Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 195 of 211
Found at i:57607376 original size:46 final size:46
Alignment explanation
Indices: 57607275--57607600 Score: 383
Period size: 46 Copynumber: 7.6 Consensus size: 46
57607265 TACGTATGAT
*
57607275 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
57607318 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57607364 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
57607410 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57607446 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57607492 CACTTATCACTTTGTCTCTTGAGCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
57607528 CACTTATCATTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
57607574 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
57607601 AGTACTCAAA
Statistics
Matches: 245, Mismatches: 15, Indels: 43
0.81 0.05 0.14
Matches are distributed among these distances:
36 55 0.22
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 20 0.08
46 131 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:57607451 original size:36 final size:36
Alignment explanation
Indices: 57607410--57607564 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
57607400 CTAAGGCTAA
57607410 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
57607446 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
57607488 CTACCACTTATCACTTTGTCTCTTGAGCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* * *
57607528 CACTTATCATTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
57607564 C
1 C
57607565 TAAAGCTACC
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
36 62 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:57607501 original size:82 final size:82
Alignment explanation
Indices: 57607364--57607600 Score: 402
Period size: 82 Copynumber: 2.9 Consensus size: 82
57607354 CTAAGGCTAC
* * * *
57607364 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
57607429 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
57607446 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
* *
57607511 TGAGCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
57607528 CACTTATCATTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
57607593 TGATCAGA
66 TGATCAGA
57607601 AGTACTCAAA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 146 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:57607578 original size:128 final size:133
Alignment explanation
Indices: 57607275--57607600 Score: 389
Period size: 128 Copynumber: 2.5 Consensus size: 133
57607265 TACGTATGAT
* * *
57607275 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
* *
57607338 GATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
66 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGAGCAGATAAG-GTAGCTA
57607403 AGGCTAA
130 AGG---A
*
57607410 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----CACTTATCACTTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
* *
57607466 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAGCAGATAA-GT-G-T-A
66 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGAGCAGATAAGGTAGCTAA
57607527 -G-
131 GGA
* * *
57607528 CACTTATCATTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACT
57607593 TGATCAGA
65 TGATCAGA
57607601 AGTACTCAAA
Statistics
Matches: 168, Mismatches: 11, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
118 28 0.17
120 3 0.02
122 2 0.01
123 1 0.01
124 3 0.02
125 1 0.01
126 2 0.01
128 96 0.57
132 1 0.01
133 1 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (133 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGAGCAGATAAGGTAGCTAA
GGA
Found at i:57613461 original size:21 final size:21
Alignment explanation
Indices: 57613437--57613481 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
57613427 AATTATTTAT
57613437 TAACCATTTTGGCCCTTTAGA
1 TAACCATTTTGGCCCTTTAGA
57613458 TAACCATTTTGGCCCTTTAGA
1 TAACCATTTTGGCCCTTTAGA
57613479 TAA
1 TAA
57613482 TTGCAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (21 bp):
TAACCATTTTGGCCCTTTAGA
Found at i:57629224 original size:20 final size:22
Alignment explanation
Indices: 57629186--57629225 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57629176 GGTACTTGAA
57629186 CTTTCAAAATATATTAAAAAGG
1 CTTTCAAAATATATTAAAAAGG
57629208 CTTTCAAAAT-T-TTAAAAA
1 CTTTCAAAATATATTAAAAA
57629226 AAAAAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (22 bp):
CTTTCAAAATATATTAAAAAGG
Found at i:57629381 original size:19 final size:19
Alignment explanation
Indices: 57629357--57629496 Score: 58
Period size: 19 Copynumber: 7.3 Consensus size: 19
57629347 AAATTAGAAC
* **
57629357 AAAAATTGTAAAATTTTAT
1 AAAAATCGTAAAAAATTAT
57629376 AAAAATCGTAAAAAATTAT
1 AAAAATCGTAAAAAATTAT
* * *
57629395 -AAAAT-ATATAGAAATATAA
1 AAAAATCGTA-AAAAAT-TAT
* * *
57629414 AAAAAT--TTATAAATTTT
1 AAAAATCGTAAAAAATTAT
*
57629431 ATAAAGTCGTAAGAAAATTAT
1 A-AAAATCGTAA-AAAATTAT
*
57629452 ACAAAAT-ATAAAGAAA-TAT
1 A-AAAATCGTAAA-AAATTAT
**
57629471 AAATTTCGTAAAAAAATTAT
1 AAAAATCGT-AAAAAATTAT
57629491 AAAAAT
1 AAAAAT
57629497 TATTGTACCA
Statistics
Matches: 88, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
17 4 0.05
18 22 0.25
19 28 0.32
20 23 0.26
21 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAAATCGTAAAAAATTAT
Found at i:57629392 original size:29 final size:28
Alignment explanation
Indices: 57629357--57629449 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
57629347 AAATTAGAAC
57629357 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATT-TAAAATTTTATAAAAATCGTA
* * *
57629386 AAAAATTATAAAA-TATATAGAAAT-ATAA
1 AAAAATT-TAAAATTTTATAAAAATCGT-A
*
57629414 AAAAATTTATAAATTTTAT-AAAGTCGTA
1 AAAAATTTA-AAATTTTATAAAAATCGTA
57629442 AGAAAATT
1 A-AAAATT
57629450 ATACAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.06
28 25 0.49
29 23 0.45
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAAATTTAAAATTTTATAAAAATCGTA
Found at i:57629404 original size:28 final size:28
Alignment explanation
Indices: 57629357--57629463 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
57629347 AAATTAGAAC
* *
57629357 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATTATAAAA-TATATAAAAATCGTA
* *
57629386 AAAAATTATAAAATATATAGAAAT-ATAA
1 AAAAATTATAAAATATATAAAAATCGT-A
* * *
57629414 AAAAATTTATAAATTTTAT-AAAGTCGTA
1 AAAAA-TTATAAAATATATAAAAATCGTA
57629442 AGAAAATTATACAAA-ATATAAA
1 A-AAAATTATA-AAATATATAAA
57629464 GAAATATAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.02
28 28 0.46
29 32 0.52
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
AAAAATTATAAAATATATAAAAATCGTA
Found at i:57629418 original size:57 final size:58
Alignment explanation
Indices: 57629357--57629473 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 58
57629347 AAATTAGAAC
*
57629357 AAAAATTGTA-AAATTTTATAAAAATCGTAA-AAAATTAT-AAAATATATAGAAATATAA
1 AAAAATT-TATAAATTTTAT-AAAATCGTAAGAAAATTATAAAAATATAAAGAAATATAA
*
57629414 AAAAATTTATAAATTTTATAAAGTCGTAAGAAAATTATACAAAATATAAAGAAATATAA
1 AAAAATTTATAAATTTTATAAAATCGTAAGAAAATTATA-AAAATATAAAGAAATATAA
57629473 A
1 A
57629474 TTTCGTAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
56 11 0.20
57 24 0.44
59 19 0.35
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (58 bp):
AAAAATTTATAAATTTTATAAAATCGTAAGAAAATTATAAAAATATAAAGAAATATAA
Found at i:57629704 original size:19 final size:19
Alignment explanation
Indices: 57629682--57629725 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
57629672 TTTTTTTACG
57629682 ATTTTTATAAAAAATTATA
1 ATTTTTATAAAAAATTATA
*
57629701 A-TTTT-T-AATAATTATA
1 ATTTTTATAAAAAATTATA
57629717 ATTTTTATA
1 ATTTTTATA
57629726 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 5 0.24
19 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTATAAAAAATTATA
Found at i:57629704 original size:38 final size:38
Alignment explanation
Indices: 57629633--57629706 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
57629623 GGAGTCGTTA
* **
57629633 ATTTTTGTATGATTTTTACAAAATTTTACAATTTTTTT
1 ATTTTTGTACGATTTTTACAAAAAATTACAATTTTTTT
* * *
57629671 ATTTTTTTACGATTTTTATAAAAAATTATAATTTTT
1 ATTTTTGTACGATTTTTACAAAAAATTACAATTTTT
57629707 AATAATTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (38 bp):
ATTTTTGTACGATTTTTACAAAAAATTACAATTTTTTT
Found at i:57629730 original size:8 final size:9
Alignment explanation
Indices: 57629696--57629778 Score: 57
Period size: 9 Copynumber: 9.2 Consensus size: 9
57629686 TTATAAAAAA
57629696 TTATAATTT
1 TTATAATTT
57629705 TTAATAA---
1 TT-ATAATTT
57629712 TTATAATTT
1 TTATAATTT
57629721 TTAT-ATTT
1 TTATAATTT
*
57629729 TTATTATAATT
1 TTA-TA-ATTT
*
57629740 TAATAATTT
1 TTATAATTT
**
57629749 TTATAAAAT
1 TTATAATTT
*
57629758 TTATTATTT
1 TTATAATTT
57629767 ATTATAATTT
1 -TTATAATTT
57629777 TT
1 TT
57629779 TTCTAATTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 7 0.12
9 24 0.43
10 14 0.25
11 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:57629735 original size:36 final size:35
Alignment explanation
Indices: 57629695--57629778 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
57629685 TTTATAAAAA
** *
57629695 ATTATAATTTTTAATAATTATAATTTTTATATTTTT
1 ATTATAATTTTTAATAATTATAAAATTTAT-TATTT
* **
57629731 ATTATAATTTAATAATTTTTATAAAATTTATTATTT
1 ATTATAATTT-TTAATAATTATAAAATTTATTATTT
57629767 ATTATAATTTTT
1 ATTATAATTTTT
57629779 TTCTAATTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.03
36 24 0.60
37 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (35 bp):
ATTATAATTTTTAATAATTATAAAATTTATTATTT
Found at i:57629758 original size:19 final size:18
Alignment explanation
Indices: 57629682--57629773 Score: 58
Period size: 19 Copynumber: 4.6 Consensus size: 18
57629672 TTTTTTTACG
*
57629682 ATTTTTATAAAAAATTATA
1 ATTTTTAT-AAAATTTATA
*
57629701 ATTTTTAATAATTATAATTTTTA
1 ATTTTT-AT-A--A-AATTTATA
*
57629724 TATTTTTATTATAATTTAATA
1 -ATTTTTA-TAAAATTT-ATA
*
57629745 ATTTTTATAAAATTTATT
1 ATTTTTATAAAATTTATA
57629763 ATTTATTATAA
1 ATTT-TTATAA
57629774 TTTTTTTCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
18 6 0.10
19 19 0.32
20 16 0.27
21 2 0.03
22 1 0.02
23 8 0.14
24 7 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATAAAATTTATA
Found at i:57629773 original size:28 final size:28
Alignment explanation
Indices: 57629696--57629778 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
57629686 TTATAAAAAA
*
57629696 TTAT-AATTT-TTA-ATAATTATAATTT
1 TTATAAATTTATTATATTATTATAATTT
** *
57629721 TTATATTTTTATTATAATT-TAATAATTT
1 TTATAAATTTATTAT-ATTATTATAATTT
57629749 TTATAAAATTTATTAT-TTATTATAATTT
1 TTAT-AAATTTATTATATTATTATAATTT
57629777 TT
1 TT
57629779 TTCTAATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
25 4 0.09
26 3 0.07
27 5 0.11
28 22 0.49
29 11 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATAAATTTATTATATTATTATAATTT
Found at i:57630012 original size:87 final size:89
Alignment explanation
Indices: 57629798--57630015 Score: 284
Period size: 88 Copynumber: 2.5 Consensus size: 89
57629788 GTAATAAGAT
* * * *
57629798 TAGGGGCTTAATTGCTTTTCTTGAAAAAGTTTG-AGGGTCTTTTTGATGCATTTTGAAAGTTCAA
1 TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCT-TTTTTGATGCATTCTGAAAGTTCAA
57629862 GTACTCAATTGAGTGAAAACAAAAG
65 GTACTCAATTGAGTGAAAACAAAAG
* * * *
57629887 TAGGGGCTTAATTGATTTTTTT-AAGAAGTTTGAGGGCTTTTTTTATGTATTCTGAAAGTTCAAG
1 TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTTTGATGCATTCTGAAAGTTCAAG
* *
57629951 TGCTCAATTGAGTGCAAA-AAAA-
66 TACTCAATTGAGTGAAAACAAAAG
*
57629973 TAAGGGGCTTAATTG-TTTTTTTGAAAAATTTTGAAGGCTTTTT
1 T-AGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTT
57630016 ACACCCTTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
86 8 0.07
87 34 0.30
88 48 0.42
89 23 0.20
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (89 bp):
TAGGGGCTTAATTGATTTTTTTGAAAAAGTTTGAAGGCTTTTTTGATGCATTCTGAAAGTTCAAG
TACTCAATTGAGTGAAAACAAAAG
Found at i:57635085 original size:11 final size:11
Alignment explanation
Indices: 57635067--57635104 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
57635057 ACAATAACAA
57635067 CAAAATAGTAG
1 CAAAATAGTAG
* *
57635078 CAATATAGTAT
1 CAAAATAGTAG
57635089 CAAAATAGTAG
1 CAAAATAGTAG
57635100 CAAAA
1 CAAAA
57635105 CAACGTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:57651432 original size:16 final size:16
Alignment explanation
Indices: 57651411--57651441 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
57651401 AATGTCAGAA
57651411 GACAGGGCAAGTGGAG
1 GACAGGGCAAGTGGAG
57651427 GACAGGGCAAGTGGA
1 GACAGGGCAAGTGGA
57651442 CGTGTGGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.48, T:0.06
Consensus pattern (16 bp):
GACAGGGCAAGTGGAG
Found at i:57652133 original size:179 final size:175
Alignment explanation
Indices: 57651906--57652234 Score: 412
Period size: 179 Copynumber: 1.9 Consensus size: 175
57651896 TTTGACCTAT
* * *
57651906 TGCAACTTCAGAGGTATAAGATTTATCATTTTAATCCGTTCTACTGCAACTTCAGGGAGATAGAA
1 TGCAACTTCAGAGGTATAAGATCTATCATTTTAATCCGTTCTACTGCAACTTCAAGAAGATAGAA
* * * * * *
57651971 TT-AGTAGCTTCAATTTGCTCCATTTCAACTTCAGGGAGATAAAGTTTGTTATCTCCAGTCTGCT
66 TTGA-TAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AAGATTG-GAT-GCCA-TCTGCT
* *
57652035 CTACTGCAACTTTAGGGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
126 CTACTGCAACTTCAGAGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
* *
57652085 TGCAACTTTAGAGAG-ATAAGATCTGTCATTTTAATCCGCTTC-ACTGCAACTTCAAGAAGATAG
1 TGCAACTTCAGAG-GTATAAGATCTATCATTTTAATCCG-TTCTACTGCAACTTCAAGAAGATAG
* ** * *
57652148 GATTGATTTCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTA
64 AATTGATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCCATCTGCTCTA
57652213 CTGCAACTTCAGAGAGATAAGA
129 CTGCAACTTCAGAGAGATAAGA
57652235 TATGTGGTTT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
175 29 0.22
176 2 0.02
177 2 0.02
178 6 0.05
179 85 0.66
180 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (175 bp):
TGCAACTTCAGAGGTATAAGATCTATCATTTTAATCCGTTCTACTGCAACTTCAAGAAGATAGAA
TTGATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCCATCTGCTCTACT
GCAACTTCAGAGAGATAAGACTTGTCATGGTGTGATCCGTTCTAC
Found at i:57652220 original size:41 final size:41
Alignment explanation
Indices: 57651945--57652364 Score: 182
Period size: 44 Copynumber: 9.7 Consensus size: 41
57651935 TTTAATCCGT
* *
57651945 TCTACTGCAACTTCAGGGAGAT-AGAATTAGTAGCTTCAATTTGC
1 TCTACTGCAACTTCAGGGAGATAAG-ATT-G--GATTCAATCTGC
* * * * * *
57651989 TCCATTTCAACTTCAGGGAGATAAAGTTTGTTATCTCCAGTCTGC
1 TCTACTGCAACTTCAGGGAGAT-AAGATTG-GAT-T-CAATCTGC
* * ** * *
57652034 TCTACTGCAACTTTAGGGAGATAAGACTTGTCATGGTGTGATCCGT
1 TCTACTGCAACTTCAGGGAGATAAGA-TTG-GAT--T-CAATCTGC
* * * * *
57652080 TCTACTGCAACTTTAGAGAGATAAGATCTGTCATTTTAATCCGC
1 TCTACTGCAACTTCAGGGAGATAAGAT-TG-GA-TTCAATCTGC
* * *
57652124 T-TCACTGCAACTTCAAGAAGATAGGATT-GATTTCTTTAATCTGC
1 TCT-ACTGCAACTTCAGGGAGATAAGATTGGA-TTC---AATCTGC
* * * *
57652168 TCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGC
1 TCTACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
* * * **
57652209 TCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCAC
1 TCTACTGCAACTTCAGGGAGATAAG--AT-TGGATTCAATCTGC
* * * * * * *
57652253 TCCACTGCAACATAAGGGAGATAGGACTAGTAACTTCAATCTAC
1 TCTACTGCAACTTCAGGGAGATAAGA-TTG-GA-TTCAATCTGC
*
57652297 T-TCACTGCAACTTCAGGGAGATAAGATTGGATACAATCTGC
1 TCT-ACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
* * *
57652338 TCTACGGTAACTTCAGAGAGATAAGAT
1 TCTACTGCAACTTCAGGGAGATAAGAT
57652365 CTGTCATCTT
Statistics
Matches: 284, Mismatches: 70, Indels: 47
0.71 0.17 0.12
Matches are distributed among these distances:
41 62 0.22
42 4 0.01
43 8 0.03
44 137 0.48
45 36 0.13
46 36 0.13
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (41 bp):
TCTACTGCAACTTCAGGGAGATAAGATTGGATTCAATCTGC
Found at i:57652234 original size:129 final size:129
Alignment explanation
Indices: 57652080--57652371 Score: 381
Period size: 129 Copynumber: 2.3 Consensus size: 129
57652070 TGTGATCCGT
* * * *
57652080 TCTACTGCAACTTTAGAGAGATAAGATCTGTCATTTTAATCCGCTTCACTGCAACTTCAA-GAAG
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACAT-AAGGAAG
* ** * * * *
57652144 ATAGGA-TTGATTTCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTG
65 ATAGGACTAG-TAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTG
57652208 C
129 C
* ** *
57652209 TCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCACTCCACTGCAACATAAGGGAGA
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACATAAGGAAGA
* *
57652274 TAGGACTAGTAACTTCAATCTACTTCACTGCAACTTCAGGGAGATAAGATTGGATACAATCTGC
66 TAGGACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTGC
* *
57652338 TCTACGGTAACTTCAGAGAGATAAGATCTGTCAT
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTCAT
57652372 CTTCGATCTA
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
128 2 0.01
129 135 0.97
130 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (129 bp):
TCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACATAAGGAAGA
TAGGACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGATACAATCTGC
Found at i:57652679 original size:89 final size:89
Alignment explanation
Indices: 57652524--57652761 Score: 314
Period size: 89 Copynumber: 2.7 Consensus size: 89
57652514 CTGCAAACTA
* ** * **
57652524 TGGTGTCTTCGATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTACTATCTTCAGTCTGTTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCC
57652589 GCGGTCAGTATAGGAAGACAAGGC
66 GCGGTCAGTATAGGAAGACAAGGC
* * * *
57652613 TGGTGTCTTCGATCTGCTTCGTTGCCGGTACAGGAAGGCATGATTTGCTATCTTCAGTCTACTCC
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCC
* * *
57652678 GCTGTCAGTATATGAAGGCAAGGC
66 GCGGTCAGTATAGGAAGACAAGGC
* * * * *
57652702 TAGTGTCTTCGATATGCTTTGCTGCCAGTACAGGAATGTAAGATCTGCTATCTTCAGTCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCT
57652762 GCTTTACTGA
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 127 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCC
GCGGTCAGTATAGGAAGACAAGGC
Found at i:57652830 original size:45 final size:45
Alignment explanation
Indices: 57652781--57652967 Score: 248
Period size: 45 Copynumber: 4.2 Consensus size: 45
57652771 AAAACTATAG
* * * * **
57652781 TATCTTCGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * *
57652826 TATCTTCGATCTACTTTACTACCAATACAGGAAGATAAGATTTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * *
57652871 TATATTCGATCTACTTCGCTGCCAATACAAGTAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
57652916 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
57652961 TATCTTC
1 TATCTTC
57652968 AGTCTGCTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
Found at i:57652843 original size:76 final size:76
Alignment explanation
Indices: 57652702--57652845 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
57652692 AAGGCAAGGC
* ** * *
57652702 TAGTGTCTTCGATATGCTTTGCTGCCAGTACAGGAATGTAAGATCTGCTATCTTCAGTCTGCTTT
1 TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTACTTT
57652767 ACTGAAAACTA
66 ACTGAAAACTA
* * *
57652778 TAGTATCTTCGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGCTATCTTC-GATCTACTT
1 TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCAG-TCTACTT
57652842 TACT
65 TACT
57652846 ACCAATACAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 1 0.02
76 58 0.98
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (76 bp):
TAGTATCTTCGATATGCTTCACTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTACTTT
ACTGAAAACTA
Found at i:57652964 original size:211 final size:211
Alignment explanation
Indices: 57652723--57653186 Score: 696
Period size: 211 Copynumber: 2.2 Consensus size: 211
57652713 ATATGCTTTG
* * *
57652723 CTGCCAGTACAGGAATG-TAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAGTATCTT
1 CTGCCAATACAGGAA-GACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTT
* * * *
57652787 CGATCTGCTTCACTGCTAGTATAGGAAGGTAAGATCTGCTATCTTCGATCTACTTTACTACCAAT
65 CGATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAAT
* * * *
57652852 ACAGGAAGATAAGATTTGCTATATTCGATCTACTTCGCTGCCAATACAAGTAGACAAGATCTGCT
130 ACAGGAAGACAAGATCTGCTATATTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCT
57652917 ATCTTCGATCTACTTCA
195 ATCTTCGATCTACTTCA
* *
57652934 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAATATCTTC
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTTC
* * *
57652999 GATATGCTTCACTGTTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATA
66 GATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * * *
57653064 CAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGATCTGCTA
131 CAGGAAGACAAGATCTGCTATATTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTA
*
57653129 TCTTCGATCTACTTCG
196 TCTTCGATCTACTTCA
* * *
57653145 CTGTCAATATAGGAAGACAAGGTCTGCTATCTTCAGTCTGCT
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCT
57653187 CCACTGTCAG
Statistics
Matches: 228, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 1 0.00
211 227 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (211 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTTACTGAAAACTATAATATCTTC
GATATGCTTCACTGCTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
CAGGAAGACAAGATCTGCTATATTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTA
TCTTCGATCTACTTCA
Found at i:57652999 original size:166 final size:166
Alignment explanation
Indices: 57652826--57653133 Score: 465
Period size: 166 Copynumber: 1.9 Consensus size: 166
57652816 TAAGATCTGC
* * * *
57652826 TATCTTCGATCTACTTTACTACCAATACAGG-AAGATAAGATTTGCTATATTCGATCTACTTCGC
1 TATCTTCGATATACTTCACTACCAATACAGGAAAG-CAAGATCTGCTATATTCGATCTACTTCGC
*
57652890 TGCCAATACAAGTAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAG
65 TGCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAG
57652955 ATCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAA
130 ATCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAA
* *** * * *
57652992 TATCTTCGATATGCTTCACTGTTAGTATAGGAAAGCAAGATCTGCTATCTTCGATCTACTTCGCT
1 TATCTTCGATATACTTCACTACCAATACAGGAAAGCAAGATCTGCTATATTCGATCTACTTCGCT
* * *
57653057 GCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGA
66 GCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA
57653122 TCTGCTATCTTC
131 TCTGCTATCTTC
57653134 GATCTACTTC
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
166 123 0.98
167 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (166 bp):
TATCTTCGATATACTTCACTACCAATACAGGAAAGCAAGATCTGCTATATTCGATCTACTTCGCT
GCCAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA
TCTGCTATCTTCAGTCTGCTTTATTGCAAACTATAA
Found at i:57653043 original size:45 final size:45
Alignment explanation
Indices: 57652992--57653263 Score: 264
Period size: 45 Copynumber: 6.1 Consensus size: 45
57652982 CAAACTATAA
* * * * *
57652992 TATCTTCGATATGCTTCACTGTTAGTATAGGAA-AGCAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGA-CAAGATCTGC
* *
57653037 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * *
57653082 TATCTTTGATCTACTTCACTGCCAATACAGGAAGACGAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * *
57653127 TATCTTCGATCTACTTCGCTGTCAATATAGGAAGACAAGGTCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
* * * * * *
57653172 TATCTTC-AGTCTGCTCCACTGTCAGTACAGGAATG-TAAG-GCTGG
1 TATCTTCGA-TCTACTTCACTGTCAATACAGGAA-GACAAGATCTGC
* * * * * *
57653216 TGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGC
1 TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
57653261 TAT
1 TAT
57653264 TTTCACTGAT
Statistics
Matches: 190, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 35 0.18
45 152 0.80
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGTCAATACAGGAAGACAAGATCTGC
Found at i:57654365 original size:6 final size:6
Alignment explanation
Indices: 57654356--57654405 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
57654346 TCCTTCTCTT
*
57654356 TTTTTC TTTTCTC TTCTTC TTTCTT- TTTATTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTT-TC TTTTTC TTT-TTC TTT-TTC TTTTTC TTTTTC TTTTTC
57654405 T
1 T
57654406 CTCTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.14
6 22 0.59
7 10 0.27
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:57654394 original size:19 final size:17
Alignment explanation
Indices: 57654352--57654416 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 17
57654342 CATCTCCTTC
57654352 TCTT-TTTTTCTTTTCTCT
1 TCTTCTTTTT-TTTT-TCT
57654370 TCTTCTTTCTTTTTATTCT
1 TCTTCTTT-TTTTT-TTCT
*
57654389 TTTTCTTTTTTTTTTC-
1 TCTTCTTTTTTTTTTCT
57654405 TC-TCTTTTTTTT
1 TCTTCTTTTTTTT
57654417 ATATTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
17 3 0.07
18 9 0.21
19 16 0.38
20 3 0.07
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTCTTTTTTTTTTCT
Found at i:57654424 original size:32 final size:32
Alignment explanation
Indices: 57654356--57654424 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
57654346 TCCTTCTCTT
*
57654356 TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTC
1 TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTA
* *
57654388 TTTTTCTTTTTTTTTTCTCTCTTT-TTTTTA-TA
1 TTTTTC-TTTTCTCTTCT-TCTTTCTTTTTATTA
57654420 TTTTT
1 TTTTT
57654425 ATTGAATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 12 0.38
33 15 0.47
34 5 0.16
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTCTTTTCTCTTCTTCTTTCTTTTTATTA
Found at i:57657124 original size:19 final size:20
Alignment explanation
Indices: 57657095--57657146 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
57657085 CATTTTGTAA
* *
57657095 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGAATG
*
57657114 CAATGTAATGCAAATGAATG
1 AAATGTAATGCAAATGAATG
57657134 AAATG-AATGCAAA
1 AAATGTAATGCAAA
57657147 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGAATG
Found at i:57657139 original size:9 final size:10
Alignment explanation
Indices: 57657101--57657146 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
57657091 GTAAAAATCT
*
57657101 AATGCATATG
1 AATGCAAATG
57657111 -ATGC-AATG
1 AATGCAAATG
57657119 TAATGCAAATG
1 -AATGCAAATG
57657130 AATG-AAATG
1 AATGCAAATG
57657139 AATGCAAA
1 AATGCAAA
57657147 AAGAGACGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (10 bp):
AATGCAAATG
Found at i:57659582 original size:16 final size:16
Alignment explanation
Indices: 57659557--57659590 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
57659547 AAATACATAT
57659557 ATAGACATGTATAAAA
1 ATAGACATGTATAAAA
*
57659573 ATAGATATGTATAAAA
1 ATAGACATGTATAAAA
57659589 AT
1 AT
57659591 TATGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (16 bp):
ATAGACATGTATAAAA
Found at i:57664398 original size:22 final size:21
Alignment explanation
Indices: 57664339--57664401 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
57664329 TTTACCAGAA
* * *
57664339 TAACTACTAACAACTTAACTGC
1 TAACTACTAGCAAC-TGACAGC
*
57664361 TAACTAACTAGTAACTGACAGC
1 TAACT-ACTAGCAACTGACAGC
57664383 TTAACTACTAGCAACTGAC
1 -TAACTACTAGCAACTGAC
57664402 TATCTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (21 bp):
TAACTACTAGCAACTGACAGC
Found at i:57666127 original size:22 final size:21
Alignment explanation
Indices: 57666068--57666130 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
57666058 TTTACCAGAA
* * *
57666068 TAACTACTAACAACTTAACTGC
1 TAACTACTAGCAAC-TGACAGC
*
57666090 TAACTAACTAGTAACTGACAGC
1 TAACT-ACTAGCAACTGACAGC
57666112 TTAACTACTAGCAACTGAC
1 -TAACTACTAGCAACTGAC
57666131 TATCTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (21 bp):
TAACTACTAGCAACTGACAGC
Found at i:57669941 original size:4 final size:4
Alignment explanation
Indices: 57669932--57669964 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
57669922 AATTACACTT
57669932 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
57669965 ACAACTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:57671847 original size:26 final size:27
Alignment explanation
Indices: 57671818--57671890 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
57671808 AAAAATAAAA
57671818 ATTTACCAAAATAT-TACAAC-TTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTT
57671844 ATTTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAAC-TTTTTTT
*
57671872 ATTTACCAAAAAATATAAA
1 ATTTACCAAAATATATAAA
57671891 AAAAACTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 17 0.40
27 2 0.05
28 24 0.56
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:57671975 original size:27 final size:27
Alignment explanation
Indices: 57671936--57672011 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
57671926 TACTGGTCAC
** *
57671936 GCCAATGGTATTGGCGGCACCAGTGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
* *
57671963 GCCAATGCCATTGGCGGCATCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
57671990 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
57672012 CTCGTATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.07
27 38 0.93
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.21
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAATGGT
Found at i:57672123 original size:11 final size:10
Alignment explanation
Indices: 57672093--57672123 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
57672083 GCGAAAAATA
57672093 AGAGAAAAAG
1 AGAGAAAAAG
57672103 AGAGAAAAAG
1 AGAGAAAAAG
57672113 AGCAGAAAAAG
1 AG-AGAAAAAG
57672124 GAGGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAG
Found at i:57672188 original size:19 final size:21
Alignment explanation
Indices: 57672150--57672188 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57672140 AATAATTGAT
*
57672150 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
57672171 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
57672189 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:57672264 original size:3 final size:3
Alignment explanation
Indices: 57672258--57672298 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
57672248 ATTATTATTA
57672258 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
57672299 AGTATGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:57672533 original size:12 final size:12
Alignment explanation
Indices: 57672516--57672552 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
57672506 ATAATTTTAG
57672516 TGTGTATTATTT
1 TGTGTATTATTT
57672528 TGTGTATTATTT
1 TGTGTATTATTT
* *
57672540 TGAGTATAATTT
1 TGTGTATTATTT
57672552 T
1 T
57672553 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:57678248 original size:11 final size:12
Alignment explanation
Indices: 57678224--57678248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57678214 TACATGTACA
57678224 TTTTTCGCATTT
1 TTTTTCGCATTT
57678236 TTTTTCGCATTT
1 TTTTTCGCATTT
57678248 T
1 T
57678249 ATTATTTTCG
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTTCGCATTT
Found at i:57678617 original size:34 final size:32
Alignment explanation
Indices: 57678563--57678669 Score: 101
Period size: 31 Copynumber: 3.1 Consensus size: 32
57678553 CTTTTTTTTC
*
57678563 CTTTTTTTTCCCTT-TCTTCCCTCTTCTTCTT
1 CTTTTTTTTCTCTTCTCTTCCCTCTTCTTCTT
57678594 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTT
1 CTTTTTTTTCTCTTCT-C-TTCCC--TC-TT-CTTC-TT
*
57678633 CTTTCTTTTT-TCTTCTCTTCTCCTTTTCTTCTT
1 CTTT-TTTTTCTCTTCTCTTC-CCTCTTCTTCTT
57678666 CTTT
1 CTTT
57678670 CTTTCCTTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
31 13 0.20
32 1 0.02
33 7 0.11
34 9 0.14
35 2 0.03
36 3 0.05
37 5 0.08
38 7 0.11
39 12 0.19
40 5 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (32 bp):
CTTTTTTTTCTCTTCTCTTCCCTCTTCTTCTT
Found at i:57678634 original size:4 final size:4
Alignment explanation
Indices: 57678617--57678724 Score: 78
Period size: 4 Copynumber: 25.2 Consensus size: 4
57678607 TCTCCTTTCC
*
57678617 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
* *
57678663 C-TT CTTT CTTT CCTTT TTTCT CTTCT CATTT CCTCTC CTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTT-T CTT-T C-TTT -CT-TT CTTT CTTT CTTT
57678712 CTTT CTTT CTTT C
1 CTTT CTTT CTTT C
57678725 CCTCCTTCTG
Statistics
Matches: 87, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
3 7 0.08
4 52 0.60
5 21 0.24
6 7 0.08
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:57678660 original size:23 final size:23
Alignment explanation
Indices: 57678575--57678679 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 23
57678565 TTTTTTTCCC
* *
57678575 TTTCTTC-CCTCTTCTTCTTCTTT
1 TTTCTTCTCTTCTCCTT-TTCTTT
*
57678598 TTT-TTCTCTTCTCCTTTCCCTTT
1 TTTCTTCTCTTCTCCTTT-TCTTT
*
57678621 CTTTCCT-TCTT-T-C-TTTCTTT
1 -TTTCTTCTCTTCTCCTTTTCTTT
57678641 TTTCTTCTCTTCTCCTTTTC-TT
1 TTTCTTCTCTTCTCCTTTTCTTT
*
57678663 CTTCTT-TCTT-TCCTTTT
1 TTTCTTCTCTTCTCCTTTT
57678680 TTCTCTTCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
19 5 0.07
20 15 0.22
21 7 0.10
22 13 0.19
23 19 0.28
24 7 0.10
25 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTCTTCTCTTCTCCTTTTCTTT
Found at i:57678670 original size:45 final size:43
Alignment explanation
Indices: 57678585--57678723 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 43
57678575 TTTCTTCCCT
*
57678585 CTTC-TTC-TTCTTTTTT-TTCTCTTCTCCTTTCCCTTTCTTTC
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-TCTTTCTTTC
57678626 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTC-TTC-TTC
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTTCTTTC
* * * * *
57678667 TTTCTTTCCTT-TTTTCTCTTCTCATT-TCCTCTCCTTTCTTTC
1 CTTCTTTCTTTCTTTTTTCTTCTC-TTCTCCTTTTCTTTCTTTC
*
57678709 TTTCTTTCTTTCTTT
1 CTTCTTTCTTTCTTT
57678724 CCCTCCTTCT
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
40 17 0.20
41 21 0.25
42 19 0.23
43 13 0.15
44 14 0.17
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTTCTTTC
Found at i:57678670 original size:49 final size:43
Alignment explanation
Indices: 57678553--57678723 Score: 146
Period size: 41 Copynumber: 4.1 Consensus size: 43
57678543 ATAAAATTAC
** *
57678553 CTTTTTTTTC-CTT-TTTTTTCCCTTTCTTCCC-TC-TTCTTCTT
1 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTC-T-TT
57678594 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
1 CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
* *
57678637 CTTTTTTCTTCTCTTCTCCTTT-TC-TTC-TTCTTTCTTTCCTTT
1 CTTTTTT-TTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTT-CTTT
* * * *
57678679 -TTTCTCTTCTCATT-TCCTCT-CCTTTCTTTCTTTCTTTCTTT
1 CTTTTTTTTCTC-TTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
57678720 CTTT
1 CTTT
57678724 CCCTCCTTCT
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
40 11 0.10
41 32 0.29
42 23 0.21
43 25 0.23
44 17 0.15
45 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
CTTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTCTTT
Found at i:57678706 original size:38 final size:36
Alignment explanation
Indices: 57678622--57678721 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 36
57678612 TTTCCCTTTC
* *
57678622 TTTCCT-TCTTTCTTTCTTT-TTTCTTCTCTTCTCC
1 TTTCCTCTCTTTCTTTCTTTCTTTTTTCTCTTCTCA
*
57678656 TTTTCT-TC-TTCTTTCTTTCCTTTTTTCTCTTCTCA
1 TTTCCTCTCTTTCTTTCTTT-CTTTTTTCTCTTCTCA
57678691 TTTCCTCTCCTTTCTTTCTTTCTTTCTTTCT
1 TTTCCTCT-CTTTCTTTCTTTCTTT-TTTCT
57678722 TTCCCTCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
33 10 0.18
34 7 0.12
35 18 0.32
36 1 0.02
37 5 0.09
38 15 0.27
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (36 bp):
TTTCCTCTCTTTCTTTCTTTCTTTTTTCTCTTCTCA
Found at i:57686888 original size:15 final size:16
Alignment explanation
Indices: 57686870--57686902 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57686860 TTAAAAATAA
57686870 TTTTGTTATAT-ATGT
1 TTTTGTTATATAATGT
*
57686885 TTTTTTTATATAATGT
1 TTTTGTTATATAATGT
57686901 TT
1 TT
57686903 ATAAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTGTTATATAATGT
Found at i:57687449 original size:20 final size:19
Alignment explanation
Indices: 57687403--57687451 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
57687393 ATATGATTGT
* *
57687403 AATAA-TTTTTAATTGTTT
1 AATAATTTTTTAAATGTTA
*
57687421 ATTAATTTTTTAAATGTTA
1 AATAATTTTTTAAATGTTA
57687440 AATAACTTTTTT
1 AATAA-TTTTTT
57687452 TATTATATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
AATAATTTTTTAAATGTTA
Found at i:57690398 original size:29 final size:27
Alignment explanation
Indices: 57690360--57690428 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
57690350 ATAAAAACTT
* *
57690360 AAATTCAATAAAAGA-TATAAATATTATTA
1 AAATTTAATAAAAAATTA-AAATATTA--A
57690389 AAATTTAATAAAAAATTAAAATATTAA
1 AAATTTAATAAAAAATTAAAATATTAA
*
57690416 AAATTTATTAAAA
1 AAATTTAATAAAA
57690429 TTAGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 13 0.36
29 21 0.58
30 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (27 bp):
AAATTTAATAAAAAATTAAAATATTAA
Found at i:57690409 original size:37 final size:37
Alignment explanation
Indices: 57690367--57690446 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
57690357 CTTAAATTCA
*
57690367 ATAAAAGA-TATAAATATTATTAAAATTTA-ATAAAAAAT
1 ATAAAAGATTAAAAAT-TTATTAAAA-TTAGA-AAAAAAT
*
57690405 -TAAAATATTAAAAATTTATTAAAATTAGAAAAAAAT
1 ATAAAAGATTAAAAATTTATTAAAATTAGAAAAAAAT
57690441 ATAAAA
1 ATAAAA
57690447 AAATGTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
36 10 0.27
37 21 0.57
38 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (37 bp):
ATAAAAGATTAAAAATTTATTAAAATTAGAAAAAAAT
Found at i:57690483 original size:28 final size:28
Alignment explanation
Indices: 57690382--57690540 Score: 99
Period size: 28 Copynumber: 5.6 Consensus size: 28
57690372 AGATATAAAT
* * *
57690382 ATTATTAAAATTTAATAAAAAATTAAAAT
1 ATTA-TAAAATTTTATAAAAAAATAAAAA
** *
57690411 ATTA-AAAA-TTTATTAAAATTAGAAAAA
1 ATTATAAAATTTTA-TAAAAAAATAAAAA
* *** *
57690438 AATATAAAAAAATGTAAAAAAATAAAAA
1 ATTATAAAATTTTATAAAAAAATAAAAA
* * **
57690466 GTTACAAAATTTTATAAAAATCGTAAAAA
1 ATTATAAAATTTTATAAAAA-AATAAAAA
* * *
57690495 ATTATAAAA-TATATAGAAATATAAAAAA
1 ATTATAAAATTTTATAAAAAAAT-AAAAA
57690523 ATTATAAAATTTTATAAA
1 ATTATAAAATTTTATAAA
57690541 GTCATAAGAA
Statistics
Matches: 94, Mismatches: 30, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
26 3 0.03
27 17 0.18
28 50 0.53
29 24 0.26
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
ATTATAAAATTTTATAAAAAAATAAAAA
Found at i:57690494 original size:57 final size:57
Alignment explanation
Indices: 57690397--57690600 Score: 166
Period size: 57 Copynumber: 3.6 Consensus size: 57
57690387 TAAAATTTAA
* * * * *
57690397 TAAAAAATTAAAATATTA-AAAA-TTTATTAAAATTAGAAAAAAATATAAAAAAATG
1 TAAAAAAATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATAAAAAAATG
* * * * * *
57690452 TAAAAAAATAAAAAGTTACAAAATTTTATAAAAATCGTAAAAAATTAT-AAAATATA
1 TAAAAAAATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATAAAAAAATG
* * * * *
57690508 TAGAAATATAAAAAAATTATAAAATTTTAT-AAAGTCATAAGAAAAT-TATACAAAATG
1 TAAAAAAAT-AAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATA-AAAAAATG
* * * *
57690565 TAAAGAAATATAAATTTCATAAAAATTTATAAAAAT
1 TAAAAAAATAAAAAATT-ATAAAATTTTATAAAAAT
57690601 TATACCAAAA
Statistics
Matches: 114, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
55 16 0.14
56 35 0.31
57 59 0.52
58 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (57 bp):
TAAAAAAATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAATATAAAAAAATG
Found at i:57690502 original size:10 final size:10
Alignment explanation
Indices: 57690425--57690531 Score: 55
Period size: 10 Copynumber: 11.2 Consensus size: 10
57690415 AAAATTTATT
*
57690425 AAAATTAGAA
1 AAAATTATAA
*
57690435 AAAAATATAA
1 AAAATTATAA
* *
57690445 AAAAATGTAA
1 AAAATTATAA
57690455 AAAA--ATAA
1 AAAATTATAA
* *
57690463 AAAGTTACAA
1 AAAATTATAA
**
57690473 AATTTTAT-A
1 AAAATTATAA
**
57690482 AAAATCGTAA
1 AAAATTATAA
57690492 AAAATTATAA
1 AAAATTATAA
*
57690502 AATA-TAT-A
1 AAAATTATAA
*
57690510 GAAA-TATAAA
1 AAAATTAT-AA
57690520 AAAATTATAA
1 AAAATTATAA
57690530 AA
1 AA
57690532 TTTTATAAAG
Statistics
Matches: 72, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
8 12 0.17
9 8 0.11
10 49 0.68
11 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAATTATAA
Found at i:57690547 original size:29 final size:29
Alignment explanation
Indices: 57690461--57690557 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
57690451 GTAAAAAAAT
* * *
57690461 AAAAAGTTACAAAATTTTATAAAAATCGT-
1 AAAAAATTATAAAATTTTAT-AAAATCATA
*
57690490 AAAAAATTATAAAA-TATATAGAAAT-ATA
1 AAAAAATTATAAAATTTTATA-AAATCATA
*
57690518 AAAAAATTATAAAATTTTATAAAGTCATA
1 AAAAAATTATAAAATTTTATAAAATCATA
*
57690547 AGAAAATTATA
1 AAAAAATTATA
57690558 CAAAATGTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 2 0.04
28 25 0.44
29 30 0.53
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAAATTATAAAATTTTATAAAATCATA
Found at i:57690879 original size:18 final size:17
Alignment explanation
Indices: 57690858--57690908 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
57690848 AATTTTAATT
*
57690858 TTTATATTTTTATTAAAA
1 TTTATATTTTT-CTAAAA
57690876 TTTAATCATTTTTCTAAAA
1 TTT-AT-ATTTTTCTAAAA
*
57690895 TTTAT-TATTTCTAA
1 TTTATATTTTTCTAA
57690909 TTTCTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 8 0.28
18 5 0.17
19 10 0.34
20 6 0.21
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATATTTTTCTAAAA
Found at i:57691065 original size:93 final size:92
Alignment explanation
Indices: 57690954--57691141 Score: 247
Period size: 93 Copynumber: 2.0 Consensus size: 92
57690944 GGCTTCATTG
* * *
57690954 TTTTTTTGAAAAATTTTGAGAGTCTTTTTTAT-TCATTTTGAAAGTTCAAGTACCCAATTGAGTG
1 TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGT-ATTTTGAAAGTTCAAGTACCCAATTAAGTG
57691018 -AAAAAAAAGGCAGTGG-CATAATTGCTTTT
65 CAAAAAAAA-G-AG-GGTCATAATTGCTTTT
* * * *
57691047 TTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGTATTTTGAAAGTTCAAGTGCTCAATTAAGTGC
1 TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAATTAAGTGC
*
57691112 AAAAAAAAGAGGGTCTTAATTGCTTTT
66 AAAAAAAAGAGGGTCATAATTGCTTTT
57691139 TTT
1 TTT
57691142 GAAAAAATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
91 2 0.02
92 17 0.20
93 56 0.67
94 9 0.11
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (92 bp):
TTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAATTAAGTGC
AAAAAAAAGAGGGTCATAATTGCTTTT
Found at i:57698804 original size:55 final size:55
Alignment explanation
Indices: 57698742--57698852 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
57698732 CATGTAGATA
*
57698742 AATATCCTGTTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
1 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
57698797 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
1 AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
57698852 A
1 A
57698853 TAGTCGACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (55 bp):
AATATCCTATTTGAGATCGACCTTTATGTGGATCCAATAAGTATCCAGCATCAGC
Found at i:57700585 original size:11 final size:11
Alignment explanation
Indices: 57700569--57700598 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57700559 AAATCGGCAG
57700569 AAAAAAAGAAA
1 AAAAAAAGAAA
57700580 AAAAAAAGAAA
1 AAAAAAAGAAA
*
57700591 AACAAAAG
1 AAAAAAAG
57700599 GAAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:57703268 original size:41 final size:41
Alignment explanation
Indices: 57703223--57703361 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 41
57703213 CAACGACACT
* * * *
57703223 TAGCCTGCTAGACTTATAGCTTAATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
** *
57703264 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCATG
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
** *
57703305 TAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCAAT
1 TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
57703346 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
57703362 AAGTCTGAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTGATTCAGATCACCGGCAAG
Found at i:57708110 original size:41 final size:41
Alignment explanation
Indices: 57708065--57708162 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
57708055 CAACGACACT
* * * *
57708065 TAGCCTGCTAGACTTATAGCTTAATTCAGATCACCGGCACG
1 TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
** * *
57708106 TAGCCTGCTAGGTTTATAACCTGATTCAGACCACCGGCAAT
1 TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
57708147 TAGCCTGCTAGACTTA
1 TAGCCTGCTAGACTTA
57708163 AAGTCTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCCTGCTAGACTTATAACCTAATTCAGACCACCGGCAAG
Found at i:57744215 original size:17 final size:19
Alignment explanation
Indices: 57744193--57744232 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
57744183 AATACTTAAC
57744193 AATAATTAACAAA-AATA-
1 AATAATTAACAAATAATAG
*
57744210 AATAATTAATAAATAATAG
1 AATAATTAACAAATAATAG
57744229 AATA
1 AATA
57744233 CATGTAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAATTAACAAATAATAG
Found at i:57747373 original size:27 final size:27
Alignment explanation
Indices: 57747318--57747370 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57747308 AATCTCACTT
* * *
57747318 TTGGACCTTGTTTGCATGGGATGAAGG
1 TTGGACCGTGGTTGCATGAGATGAAGG
57747345 TTGGACCGTGGTTGCATGAGA-GAAGG
1 TTGGACCGTGGTTGCATGAGATGAAGG
57747371 GTTAACAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.21, C:0.11, G:0.40, T:0.28
Consensus pattern (27 bp):
TTGGACCGTGGTTGCATGAGATGAAGG
Found at i:57751078 original size:21 final size:21
Alignment explanation
Indices: 57751046--57751086 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57751036 AGGCTCGAGG
57751046 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
57751067 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
57751087 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:57760490 original size:42 final size:42
Alignment explanation
Indices: 57760444--57760540 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
57760434 AATAAAATAT
*
57760444 TATCTAGATAAATATTAAATTAAATTTAATATCTCATATTAA
1 TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
*
57760486 TATCTAAATAAATATTAAATTAAGTTTAATATCTCATATTAA
1 TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
*
57760528 TAT-TAAATTAATA
1 TATCTAAATAAATA
57760541 AAATATTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 9 0.17
42 43 0.83
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (42 bp):
TATCTAAATAAATATTAAATTAAATTTAATATCTCATATTAA
Found at i:57760532 original size:30 final size:29
Alignment explanation
Indices: 57760482--57760538 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
57760472 ATATCTCATA
57760482 TTAATATCTAAATAAATATTAAATTAAGT
1 TTAATATCTAAATAAATATTAAATTAAGT
* *
57760511 TTAATATCTCATATTAATATTAAATTAA
1 TTAATATCT-AAATAAATATTAAATTAA
57760539 TAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TTAATATCTAAATAAATATTAAATTAAGT
Found at i:57760534 original size:103 final size:103
Alignment explanation
Indices: 57760420--57760619 Score: 330
Period size: 103 Copynumber: 1.9 Consensus size: 103
57760410 AATTAATCAC
**
57760420 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCATATTA
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
*
57760485 ATA-TCTAAATAAATATTAAATTAAGTTTAATATCTCAT
66 ATATTC-AAATAAATATTAAATTAAATTTAATATCTCAT
* * *
57760523 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTTAATTTAACATAATATCTCTTATTA
1 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
57760588 ATATTCAAATAAATATTAAATTAAATTTAATA
66 ATATTCAAATAAATATTAAATTAAATTTAATA
57760620 ATAAATTCAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 88 0.98
104 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (103 bp):
ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAACATAATATCTCATATTA
ATATTCAAATAAATATTAAATTAAATTTAATATCTCAT
Found at i:57760560 original size:61 final size:62
Alignment explanation
Indices: 57760486--57760602 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 62
57760476 CTCATATTAA
** *
57760486 TATCTAAATAAATA-TTAAATTAAGTTTAATATCTCATATTAATATT-AAATTAATAAAATAT
1 TATCTAAATAAATATTTAAATTAA-CATAATATCTCATATTAATATTCAAATAAATAAAATAT
* * *
57760547 TATCTAGATAAATATTTAATTTAACATAATATCTCTTATTAATATTCAAATAAATA
1 TATCTAAATAAATATTTAAATTAACATAATATCTCATATTAATATTCAAATAAATA
57760603 TTAAATTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 32 0.67
62 16 0.33
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (62 bp):
TATCTAAATAAATATTTAAATTAACATAATATCTCATATTAATATTCAAATAAATAAAATAT
Found at i:57764244 original size:94 final size:94
Alignment explanation
Indices: 57764080--57764265 Score: 275
Period size: 94 Copynumber: 2.0 Consensus size: 94
57764070 TGTGGTGGGC
* * * * *
57764080 ATGAACGGTGTGAGTAAACCTCTTGAAAAAGTTATTTGTAAAAATTTTCTAGATCAACAATCGAA
1 ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAATTTTCTAGACCAACAATCAAA
* *
57764145 TGGATCCCACTTATTAACCAATACAACCT
66 CGGATCCCACTTATTAACCAACACAACCT
* *
57764174 ATGAACGGTGTGATTAAACCTCTTGAAAAAATCCTTTGCAAAAATCTTT-TAGACCAACAATCAA
1 ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAAT-TTTCTAGACCAACAATCAA
57764238 ACGGATCCCACTTATTAACCAACACAAC
65 ACGGATCCCACTTATTAACCAACACAAC
57764266 AAATTCCTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 79 0.96
95 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (94 bp):
ATGAACGGTGTGAGTAAACCTCTTGAAAAAATCATTTGCAAAAATTTTCTAGACCAACAATCAAA
CGGATCCCACTTATTAACCAACACAACCT
Found at i:57765226 original size:13 final size:13
Alignment explanation
Indices: 57765208--57765233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57765198 AGGAATAATA
57765208 GCAGTTAACAGTT
1 GCAGTTAACAGTT
57765221 GCAGTTAACAGTT
1 GCAGTTAACAGTT
57765234 AAGGAAGTTA
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:0.23, T:0.31
Consensus pattern (13 bp):
GCAGTTAACAGTT
Found at i:57767702 original size:14 final size:14
Alignment explanation
Indices: 57767680--57767715 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57767670 CAAAATAAAA
*
57767680 GAAAGCCATCATTT
1 GAAAACCATCATTT
57767694 GAAAACCATCATTT
1 GAAAACCATCATTT
57767708 GAAAACCA
1 GAAAACCA
57767716 ACAAACAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (14 bp):
GAAAACCATCATTT
Found at i:57767898 original size:18 final size:17
Alignment explanation
Indices: 57767875--57767917 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
57767865 CTTTCTTTTT
*
57767875 AATAAATATGTTATTGAA
1 AATAAATATATTATTG-A
*
57767893 AATAAAAAATATTATTGA
1 AAT-AAATATATTATTGA
57767911 AATAAAT
1 AATAAAT
57767918 TAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 7 0.33
19 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
AATAAATATATTATTGA
Found at i:57770231 original size:11 final size:11
Alignment explanation
Indices: 57770215--57770239 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57770205 GTGACTACCC
57770215 TCTTGCAGTTT
1 TCTTGCAGTTT
57770226 TCTTGCAGTTT
1 TCTTGCAGTTT
57770237 TCT
1 TCT
57770240 GCCACTACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.20, G:0.16, T:0.56
Consensus pattern (11 bp):
TCTTGCAGTTT
Found at i:57772455 original size:15 final size:15
Alignment explanation
Indices: 57772435--57772468 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57772425 TATTTATTCT
57772435 TAAACCTCAAAACCC
1 TAAACCTCAAAACCC
* *
57772450 TAAACCTTAAAACTC
1 TAAACCTCAAAACCC
57772465 TAAA
1 TAAA
57772469 TCATAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCTCAAAACCC
Found at i:57772459 original size:22 final size:22
Alignment explanation
Indices: 57772433--57772483 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
57772423 CCTATTTATT
*
57772433 CTTAAACCTCAAAACCCTAAAC
1 CTTAAACCTCAAAACCATAAAC
* * *
57772455 CTTAAAACTCTAAATCATAAAC
1 CTTAAACCTCAAAACCATAAAC
*
57772477 CATAAAC
1 CTTAAAC
57772484 TATTAACCCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (22 bp):
CTTAAACCTCAAAACCATAAAC
Found at i:57774520 original size:74 final size:71
Alignment explanation
Indices: 57774396--57774537 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 71
57774386 ACTTTTGCTA
* * * *
57774396 AAGCGCCGCAAAAAACTAAGCACAACGACGCCGTTTTCTAAGCTTCCGGGGGGGTTTATCGGCGT
1 AAGCGCCGCAAAAAACTAAACACAACGACACCGTTTTCTAAGCTTCC--GGGGGTTTAGCGGCAT
57774461 TTTTATGG
64 TTTTATGG
* * ** *
57774469 AAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTTCGGGGGTTTAGCGGCATT
1 AAGCGCCGC-AAAAAACTAAACACAACGACACCGTTTTCTAAGCTTCCGGGGGTTTAGCGGCATT
57774534 TTTA
65 TTTA
57774538 GTAAAGCGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 19 0.32
73 9 0.15
74 31 0.53
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (71 bp):
AAGCGCCGCAAAAAACTAAACACAACGACACCGTTTTCTAAGCTTCCGGGGGTTTAGCGGCATTT
TTATGG
Found at i:57774596 original size:112 final size:113
Alignment explanation
Indices: 57774461--57774665 Score: 349
Period size: 113 Copynumber: 1.8 Consensus size: 113
57774451 TTATCGGCGT
* * *
57774461 TTTTATGGAAGCGCCGC-AAAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTTCGGGGGTTT
1 TTTTATGAAAGCGCCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGTTT
* *
57774525 AGCGGCATTTTTAGTAAAGCGTCGCTAATGCTGGGTTTTTAGCGGCTC
66 AGCGGCATTTTTAATAAAGCGCCGCTAATGCTGGGTTTTTAGCGGCTC
57774573 TTTTATGAAAGCGCCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGTTT
1 TTTTATGAAAGCGCCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGTTT
*
57774638 AGCGGCGTTTTTAATAAAGCGCCGCTAA
66 AGCGGCATTTTTAATAAAGCGCCGCTAA
57774666 CGCTCAGGGA
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
112 16 0.19
113 70 0.81
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (113 bp):
TTTTATGAAAGCGCCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGTTT
AGCGGCATTTTTAATAAAGCGCCGCTAATGCTGGGTTTTTAGCGGCTC
Found at i:57774905 original size:21 final size:21
Alignment explanation
Indices: 57774881--57774925 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57774871 TTAAGGTTCA
* *
57774881 AGGTTTTATGGTTTAAGGGTT
1 AGGTGTTATGATTTAAGGGTT
*
57774902 AGGTGTTATGATTTAGGGGTT
1 AGGTGTTATGATTTAAGGGTT
57774923 AGG
1 AGG
57774926 AGGATTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
AGGTGTTATGATTTAAGGGTT
Found at i:57775031 original size:14 final size:14
Alignment explanation
Indices: 57774985--57775031 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
57774975 TGGTTTTACA
*
57774985 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
* *
57774999 GGTTATGCTTTAAG
1 GTTTATGGTTTAAG
57775013 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
*
57775027 ATTTA
1 GTTTA
57775032 AGAATTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTATGGTTTAAG
Found at i:57778286 original size:52 final size:52
Alignment explanation
Indices: 57778214--57778418 Score: 177
Period size: 52 Copynumber: 4.1 Consensus size: 52
57778204 GTATATAACT
*
57778214 TAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTT-ATATATAAGCTTGCATAACTTACA
* *
57778266 TAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACA
1 TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
* * * *
57778318 TAATA-ACT--T----C----CGTAACTGATATATAATCTGAT-AAT-ACATTACA
1 TAATACA-TAATAACACAATACATAACTTATATATAAGCT--TGCATAAC-TTACA
* *
57778361 TAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTTATA-TATAAGCTTGCATAACTTACA
57778414 TAATA
1 TAATA
57778419 ACTTACATAT
Statistics
Matches: 122, Mismatches: 12, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
42 18 0.15
43 13 0.11
44 2 0.02
45 1 0.01
50 1 0.01
51 1 0.01
52 53 0.43
53 23 0.19
54 10 0.08
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (52 bp):
TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
Found at i:57778363 original size:12 final size:14
Alignment explanation
Indices: 57778348--57778384 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
57778338 ATATAATCTG
57778348 ATAATACAT-T-AC
1 ATAATACATATAAC
57778360 ATAATACATAATAAC
1 ATAATACAT-ATAAC
57778375 ATAATACATA
1 ATAATACATA
57778385 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:57778378 original size:8 final size:7
Alignment explanation
Indices: 57778348--57778385 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
57778338 ATATAATCTG
57778348 ATAATAC
1 ATAATAC
57778355 AT--TAC
1 ATAATAC
57778360 ATAATAC
1 ATAATAC
57778367 ATAATAAC
1 ATAAT-AC
57778375 ATAATAC
1 ATAATAC
57778382 ATAA
1 ATAA
57778386 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:57778419 original size:22 final size:21
Alignment explanation
Indices: 57778348--57778427 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 21
57778338 ATATAATCTG
57778348 ATAAT-ACATTACATAA--TAC
1 ATAATAAC-TTACATAACTTAC
*
57778367 ATAATAACATAATACATAACTTAT
1 ATAATAAC-T--TACATAACTTAC
* *
57778391 ATTATAATCTTGCATAACTTAC
1 ATAATAA-CTTACATAACTTAC
57778413 ATAATAACTTACATA
1 ATAATAACTTACATA
57778428 TATTCATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 5 0.10
20 4 0.08
21 7 0.14
22 23 0.47
24 9 0.18
25 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAACTTACATAACTTAC
Found at i:57781333 original size:21 final size:21
Alignment explanation
Indices: 57781309--57781377 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
57781299 TAACAACTTA
57781309 AAGCAGAGGCAGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
* *
57781330 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
57781351 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
57781372 AAGCAG
1 AAGCAG
57781378 CGATAGAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:57781621 original size:19 final size:20
Alignment explanation
Indices: 57781583--57781621 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
57781573 GTAAAGAAAA
* *
57781583 ATATGAATTCAATTTTATTT
1 ATATCAATTCAATATTATTT
57781603 ATATCAATT-AATATTATTT
1 ATATCAATTCAATATTATTT
57781622 TAGTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATCAATTCAATATTATTT
Found at i:57781876 original size:42 final size:43
Alignment explanation
Indices: 57781819--57781953 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 43
57781809 TGCGTTGCTA
* *
57781819 AAAGAATACTACTTTTAGCGGCATTTTTAAAC-AAGCGCCGCT
1 AAAGAACAGTACTTTTAGCGGCATTTTTAAACTAAGCGCCGCT
* * ***
57781861 ATAGAACAGTACTTTTAGCGGCGTTTTTGTCCTAAGCGCCGCT
1 AAAGAACAGTACTTTTAGCGGCATTTTTAAACTAAGCGCCGCT
* * * * *
57781904 AAAGAACA-TGCTCTTTAGTGGCGTTTATT--TCTTAGCGCCGCT
1 AAAGAACAGTACT-TTTAGCGGCATTT-TTAAACTAAGCGCCGCT
57781946 AAAGAACA
1 AAAGAACA
57781954 TGGTCTTTAG
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
42 47 0.60
43 29 0.37
44 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
AAAGAACAGTACTTTTAGCGGCATTTTTAAACTAAGCGCCGCT
Found at i:57781954 original size:42 final size:41
Alignment explanation
Indices: 57781852--57782017 Score: 217
Period size: 42 Copynumber: 4.0 Consensus size: 41
57781842 TTTTTAAACA
* * * *
57781852 AGCGCCGCTATAGAACAGTACT-TTTAGCGGCGTTTTTGTCCTA
1 AGCGCCGCTAAAGAACA-TGCTCTTTAGTGGCGTTTTT-T-CTT
57781895 AGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTATTTCTT
1 AGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTT-TTTCTT
* *
57781937 AGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTTT
1 AGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTT-TTTCTT
*
57781979 AGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTC
1 AGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTTTTC
57782018 CTGTAAGCGC
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
41 3 0.03
42 79 0.70
43 29 0.26
44 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
AGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTTTTCTT
Found at i:57784333 original size:43 final size:43
Alignment explanation
Indices: 57784254--57784344 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
57784244 TTGCTAACTG
* * * ** *
57784254 CTAAAGAACATGACCTTTAGCGGCGTTATTGGGAAAAGCGCCA
1 CTAAAGAAAATGACATTTAGCAGCGTTATTAAGAAAAGCACCA
* *
57784297 CTAAAGAAAATGACATTTAGCAGCGTTTTTAAGAAAAGCACCG
1 CTAAAGAAAATGACATTTAGCAGCGTTATTAAGAAAAGCACCA
57784340 CTAAA
1 CTAAA
57784345 AGTCATGTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (43 bp):
CTAAAGAAAATGACATTTAGCAGCGTTATTAAGAAAAGCACCA
Found at i:57784359 original size:43 final size:41
Alignment explanation
Indices: 57784312--57784411 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 41
57784302 GAAAATGACA
*
57784312 TTTAGCAGCGTTTTTAAGAAAAGCACCGCTAAAAGTCATGTTC
1 TTTAGC-GCGTTTGTAAGAAAAGCACCG-TAAAAGTCATGTTC
* ** * *
57784355 TTTAGCGTTGTTTGTGGGAAAAGCATCGTAAAGGTCATGTTC
1 TTTAGCG-CGTTTGTAAGAAAAGCACCGTAAAAGTCATGTTC
57784397 TTTAGCGGCGTTTGT
1 TTTAGC-GCGTTTGT
57784412 GGGGAAAGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTAGCGCGTTTGTAAGAAAAGCACCGTAAAAGTCATGTTC
Found at i:57784417 original size:43 final size:42
Alignment explanation
Indices: 57784329--57784570 Score: 206
Period size: 43 Copynumber: 5.7 Consensus size: 42
57784319 GCGTTTTTAA
* **
57784329 GAAAAGCACCGCTAAAAGTCATGTTCTTTAGCGTTGTTTGTGG
1 GAAAAGCA-CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
57784372 GAAAAGCATCG-TAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
1 GAAAAGCA-CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
* ** *
57784414 GGAAAGTGCTGCTAAAGGTCATG----TTAGTGGCGTTTGTGG
1 GAAAAGCAC-GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
* * * * *
57784453 GAAAAGTGACGTTAAAGGTCATGTTCTATAACGGCATTTGTGG
1 GAAAAG-CACGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
** * * *
57784496 GGTAAGCGCCACTGAAGGTCATGTTCTTTAGCGGCGTTTGTGG
1 GAAAAGC-ACGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
* * * *
57784539 GAAAAGCGCCGCTATATGTCATGTTCTATAGC
1 GAAAAGC-ACGCTAAAGGTCATGTTCTTTAGC
57784571 AGTGTTTTTC
Statistics
Matches: 158, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
39 32 0.20
40 1 0.01
41 1 0.01
42 34 0.22
43 90 0.57
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (42 bp):
GAAAAGCACGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
Found at i:57784459 original size:39 final size:39
Alignment explanation
Indices: 57784364--57784477 Score: 117
Period size: 39 Copynumber: 2.8 Consensus size: 39
57784354 CTTTAGCGTT
*
57784364 GTTTGTGGGAAAAG-CATCG-TAAAGGTCATGTTCTTTAGCGGC
1 GTTTGTGGGAAAAGTGA-CGCTAAAGGTCATG----TTAGCGGC
* *
57784406 GTTTGTGGGGAAAGTG-CTGCTAAAGGTCATGTTAGTGGC
1 GTTTGTGGGAAAAGTGAC-GCTAAAGGTCATGTTAGCGGC
*
57784445 GTTTGTGGGAAAAGTGACGTTAAAGGTCATGTT
1 GTTTGTGGGAAAAGTGACGCTAAAGGTCATGTT
57784478 CTATAACGGC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
39 36 0.57
40 1 0.02
41 1 0.02
42 14 0.22
43 11 0.17
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (39 bp):
GTTTGTGGGAAAAGTGACGCTAAAGGTCATGTTAGCGGC
Found at i:57784493 original size:82 final size:81
Alignment explanation
Indices: 57784355--57784568 Score: 214
Period size: 82 Copynumber: 2.6 Consensus size: 81
57784345 AGTCATGTTC
** * * * *
57784355 TTTAGCGTTGTTTGTGGGAAAAGCATCGTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGGA-CGTAAAGGTCATGTTCTATAACGGCATTTGTGGGGAAAG
* **
57784420 TGCTGCTAAAGGTCATG
65 CGCCACTAAAGGTCATG
* *
57784437 -TTAGTGGCGTTTGTGGGAAAAGTGACGTTAAAGGTCATGTTCTATAACGGCATTTGTGGGGTAA
1 TTTAGCGGCGTTTGTGGGAAAAG-GACG-TAAAGGTCATGTTCTATAACGGCATTTGTGGGGAAA
*
57784501 GCGCCACTGAAGGTCATG
64 GCGCCACTAAAGGTCATG
* * *
57784519 TTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTATATGTCATGTTCTATA
1 ---TTTAGCGGCGTTTGTGGGAAAAG-GACG-TAAAGGTCATGTTCTATA
57784569 GCAGTGTTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 21 0.19
82 47 0.44
86 40 0.37
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.32
Consensus pattern (81 bp):
TTTAGCGGCGTTTGTGGGAAAAGGACGTAAAGGTCATGTTCTATAACGGCATTTGTGGGGAAAGC
GCCACTAAAGGTCATG
Found at i:57784645 original size:30 final size:30
Alignment explanation
Indices: 57784611--57784669 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
57784601 TAGCGGTGTT
57784611 GTCTATAGCAGCGTTTTTTGCGGCGCTTAC
1 GTCTATAGCAGCGTTTTTTGCGGCGCTTAC
57784641 GTCTATAGCAGCGTTTTTTGCGGCGCTTA
1 GTCTATAGCAGCGTTTTTTGCGGCGCTTA
57784670 TCAAATCGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (30 bp):
GTCTATAGCAGCGTTTTTTGCGGCGCTTAC
Found at i:57785475 original size:13 final size:13
Alignment explanation
Indices: 57785454--57785486 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
57785444 ATTACACGTA
57785454 CACTTTTAC-TTT
1 CACTTTTACATTT
57785466 CACATTTTACATTT
1 CAC-TTTTACATTT
57785480 CACTTTT
1 CACTTTT
57785487 GTAGTCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 10 0.53
14 6 0.32
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (13 bp):
CACTTTTACATTT
Found at i:57789055 original size:18 final size:19
Alignment explanation
Indices: 57789021--57789056 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57789011 AGTAGGGTTG
57789021 TATTTAAATTATATTTTTT
1 TATTTAAATTATATTTTTT
57789040 TATTTAAATT-TATTTTT
1 TATTTAAATTATATTTTT
57789057 AATCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTAAATTATATTTTTT
Found at i:57789365 original size:28 final size:24
Alignment explanation
Indices: 57789322--57789372 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
57789312 AAATATATTC
*
57789322 TTTTTTTTATTCTTTCATCTTCTTTA
1 TTTTTTTTATTATTTC-TC-TCTTTA
57789348 TTTTTTTTACATTATTTCTCTCTTT
1 TTTTTTTT--ATTATTTCTCTCTTT
57789373 GTTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.59
27 2 0.09
28 7 0.32
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTTTATTATTTCTCTCTTTA
Found at i:57796109 original size:3 final size:3
Alignment explanation
Indices: 57796101--57796145 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
57796091 TAATATTTTC
* *
57796101 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ACTC A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
57796146 GATACTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.92
4 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:57796119 original size:15 final size:15
Alignment explanation
Indices: 57796101--57796156 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
57796091 TAATATTTTC
57796101 ATTATTATTATTGTT
1 ATTATTATTATTGTT
*
57796116 ATTATTATTATTATT
1 ATTATTATTATTGTT
*
57796131 ACTCATATTATTATTGAT
1 A-T--TATTATTATTGTT
*
57796149 ACTATTAT
1 ATTATTAT
57796157 ATTTAGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 21 0.62
16 1 0.03
18 12 0.35
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTGTT
Found at i:57798669 original size:16 final size:17
Alignment explanation
Indices: 57798644--57798692 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
57798634 CCCCTTTAAG
*
57798644 TTTTTCAAATTT-TTTC
1 TTTTTAAAATTTATTTC
57798660 TTTTTAAAATTTGATTTC
1 TTTTTAAAATTT-ATTTC
*
57798678 TTTTATAGAATTTAT
1 TTTT-TAAAATTTAT
57798693 AATTTGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.39
18 10 0.36
19 7 0.25
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTTAAAATTTATTTC
Found at i:57808348 original size:30 final size:31
Alignment explanation
Indices: 57808293--57808351 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
57808283 CAACGCAGTA
*
57808293 ACTTAAATGAAAACTTTCGAATAATTCAATG
1 ACTTAAATGAAAACTTTCAAATAATTCAATG
57808324 ACTTAAATGAAAACTTT-AAATAATTCAA
1 ACTTAAATGAAAACTTTCAAATAATTCAA
57808352 CGACCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAATTCAATG
Found at i:57812919 original size:88 final size:91
Alignment explanation
Indices: 57812726--57812919 Score: 243
Period size: 90 Copynumber: 2.2 Consensus size: 91
57812716 TAATAATAAT
* * * **
57812726 AATTAAGTCCCTCCTTTTTTTTTGCACTTAGTTGAGCACTTAAACTTTCAAAATGCATCAAAAAA
1 AATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGCACTTAAACTTTCAAAATGCATCAAAAAA
* *
57812791 GGTACTCAAACTTCTTCAAAAAAAGC
66 GCTACTCAAAATTCTTCAAAAAAAGC
* * * *
57812817 AATTAAGGCCCTGCTTTTTTTTT-CACTCAACTGGGTACTTGAACTTTCAAAATGCAT-AAAAAA
1 AATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGCACTTAAACTTTCAAAATGCATCAAAAAA
*
57812880 GACT-CTCAAAATTTTTC-AAAAAAGC
66 G-CTACTCAAAATTCTTCAAAAAAAGC
57812905 AATTAAGCCCCTGCT
1 AATTAAGCCCCTGCT
57812920 CTTATTAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 22 0.24
89 18 0.20
90 29 0.32
91 21 0.23
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (91 bp):
AATTAAGCCCCTGCTTTTTTTTTGCACTCAACTGAGCACTTAAACTTTCAAAATGCATCAAAAAA
GCTACTCAAAATTCTTCAAAAAAAGC
Found at i:57812972 original size:18 final size:19
Alignment explanation
Indices: 57812945--57812997 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
57812935 AAAAATTATA
57812945 AATAATAAATAATAAATTTT
1 AATAA-AAATAATAAATTTT
*
57812965 AA-AAAAATTATTAAATTTT
1 AATAAAAA-TAATAAATTTT
57812984 AATAAAAAT-ATAAA
1 AATAAAAATAATAAA
57812998 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 7 0.24
19 15 0.52
20 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAAAATAATAAATTTT
Found at i:57812988 original size:32 final size:30
Alignment explanation
Indices: 57812925--57813008 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
57812915 CTGCTCTTAT
57812925 TAAAAA-TTAAAAAAATTATAAATAATAAA
1 TAAAAATTTAAAAAAATTATAAATAATAAA
* *
57812954 TAATAAATTTTAAAAAAATTATTAAAT-TTTAA
1 TAA-AAA-TTTAAAAAAATTA-TAAATAATAAA
* *
57812986 TAAAAATATAAAAAATTTA-AAAT
1 TAAAAATTTAAAAAAATTATAAAT
57813009 TTATTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
28 4 0.09
29 3 0.06
30 14 0.30
31 3 0.06
32 18 0.38
33 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAAATTTAAAAAAATTATAAATAATAAA
Found at i:57813006 original size:27 final size:29
Alignment explanation
Indices: 57812966--57813019 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
57812956 ATAAATTTTA
*
57812966 AAAAAATTATTAAATTTTAATAAAAATAT
1 AAAAAATTATTAAAATTTAATAAAAATAT
*
57812995 AAAAAA-T-TTAAAATTTATTAAAAAT
1 AAAAAATTATTAAAATTTAATAAAAAT
57813020 TGGAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 1 0.04
29 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAAATTATTAAAATTTAATAAAAATAT
Found at i:57813241 original size:20 final size:20
Alignment explanation
Indices: 57813216--57813272 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
57813206 TACGATAATT
57813216 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
57813236 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
57813254 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
57813273 CTTTATCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:57813352 original size:19 final size:20
Alignment explanation
Indices: 57813314--57813354 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
57813304 TCTATATATA
**
57813314 TTATAAATATTTTATGATTT
1 TTATAAATATTTTACAATTT
57813334 TTATAAA-ATTTTACAATTT
1 TTATAAATATTTTACAATTT
57813353 TT
1 TT
57813355 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATAAATATTTTACAATTT
Found at i:57813363 original size:29 final size:28
Alignment explanation
Indices: 57813274--57813364 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
57813264 TTCTTACGAC
57813274 TTTATCAAAA-TTTATAATTTTTTTTATATT
1 TTTAT-AAAATTTTA-AATTTTTTTT-TATT
* * * * * *
57813304 TCTATATATATTATAAATATTTTATGATT
1 TTTATA-AAATTTTAAATTTTTTTTTATT
57813333 TTTATAAAATTTTACAATTTTTTTTTATT
1 TTTATAAAATTTTA-AATTTTTTTTTATT
57813362 TTT
1 TTT
57813365 TTACGATTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
28 6 0.13
29 23 0.50
30 14 0.30
31 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTATAAAATTTTAAATTTTTTTTTATT
Found at i:57813384 original size:21 final size:21
Alignment explanation
Indices: 57813342--57813384 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57813332 TTTTATAAAA
* *
57813342 TTTTACAATTTTTTTTTATTT
1 TTTTACAATTTTATATTATTT
* *
57813363 TTTTACGATTTTATATTCTTT
1 TTTTACAATTTTATATTATTT
57813384 T
1 T
57813385 CCTAATTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTACAATTTTATATTATTT
Found at i:57813567 original size:91 final size:91
Alignment explanation
Indices: 57813472--57813655 Score: 225
Period size: 91 Copynumber: 2.0 Consensus size: 91
57813462 AATTTTTAAT
* * *
57813472 AAAAG-CATGAGCTTAATTGCTTTT-TTGGAAAAAAGTTTGAG-GGTCTTTTTT-ATGCATTTTG
1 AAAAGTCA-GAGCTTAATTACTTTTCTT-G-AAAAAGTTTGAGAGCT-TTTTTTGATGAATTTTG
* * *
57813533 AAAGTTTAAGTA-TCCAATTGAGTGCAAAAA
62 AAAGTTTAAATACT-CAAATAAGTGCAAAAA
*
57813563 AAAAGTCAGGGCTTAATTACTTTTCTTGAAAAAGTTTGAGAGCTTTTTTTGATGAATTTTGAAAG
1 AAAAGTCAGAGCTTAATTACTTTTCTTGAAAAAGTTTGAGAGCTTTTTTTGATGAATTTTGAAAG
57813628 TTTAAATACTCAAATAAGTGCAAAAA
66 TTTAAATACTCAAATAAGTGCAAAAA
57813654 AA
1 AA
57813656 GGGGGCTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
90 18 0.22
91 58 0.72
92 5 0.06
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (91 bp):
AAAAGTCAGAGCTTAATTACTTTTCTTGAAAAAGTTTGAGAGCTTTTTTTGATGAATTTTGAAAG
TTTAAATACTCAAATAAGTGCAAAAA
Found at i:57816377 original size:26 final size:26
Alignment explanation
Indices: 57816346--57816398 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
57816336 CCCATTTTTT
* * *
57816346 AATAAATATTAAAAAATTATTTTAAA
1 AATAAAAAATAAAAAAATATTTTAAA
57816372 AATAAAAAATAAAAAAATATTTTAAA
1 AATAAAAAATAAAAAAATATTTTAAA
57816398 A
1 A
57816399 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAAAAAATAAAAAAATATTTTAAA
Found at i:57816392 original size:37 final size:37
Alignment explanation
Indices: 57816349--57816424 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
57816339 ATTTTTTAAT
*
57816349 AAATATTAAAAAATTATTTTAAAAATAAAAAATAAAA
1 AAATATTAAAAAAGTATTTTAAAAATAAAAAATAAAA
** * *
57816386 AAATATTTTAAAAGTATTTTAAAATTAAAAATTAAAA
1 AAATATTAAAAAAGTATTTTAAAAATAAAAAATAAAA
57816423 AA
1 AA
57816425 TAAAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (37 bp):
AAATATTAAAAAAGTATTTTAAAAATAAAAAATAAAA
Found at i:57816428 original size:14 final size:14
Alignment explanation
Indices: 57816406--57816440 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
57816396 AAAGTATTTT
* *
57816406 AAAATTAAAAATTA
1 AAAAATAAAAATAA
57816420 AAAAATAAAAATAA
1 AAAAATAAAAATAA
57816434 AAAAATA
1 AAAAATA
57816441 TTTATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:57816435 original size:37 final size:37
Alignment explanation
Indices: 57816358--57816435 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 37
57816348 TAAATATTAA
* ***
57816358 AAAATTATTTTAAAAATAAAAAATAAAAAAATATTTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAAAATAAAAT
* *
57816395 AAAAGTATTTT-AAAATTAAAAATTAAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAAATAAAAAAAT-AAAAT
57816432 AAAA
1 AAAA
57816436 AAATATTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 18 0.53
37 16 0.47
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (37 bp):
AAAAGTATTTTAAAAATAAAAAATAAAAAAATAAAAT
Found at i:57823540 original size:9 final size:9
Alignment explanation
Indices: 57823528--57823840 Score: 70
Period size: 9 Copynumber: 34.8 Consensus size: 9
57823518 TTACTTTTAT
57823528 TAAAAATTA
1 TAAAAATTA
57823537 TAAAAA--A
1 TAAAAATTA
* *
57823544 TTAAAATCAA
1 TAAAAAT-TA
*
57823554 TAAAAAATA
1 TAAAAATTA
* *
57823563 TAAATATGA
1 TAAAAATTA
**
57823572 TTAAATTTTAA
1 -TAAAAATT-A
57823583 TAAAAAATT-
1 T-AAAAATTA
*
57823592 TCAAATATTA
1 T-AAAAATTA
57823602 -AAA-ATTA
1 TAAAAATTA
*
57823609 GAAAAA-T-
1 TAAAAATTA
**
57823616 TAAAAATGG
1 TAAAAATTA
57823625 TAAAAA-TA
1 TAAAAATTA
*
57823633 TAAAAAATTG
1 T-AAAAATTA
**
57823643 TAAACTTTTA
1 TAAAAAT-TA
57823653 TAAAAATTA
1 TAAAAATTA
57823662 TAAAAATTA
1 TAAAAATTA
57823671 TAAAAA-TA
1 TAAAAATTA
*
57823679 CAAAAAATTA
1 -TAAAAATTA
57823689 T-AAAA-T-
1 TAAAAATTA
*
57823695 T-AAAATCAA
1 TAAAAAT-TA
*
57823704 TAAAAAGTA
1 TAAAAATTA
*
57823713 TAAATATTA
1 TAAAAATTA
**
57823722 TTAAATTTTAA
1 -TAAAAATT-A
57823733 TAAAAAAATTA
1 T--AAAAATTA
57823744 -AAAAA-T-
1 TAAAAATTA
57823750 TAAAAATTA
1 TAAAAATTA
*
57823759 GAAAAA-T-
1 TAAAAATTA
**
57823766 TAAAAATCG
1 TAAAAATTA
*
57823775 TAAAAAATA
1 TAAAAATTA
* *
57823784 TAAAAAACTG
1 T-AAAAATTA
*
57823794 TAAAATTTTTA
1 TAAAA--ATTA
*
57823805 TAAAAATCA
1 TAAAAATTA
57823814 TAAAAAGATTA
1 T-AAAA-ATTA
57823825 T-AAAATATA
1 TAAAAAT-TA
57823834 TAAAAAT
1 TAAAAAT
57823841 ACAAAAAAAA
Statistics
Matches: 221, Mismatches: 47, Indels: 71
0.65 0.14 0.21
Matches are distributed among these distances:
6 5 0.02
7 27 0.12
8 23 0.10
9 92 0.42
10 51 0.23
11 18 0.08
12 5 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:57823606 original size:16 final size:16
Alignment explanation
Indices: 57823585--57823772 Score: 64
Period size: 16 Copynumber: 11.4 Consensus size: 16
57823575 AATTTTAATA
* *
57823585 AAAAATTTCAAATATT
1 AAAAATTACAAAAATT
*
57823601 AAAAATTAGAAAAATT
1 AAAAATTACAAAAATT
*
57823617 AAAAATGGTA-AAAATATA
1 AAAAAT--TACAAAA-ATT
** **
57823635 AAAAATTGTAAACTTTTAT
1 AAAAATTACAAA--AAT-T
*
57823654 AAAAATTATAAAAATT
1 AAAAATTACAAAAATT
*
57823670 ATAAAAATACAAAAAATT
1 A-AAAATTAC-AAAAATT
57823688 ATAAAATTA-AAATCAA-T
1 A-AAAATTACAAA--AATT
* * *
57823705 AAAAAGTATAAATATT
1 AAAAATTACAAAAATT
* ** *
57823721 ATTAAATTTTAATAA--
1 A-AAAATTACAAAAATT
57823736 AAAAATTA-AAAAATT
1 AAAAATTACAAAAATT
*
57823751 AAAAATTAGAAAAATT
1 AAAAATTACAAAAATT
57823767 AAAAAT
1 AAAAAT
57823773 CGTAAAAAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
13 4 0.03
14 5 0.04
15 10 0.08
16 46 0.35
17 27 0.21
18 28 0.21
19 11 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAATTACAAAAATT
Found at i:57823606 original size:29 final size:29
Alignment explanation
Indices: 57823552--57823607 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
57823542 AATTAAAATC
*
57823552 AATAAAAAATATAAATATGATTAAATTTT
1 AATAAAAAATATAAATATGATAAAATTTT
* *
57823581 AATAAAAAATTTCAAATATTA-AAAATT
1 AATAAAAAATAT-AAATATGATAAAATT
57823608 AGAAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAAATATAAATATGATAAAATTTT
Found at i:57823652 original size:71 final size:70
Alignment explanation
Indices: 57823526--57823810 Score: 215
Period size: 72 Copynumber: 3.9 Consensus size: 70
57823516 CATTACTTTT
* * *
57823526 ATTAAAAATTATAAAAAATT-AAAATCAATAAAAAATAT-AAATA-TGATTAAATTTTAATAAAA
1 ATTAAAAATTA-GAAAAATTAAAAAT-AGTAAAAAATATAAAAAATTG--TAAATTTTAATAAAA
*
57823588 AATTTCAAAT
62 AATTT-AAAA
*
57823598 ATTAAAAATTAGAAAAATTAAAAATGGT-AAAAATATAAAAAATTGTAAACTTTT-AT-AAAAAT
1 ATTAAAAATTAGAAAAATTAAAAATAGTAAAAAATATAAAAAATTGTAAA-TTTTAATAAAAAAT
57823660 TATAAAA
65 T-TAAAA
* * * * *
57823667 ATTATAAAAATACAAAAAATTATAAAATTAAAATCAATAAAA-AGTATAAATATTATTAAATTTT
1 ATTA-AAAATTA-GAAAAATTA-AAAA-T--AGT-AA-AAAATA-TA-AAAAATT-GTAAATTTT
*
57823731 AATAAAAAAATTAAAAA
55 AAT-AAAAAATTTAAAA
* * *
57823748 ATTAAAAATTAGAAAAATTAAAAATCGTAAAAAATATAAAAAACTGTAAAATTTTTATAAAAA
1 ATTAAAAATTAGAAAAATTAAAAATAGTAAAAAATATAAAAAATTGT-AAATTTTAATAAAAA
57823811 TCATAAAAAG
Statistics
Matches: 171, Mismatches: 20, Indels: 45
0.72 0.08 0.19
Matches are distributed among these distances:
69 14 0.08
70 21 0.12
71 30 0.18
72 36 0.21
73 7 0.04
74 3 0.02
75 2 0.01
77 3 0.02
78 10 0.06
79 18 0.11
80 12 0.07
81 8 0.05
82 7 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (70 bp):
ATTAAAAATTAGAAAAATTAAAAATAGTAAAAAATATAAAAAATTGTAAATTTTAATAAAAAATT
TAAAA
Done.