Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 76 of 131
Found at i:25452318 original size:73 final size:74
Alignment explanation
Indices: 25452232--25452380 Score: 273
Period size: 73 Copynumber: 2.0 Consensus size: 74
25452222 AATTTTCTCA
**
25452232 ATTTAGTCCATATTGCTCAAAATCAATAATTAACGTCACTATTTAGTCCTTTTTCACTTCTAA-C
1 ATTTAGTCCATATTGCTCAAAATCAATAATTAACGTCACTATTTAGTCCTTTTTCACTTAAAATC
25452296 TAAAAATCT
66 TAAAAATCT
25452305 ATTTAGTCCATATTGCTCAAAATCAATAATTAACGTCACTATTTAGTCCTTTTTCACTTAAAATC
1 ATTTAGTCCATATTGCTCAAAATCAATAATTAACGTCACTATTTAGTCCTTTTTCACTTAAAATC
25452370 TAAAAATCT
66 TAAAAATCT
25452379 AT
1 AT
25452381 CAATTTAACC
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 61 0.84
74 12 0.16
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (74 bp):
ATTTAGTCCATATTGCTCAAAATCAATAATTAACGTCACTATTTAGTCCTTTTTCACTTAAAATC
TAAAAATCT
Found at i:25452658 original size:11 final size:11
Alignment explanation
Indices: 25452642--25452694 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
25452632 TTTCTATTTC
*
25452642 TTTTATTATGT
1 TTTTATTATAT
*
25452653 TTTTATTATGT
1 TTTTATTATAT
25452664 TTTTATTATAT
1 TTTTATTATAT
25452675 TTATTATTATAT
1 TT-TTATTATAT
*
25452687 TATTATTA
1 TTTTATTA
25452695 ACCTTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:25458264 original size:58 final size:59
Alignment explanation
Indices: 25458181--25458294 Score: 176
Period size: 58 Copynumber: 1.9 Consensus size: 59
25458171 ACAGACAAGA
* * **
25458181 ACTAATTTGGAACAGTTCTAAAAGTTTTAGCGCAATCTCTAAAATACCTA-AAACAGAG
1 ACTAATTTGGAAAAATTCTAAAAGTTTTAGCGCAATCTAAAAAATACCTAGAAACAGAG
*
25458239 ACTAATTTGGAAAAATTCTAAAAGTTTTAGGGCAATCTAAAAAATACCTAGAAACA
1 ACTAATTTGGAAAAATTCTAAAAGTTTTAGCGCAATCTAAAAAATACCTAGAAACA
25458295 AGGGACACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 45 0.90
59 5 0.10
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (59 bp):
ACTAATTTGGAAAAATTCTAAAAGTTTTAGCGCAATCTAAAAAATACCTAGAAACAGAG
Found at i:25458890 original size:23 final size:24
Alignment explanation
Indices: 25458864--25458908 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
25458854 CAAATTTGAA
25458864 GCTAAGC-A-CATACCAAGCATTAG
1 GCTAAGCTATCATACCAA-CATTAG
25458887 GCTAAGCTATCATACCAACATT
1 GCTAAGCTATCATACCAACATT
25458909 GCCTCAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (24 bp):
GCTAAGCTATCATACCAACATTAG
Found at i:25473064 original size:17 final size:18
Alignment explanation
Indices: 25473034--25473082 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
25473024 CAGGTTAACA
25473034 TTTAAAAGTTTATA-ATTT
1 TTTAAAA-TTTATATATTT
25473052 TTTAAAATTTATATATTT
1 TTTAAAATTTATATATTT
*
25473070 TTT-TAATTTATAT
1 TTTAAAATTTATAT
25473083 TTATCACGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTAAAATTTATATATTT
Found at i:25473075 original size:19 final size:18
Alignment explanation
Indices: 25473034--25473072 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25473024 CAGGTTAACA
25473034 TTTAAAAGTTTATAATTT
1 TTTAAAAGTTTATAATTT
25473052 TTTAAAA-TTTATATATTT
1 TTTAAAAGTTTATA-ATTT
25473070 TTT
1 TTT
25473073 TAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAAAAGTTTATAATTT
Found at i:25476593 original size:11 final size:11
Alignment explanation
Indices: 25476560--25476607 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 11
25476550 GAAATTTTGG
25476560 ATTTTTT-TAT
1 ATTTTTTATAT
25476570 A-TTTTTA-A-
1 ATTTTTTATAT
*
25476578 GTTTTTTATAT
1 ATTTTTTATAT
25476589 ATTTTTTATAT
1 ATTTTTTATAT
25476600 AATTTTTT
1 -ATTTTTT
25476608 GAGATGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 12 0.39
10 2 0.06
11 10 0.32
12 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:25479906 original size:114 final size:114
Alignment explanation
Indices: 25479706--25479934 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
25479696 TAACTAATTG
*
25479706 AGAATAAAATTTTAAGAAGAAATCCCGATTGTATTGATTGATTGAAGTGCAAAAATCCACAAAAT
1 AGAATAAAAGTTTAAGAAGAAATCCCGATTGTATTGATTGATTGAAGTGCAAAAATCCACAAAAT
25479771 GTTTGGCTGAAACCATAAATTAGATTCTCTGAATGTCATGAATGAAAAC
66 GTTTGGCTGAAACCATAAATTAGATTCTCTGAATGTCATGAATGAAAAC
*
25479820 AGAATAAAAGTTTAAGAATAAATCCCGATTGTATTGATTGATTGAAGTGCAAAAATCCACAAAAT
1 AGAATAAAAGTTTAAGAAGAAATCCCGATTGTATTGATTGATTGAAGTGCAAAAATCCACAAAAT
25479885 GTTTGGCTGAAACCATAAATTAGATTCTCTGAATGTCATGAATGAAAAC
66 GTTTGGCTGAAACCATAAATTAGATTCTCTGAATGTCATGAATGAAAAC
25479934 A
1 A
25479935 AACTTAAATA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (114 bp):
AGAATAAAAGTTTAAGAAGAAATCCCGATTGTATTGATTGATTGAAGTGCAAAAATCCACAAAAT
GTTTGGCTGAAACCATAAATTAGATTCTCTGAATGTCATGAATGAAAAC
Found at i:25484473 original size:11 final size:11
Alignment explanation
Indices: 25484459--25484486 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
25484449 TGAGGGAAAT
25484459 TTGAGAGATAG
1 TTGAGAGATAG
25484470 TTGAGAGATAG
1 TTGAGAGATAG
25484481 TTGAGA
1 TTGAGA
25484487 CTGAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (11 bp):
TTGAGAGATAG
Found at i:25486284 original size:18 final size:18
Alignment explanation
Indices: 25486243--25486285 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25486233 TTATAATTCT
* *
25486243 ATTTTTTATATTTTTACA
1 ATTTTTAATAATTTTACA
* *
25486261 ACTTTTAATAATTTTATA
1 ATTTTTAATAATTTTACA
25486279 ATTTTTA
1 ATTTTTA
25486286 TAGCATTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATTTTACA
Found at i:25488484 original size:18 final size:18
Alignment explanation
Indices: 25488443--25488485 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25488433 TTATAATTCT
* *
25488443 ATTTTTTATATTTTTACA
1 ATTTTTAATAATTTTACA
* *
25488461 ACTTTTAATAATTTTATA
1 ATTTTTAATAATTTTACA
25488479 ATTTTTA
1 ATTTTTA
25488486 TAGCATTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATTTTACA
Found at i:25492573 original size:5 final size:5
Alignment explanation
Indices: 25492558--25492589 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
25492548 AGGGGTGAGC
25492558 AATCG -ATCG AATCG AATCG AATCG AATCG AAT
1 AATCG AATCG AATCG AATCG AATCG AATCG AAT
25492590 TGAAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
AATCG
Found at i:25493378 original size:9 final size:9
Alignment explanation
Indices: 25493364--25493400 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25493354 TATAGTTTGA
25493364 TATTCGAAT
1 TATTCGAAT
25493373 TATTCGAAT
1 TATTCGAAT
*
25493382 TATTCGAGT
1 TATTCGAAT
25493391 TATTCGAAT
1 TATTCGAAT
25493400 T
1 T
25493401 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:25499000 original size:35 final size:35
Alignment explanation
Indices: 25498917--25499005 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
25498907 TACACGGTTA
* ** *
25498917 ACCATCCAACATACCAGATTTTCATAAGAGCCAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAAT
* * * * *
25498952 ATCATCTAGCACACTAGATGCTCATAAGAGTCAAT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAAT
25498987 ACCATCCAACACACCAGAT
1 ACCATCCAACACACCAGAT
25499006 AACACTATAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.21
Consensus pattern (35 bp):
ACCATCCAACACACCAGATGCTCATAAGAGCCAAT
Found at i:25503673 original size:21 final size:23
Alignment explanation
Indices: 25503628--25503673 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
25503618 ATTATTCAAT
*
25503628 TACATTATGAATACATAATAACA
1 TACATTATGAATACAAAATAACA
*
25503651 TACATT-TGAATA-AAAATAGCA
1 TACATTATGAATACAAAATAACA
25503672 TA
1 TA
25503674 ATAACGTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (23 bp):
TACATTATGAATACAAAATAACA
Found at i:25507144 original size:25 final size:25
Alignment explanation
Indices: 25507108--25507156 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25507098 TTTTTTTGGC
25507108 TTTTATTCTCCCAATGAAACTCTGT
1 TTTTATTCTCCCAATGAAACTCTGT
* *
25507133 TTTTAGTT-TCCCACTTAAACTCTG
1 TTTTA-TTCTCCCAATGAAACTCTG
25507157 ATTAGTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTTATTCTCCCAATGAAACTCTGT
Found at i:25507198 original size:44 final size:44
Alignment explanation
Indices: 25507135--25507225 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
25507125 AACTCTGTTT
* *
25507135 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGCCTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGCCTATTTTAATA
* **
25507179 TTAGTTTCTCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGCCTATTTTAATA
25507223 TTA
1 TTA
25507226 TTTGACCTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTATAGCCTATTTTAATA
Found at i:25509149 original size:44 final size:44
Alignment explanation
Indices: 25509081--25509171 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
25509071 AACTCTGTTT
* *
25509081 TTAGTTTCTCACTTAAAATTTGATTAGGGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTATTTTAATA
* *
25509125 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTATTTTAATA
25509169 TTA
1 TTA
25509172 TTTAACTCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTATTTTAATA
Found at i:25512376 original size:77 final size:78
Alignment explanation
Indices: 25512224--25512496 Score: 374
Period size: 78 Copynumber: 3.5 Consensus size: 78
25512214 TGTATTCTAT
* * * *
25512224 TTCAAACAGAAATTCAATTGAACAATCCTGTTTCAGGA-TTTATTCCTGTCGTTTAACAAGACTT
1 TTCAAACAGAAAATCAATTGAACAATCTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATTT
*
25512288 GTTTAATTTTTTG
66 GTTTGATTTTTTG
* * * *
25512301 TTCAAACAGAAAATCAATTGAACAATCTTGTTTTAGGATTTTATTTCTGACGTCTAACATGATTT
1 TTCAAACAGAAAATCAATTGAACAATCTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATTT
25512366 GTTTGA-TTTTTG
66 GTTTGATTTTTTG
* *
25512378 TTTCAAACAGAAAATCAATTGAATAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATT
1 -TTCAAACAGAAAATCAATTGAACAATCTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATT
*
25512443 TGTTTGATTTTTTAT
65 TGTTTGATTTTTT-G
*
25512458 TTCAAACA-AAAATCAATTGAATAAAT-TTGTTTCAGGATT
1 TTCAAACAGAAAATCAATTGAA-CAATCTTGTTTCAGGATT
25512497 CTTTTCTTGT
Statistics
Matches: 174, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
77 41 0.24
78 117 0.67
79 16 0.09
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (78 bp):
TTCAAACAGAAAATCAATTGAACAATCTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATTT
GTTTGATTTTTTG
Found at i:25512531 original size:78 final size:79
Alignment explanation
Indices: 25512221--25512531 Score: 271
Period size: 78 Copynumber: 4.0 Consensus size: 79
25512211 AATTGTATTC
* * * * * *
25512221 TATTTCAAACAGAAATTCAATTGAA-CAATCCTGTTTCAGGATT-TATTCCTGTCGTTTAACAAG
1 TATTTCAAACAGAAAATCAATTGAATAAAT-TTGTTTCAGGATTCTATTTCTGTCATTCAACAAG
* * *
25512284 ACTTGTTTAATTTTT
65 ATTTATTCAATTTTT
* * * * * * *
25512299 T-GTTCAAACAGAAAATCAATTGAA-CAATCTTGTTTTAGGATTTTATTTCTGAC-GTCTAACAT
1 TATTTCAAACAGAAAATCAATTGAATAAAT-TTGTTTCAGGATTCTATTTCTGTCATTC-AACAA
* **
25512361 GATTTGTTTGA-TTTT
64 GATTTATTCAATTTTT
* * * * *
25512376 TGTTTCAAACAGAAAATCAATTGAATAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGA
1 TATTTCAAACAGAAAATCAATTGAATAAATTTGTTTCAGGATTCTATTTCTGTCATTCAACAAGA
* **
25512441 TTTGTTTGATTTTT
66 TTTATTCAATTTTT
25512455 TATTTCAAACA-AAAATCAATTGAATAAATTTGTTTCAGGATTCT-TTTCTTGTCATTCAAC-AG
1 TATTTCAAACAGAAAATCAATTGAATAAATTTGTTTCAGGATTCTATTTC-TGTCATTCAACAAG
25512517 AATTTATTCAATTTT
65 -ATTTATTCAATTTT
25512532 CGTTGTTACC
Statistics
Matches: 198, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
77 49 0.25
78 132 0.67
79 17 0.09
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (79 bp):
TATTTCAAACAGAAAATCAATTGAATAAATTTGTTTCAGGATTCTATTTCTGTCATTCAACAAGA
TTTATTCAATTTTT
Found at i:25512546 original size:156 final size:155
Alignment explanation
Indices: 25512223--25512535 Score: 384
Period size: 156 Copynumber: 2.0 Consensus size: 155
25512213 TTGTATTCTA
*
25512223 TTTCAAACAGAAATTCAATTGAACAATCCTGTTTCAGGATTTATTCCTGTCGTTTAACAAGACTT
1 TTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATTTATTCCTGTCGTTTAACAAGACTT
* * *
25512288 GTTTAATTTTTTGTTCAAACAGAAAATCAATTGAACAATCTTGTTTTAGGATTTTATTTCTGACG
66 GTTTAATTTTTTGTTCAAACAGAAAATCAATTGAAAAATCTTGTTTCAGGATTCTATTTCTGACG
* ** *
25512353 TCTAACATGATTTGTTTGATTTTTG
131 TCTAACATGATTTATTCAATTTTCG
* ** * *
25512378 TTTCAAACAGAAAATCAATTGAATAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAAGATT
1 TTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGA-TTTATTCCTGTCGTTTAACAAGACT
* *
25512443 TGTTTGATTTTTTATTTCAAACA-AAAATCAATTGAATAAAT-TTGTTTCAGGATTCT-TTTCTT
65 TGTTTAATTTTTT-GTTCAAACAGAAAATCAATTGAA-AAATCTTGTTTCAGGATTCTATTTC-T
* *
25512505 GTCAT-TCAACA-GAATTTATTCAATTTTCG
127 GACGTCT-AACATG-ATTTATTCAATTTTCG
25512534 TT
1 TT
25512536 GTTACCAGAA
Statistics
Matches: 135, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
155 41 0.30
156 83 0.61
157 11 0.08
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (155 bp):
TTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATTTATTCCTGTCGTTTAACAAGACTT
GTTTAATTTTTTGTTCAAACAGAAAATCAATTGAAAAATCTTGTTTCAGGATTCTATTTCTGACG
TCTAACATGATTTATTCAATTTTCG
Found at i:25516498 original size:39 final size:39
Alignment explanation
Indices: 25516440--25516551 Score: 161
Period size: 39 Copynumber: 2.9 Consensus size: 39
25516430 ATACACCGGC
* *
25516440 ACACAACCTGCTAGGCACATAGCCCGACTAATCACCAGT
1 ACACAACCTGCTAGGCACATAGCCTGAATAATCACCAGT
* *
25516479 ACACAACCTGCTAGACACATAGCCTGAATAATCATCAGT
1 ACACAACCTGCTAGGCACATAGCCTGAATAATCACCAGT
* * *
25516518 AGACAGCCTGCTAGGCATATAGCCTGAATAATCA
1 ACACAACCTGCTAGGCACATAGCCTGAATAATCA
25516552 GCCTGCTAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (39 bp):
ACACAACCTGCTAGGCACATAGCCTGAATAATCACCAGT
Found at i:25516563 original size:29 final size:29
Alignment explanation
Indices: 25516521--25516580 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
25516511 CATCAGTAGA
* *
25516521 CAGCCTGCTAGGCATATAGCCTGAATAAT
1 CAGCCTGCTAGGCACATAGCCCGAATAAT
25516550 CAGCCTGCTAGGCACATAGCCCGAATAAT
1 CAGCCTGCTAGGCACATAGCCCGAATAAT
25516579 CA
1 CA
25516581 CCGGCACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (29 bp):
CAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:25516594 original size:68 final size:68
Alignment explanation
Indices: 25516485--25516619 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
25516475 CAGTACACAA
* * * * * * *
25516485 CCTGCTAGACACATAGCCTGAATAATCATCAGTAGACAGCCTGCTAGGCATATAGCCTGAATAAT
1 CCTGCTAGACACATAGCCCGAATAATCACCAGCACACAGCCTGCTAGACACATAGCCCGAATAAT
25516550 CAG
66 CAG
* *
25516553 CCTGCTAGGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTAGACACATAGCCCGAATAAT
1 CCTGCTAGACACATAGCCCGAATAATCACCAGCACACAGCCTGCTAGACACATAGCCCGAATAAT
25516618 CA
66 CA
25516620 CCGGATTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (68 bp):
CCTGCTAGACACATAGCCCGAATAATCACCAGCACACAGCCTGCTAGACACATAGCCCGAATAAT
CAG
Found at i:25520808 original size:113 final size:113
Alignment explanation
Indices: 25520608--25520823 Score: 306
Period size: 113 Copynumber: 1.9 Consensus size: 113
25520598 TGCAGTCTTG
* * * * * * * *
25520608 CTACTGTCGTGTTCATCTTGTTGTTGTATCCTGGGATACAGTCGACCAATATTTCTCCAACACCA
1 CTACTATCGTGCTCATCTTGATGTTATATCCTGGCAGACAATCGACCAACATTTCTCCAACACCA
* * *
25520673 TAGGAGCAACCGAATCTGTCTTAAGGAAACTGTGAAAACAGGCCCCAA
66 TAGAAGCAACCGAATCTATCTTAAGGAAACTATGAAAACAGGCCCCAA
*
25520721 CTACTATCGTGCTCATCTTGATGTTATATCTTGGCAGACAATCGACCAACATTTCTCCAACACCA
1 CTACTATCGTGCTCATCTTGATGTTATATCCTGGCAGACAATCGACCAACATTTCTCCAACACCA
**
25520786 TAGAAGCGGCCGAATCTATCTTAAGGAAACTATGAAAA
66 TAGAAGCAACCGAATCTATCTTAAGGAAACTATGAAAA
25520824 TATACCTCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (113 bp):
CTACTATCGTGCTCATCTTGATGTTATATCCTGGCAGACAATCGACCAACATTTCTCCAACACCA
TAGAAGCAACCGAATCTATCTTAAGGAAACTATGAAAACAGGCCCCAA
Found at i:25523185 original size:283 final size:284
Alignment explanation
Indices: 25522678--25523245 Score: 1120
Period size: 283 Copynumber: 2.0 Consensus size: 284
25522668 TTACATATCA
25522678 AGTAATAATAAAAAAGGGAAGAGGAAGGGAACTCATCGGAAGTGGCCGTGGTTGCGCCGTCGGAG
1 AGTAATAATAAAAAAGGGAAGAGGAAGGGAACTCATCGGAAGTGGCCGTGGTTGCGCCGTCGGAG
25522743 GGTCTCTCCTCCGTCGCCCGAATCCGGCCCAAGGGGCCGAAAAAATCCCTTGTTTTCGACTCTCA
66 GGTCTCTCCTCCGTCGCCCGAATCCGGCCCAAGGGGCCGAAAAAATCCCTTGTTTTCGACTCTCA
25522808 CGGGTTGAGAGAGCCTTGGCTCTCAAGGATGCCGTGAACCGGGCGCTAAAGGGCCCATTTTCAAA
131 CGGGTTGAGAGAGCCTTGGCTCTCAAGGATGCCGTGAACCGGGCGCTAAAGGGCCCATTTTCAAA
25522873 TGCCAGTCGCCGGCCATGGTGGTGATGCGACGGAGGCCTCGAGAGACCGTCGGCTATTTGAGGGA
196 TGCCAGTCGCCGGCCATGGTGGTGATGCGACGGAGGCCTCGAGAGACCGTCGGCTATTTGAGGGA
25522938 TGGGGGGCTCTC-TCTTTTTTTTT
261 TGGGGGGCTCTCTTCTTTTTTTTT
25522961 AGTAATAATAAAAAAGGGAAGAGGAAGGGAACTCATCGGAAGTGGCCGTGGTTGCGCCGTCGGAG
1 AGTAATAATAAAAAAGGGAAGAGGAAGGGAACTCATCGGAAGTGGCCGTGGTTGCGCCGTCGGAG
25523026 GGTCTCTCCTCCGTCGCCCGAATCCGGCCCAAGGGGCCGAAAAAATCCCTTGTTTTCGACTCTCA
66 GGTCTCTCCTCCGTCGCCCGAATCCGGCCCAAGGGGCCGAAAAAATCCCTTGTTTTCGACTCTCA
25523091 CGGGTTGAGAGAGCCTTGGCTCTCAAGGATGCCGTGAACCGGGCGCTAAAGGGCCCATTTTCAAA
131 CGGGTTGAGAGAGCCTTGGCTCTCAAGGATGCCGTGAACCGGGCGCTAAAGGGCCCATTTTCAAA
25523156 TGCCAGTCGCCGGCCATGGTGGTGATGCGACGGAGGCCTCGAGAGACCGTCGGCTATTTGAGGGA
196 TGCCAGTCGCCGGCCATGGTGGTGATGCGACGGAGGCCTCGAGAGACCGTCGGCTATTTGAGGGA
25523221 TGGGGGGCTCTCTTTCTTTTTTTTT
261 TGGGGGGCTCTC-TTCTTTTTTTTT
25523246 TTTTGCGGTT
Statistics
Matches: 283, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
283 272 0.96
285 11 0.04
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (284 bp):
AGTAATAATAAAAAAGGGAAGAGGAAGGGAACTCATCGGAAGTGGCCGTGGTTGCGCCGTCGGAG
GGTCTCTCCTCCGTCGCCCGAATCCGGCCCAAGGGGCCGAAAAAATCCCTTGTTTTCGACTCTCA
CGGGTTGAGAGAGCCTTGGCTCTCAAGGATGCCGTGAACCGGGCGCTAAAGGGCCCATTTTCAAA
TGCCAGTCGCCGGCCATGGTGGTGATGCGACGGAGGCCTCGAGAGACCGTCGGCTATTTGAGGGA
TGGGGGGCTCTCTTCTTTTTTTTT
Found at i:25523675 original size:23 final size:22
Alignment explanation
Indices: 25523644--25523691 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
25523634 TATTATGTAT
*
25523644 TATTATA-TTAAGTTTCTTCATA
1 TATTATATTTAA-TTTCATCATA
25523666 TATTAATATTTAATTTCATCATA
1 TATT-ATATTTAATTTCATCATA
25523689 TAT
1 TAT
25523692 CATCTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTATATTTAATTTCATCATA
Found at i:25523711 original size:29 final size:29
Alignment explanation
Indices: 25523679--25523737 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25523669 TAATATTTAA
25523679 TTTCATCATATATCATCTTATATATTTTC
1 TTTCATCATATATCATCTTATATATTTTC
25523708 TTTCATCATATATCATCTTATATATTTTC
1 TTTCATCATATATCATCTTATATATTTTC
25523737 T
1 T
25523738 ATGTAAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTCATCATATATCATCTTATATATTTTC
Found at i:25523726 original size:17 final size:17
Alignment explanation
Indices: 25523679--25523726 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
25523669 TAATATTTAA
25523679 TTTCATCATATATCATC
1 TTTCATCATATATCATC
*
25523696 -TT-AT-ATAT-T-TTC
1 TTTCATCATATATCATC
25523708 TTTCATCATATATCATC
1 TTTCATCATATATCATC
25523725 TT
1 TT
25523727 ATATATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
12 2 0.08
13 3 0.12
14 6 0.25
15 6 0.25
16 3 0.12
17 4 0.17
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTCATCATATATCATC
Found at i:25531048 original size:17 final size:17
Alignment explanation
Indices: 25531026--25531058 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25531016 TTCACTTGAT
25531026 CATATAGGCTCGCATGG
1 CATATAGGCTCGCATGG
25531043 CATATAGGCTCGCATG
1 CATATAGGCTCGCATG
25531059 CACCTAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (17 bp):
CATATAGGCTCGCATGG
Found at i:25531123 original size:29 final size:28
Alignment explanation
Indices: 25531062--25531185 Score: 106
Period size: 29 Copynumber: 4.3 Consensus size: 28
25531052 TCGCATGCAC
* ** * *
25531062 CTAGGGATTTTATATAGGCTTTCAAGTTT
1 CTAGGG-TTTTACATAGGCTCACATGTTA
*
25531091 CTAGGGTTTTCACATAGGCTCGCATGTTA
1 CTAGGGTTTT-ACATAGGCTCACATGTTA
* * *
25531120 CTAGGGTTCTCACATAAGCTCACATGTTC
1 CTAGGGTT-TTACATAGGCTCACATGTTA
*
25531149 CTCA-GGTTTGTACATAGGCTCACATGTTC
1 CT-AGGGTTT-TACATAGGCTCACATGTTA
25531178 CTAGGGTT
1 CTAGGGTT
25531186 CGCATATCAC
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
28 6 0.08
29 71 0.90
30 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (28 bp):
CTAGGGTTTTACATAGGCTCACATGTTA
Found at i:25540002 original size:24 final size:24
Alignment explanation
Indices: 25539967--25540024 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
25539957 AAATGTATAT
*
25539967 TATTTTTA-AT-TTAATATT-TTA
1 TATTTTTATATATTTATATTATTA
*
25539988 TATTTTTATATATTTTTATTATTA
1 TATTTTTATATATTTATATTATTA
* *
25540012 AAATTTTATATAT
1 TATTTTTATATAT
25540025 AATCATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 6 0.20
24 14 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTTATATATTTATATTATTA
Found at i:25540017 original size:15 final size:14
Alignment explanation
Indices: 25539967--25540018 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
25539957 AAATGTATAT
*
25539967 TATTTTTAATTTAA
1 TATTTTTATTTTAA
25539981 TATTTTATATTTTTATA
1 TATTTT-TA-TTTTA-A
25539998 TATTTTTATTATTAA
1 TATTTTTATT-TTAA
*
25540013 AATTTT
1 TATTTT
25540019 ATATATAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 10 0.31
16 9 0.28
17 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:25540024 original size:34 final size:32
Alignment explanation
Indices: 25539962--25540022 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
25539952 AAAATAAATG
*
25539962 TATATTATTTTTAATTTAATATTTTATATTTT
1 TATATTATTTTTAATTTAAAATTTTATATTTT
*
25539994 TATA-TATTTTTATTATTAAAATTTTATAT
1 TATATTATTTTTAAT-TTAAAATTTTATAT
25540023 ATAATCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
TATATTATTTTTAATTTAAAATTTTATATTTT
Found at i:25540133 original size:16 final size:17
Alignment explanation
Indices: 25540093--25540136 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
25540083 ATTACGTAAT
25540093 ATATATAAAAATAACATA
1 ATATA-AAAAATAACATA
*
25540111 ATATAAAAAATTACA-A
1 ATATAAAAAATAACATA
*
25540127 ATTTAAAAAA
1 ATATAAAAAA
25540137 GGGTTGGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 9 0.38
18 5 0.21
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAAAAATAACATA
Found at i:25544133 original size:42 final size:43
Alignment explanation
Indices: 25544074--25544176 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
25544064 CGAGATTACT
* * *
25544074 TGTAAGACCATATCTGGGATA-TGGCATTGATATGAGAATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
* *
25544116 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
* *
25544159 TGTAAGATCATGGCTGGG
1 TGTAAGACCATGTCTGGG
25544177 CTAAGAAAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 19 0.36
43 34 0.64
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
Found at i:25545201 original size:86 final size:86
Alignment explanation
Indices: 25545096--25545276 Score: 337
Period size: 86 Copynumber: 2.1 Consensus size: 86
25545086 AAGAAAAGTT
25545096 AAGGAAAGGAATGGATTTTGTTTGTATTGATAAAATTAACATGAGATAAAATGAAAGTAAATTTA
1 AAGGAAAGGAATGGATTTTGTTTGTATTGATAAAATTAACATGAGATAAAATGAAAGTAAATTTA
25545161 ACTATTTTTG-TTAGTTAAACC
66 ACTATTTTTGTTTAGTTAAA-C
25545182 AAGGAAAGGAATGGATTTTGTTTGTATTGATAAAATTAACATGAGATAAAATGAAAGTAAATTTA
1 AAGGAAAGGAATGGATTTTGTTTGTATTGATAAAATTAACATGAGATAAAATGAAAGTAAATTTA
25545247 ACTATTTTTGTTTAGTTAAAC
66 ACTATTTTTGTTTAGTTAAAC
25545268 AATGGAAAG
1 AA-GGAAAG
25545277 AAAAGAAAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
86 78 0.84
87 15 0.16
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (86 bp):
AAGGAAAGGAATGGATTTTGTTTGTATTGATAAAATTAACATGAGATAAAATGAAAGTAAATTTA
ACTATTTTTGTTTAGTTAAAC
Found at i:25546736 original size:26 final size:27
Alignment explanation
Indices: 25546707--25546762 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
25546697 TCAACTTCTC
25546707 TTTTAAGTTTATA-AA-TTCTCTTTGAG
1 TTTTAAGTTTA-AGAATTTCTCTTTGAG
**
25546733 TTTTATTTTTAAGAATTTCTCTTTGAG
1 TTTTAAGTTTAAGAATTTCTCTTTGAG
25546760 TTT
1 TTT
25546763 GTTTTAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.04
26 11 0.42
27 14 0.54
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.59
Consensus pattern (27 bp):
TTTTAAGTTTAAGAATTTCTCTTTGAG
Found at i:25546773 original size:27 final size:27
Alignment explanation
Indices: 25546722--25546773 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25546712 AGTTTATAAA
**
25546722 TTCTCTTTGAGTTTTATTTTTAAGAAT
1 TTCTCTTTGAGTTTTATTTAGAAGAAT
25546749 TTCTCTTTGAGTTTGT-TTTAGAAGA
1 TTCTCTTTGAGTTT-TATTTAGAAGA
25546774 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTATTTAGAAGAAT
Found at i:25548917 original size:45 final size:45
Alignment explanation
Indices: 25548845--25549003 Score: 178
Period size: 45 Copynumber: 3.5 Consensus size: 45
25548835 ATATGCCAAT
25548845 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
* * ** * * *
25548890 ATGAATAAGACCCTAGCTGAAAA-ATGTTATGGCATCAAAACAGAT
1 ATGAGTAAGACCATAGCT-AAAAGATGTTATGGCATCATGATAAAA
* * *
25548935 ATGAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGGTAAACA
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAA-A
* *
25548981 A-GACTAAGACCATAGCTGAAAGA
1 ATGAGTAAGACCATAGCTAAAAGA
25549004 CTCTATAGTA
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
44 4 0.04
45 82 0.90
46 5 0.05
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGATAAAA
Found at i:25549222 original size:27 final size:27
Alignment explanation
Indices: 25549163--25549225 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
25549153 GCATCATAGT
* * *
25549163 TAGTCCAACGGGACATTAAACATGAGA
1 TAGTCCGATGGGACATTAAACAAGAGA
* *
25549190 TCGTCCGATGGGACATTAAACAAGGGA
1 TAGTCCGATGGGACATTAAACAAGAGA
25549217 TAGTCCGAT
1 TAGTCCGAT
25549226 AAGACGTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (27 bp):
TAGTCCGATGGGACATTAAACAAGAGA
Found at i:25549235 original size:27 final size:27
Alignment explanation
Indices: 25549174--25549236 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
25549164 AGTCCAACGG
* * **
25549174 GACATTAAACATGAGATCGTCCGATGG
1 GACATTAAACAAGAGATAGTCCGATAA
*
25549201 GACATTAAACAAGGGATAGTCCGATAA
1 GACATTAAACAAGAGATAGTCCGATAA
*
25549228 GACGTTAAA
1 GACATTAAA
25549237 TACGGGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (27 bp):
GACATTAAACAAGAGATAGTCCGATAA
Found at i:25558446 original size:18 final size:18
Alignment explanation
Indices: 25558409--25558474 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
25558399 GTTTTGACTC
25558409 AAATTTTTCAATAAATTTTTT
1 AAATTTTTC-AT--ATTTTTT
**
25558430 AAATTTTTTTTA-TTTTT
1 AAATTTTTCATATTTTTT
25558447 ATAATTTTTCATATTTTTAT
1 A-AATTTTTCATATTTTT-T
25558467 AAAATTTT
1 -AAATTTT
25558475 AAGTACTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 6 0.16
18 10 0.27
19 4 0.11
20 8 0.22
21 9 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
AAATTTTTCATATTTTTT
Found at i:25559322 original size:9 final size:9
Alignment explanation
Indices: 25559261--25559395 Score: 55
Period size: 9 Copynumber: 14.1 Consensus size: 9
25559251 ATTTCTTTTC
25559261 TATTTTTAA
1 TATTTTTAA
25559270 TAATTTATTAA
1 T-ATTT-TTAA
*
25559281 CT-TTTGTAA
1 -TATTTTTAA
*
25559290 T-TTTTAAA
1 TATTTTTAA
*
25559298 TAATTCTTTTA
1 T-ATT-TTTAA
25559309 TATTTTTAA
1 TATTTTTAA
25559318 TATTTTTTGTAA
1 TA--TTTT-TAA
**
25559330 TATTTTTTTC
1 TA-TTTTTAA
25559340 TATTTTTAA
1 TATTTTTAA
*
25559349 TAATTTTAA
1 TATTTTTAA
*
25559358 TAATTATGT-A
1 T-ATT-TTTAA
25559368 TATTTTGT-A
1 TATTTT-TAA
25559377 TATTTTTAA
1 TATTTTTAA
25559386 T-TTTTGTAA
1 TATTTT-TAA
25559395 T
1 T
25559396 TTAATATAGT
Statistics
Matches: 98, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
8 13 0.13
9 41 0.42
10 19 0.19
11 19 0.19
12 6 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TATTTTTAA
Found at i:25559332 original size:21 final size:22
Alignment explanation
Indices: 25559282--25559336 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
25559272 ATTTATTAAC
*
25559282 TTTTGTAAT-TTTTAAATAATT
1 TTTTGTAATATTTTTAATAATT
*
25559303 CTTT-T-ATATTTTTAAT-ATT
1 TTTTGTAATATTTTTAATAATT
25559322 TTTTGTAATATTTTT
1 TTTTGTAATATTTTT
25559337 TTCTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 11 0.39
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTGTAATATTTTTAATAATT
Found at i:25559356 original size:40 final size:40
Alignment explanation
Indices: 25559251--25559386 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 40
25559241 CAATTTTATA
*
25559251 ATTTCTTTTCTATTTTTAATAA-TTTATTAACTTTTGTAAT
1 ATTT-TTTTCTATTTTTAATAATTTTAATAACTTTTGTAAT
** * * * **
25559291 -TTTTAAAT-AATTCTTTTATATTTTTAATATTTTTTGTAAT
1 ATTTT-TTTCTATT-TTTAATAATTTTAATAACTTTTGTAAT
*
25559331 ATTTTTTTCTATTTTTAATAATTTTAATAA-TTATGT-AT
1 ATTTTTTTCTATTTTTAATAATTTTAATAACTTTTGTAAT
* *
25559369 A-TTTTGTATATTTTTAAT
1 ATTTTTTTCTATTTTTAAT
25559387 TTTTGTAATT
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
37 15 0.20
38 7 0.09
39 15 0.20
40 30 0.41
41 7 0.09
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (40 bp):
ATTTTTTTCTATTTTTAATAATTTTAATAACTTTTGTAAT
Found at i:25559690 original size:21 final size:21
Alignment explanation
Indices: 25559664--25559719 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
25559654 AACAGCGGTG
*
25559664 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
25559685 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
25559706 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
25559720 AACAATGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:25560521 original size:19 final size:17
Alignment explanation
Indices: 25560493--25560543 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
25560483 CAACGTCAAC
25560493 AAATAATTTAAAAACTATA
1 AAATAATTTAAAAA--ATA
*
25560512 AAATATTTTAAAAAATA
1 AAATAATTTAAAAAATA
*
25560529 AAAAAATTTAAAAAA
1 AAATAATTTAAAAAA
25560544 AAAGCATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 16 0.55
19 13 0.45
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAATTTAAAAAATA
Found at i:25560532 original size:18 final size:19
Alignment explanation
Indices: 25560493--25560543 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
25560483 CAACGTCAAC
*
25560493 AAATAATTTAAAAACTATA
1 AAATAATTTAAAAAATATA
*
25560512 AAATATTTTAAAAAATA-A
1 AAATAATTTAAAAAATATA
25560530 AAA-AATTTAAAAAA
1 AAATAATTTAAAAAA
25560544 AAAGCATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 10 0.34
18 4 0.14
19 15 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATAATTTAAAAAATATA
Found at i:25560821 original size:16 final size:17
Alignment explanation
Indices: 25560800--25560831 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25560790 AATTTATTAC
25560800 ATTTTTTGAAA-ATTTA
1 ATTTTTTGAAACATTTA
25560816 ATTTTTTGAAACATTT
1 ATTTTTTGAAACATTT
25560832 TAGGTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTTTTGAAACATTTA
Found at i:25561288 original size:37 final size:37
Alignment explanation
Indices: 25561229--25561309 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
25561219 ATTCTATAGA
*
25561229 GTCTGTGGCGAGATCCCAGATTGACTGCTGATGGTCAT
1 GTCT-TGGCGAGATCCCAGATTGACTGCTGACGGTCAT
* *
25561267 GTCTTGGCGAGATCTCGGATTGACTGCTGACGGTCAT
1 GTCTTGGCGAGATCCCAGATTGACTGCTGACGGTCAT
25561304 GTCTTG
1 GTCTTG
25561310 TTGATCAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.31
Consensus pattern (37 bp):
GTCTTGGCGAGATCCCAGATTGACTGCTGACGGTCAT
Found at i:25565449 original size:28 final size:30
Alignment explanation
Indices: 25565387--25565450 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
25565377 CCAACGTGAA
25565387 TATATTATGTTATAAAAAATATTATATTAAT
1 TATA-TATGTTATAAAAAATATTATATTAAT
* * *
25565418 TATATATGTTA-AATAAGTATTATA-TATT
1 TATATATGTTATAAAAAATATTATATTAAT
25565446 TATAT
1 TATAT
25565451 TAAATCACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 11 0.37
30 7 0.23
31 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (30 bp):
TATATATGTTATAAAAAATATTATATTAAT
Found at i:25565598 original size:39 final size:40
Alignment explanation
Indices: 25565554--25565646 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 40
25565544 AAAAATTATA
**
25565554 TTTAATAAAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATAAAATAAAATATTTATTATATTTATGTAATGTTT
** * *
25565593 TTTAATGTAATGAAATATTTATTATGTTTATGGTAATGTTT
1 TTTAATAAAATAAAATATTTATTATATTTAT-GTAATGTTT
25565634 TTTAATATAAATA
1 TTTAATA-AAATA
25565647 TTTTTAATGC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
39 27 0.64
41 12 0.29
42 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.54
Consensus pattern (40 bp):
TTTAATAAAATAAAATATTTATTATATTTATGTAATGTTT
Found at i:25567576 original size:42 final size:42
Alignment explanation
Indices: 25567530--25567647 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
25567520 ATCTTATGTG
* *
25567530 CCGAAGAAAACATATTGGCACGTAAGTGCATCATCAGATATA
1 CCGAAGAAAACATACTGGCACGTAAGTGCATCATCAGACATA
* * * **
25567572 CCGAAGAAAACATACTGGCACATGAGTGCATAATTGGACATA
1 CCGAAGAAAACATACTGGCACGTAAGTGCATCATCAGACATA
* * * *
25567614 CCGAAGCAATA-ATAGTGGCATGTAAATGCATCAT
1 CCGAAG-AAAACATACTGGCACGTAAGTGCATCAT
25567648 TGGCTACATC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 58 0.95
43 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (42 bp):
CCGAAGAAAACATACTGGCACGTAAGTGCATCATCAGACATA
Found at i:25568245 original size:28 final size:28
Alignment explanation
Indices: 25568214--25568275 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
25568204 CTATTTAGTA
25568214 ACAGTAACAATGTAAGCCTTAGCCCAAT
1 ACAGTAACAATGTAAGCCTTAGCCCAAT
**
25568242 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTAAGCCTTAGCCCAAT
25568270 ACAGTA
1 ACAGTA
25568276 TCGGTACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTAAGCCTTAGCCCAAT
Found at i:25568751 original size:81 final size:81
Alignment explanation
Indices: 25568637--25568786 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
25568627 AAGGGTATAC
* * * * * * *
25568637 CAGTCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTGTGGGGGTAA-TTCGTTCATTTT
1 CAGTCATTTTACCCTATGGAGGTAATTCAGTCATTTTACCCTATGGAGATAATTTCGTT-ATTTT
25568701 ACCCTGTAGAGGTAATT
65 ACCCTGTAGAGGTAATT
* *
25568718 CAGTCATTTTACCCTATTGAGGTAATTCAGTCATTTTACCCTATGGAGATAATTTGGTTATTTTA
1 CAGTCATTTTACCCTATGGAGGTAATTCAGTCATTTTACCCTATGGAGATAATTTCGTTATTTTA
25568783 CCCT
66 CCCT
25568787 ACGGGGATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 54 0.92
82 5 0.08
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGAGGTAATTCAGTCATTTTACCCTATGGAGATAATTTCGTTATTTTA
CCCTGTAGAGGTAATT
Found at i:25568787 original size:27 final size:27
Alignment explanation
Indices: 25568639--25568800 Score: 173
Period size: 27 Copynumber: 6.0 Consensus size: 27
25568629 GGGTATACCA
* * *
25568639 GTCATTTTACCCTGTGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTAATTCG
* *
25568666 GTCATTTTACCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTATGGAGGTAATTCG
* * * *
25568693 TTCATTTTACCCTGTAGAGGTAATTCA
1 GTCATTTTACCCTATGGAGGTAATTCG
* *
25568720 GTCATTTTACCCTATTGAGGTAATTCA
1 GTCATTTTACCCTATGGAGGTAATTCG
* *
25568747 GTCATTTTACCCTATGGAGATAATTTG
1 GTCATTTTACCCTATGGAGGTAATTCG
* *
25568774 GTTATTTTACCCTACGG-GGATAATTCG
1 GTCATTTTACCCTATGGAGG-TAATTCG
25568801 ATTATTTATT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGAGGTAATTCG
Found at i:25572456 original size:42 final size:42
Alignment explanation
Indices: 25572321--25572543 Score: 169
Period size: 42 Copynumber: 5.3 Consensus size: 42
25572311 TTACACGCAT
* * * * * *
25572321 AGTGCATCATTGGATAAACCGAAGCAATCATACTGACACGTA
1 AGTGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
* * * * * * * * *
25572363 AATGTATCACCGAATGTACCAAAAAAAACATACCGACATGTA
1 AGTGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
*
25572405 AATGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
1 AGTGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
* ** *
25572447 AGTGCATCATCTGATATATTGAAGAAAACATACCGGCATGTA
1 AGTGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
** * * * * * *
25572489 CTTGTATCATCGAACATACCGAAGTAATA-ATACTAGCACGTA
1 AGTGCATCATCGGATATACCGAAG-AAAACATACTGGCATGTA
*
25572531 AGTGCATAATCGG
1 AGTGCATCATCGG
25572544 CTAGATCTAA
Statistics
Matches: 137, Mismatches: 43, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
42 134 0.98
43 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (42 bp):
AGTGCATCATCGGATATACCGAAGAAAACATACTGGCATGTA
Found at i:25574649 original size:20 final size:19
Alignment explanation
Indices: 25574612--25574651 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
25574602 AGATTACCAA
**
25574612 ATTAAATAATATTTCAAAT
1 ATTAAATAATATAACAAAT
25574631 ATTAAATAAATATAACAAAT
1 ATTAAAT-AATATAACAAAT
25574651 A
1 A
25574652 CTTGGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAATAATATAACAAAT
Found at i:25588436 original size:19 final size:20
Alignment explanation
Indices: 25588401--25588439 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
25588391 ATGATATATG
*
25588401 TAAAATATATATTTTTATTA
1 TAAAATATATATATTTATTA
25588421 TAAAAT-TATATATTTATTA
1 TAAAATATATATATTTATTA
25588440 GCTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATATATATATTTATTA
Found at i:25598050 original size:40 final size:41
Alignment explanation
Indices: 25597994--25598071 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
25597984 AGATAATCGC
*
25597994 TAGAAATTGTGGTATAT-CAAAATTTCTAAGTGAATATCCT
1 TAGAAATTGTGGTATATACAAAATTTCTAAGGGAATATCCT
* * *
25598034 TAGATATTTTGGTATATACCATAATTTCTAAGGGAATA
1 TAGAAATTGTGGTATATA-CAAAATTTCTAAGGGAATA
25598072 CCGATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 15 0.47
42 17 0.53
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (41 bp):
TAGAAATTGTGGTATATACAAAATTTCTAAGGGAATATCCT
Found at i:25598330 original size:146 final size:147
Alignment explanation
Indices: 25598011--25598357 Score: 376
Period size: 146 Copynumber: 2.4 Consensus size: 147
25598001 TGTGGTATAT
* * * * * *
25598011 CAAAATTTCTAAGTGAATATCCTTAGATATTTTGGTATATACCATAATTTCTAAGGGAATACCGA
1 CAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATACCAA
* * * *
25598076 TATTTTTATGGAACCCCGTAAGAAATTTTGGTATACCAAAATAGTGTTGTATAAACTTATAACAA
66 TATTTCTATGGAACCCCGTAAGAAATTTTGATATACCAAAATACTGTTGTATAAACCTATAACAA
*
25598141 GATTTCTAACGAAATAC
131 GATTTCTAACAAAATAC
*** * * * **
25598158 CAAAATTTCTAAGAGGTTATCTTTAGATATTCTGGTATATACCTTAATTTCTAAAGAAATATTAA
1 CAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATACCAA
* * * * *
25598223 TATTTCTATGGAACCTCGTTAG-AATTTTGATATACCAAAAT-CTGAATT-TATGAGCCTATACC
66 TATTTCTATGGAACCCCGTAAGAAATTTTGATATACCAAAATACTG--TTGTATAAACCTATAAC
* *
25598285 AAGATTTCTAATAAAATAT
129 AAGATTTCTAACAAAATAC
** * * *
25598304 CACTATTTCTAATAGCACATCCTTAGATATTTTGGTATATACTAAAATTTCTAA
1 CAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAA
25598358 CAAGATGGTA
Statistics
Matches: 164, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
145 2 0.01
146 87 0.53
147 75 0.46
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (147 bp):
CAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATACCAA
TATTTCTATGGAACCCCGTAAGAAATTTTGATATACCAAAATACTGTTGTATAAACCTATAACAA
GATTTCTAACAAAATAC
Found at i:25598729 original size:20 final size:20
Alignment explanation
Indices: 25598706--25598756 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
25598696 AGTTTTTACC
25598706 AAAATTTCTAATGAAATACT
1 AAAATTTCTAATGAAATACT
25598726 AAAATTTCTAATGAAATACT
1 AAAATTTCTAATGAAATACT
25598746 AAAATTTCTAA
1 AAAATTTCTAA
25598757 GAACTTATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATTTCTAATGAAATACT
Found at i:25605619 original size:6 final size:6
Alignment explanation
Indices: 25605608--25605633 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25605598 TTAAGAAAAG
25605608 TAGACA TAGACA TAGACA TAGACA TA
1 TAGACA TAGACA TAGACA TAGACA TA
25605634 TGATGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
TAGACA
Found at i:25614633 original size:21 final size:21
Alignment explanation
Indices: 25614609--25614652 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25614599 GCAACCCAAT
*
25614609 TTTTATT-TTTATTATTATTTA
1 TTTTATTCTTTACT-TTATTTA
*
25614630 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
25614651 TT
1 TT
25614653 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:25614646 original size:17 final size:17
Alignment explanation
Indices: 25614626--25614667 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
25614616 TTTATTATTA
*
25614626 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
25614643 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
25614660 TTTATTTT
1 TTTATTTT
25614668 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:25614662 original size:27 final size:26
Alignment explanation
Indices: 25614616--25614679 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
25614606 AATTTTTATT
*
25614616 TTTATTATTATTTATTTTTTTCTTTAC
1 TTTATTATTATTTATTTTTAT-TTTAC
*
25614643 TTTATTTATTACTTTA-TTTTATTTTAT
1 TTTA-TTATTA-TTTATTTTTATTTTAC
25614670 TTTACTTATT
1 TTTA-TTATT
25614680 TGAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.53
28 11 0.34
29 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTATTTTTATTTTAC
Found at i:25615558 original size:11 final size:11
Alignment explanation
Indices: 25615544--25615568 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25615534 AAAAAAAAGG
25615544 AAAAAAGAAAA
1 AAAAAAGAAAA
25615555 AAAAAAGAAAA
1 AAAAAAGAAAA
25615566 AAA
1 AAA
25615569 TAATTTGGGG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:25618157 original size:21 final size:21
Alignment explanation
Indices: 25618110--25618161 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
25618100 CATATATATT
25618110 TTTAAAATAATATTGATAAAA
1 TTTAAAATAATATTGATAAAA
*
25618131 -TTAAAA-CATATTGATAATAA
1 TTTAAAATAATATTGATAA-AA
25618151 TTTAAAA-AATA
1 TTTAAAATAATA
25618162 ATGTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 9 0.33
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
TTTAAAATAATATTGATAAAA
Found at i:25620030 original size:50 final size:50
Alignment explanation
Indices: 25619955--25620128 Score: 186
Period size: 50 Copynumber: 3.5 Consensus size: 50
25619945 TTTGGAAAGT
*
25619955 AAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * ** **** * *
25620005 AAGATTTGCCGTTGTGGCTTTAATCTATTCCACTGCACCACCTGGGAAGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
*
25620055 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * *
25620105 AAAATTGGCCACTGTGGCTTTAAT
1 AAGATTCGCCATTGTAGCTTTAAT
25620129 TTATTCCACT
Statistics
Matches: 95, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:25620124 original size:100 final size:100
Alignment explanation
Indices: 25619948--25620163 Score: 324
Period size: 100 Copynumber: 2.2 Consensus size: 100
25619938 CGTAACTTTT
* *
25619948 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTGG
** *
25620013 CCGTTGTGGCTTTAATCTATTCCACTGCACCACCT
66 CCACTGTGGCTTTAATCTATTCCACTGCACCACCA
* * *
25620048 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTGG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTGG
* * **
25620113 CCACTGTGGCTTTAATTTATTCCACTGTACTGCCA
66 CCACTGTGGCTTTAATCTATTCCACTGCACCACCA
25620148 GGAAAGTAAGATTCGC
1 GGAAAGTAAGATTCGC
25620164 TATTCTCAGT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (100 bp):
GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTGG
CCACTGTGGCTTTAATCTATTCCACTGCACCACCA
Found at i:25620286 original size:41 final size:41
Alignment explanation
Indices: 25620227--25620376 Score: 133
Period size: 41 Copynumber: 3.6 Consensus size: 41
25620217 TCTGCTCTGT
*
25620227 TGCAACCTCAGGGAGATAAGACCTGATGTGATATACTCTAC
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
* * * * *
25620268 TGCAACTTCAGAGG-GATAAGATCTATTATTTCA-ATCCACTCCAC
1 TGCAACTTCAG-GGAGATAAGA-C-CTGATGTGATAT--ACTCTAC
* * * *
25620312 TGTAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
**
25620353 TGCAACTTCAAAGAGATAAGACCT
1 TGCAACTTCAGGGAGATAAGACCT
25620377 TTTATTTTAA
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
41 43 0.51
42 9 0.11
43 9 0.11
44 23 0.27
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
Found at i:25620329 original size:85 final size:85
Alignment explanation
Indices: 25620227--25620414 Score: 259
Period size: 85 Copynumber: 2.2 Consensus size: 85
25620217 TCTGCTCTGT
* * * * *
25620227 TGCAACCTCAGGGAGATAAGACCTGATGTGATATACTCTACTGCAACTTCAGAGGGATAAGATCT
1 TGCAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGACCT
*
25620292 ATTATTTCAATCCACTCCAC
66 ATTATTTCAACCCACTCCAC
* * *
25620312 TGTAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCT
1 TGCAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGACCT
* * **
25620377 TTTATTTTAACCCGTTCCAC
66 ATTATTTCAACCCACTCCAC
25620397 TGCAACTTCAGGGAGATA
1 TGCAACTTCAGGGAGATA
25620415 TGATGAGTGG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (85 bp):
TGCAACTTCAGGGAGATAAGACCTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGACCT
ATTATTTCAACCCACTCCAC
Found at i:25620656 original size:216 final size:216
Alignment explanation
Indices: 25620319--25620730 Score: 824
Period size: 216 Copynumber: 1.9 Consensus size: 216
25620309 CACTGTAACT
25620319 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTT
25620384 TAACCCGTTCCACTGCAACTTCAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTG
66 TAACCCGTTCCACTGCAACTTCAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTG
25620449 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCT
131 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCT
25620514 TCAGTCTGCTCCGCTGCAACC
196 TCAGTCTGCTCCGCTGCAACC
25620535 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTT
25620600 TAACCCGTTCCACTGCAACTTCAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTG
66 TAACCCGTTCCACTGCAACTTCAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTG
25620665 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCT
131 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCT
25620730 T
196 T
25620731 TGACCTATTC
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 196 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (216 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTT
TAACCCGTTCCACTGCAACTTCAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTG
GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCT
TCAGTCTGCTCCGCTGCAACC
Found at i:25620772 original size:130 final size:130
Alignment explanation
Indices: 25620621--25620961 Score: 565
Period size: 130 Copynumber: 2.6 Consensus size: 130
25620611 ACTGCAACTT
* *
25620621 CAGGGAGATATGATGAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
* * *
25620686 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTTGACCTATTCCACTGTTGAC
66 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
*
25620751 CAGGGAGATAGGATTAGTGGCTTAAATATGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
**
25620816 TTCGATCAACTCCACTACTACTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
66 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
* * * *
25620881 CAGAGAGATAGGATTAGTGGCTTAAATCTTCTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTT
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
*
25620946 TTCGATCTGCTTCACT
66 TTCGATCTGCTCCACT
25620962 GTGGTGTAGG
Statistics
Matches: 195, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 195 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (130 bp):
CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
Found at i:25628740 original size:108 final size:107
Alignment explanation
Indices: 25628612--25628901 Score: 492
Period size: 107 Copynumber: 2.7 Consensus size: 107
25628602 CTAAACGTGG
*
25628612 AATCGAAACCCAGTACCTTAGGGCACGTTCTTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
1 AATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
*
25628677 GAAAATTTTTGAAAATGATATTAAG-TCATTTGGTCGAACGAGA
66 GAAAATTTTTG-AAAGGATATTAAGCT-ATTTGGTCGAACGAGA
*
25628720 AATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
1 AATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
*
25628785 GAAAATTTTTGAAAGGATATTTAGCTATTTGGTCGAACGAGA
66 GAAAATTTTTGAAAGGATATTAAGCTATTTGGTCGAACGAGA
* *
25628827 AATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTAAATATTGCCTTAATTT
1 AATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
25628892 GAAATATTTT
66 GAAA-ATTTT
25628902 CCTTTTTGAA
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
107 93 0.54
108 80 0.46
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (107 bp):
AATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT
GAAAATTTTTGAAAGGATATTAAGCTATTTGGTCGAACGAGA
Found at i:25628857 original size:107 final size:108
Alignment explanation
Indices: 25628583--25628901 Score: 500
Period size: 108 Copynumber: 3.0 Consensus size: 108
25628573 AAAATTCAAG
* * * * *
25628583 AGGATATTTAGCAATTTGG-CTAAACGTGGAATCGAAACCCAGTACCTTAGGGCACGTTCTTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
25628647 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
* * *
25628691 ATGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
25628755 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTG-AA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
25628798 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* *
25628863 TTTCCAAACGCTAAATATTGCCTTAATTTGAAATATTTT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTTT
25628902 CCTTTTTGAA
Statistics
Matches: 194, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
107 93 0.48
108 100 0.52
109 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
Found at i:25629407 original size:3 final size:3
Alignment explanation
Indices: 25629399--25629488 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
25629389 AAGTAATTAA
* * * *
25629399 AAT AAT AAT AA- CAT AAAT ACT AAT AAT AAT AAC AA- AGAT ACT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * *
25629444 AAT AAT AAT AAT AAT AAT AAT ATT ATT ATT ATT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25629489 GTTAAAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25629414 original size:24 final size:24
Alignment explanation
Indices: 25629387--25629454 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 24
25629377 ATATATATAT
*
25629387 ATAAGTAATTAAAATAATAATAAC
1 ATAAGTAACTAAAATAATAATAAC
*
25629411 ATAAAT-ACT--AATAATAATAAC
1 ATAAGTAACTAAAATAATAATAAC
25629432 A-AAG-ATACTAATAATAATAATAA
1 ATAAGTA-ACTAA-AATAATAATAA
25629455 TAATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 2 0.06
21 16 0.44
23 2 0.06
24 16 0.44
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (24 bp):
ATAAGTAACTAAAATAATAATAAC
Found at i:25629425 original size:21 final size:21
Alignment explanation
Indices: 25629399--25629451 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
25629389 AAGTAATTAA
25629399 AATAATAATAACATAA-ATACT
1 AATAATAATAACA-AAGATACT
25629420 AATAATAATAACAAAGATACT
1 AATAATAATAACAAAGATACT
25629441 AATAATAATAA
1 AATAATAATAA
25629452 TAATAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAATAATAACAAAGATACT
Found at i:25630713 original size:19 final size:19
Alignment explanation
Indices: 25630691--25630737 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
25630681 CTTTGGTTTG
*
25630691 TAATTGGGTAG-TTGGGGTT
1 TAATTGGGTAGTTTAGGG-T
**
25630710 TAATTGTTTAGTTTAGGGT
1 TAATTGGGTAGTTTAGGGT
25630729 TAATTGGGT
1 TAATTGGGT
25630738 TTTGGGCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (19 bp):
TAATTGGGTAGTTTAGGGT
Found at i:25631364 original size:123 final size:118
Alignment explanation
Indices: 25631138--25631395 Score: 437
Period size: 123 Copynumber: 2.1 Consensus size: 118
25631128 TTCAATGTAC
*
25631138 TCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTTCAATGTGCTTTGGGAGATAAGATCTGAA
1 TCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAATGTGCTTTGGGAGATAAGATCTGAA
*
25631203 ACGATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGT
66 ACAATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGT
25631256 TCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAATGTGCTCCACTTTAGGG-GATAAGA
1 TCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAATGTG-----CTTT-GGGAGATAAGA
25631320 TCTGAAACAATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGT
60 TCTGAAACAATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGT
25631379 TCCACTGTAATCTCAGG
1 TCCACTGTAATCTCAGG
25631396 AAGATAGGAT
Statistics
Matches: 132, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
118 43 0.33
123 86 0.65
124 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (118 bp):
TCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAATGTGCTTTGGGAGATAAGATCTGAA
ACAATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGT
Found at i:25631518 original size:41 final size:43
Alignment explanation
Indices: 25631417--25631535 Score: 127
Period size: 46 Copynumber: 2.7 Consensus size: 43
25631407 ACTAGCTTCA
* *
25631417 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCCG
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGACCTG-AA--TTCCG
* *
25631463 ATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG-A-TGCG
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAATTCCG
* *
25631504 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGA
1 ATCTACTCCACTGTAATC-TCAGGGAGATAAGA
25631536 TCCTTTATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 30 0.46
44 1 0.02
46 33 0.51
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
ATCTACTCCACTGTAATCTCAGGGAGATAAGACCTGAATTCCG
Found at i:25631600 original size:44 final size:44
Alignment explanation
Indices: 25631379--25631736 Score: 206
Period size: 44 Copynumber: 8.2 Consensus size: 44
25631369 TTTAATCCGT
* * * *
25631379 TCCACTGTAATCTCAGGAAGATAGGATTACTAGCTTCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
* * *
25631423 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCTTCCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTATCTT-CAATCTGC
* * * *
25631469 TCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
* * * * ** *
25631510 TCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAGCCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTCAATCTGC
*
25631554 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
* * * * *
25631598 TCCGCTGTAATCTCAGAGAGATAAGA-T-CTGA-C-GCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCAATCTGC
*** * * * *
25631639 TTTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTCAATCTGC
* *
25631683 TCCACTGTAATTTCAGGGAGATAGGATTACTATCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
*
25631727 TCCGCTGTAA
1 TCCACTGTAA
25631737 GATCTGACGC
Statistics
Matches: 236, Mismatches: 54, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 57 0.24
42 6 0.03
43 10 0.04
44 123 0.52
45 6 0.03
46 32 0.14
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGC
Found at i:25631634 original size:129 final size:129
Alignment explanation
Indices: 25631422--25631872 Score: 635
Period size: 129 Copynumber: 3.6 Consensus size: 129
25631412 CTTCAATCTA
* * * * *
25631422 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCTTCCGATCTGCTCCACTGTAATCTCAGG
1 CTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTATCTT-CAATCTGCTCCGCTGTAATCTCAGG
* * * **
25631486 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAGCC
63 GAGATAAGATCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
25631551 CG
128 CG
*
25631553 CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGAGAG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
25631618 ATAAGATCTGACGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
66 ATAAGATCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
*
25631682 CTCCACTGTAATTTCAGGGAGATAGGATTACTATCTTCAATCTGCT-C-C-G----CT------G
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
* *
25631734 -TAAGATCTGACGCGATCTATTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCG
66 ATAAGATCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
25631797 CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
25631862 ATAAGATCTGA
66 ATAAGATCTGA
25631873 AATTCTTCGT
Statistics
Matches: 288, Mismatches: 17, Indels: 32
0.85 0.05 0.09
Matches are distributed among these distances:
115 105 0.36
116 2 0.01
117 1 0.00
118 1 0.00
122 4 0.01
126 1 0.00
127 1 0.00
128 2 0.01
129 139 0.48
130 6 0.02
131 26 0.09
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (129 bp):
CTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
Found at i:25631819 original size:44 final size:44
Alignment explanation
Indices: 25631758--25632087 Score: 212
Period size: 44 Copynumber: 7.5 Consensus size: 44
25631748 ATCTATTCTG
* * * *
25631758 CTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTATTATTTCAATCTGCTCCA
* * *
25631802 CTGTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTATTAT-TTCAATCTGCTCCA
* *
25631846 CTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTC-GTCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATTATTTCAATCTGCTCCA
* * * ** * * *
25631891 CTGTAATATCAGGGAGATAAGA-C-CTGA-CGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCTATTATTTCAATCTGCTCCA
* * * * *
25631932 CTGTAACCTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCTA
1 CTGTAATCTCAGGGAGATAAGAT-CTATTATTTCAATCTGCTCCA
* * * * *
25631976 CTGTAATCTCGGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTATTA-TTTCAATCTGCTCCA
* ** *
25632020 CTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTCGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATTATTTCAATCTGCTCCA
*
25632066 CTGTAATCTCAGGGAAATAAGA
1 CTGTAATCTCAGGGAGATAAGA
25632088 CCTGACGTGA
Statistics
Matches: 220, Mismatches: 48, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 26 0.12
42 1 0.00
43 9 0.04
44 111 0.50
45 32 0.15
46 35 0.16
48 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTATTATTTCAATCTGCTCCA
Found at i:25631821 original size:115 final size:115
Alignment explanation
Indices: 25631619--25631851 Score: 432
Period size: 115 Copynumber: 2.0 Consensus size: 115
25631609 CTCAGAGAGA
25631619 TAAGATCTGACGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
1 TAAGATCTGACGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
*
25631684 CCACTGTAATTTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTG
66 CCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTG
*
25631734 TAAGATCTGACGCGATCTA-TTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
1 TAAGATCTGACGCGATCTACTT-TGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
25631798 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTG
65 TCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTG
25631849 TAA
1 TAA
25631852 TCTCAGGGAG
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
114 2 0.02
115 113 0.98
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (115 bp):
TAAGATCTGACGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
CCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTG
Found at i:25632011 original size:418 final size:423
Alignment explanation
Indices: 25631188--25632048 Score: 1293
Period size: 418 Copynumber: 2.0 Consensus size: 423
25631178 TGTGCTTTGG
*
25631188 GAGATAAGATCTGAAACGATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATC
1 GAGATAAGATCTGAAACGATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATC
* * * *
25631253 CGTTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCAATGTGCTCCACTTTAGGGGATAA
66 CGCTCCACTGTAATCTCAGGGAGATAAAATCTACCATCTTCAATCTGCTCCAC-TT---GGATAA
* *
25631318 GATCTGAAACAATCTACTCTACTGTAACCTCAGATAAATAAGATCCTTTATTTTAATCCGTTCCA
127 GATCTGAAACAATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCA
25631383 CTGTAATCTCAGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
192 CTGTAATCTCAGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
* *
25631448 ATCTGAAATCTTCCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCT
257 ATCTGAAATCTTCCGATCTGCTCCACTGTAATATCAGGGAGATAAGACCTGACGCGATCTACTCT
* *
25631513 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAGCCCGCTCCACTGTAATCTCAGGGAGATAG
322 ACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTCAGGGAGATAG
*
25631578 GATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGA
387 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGA
** * * * *
25631615 GAGATAAGATCTGACGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
1 GAGATAAGATCTGAAACGATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATC
* ** * *
25631680 CGCTCCACTGTAATTTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGC-T-G-TAAGATC
66 CGCTCCACTGTAATCTCAGGGAGATAAAATCTACCATCTTCAATCTGCTCCACTTGGATAAGATC
** * * * * * *
25631741 TGACGCGATCTATTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGT
131 TGAAACAATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGT
* * *
25631806 AATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
196 AATCTCAGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
25631871 GAAATTCTT-CG-TCTGCTCCACTGTAATATCAGGGAGATAAGACCTGACGCGATCTACTCTACT
261 GAAA-TCTTCCGATCTGCTCCACTGTAATATCAGGGAGATAAGACCTGACGCGATCTACTCTACT
* * *
25631934 GTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCGGGGAGATAGGAT
325 GTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTCAGGGAGATAGGAT
*
25631999 TACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG
390 TACTAGCTTCAATCTGCTCCGCTGTAATCTCAGA
25632033 GAGATAAGATCTGAAA
1 GAGATAAGATCTGAAA
25632049 TTCTTCGGTC
Statistics
Matches: 393, Mismatches: 40, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
418 156 0.40
419 130 0.33
420 5 0.01
424 1 0.00
426 18 0.05
427 83 0.21
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (423 bp):
GAGATAAGATCTGAAACGATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATC
CGCTCCACTGTAATCTCAGGGAGATAAAATCTACCATCTTCAATCTGCTCCACTTGGATAAGATC
TGAAACAATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAGGAAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
GAAATCTTCCGATCTGCTCCACTGTAATATCAGGGAGATAAGACCTGACGCGATCTACTCTACTG
TAACCTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTCAGGGAGATAGGATT
ACTAGCTTCAATCTGCTCCGCTGTAATCTCAGA
Found at i:25632030 original size:174 final size:175
Alignment explanation
Indices: 25631734--25632157 Score: 715
Period size: 174 Copynumber: 2.4 Consensus size: 175
25631724 TGCTCCGCTG
* * *
25631734 TAAGATCTGACGCGATCTATTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCT
1 TAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
*
25631799 CCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
66 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
*
25631864 AAGATCTGAAATTCTTC-GTCTGCTCCACTGTAATATCAGGGAGA
131 AAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATATCAGGGAAA
* *
25631908 TAAGACCTGACGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
1 TAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
* *
25631973 CTACTGTAATCTCGGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
66 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
* *
25632038 AAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAA
131 AAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATATCAGGGAAA
* * *
25632083 TAAGACCTGACGTGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCT
1 TAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
25632148 CCACTGTAAT
66 CCACTGTAAT
25632158 NNNNNNNNNN
Statistics
Matches: 232, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
174 139 0.60
175 93 0.40
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (175 bp):
TAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
AAGATCTGAAATTCTTCGGTCTGCTCCACTGTAATATCAGGGAAA
Found at i:25632037 original size:88 final size:88
Alignment explanation
Indices: 25631757--25632157 Score: 322
Period size: 88 Copynumber: 4.6 Consensus size: 88
25631747 GATCTATTCT
*
25631757 GCTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
1 GCTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
*
25631821 GGATTACTATCTTCAATCTGCTCC
65 GGATTACTAGCTTCAATCTGCTCC
* ** ** * *
25631845 GCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGTCTGCTCCACTGTAATATCAGGGAGAT
1 GCTGTAATCTCAGAGAGATAAGATCCT-TTATT-TTAATCCGCTCCACTGTAATCTCAGGGAGAT
* * * * * *
25631909 AAGA--CCT-GAC-GCGATCTACTCT
64 AGGATTACTAG-CTTCAATCTGCTCC
* * * *
25631931 ACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCGGGGAGATAG
1 GCTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
25631996 GATTACTAGCTTCAATCTGCTCC
66 GATTACTAGCTTCAATCTGCTCC
* ** ** * * *
25632019 GCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAA
1 GCTGTAATCTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAGA
* * * * * *
25632083 TAAGA--CCT-GACGT-GATCTACTCT
63 TAGGATTACTAG-CTTCAATCTGCTCC
* *
25632106 GTTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAAT
1 GCTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAT
25632158 NNNNNNNNNN
Statistics
Matches: 240, Mismatches: 58, Indels: 33
0.73 0.18 0.10
Matches are distributed among these distances:
85 42 0.17
86 35 0.15
87 42 0.17
88 63 0.26
89 33 0.14
90 25 0.10
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
GCTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
GATTACTAGCTTCAATCTGCTCC
Found at i:25634286 original size:13 final size:12
Alignment explanation
Indices: 25634264--25634293 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
25634254 TGACCTCTCA
25634264 TTTTTCTTTTTC
1 TTTTTCTTTTTC
25634276 TTTTTCTTTTTTC
1 TTTTTC-TTTTTC
25634289 TTTTT
1 TTTTT
25634294 TTTCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:25634303 original size:7 final size:6
Alignment explanation
Indices: 25634264--25634293 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
25634254 TGACCTCTCA
25634264 TTTTTC TTTTTC TTTTTC TTTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
25634294 TTTCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:25634316 original size:22 final size:21
Alignment explanation
Indices: 25634291--25634366 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 21
25634281 CTTTTTTCTT
25634291 TTTTTTCTATTTTTGAC-TTTGA
1 TTTTTTCTATTTTT--CTTTTGA
* *
25634313 TTTTTTTTGTTTTTCTTTTGA
1 TTTTTTCTATTTTTCTTTTGA
*
25634334 TTTTTT-GATTTTT-TTTTGA
1 TTTTTTCTATTTTTCTTTTGA
25634353 TTTTTT-TGATTTTT
1 TTTTTTCT-ATTTTT
25634367 TTGATTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.23
22 12 0.26
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTTTCTATTTTTCTTTTGA
Found at i:25634330 original size:20 final size:19
Alignment explanation
Indices: 25634307--25634376 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
25634297 CTATTTTTGA
25634307 CTTTGATTTTTTTTGTTTTT
1 CTTTGA-TTTTTTTGTTTTT
25634327 CTTTTGA-TTTTTTGATTTTT
1 C-TTTGATTTTTTTG-TTTTT
* *
25634347 TTTTGATTTTTTTGATTTT
1 CTTTGATTTTTTTGTTTTT
25634366 -TTTGATTTTTT
1 CTTTGATTTTTT
25634377 GAATTAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 11 0.24
19 16 0.36
20 13 0.29
21 5 0.11
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.79
Consensus pattern (19 bp):
CTTTGATTTTTTTGTTTTT
Found at i:25634339 original size:19 final size:18
Alignment explanation
Indices: 25634315--25634377 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 18
25634305 GACTTTGATT
25634315 TTTTTTGTTTTTCTTTTGA
1 TTTTTTGTTTTT-TTTTGA
25634334 TTTTTTGATTTTTTTTTGA
1 TTTTTTG-TTTTTTTTTGA
*
25634353 TTTTTT-TGATTTTTTTGA
1 TTTTTTGT-TTTTTTTTGA
25634371 TTTTTTG
1 TTTTTTG
25634378 AATTAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
19 19 0.47
20 5 0.12
ACGTcount: A:0.08, C:0.02, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTTTTGTTTTTTTTTGA
Found at i:25634340 original size:29 final size:29
Alignment explanation
Indices: 25634308--25634376 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
25634298 TATTTTTGAC
*
25634308 TTTGA-TTTTTTTTGTTTTTCTTTTGA-TTT
1 TTTGATTTTTTTTTG-ATTT-TTTTGATTTT
25634337 TTTGATTTTTTTTTGATTTTTTTGATTTT
1 TTTGATTTTTTTTTGATTTTTTTGATTTT
25634366 TTTGATTTTTT
1 TTTGATTTTTT
25634377 GAATTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 6 0.16
29 22 0.59
30 9 0.24
ACGTcount: A:0.09, C:0.01, G:0.10, T:0.80
Consensus pattern (29 bp):
TTTGATTTTTTTTTGATTTTTTTGATTTT
Found at i:25634348 original size:9 final size:9
Alignment explanation
Indices: 25634308--25634376 Score: 77
Period size: 9 Copynumber: 7.2 Consensus size: 9
25634298 TATTTTTGAC
25634308 TTTGATTTTT
1 TTTGA-TTTT
*
25634318 TTTGTTTTTCT
1 TTTG-ATTT-T
25634329 TTTGA-TTT
1 TTTGATTTT
25634337 TTTGATTTTTT
1 TTTGA--TTTT
25634348 TTTGATTTT
1 TTTGATTTT
25634357 TTTGATTTT
1 TTTGATTTT
25634366 TTTGATTTT
1 TTTGATTTT
25634375 TT
1 TT
25634377 GAATTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
8 6 0.12
9 26 0.50
10 7 0.13
11 13 0.25
ACGTcount: A:0.09, C:0.01, G:0.10, T:0.80
Consensus pattern (9 bp):
TTTGATTTT
Found at i:25634349 original size:18 final size:18
Alignment explanation
Indices: 25634315--25634396 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
25634305 GACTTTGATT
*
25634315 TTTTTTGTTTTTCTTTTGA
1 TTTTTTGATTTT-TTTTGA
25634334 TTTTTTGATTTTTTTTTGA
1 TTTTTTGA-TTTTTTTTGA
25634353 TTTTTTTGA-TTTTTTTGA
1 -TTTTTTGATTTTTTTTGA
**
25634371 TTTTTTGAATTAATTTT-A
1 TTTTTTG-ATTTTTTTTGA
25634389 TTTTTTGA
1 TTTTTTGA
25634397 GTCTGAACTC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
17 8 0.14
18 18 0.32
19 18 0.32
20 12 0.21
ACGTcount: A:0.13, C:0.01, G:0.10, T:0.76
Consensus pattern (18 bp):
TTTTTTGATTTTTTTTGA
Found at i:25638328 original size:3 final size:3
Alignment explanation
Indices: 25638320--25638403 Score: 66
Period size: 3 Copynumber: 28.0 Consensus size: 3
25638310 AAGTAATTAA
* * * *
25638320 AAT AAT AAT AAT AA- CAT AAAT ACT AAT AAT AAT AAC AA- AGAT ACT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* *
25638365 AAT AAT AAT AAT -AT AAAT AAT AAT ATT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
25638404 GTTAAAAATA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
2 4 0.06
3 55 0.86
4 5 0.08
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25638348 original size:21 final size:21
Alignment explanation
Indices: 25638322--25638389 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
25638312 GTAATTAAAA
25638322 TAATAATAATAACATAAATAC
1 TAATAATAATAACATAAATAC
25638343 TAATAATAATAACA-AAGATAC
1 TAATAATAATAACATAA-ATAC
* *
25638364 TAATAATAATAATATAAATAA
1 TAATAATAATAACATAAATAC
25638385 TAATA
1 TAATA
25638390 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (21 bp):
TAATAATAATAACATAAATAC
Found at i:25638408 original size:15 final size:15
Alignment explanation
Indices: 25638365--25638415 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
25638355 CAAAGATACT
* *
25638365 AATAATAATAATATA
1 AATAATAATATTAAA
25638380 AATAATAATATTAAA
1 AATAATAATATTAAA
*
25638395 AATAATAATGTTAAA
1 AATAATAATATTAAA
25638410 AATAAT
1 AATAAT
25638416 TAGCTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATATTAAA
Found at i:25639200 original size:20 final size:18
Alignment explanation
Indices: 25639165--25639215 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
25639155 AAATCGAAAT
*
25639165 AAAAATATAAAAAAAACTATG
1 AAAAATA-AAAGAAAAC-A-G
25639186 AAAAATAAAAGAAAACAG
1 AAAAATAAAAGAAAACAG
25639204 AGAAAATAAAAG
1 A-AAAATAAAAG
25639216 GTGAAATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 8 0.29
21 7 0.25
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAGAAAACAG
Found at i:25639350 original size:15 final size:15
Alignment explanation
Indices: 25639330--25639368 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
25639320 CTACTGCTTG
25639330 TGTTCTTTGCTCTCT
1 TGTTCTTTGCTCTCT
25639345 TGTTCTTTGCTCTCT
1 TGTTCTTTGCTCTCT
*
25639360 TATTCTTTG
1 TGTTCTTTG
25639369 TTTTGTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.23, G:0.13, T:0.62
Consensus pattern (15 bp):
TGTTCTTTGCTCTCT
Found at i:25639645 original size:19 final size:19
Alignment explanation
Indices: 25639623--25639669 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
25639613 CTTTGGTTTG
*
25639623 TAATTGGGTAG-TTGGGGTT
1 TAATTGGGTAGTTTAGGG-T
**
25639642 TAATTGTTTAGTTTAGGGT
1 TAATTGGGTAGTTTAGGGT
25639661 TAATTGGGT
1 TAATTGGGT
25639670 TTTGGGCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (19 bp):
TAATTGGGTAGTTTAGGGT
Found at i:25645612 original size:3 final size:3
Alignment explanation
Indices: 25645604--25645668 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
25645594 AGTCCTATTT
25645604 AAG AAG AAG AA- AGAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
25645649 AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AA
25645669 TAGACTATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.97
4 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25647252 original size:28 final size:29
Alignment explanation
Indices: 25647190--25647253 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
25647180 AAATAAACCA
*
25647190 AACTTATTAAAAATCCTAAAAATAAATTT
1 AACTTATTAAAAACCCTAAAAATAAATTT
* *
25647219 ATCTTATT-AAAACCCTAAATAT-AATTCT
1 AACTTATTAAAAACCCTAAAAATAAATT-T
25647247 AACTTAT
1 AACTTAT
25647254 AAGGACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.63
29 7 0.23
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
AACTTATTAAAAACCCTAAAAATAAATTT
Found at i:25647431 original size:41 final size:42
Alignment explanation
Indices: 25647296--25647450 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 42
25647286 AATTTATTAG
* * * *
25647296 AAAACTTAA-ATATAATTTAG-AAATTAAATTCTACCCTATT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACATATT
25647336 AAAACTTAA-ATCTAATTTAAAGCAAAATAAAATTCTAACCA-ATT
1 AAAACTTAAGATCTAATTT--AGCAAAAT-AAATTCTAA-CATATT
* * * *
25647380 ACAACCTAAGACCTAATTTAG-AAAATAAATTCTAACATAGT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACATATT
*
25647421 AAAACTTAAGATCTAAATT-GCAAAATAAAT
1 AAAACTTAAGATCTAATTTAGCAAAATAAAT
25647451 CCTGACCGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
40 20 0.21
41 35 0.37
42 7 0.07
43 6 0.06
44 18 0.19
45 9 0.09
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACATATT
Found at i:25651092 original size:151 final size:152
Alignment explanation
Indices: 25650817--25651112 Score: 540
Period size: 151 Copynumber: 2.0 Consensus size: 152
25650807 TGGCTTCTTA
25650817 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCCGAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCCGAATATTATTGAGTTTGAT
*
25650882 TACTCTTTAAAAGTTATAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
25650947 TTTATTGCGAGTGCATAACGGC
131 TTTATTGCGAGTGCATAACGGC
* * *
25650969 GAGCCTTAGGTCAACTTTGTTAGAAATTGATCCTACAT-TTTTTTCGAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCCGAATATTATTGAGTTTGAT
*
25651033 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTGTTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
25651098 TTTATTGCGAGTGCA
131 TTTATTGCGAGTGCA
25651113 AAATGATGAG
Statistics
Matches: 139, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
151 103 0.74
152 36 0.26
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (152 bp):
GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCTTTTTCCGAATATTATTGAGTTTGAT
TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
TTTATTGCGAGTGCATAACGGC
Found at i:25653965 original size:26 final size:27
Alignment explanation
Indices: 25653930--25653991 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
25653920 TTTCTCGAAA
*
25653930 TTTACCAGGGGTAAAATCT-TC-AAAAT
1 TTTACTAGGGGTAAAAT-TGTCAAAAAT
25653956 TTTACTAGGGGTAAAATTGTCAAAAAT
1 TTTACTAGGGGTAAAATTGTCAAAAAT
*
25653983 TTTATTAGG
1 TTTACTAGG
25653992 CTAAATTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 18 0.56
27 13 0.41
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (27 bp):
TTTACTAGGGGTAAAATTGTCAAAAAT
Found at i:25654377 original size:9 final size:9
Alignment explanation
Indices: 25654363--25654417 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
25654353 AAATAGAGAG
*
25654363 AATTTTTCC
1 AATTTTACC
25654372 AATTTTACC
1 AATTTTACC
25654381 AATTTCTATTGACC
1 AA--T-T-TT-ACC
25654395 AATTTTACC
1 AATTTTACC
25654404 AATTTTACC
1 AATTTTACC
25654413 AATTT
1 AATTT
25654418 CTATTAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 27 0.68
10 2 0.05
11 2 0.05
12 2 0.05
13 2 0.05
14 5 0.12
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (9 bp):
AATTTTACC
Found at i:25667125 original size:57 final size:56
Alignment explanation
Indices: 25667056--25667542 Score: 346
Period size: 57 Copynumber: 8.6 Consensus size: 56
25667046 CCACTTAAAA
* * *
25667056 CCTTAAAGAGGTGGATTATATAAAGTCCATATTAGAAAGATGTGACTATCAACTTTG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTA-AAAGGTGTGACTATCAACTTTG
* *
25667113 CCTTAAAGAGGTG-A--AT-T--AGTCGATCTTAAAGAGGTTTGACTATCAACTTCT-
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGGTGTGACTATCAACTT-TG
* * * * *
25667164 CCTTAAAGAGGTGAATTCTATAAAGTCCATTTTAAAAAAGGCGTGACTATCAATTTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTT--AAAAGGTGTGACTATCAACTTTG
* * * *
25667222 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGATTATCAA-TTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGGTGTGACTATCAACTTTG
* * * * ** ***
25667278 CCTTCAGAGAGATGAATTATATAAAATCCATCTTAAAGAGGTATGGTTAT-TTGTGTCT-
1 CCTT-AAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGGTGTGACTATCAACT-T-TG
* * * * * *
25667336 CCTTAAAGAGGTGGATTATATAAATTCCATTTTAAGGAGGTGTGATTATCAACTTTA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAA-AAGGTGTGACTATCAACTTTG
* * * * * ** * *
25667393 CTTTAAAAAAAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCG
1 CCTT-AAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGGTGTGACTATCAACTTTG
* * * * * * *
25667451 CCTTAAAGAGGTGAATCATATAGAGTCCATGTTAAATATGTGTGACTATTAGCTTCG
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AGGTGTGACTATCAACTTTG
* * *
25667508 CTTTAAATAGTTGAATTATATAAAGTCCATCTTAA
1 CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAA
25667543 GAAAGTTTGA
Statistics
Matches: 341, Mismatches: 68, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
50 2 0.01
51 38 0.11
52 2 0.01
53 1 0.00
54 3 0.01
55 1 0.00
56 13 0.04
57 184 0.54
58 93 0.27
59 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (56 bp):
CCTTAAAGAGGTGAATTATATAAAGTCCATCTTAAAAGGTGTGACTATCAACTTTG
Found at i:25667308 original size:115 final size:113
Alignment explanation
Indices: 25667056--25667547 Score: 361
Period size: 115 Copynumber: 4.3 Consensus size: 113
25667046 CCACTTAAAA
* * * * *** *
25667056 CCTTAAAGAGGTGGATTATATAAAGTCCATATTAGAAAGATGTGACTATCAACTTTGCCTTAAAG
1 CCTTAAAGAGATGAATTATATAAAGTCCATCTTAAAAAGGCATGACTATCAACTTCGCCTTAAAG
* * * * *
25667121 AGGTG-A--AT-T--AGTCGATCTTAAAGAGGTTTGACTATCAACTTCT
66 AGGTGAATTATATAAAGTCCATATTAAAGAGGTGTGATTATCAA-TTTT
* * * * * **
25667164 CCTTAAAGAGGTGAATTCTATAAAGTCCATTTTAAAAAAGGCGTGACTATCAATTTTTCCTTAAA
1 CCTTAAAGAGATGAATTATATAAAGTCCATCTT-AAAAAGGCATGACTATCAACTTCGCCTTAAA
*
25667229 GAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGATTATCAATTTT
65 GAGGTGAATTATATAAAGTCCATATTAAAGAGGTGTGATTATCAATTTT
* * * * ** *** *
25667278 CCTTCAGAGAGATGAATTATATAAAATCCATCTTAAAGAGGTATGGTTAT-TTGTGTCTCCTTAA
1 CCTT-AAAGAGATGAATTATATAAAGTCCATCTTAAAAAGGCATGACTATCAACT-TCGCCTTAA
* * * * *
25667342 AGAGGTGGATTATATAAATTCCATTTTAAGGAGGTGTGATTATCAACTTTA
64 AGAGGTGAATTATATAAAGTCCATATTAAAGAGGTGTGATTATCAA-TTTT
* * * * * * *
25667393 CTTTAAAAAAAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCGCCTTAAA
1 CCTTAAAGAGA-TGAATTATATAAAGTCCATCTTAAAAAGGCATGACTATCAACTTCGCCTTAAA
* * * * * * * **
25667458 GAGGTGAATCATATAGAGTCCATGTTAAATATGTGTGACTAT-TAGCTT
65 GAGGTGAATTATATAAAGTCCATATTAAAGAGGTGTGATTATCAATTTT
* *
25667506 CGCTTTAAATAGTTGAATTATATAAAGTCCATCTTAAGAAAG
1 C-C-TTAAAGAGATGAATTATATAAAGTCCATCTTAA-AAAG
25667548 TTTGACATCA
Statistics
Matches: 301, Mismatches: 68, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
108 30 0.10
109 32 0.11
110 1 0.00
112 2 0.01
113 4 0.01
114 94 0.31
115 137 0.46
116 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (113 bp):
CCTTAAAGAGATGAATTATATAAAGTCCATCTTAAAAAGGCATGACTATCAACTTCGCCTTAAAG
AGGTGAATTATATAAAGTCCATATTAAAGAGGTGTGATTATCAATTTT
Found at i:25668388 original size:35 final size:35
Alignment explanation
Indices: 25668339--25668438 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 35
25668329 CTACTGGTTT
* * * *
25668339 TTTGGGGCGGCACCGTGTAAACGATATATAGGTCC
1 TTTGGGACGACACCGTGTAAACGATATACAAGTCC
* * *
25668374 TTTGGGATGACACCGTGTAAACGGTATACAAGTCT
1 TTTGGGACGACACCGTGTAAACGATATACAAGTCC
* *
25668409 TTTGGGGCGACACTGTGTAAACGATATACA
1 TTTGGGACGACACCGTGTAAACGATATACA
25668439 TGTAACATCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (35 bp):
TTTGGGACGACACCGTGTAAACGATATACAAGTCC
Found at i:25672343 original size:38 final size:35
Alignment explanation
Indices: 25672289--25672359 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 35
25672279 CCTCATGGGT
25672289 GTTTTGAAAAATTATTTTATTTTAAATTTGTTTTTAA
1 GTTTTGAAAAATTA-TTTATTTTAAATTT-TTTTTAA
*
25672326 GTTTT-AAAATATCTATTTATTTTTAATTTTTTTT
1 GTTTTGAAAA-AT-TATTTATTTTAAATTTTTTTT
25672360 GAAAAAGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
36 9 0.29
37 20 0.65
38 2 0.06
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (35 bp):
GTTTTGAAAAATTATTTATTTTAAATTTTTTTTAA
Found at i:25673301 original size:21 final size:21
Alignment explanation
Indices: 25673227--25673294 Score: 127
Period size: 21 Copynumber: 3.2 Consensus size: 21
25673217 GCTCGGTCAC
25673227 ACGGGTGTATGTCTCCTCCAT
1 ACGGGTGTATGTCTCCTCCAT
25673248 ACGGGTGTATGTCTCCTCCAT
1 ACGGGTGTATGTCTCCTCCAT
*
25673269 ACGGGTGTGTGTCTCCTCCAT
1 ACGGGTGTATGTCTCCTCCAT
25673290 ACGGG
1 ACGGG
25673295 CGTGTGTAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.31
Consensus pattern (21 bp):
ACGGGTGTATGTCTCCTCCAT
Found at i:25686938 original size:61 final size:58
Alignment explanation
Indices: 25686838--25686977 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 58
25686828 GATTATTGTT
* ** *
25686838 ATTAAATTTTAATAGGATTATTATTAAATATGATGTAATAAAAATAAAAATAAATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAAT---AATAAATAATTTA
* *
25686899 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATAAATAATTTA
* *
25686957 GTAATATTCTTAATATAATTA
1 ATTATATT-TTAATATAATTA
25686978 ATTTTATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 18 0.26
59 12 0.17
61 40 0.57
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATAAATAATTTA
Found at i:25687007 original size:23 final size:23
Alignment explanation
Indices: 25686981--25687024 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
25686971 ATAATTAATT
25686981 TTATATTA-AATTATATTAAAAGA
1 TTAT-TTATAATTATATTAAAAGA
**
25687004 TTATTTATTTTTATATTAAAA
1 TTATTTATAATTATATTAAAA
25687025 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTTATAATTATATTAAAAGA
Found at i:25692191 original size:61 final size:58
Alignment explanation
Indices: 25692091--25692230 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 58
25692081 GATTATTGTT
* ** *
25692091 ATTAAATTTTAATAGGATTATTATTAAATATGATGTAATAAAAATAAAAATAAATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAAT---AATAAATAATTTA
* *
25692152 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATAAATAATTTA
* *
25692210 GTAATATTCTTAATATAATTA
1 ATTATATT-TTAATATAATTA
25692231 ATTTTATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 18 0.26
59 12 0.17
61 40 0.57
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAATAAATAATTTA
Found at i:25692260 original size:23 final size:23
Alignment explanation
Indices: 25692234--25692277 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
25692224 ATAATTAATT
25692234 TTATATTA-AATTATATTAAAAGA
1 TTAT-TTATAATTATATTAAAAGA
**
25692257 TTATTTATTTTTATATTAAAA
1 TTATTTATAATTATATTAAAA
25692278 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTTATAATTATATTAAAAGA
Found at i:25692269 original size:33 final size:32
Alignment explanation
Indices: 25692232--25692296 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
25692222 ATATAATTAA
*
25692232 TTTTATATTAAATTATATTAAAAGATTATTTAT
1 TTTTATATTAAAATAT-TTAAAAGATTATTTAT
* *
25692265 TTTTATATTAAAATATTTAAAATATTTTTTAT
1 TTTTATATTAAAATATTTAAAAGATTATTTAT
25692297 AATACATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (32 bp):
TTTTATATTAAAATATTTAAAAGATTATTTAT
Done.