG
1 TATTAATTG
37900823 TATTAATTG
1 TATTAATTG
37900832 TATTAATTG
1 TATTAATTG
37900841 T
1 T
37900842 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:37900978 original size:22 final size:24
Alignment explanation
Indices: 37900938--37900981 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
37900928 AAATAAACTT
37900938 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
37900962 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
37900982 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:37901461 original size:9 final size:10
Alignment explanation
Indices: 37901438--37901462 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37901428 CCGTAATTAT
37901438 TTTTTAACAA
1 TTTTTAACAA
37901448 TTTTTAACAA
1 TTTTTAACAA
37901458 TTTTT
1 TTTTT
37901463 CAAAGTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAACAA
Done.