Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 66 of 311
Found at i:20104754 original size:22 final size:23
Alignment explanation
Indices: 20104704--20104757 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
20104694 GTATAGGGTT
* *
20104704 GATGAATTGGTACATTTTTTTGC
1 GATGAATTGGTACATTTTGTGGC
*
20104727 TGATGAATTGGTATATTTTGTGGC
1 -GATGAATTGGTACATTTTGTGGC
20104751 -ATGAATT
1 GATGAATT
20104758 AGATGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
24 20 0.74
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.46
Consensus pattern (23 bp):
GATGAATTGGTACATTTTGTGGC
Found at i:20106612 original size:79 final size:82
Alignment explanation
Indices: 20106501--20106685 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20106491 GCTACTCGTT
* *
20106501 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20106564 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20106581 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20106644 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20106661 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20106686 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20106685 original size:40 final size:40
Alignment explanation
Indices: 20106482--20106685 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20106472 CGGAATTTAA
** *
20106482 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20106522 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20106562 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20106601 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20106641 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20106681 CCGGA
1 CCGGA
20106686 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20111988 original size:29 final size:29
Alignment explanation
Indices: 20111956--20112014 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
20111946 GCCAAAATTT
20111956 ACTCATGCAACCCTTGTCTTCCCTAAACC
1 ACTCATGCAACCCTTGTCTTCCCTAAACC
20111985 ACTCATGCAACCCTTGTCTTCCCTAAACC
1 ACTCATGCAACCCTTGTCTTCCCTAAACC
20112014 A
1 A
20112015 AGCATACTCA
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:0.25, C:0.41, G:0.07, T:0.27
Consensus pattern (29 bp):
ACTCATGCAACCCTTGTCTTCCCTAAACC
Found at i:20118730 original size:5 final size:5
Alignment explanation
Indices: 20118720--20118745 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20118710 TTATTCTCTC
20118720 CCCCT CCCCT CCCCT CCCCT CCCCT C
1 CCCCT CCCCT CCCCT CCCCT CCCCT C
20118746 TCGTCTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (5 bp):
CCCCT
Found at i:20125445 original size:12 final size:15
Alignment explanation
Indices: 20125387--20125449 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
20125377 TCTTTTAAGT
20125387 ATAAGATATTTAATAT-
1 ATAAGATA--TAATATA
*
20125403 ATATA-ATATATTATA
1 ATA-AGATATAATATA
20125418 ATAAGATATAATATA
1 ATAAGATATAATATA
*
20125433 ATAAG-TAAAATA-A
1 ATAAGATATAATATA
20125446 ATAA
1 ATAA
20125450 AAGAAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 5 0.12
14 12 0.29
15 17 0.41
16 6 0.15
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
ATAAGATATAATATA
Found at i:20125520 original size:15 final size:16
Alignment explanation
Indices: 20125486--20125524 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
20125476 TAAGAACAGA
*
20125486 GAAAGAAACGAAATAG
1 GAAAGAAACGAAAAAG
*
20125502 GAAAGAAA-GAAAAAT
1 GAAAGAAACGAAAAAG
20125517 GAAAGAAA
1 GAAAGAAA
20125525 AAGAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (16 bp):
GAAAGAAACGAAAAAG
Found at i:20126382 original size:6 final size:6
Alignment explanation
Indices: 20126371--20126408 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
20126361 TCCGTACCTG
*
20126371 ACTGTT ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
20126409 CCTTACGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:20126414 original size:18 final size:18
Alignment explanation
Indices: 20126375--20126414 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20126365 TACCTGACTG
* **
20126375 TTACTGTTACTGTTACTG
1 TTACTATTACTGTTACCC
20126393 TTACTATTACTGTTACCC
1 TTACTATTACTGTTACCC
20126411 TTAC
1 TTAC
20126415 GGTGTATTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (18 bp):
TTACTATTACTGTTACCC
Found at i:20129541 original size:20 final size:22
Alignment explanation
Indices: 20129493--20129540 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
20129483 CCACACGCTT
* * *
20129493 GTGTGGCTTATATGACATGCCC
1 GTGTGTCTGATATGACACGCCC
*
20129515 GTGTGTCTGATATGACACGCCT
1 GTGTGTCTGATATGACACGCCC
20129537 GTGT
1 GTGT
20129541 CATCAACCCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (22 bp):
GTGTGTCTGATATGACACGCCC
Found at i:20129848 original size:63 final size:63
Alignment explanation
Indices: 20129771--20129895 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
20129761 AATTAAAGGT
* *
20129771 TTATTTAATTAAAACATAGTTAATTAAGGTTAATTAACAAATTAATCCTAGTATAAAACTAAC
1 TTATTTAATTAAAACATAGTTAATGAAGGTTAATTAACAAATTAATCCTAGTACAAAACTAAC
20129834 TTATTTAATTAAAACATAGTTAATGAAGGTTAATTAACAAATTAATCCTAGTACAAAACTAA
1 TTATTTAATTAAAACATAGTTAATGAAGGTTAATTAACAAATTAATCCTAGTACAAAACTAA
20129896 AAGTTAGTGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (63 bp):
TTATTTAATTAAAACATAGTTAATGAAGGTTAATTAACAAATTAATCCTAGTACAAAACTAAC
Found at i:20134962 original size:25 final size:24
Alignment explanation
Indices: 20134933--20134981 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
20134923 ATGCTTGAAT
*
20134933 TTAAGAAATTGATGAAGATTTTGAG
1 TTAAGAAATTGATGAA-ATTGTGAG
**
20134958 TTAAGCCATTGATGAAATTGTGAG
1 TTAAGAAATTGATGAAATTGTGAG
20134982 CTTTGTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (24 bp):
TTAAGAAATTGATGAAATTGTGAG
Found at i:20135715 original size:47 final size:47
Alignment explanation
Indices: 20135657--20135786 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
20135647 GTGCGAATAA
* *** *
20135657 TACCTTGATTTGGCTACGGGCCATGATATAGGTA-TTTTGTGAGAAGT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTACTCCAG-AAGAAGT
*
20135704 TACCTTGATTTGGCTACAGGCCAT-AGTATAGGTACTCCAGAATAAGT
1 TACCTTGATTTGGCTACAGGCCATGA-TATAGGTACTCCAGAAGAAGT
* *
20135751 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTACT
20135787 TATCGATTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
46 1 0.01
47 69 0.96
48 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGATATAGGTACTCCAGAAGAAGT
Found at i:20137333 original size:21 final size:20
Alignment explanation
Indices: 20137309--20137348 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20137299 TATGAGCTTT
*
20137309 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
20137330 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
20137349 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:20138352 original size:21 final size:21
Alignment explanation
Indices: 20138328--20138373 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20138318 GTTGATTTGA
20138328 ATGTAATACTTATTTTTACTT
1 ATGTAATACTTATTTTTACTT
20138349 ATGTAATACTTATTTTTACTT
1 ATGTAATACTTATTTTTACTT
20138370 ATGT
1 ATGT
20138374 TCTTTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (21 bp):
ATGTAATACTTATTTTTACTT
Found at i:20142814 original size:28 final size:29
Alignment explanation
Indices: 20142778--20142834 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
20142768 AAAGTGATTT
*
20142778 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* *
20142806 TTGAGAAAAATGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
20142835 ATGTGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.28
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:20142842 original size:29 final size:28
Alignment explanation
Indices: 20142783--20142842 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
20142773 GATTTTTGAC
* *
20142783 AAAAATGTCAATTAGGGATTAAATTGAG
1 AAAAATGTAAATTAGGGATTAAAATGAG
* *
20142811 AAAAATGTAAATTGAGGGGTTAAAATGTG
1 AAAAATGTAAATT-AGGGATTAAAATGAG
20142840 AAA
1 AAA
20142843 TAAATTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (28 bp):
AAAAATGTAAATTAGGGATTAAAATGAG
Found at i:20143425 original size:43 final size:42
Alignment explanation
Indices: 20143328--20143474 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 42
20143318 ATCGAGATGA
*
20143328 GATTACATGTAAGACCATGTTTGGGACATTGGAATTGTAT-T
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATAT
* * * *
20143369 GTTTTTACCTGTAAGACCATGTGTGGGACATTGGCATCGTTATAT
1 G--ATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TATAT
* * * * **
20143414 GATTTCATGTAAGACTACGTTTAGGATGTTGGCATTGATATAT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TATAT
*
20143457 GATGACATGTAAGACCAT
1 GATTACATGTAAGACCAT
20143475 ATCTAGGATA
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
43 76 0.93
44 3 0.04
45 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATAT
Found at i:20143482 original size:43 final size:43
Alignment explanation
Indices: 20143399--20143483 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
20143389 GTGTGGGACA
* ** * * *
20143399 TTGGCATCGTTATATGATTTCATGTAAGACTACGTTTAGGATG
1 TTGGCATCGATATATGATGACATGTAAGACCACATCTAGGATG
* *
20143442 TTGGCATTGATATATGATGACATGTAAGACCATATCTAGGAT
1 TTGGCATCGATATATGATGACATGTAAGACCACATCTAGGAT
20143484 ATGGTATTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (43 bp):
TTGGCATCGATATATGATGACATGTAAGACCACATCTAGGATG
Found at i:20154030 original size:21 final size:20
Alignment explanation
Indices: 20154000--20154039 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20153990 TCTTTTTCAA
*
20154000 TCTCAATCTCGTTTTGCTTTC
1 TCTCAATCTCCTTTT-CTTTC
*
20154021 TCTCACTCTCCTTTTCTTT
1 TCTCAATCTCCTTTTCTTT
20154040 TTCAATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.07, C:0.33, G:0.05, T:0.55
Consensus pattern (20 bp):
TCTCAATCTCCTTTTCTTTC
Found at i:20154058 original size:18 final size:18
Alignment explanation
Indices: 20154032--20154071 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20154022 CTCACTCTCC
*
20154032 TTTTCTTTTTCAATTTCT
1 TTTTATTTTTCAATTTCT
*
20154050 TTTTATTTTTCGATTTCT
1 TTTTATTTTTCAATTTCT
20154068 TTTT
1 TTTT
20154072 CTCTCGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTCAATTTCT
Found at i:20159018 original size:46 final size:47
Alignment explanation
Indices: 20158958--20159276 Score: 359
Period size: 46 Copynumber: 7.0 Consensus size: 47
20158948 TTTGACATGA
* * * * * *
20158958 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * * *
20159004 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *** **
20159050 TGCCATGGTATCTTTCAACCATGGTCTTATTTA-TTTCCCGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* * *
20159096 TGCCATGGTATCTTTCAACCATGGTCTTAAAC-GTTTCATATC-GGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
20159141 TGCCATGGTATCTTTCAACCATGGTCTT--ACATGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTTCATATCAGGT
20159187 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
20159233 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
20159277 AGAGCACACT
Statistics
Matches: 243, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
43 2 0.01
45 41 0.17
46 197 0.81
48 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:20159189 original size:137 final size:136
Alignment explanation
Indices: 20159004--20159274 Score: 400
Period size: 137 Copynumber: 2.0 Consensus size: 136
20158994 TCTGTCATGT
*
20159004 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCACGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCATTTTCTATCACGCTGCCATGGTATCTTTCAAC
*** * * * *
20159069 CATGGTCTTATTTATTTCCCGTCATATTGCCATGGTATCTTTCAACCATGGTCTTAAACGTTTCA
65 CATGGTCTTACACATTTCACATCAGATTGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCA
20159134 TATCGGG
130 TATCGGG
*
20159141 TGCCATGGTATCTTTCAACCATGGTCTTA-CATGTTTCATATCAGGCTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATCAT-TTTC-TATCACGCTGCCATGGTATCTTTCAA
* * *
20159205 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
64 CCATGGTCTTACACATTTCACATCAGATTGCCATGGTATCTTTCAACCATGGTCTTAAACATTTC
20159270 ATATC
129 ATATC
20159275 AGAGAGCACA
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
135 3 0.03
136 4 0.03
137 113 0.94
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (136 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCATTTTCTATCACGCTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCACATCAGATTGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCAT
ATCGGG
Found at i:20161454 original size:18 final size:20
Alignment explanation
Indices: 20161439--20161475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20161429 TAATAATAAA
*
20161439 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
20161459 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
20161476 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:20169432 original size:47 final size:46
Alignment explanation
Indices: 20169279--20169637 Score: 240
Period size: 47 Copynumber: 7.7 Consensus size: 46
20169269 ATATATTGCC
*
20169279 GATGTCATGTCCCAGACATGGTCTTACACTAGCT-CTCATATACGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACTC-TAT-CGAG-GCT
* * * * *
20169329 GATGTATGTCCCAAACAAGTCTTATACTAGCACAACTCT-T--A-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAG--CTACTCTATCGAGGCT
* *
20169373 GATGCATTTCCCAGAC-TCGTCTCACACTAGCTATCTCTATCGAGGCT
1 GATGCATGTCCCAGACAT-GTCTTACACTAGCTA-CTCTATCGAGGCT
* * *
20169420 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTCTG-TGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTACTC-TATC-GAGGCT
* *
20169466 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TC-ATAGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACTCTATCG-A-GGCT
* * * * *
20169514 GATGCATGTCCCAGACATGTCTTACACTAGC-CCTCGTCTAGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTACTC-TATCGAGGCT
* * * *
20169560 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTAATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACT-CT-ATCGAGGCT
*
20169608 GAAGCATGTCCCAGACATGTCTTACACTAG
1 GATGCATGTCCCAGACATGTCTTACACTAG
20169638 AGCACAAATC
Statistics
Matches: 250, Mismatches: 33, Indels: 56
0.74 0.10 0.17
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 27 0.11
45 4 0.02
46 44 0.18
47 87 0.35
48 59 0.24
49 14 0.06
50 6 0.02
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACTCTATCGAGGCT
Found at i:20169515 original size:94 final size:93
Alignment explanation
Indices: 20169279--20169637 Score: 363
Period size: 94 Copynumber: 3.8 Consensus size: 93
20169269 ATATATTGCC
* * * * *
20169279 GATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACGCGTGCTGATGTATGTCCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATA--TG-GCTGATGCATGTCCCAGA
* * *
20169344 CAAGTCTTATACTAGCA--CAACTCT-TAGCT
63 CATGTCTTACACTAGCACTCATCTCTGT-GCT
* * * *
20169373 GATG-CATTTCCCAGAC-TCGTCTCACACTAGCTATC-TCTATCGAGGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATAT---GGCTGATGCATGTCCCAGA
*
20169435 CATGTCTTACACTGGCACTCATCTCTGTGCT
63 CATGTCTTACACTAGCACTCATCTCTGTGCT
*
20169466 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATA-TATGGCTGATGCATGTCCCAGACA
* * * *
20169531 TGTCTTACACTAGCCCTCGTCT-AGATGCC
65 TGTCTTACACTAGCACTCATCTCTG-TGCT
* * * * * *
20169560 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATAATGTGGCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-ATATGGCTGATGCATGTCCCAGACA
20169625 TGTCTTACACTAG
65 TGTCTTACACTAG
20169638 AGCACAAATC
Statistics
Matches: 226, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
91 33 0.15
92 17 0.08
93 25 0.11
94 130 0.58
95 17 0.08
96 1 0.00
97 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATATGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCATCTCTGTGCT
Found at i:20169541 original size:141 final size:140
Alignment explanation
Indices: 20169370--20169635 Score: 335
Period size: 141 Copynumber: 1.9 Consensus size: 140
20169360 ACAACTCTTA
* * *
20169370 GCTGATGCATTTCCCAGACTCGTCTCACACTAGCTATC-TCTATCGAGGCTGATG-CATGTCCCA
1 GCTGATGCATGTCCCAGACTCGTCTCACACTAGCCATCGTCTA--GAGGCCGATGCCATGTCCCA
* * * * *
20169433 GACAT-GTCTTACACTGGCACTCAT-CTCTGTGCTGATGCCATGTCCCAGACATGGTCTTACACT
64 GACATGGTCTTACACTGGCACTAATAATGTG-GCCGAAG-CATGTCCCAGACAT-GTCTTACACT
20169496 GGCTATCATAGTATG
126 GGCTATCATAGTATG
* * *
20169511 GCTGATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTAGATGCCGATGCCATGTCCCAG
1 GCTGATGCATGTCCCAGAC-TCGTCTCACACTAGCCATCGTCTAGAGGCCGATGCCATGTCCCAG
*
20169575 ACATGGTCTTACACTGGCTCTAATAATGTGGCCGAAGCATGTCCCAGACATGTCTTACACT
65 ACATGGTCTTACACTGGCACTAATAATGTGGCCGAAGCATGTCCCAGACATGTCTTACACT
20169636 AGAGCACAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
140 18 0.17
141 60 0.56
142 27 0.25
143 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
GCTGATGCATGTCCCAGACTCGTCTCACACTAGCCATCGTCTAGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCACTAATAATGTGGCCGAAGCATGTCCCAGACATGTCTTACACTGGCTA
TCATAGTATG
Found at i:20177054 original size:47 final size:47
Alignment explanation
Indices: 20176888--20177344 Score: 330
Period size: 47 Copynumber: 9.7 Consensus size: 47
20176878 GGGATATATT
* * ** *
20176888 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTGTGAG
* * * * *
20176937 TGCTGATGCATGTCCCAGACATGTCTTACACTAGC-A-CAACTCTTA-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTGAG
** *
20176982 GCCGATGTGTGTCCCAGACACGTCTTACACTGGCTAT-ATCTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGT-GAG
* *
20177029 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATCTCTGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTG-AG
* *
20177076 -CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATC-TCTTTCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTGT-GAG
* ** * *
20177124 GCCGATGCATGTCCTAGACAAATCTTACACTGGC-ACTCATCTCTG-T
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTGAG
* *
20177170 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTGTGA-G
* * * * * ** * *
20177218 GCTGATGCATGTCCTAAACATGTTTTACACTAGCCCTCGTCTG-GAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTGAG
* * ** *
20177264 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAG-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTGTGAG
*
20177312 GCCGAAGCATGTCCCAGACATGTCTTACACTGG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG
20177345 AGCACAAATC
Statistics
Matches: 324, Mismatches: 59, Indels: 52
0.74 0.14 0.12
Matches are distributed among these distances:
44 29 0.09
45 5 0.02
46 49 0.15
47 119 0.37
48 94 0.29
49 22 0.07
50 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTGAG
Found at i:20177129 original size:95 final size:95
Alignment explanation
Indices: 20176889--20177344 Score: 461
Period size: 94 Copynumber: 4.9 Consensus size: 95
20176879 GGATATATTG
* *
20176889 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATATACGCGTGCTGATGCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTC-TAT-CGAG-GCCGATGCATGTCC
* *
20176952 CAGACATGTCTTACACTAGCA--CAACTCT-TA
63 CAGACATGTCTTACACTGGCACTCATCTCTGTA
** * * *
20176982 GCCGATG-TGTGTCCCAGACA-CGTCTTACACTGGCTATATCTGTCGAGGCCGATGCATGTCCCA
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCTATCGAGGCCGATGCATGTCCCA
*
20177045 AACATGTCTTACACTGGCACTCATCTCTGTA
65 GACATGTCTTACACTGGCACTCATCTCTGTA
* * *
20177076 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCTCTTTCGAGGCCGATGCATGTCCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCTATCGAGGCCGATGCATGTCCCAG
** *
20177141 ACAAATCTTACACTGGCACTCATCTCTGTG
66 ACATGTCTTACACTGGCACTCATCTCTGTA
* * * *
20177171 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--TC-ATAGTATGGCTGATGCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCTATCG-A-GGCCGATGCATGTCCC
* * * * * * *
20177233 AAACATGTTTTACACTAGCCCTCGTCT-GGATG
64 AGACATGTCTTACACTGGCACTCATCTCTG-TA
* ** * *
20177265 CCGATGCCATGTCCCAGACATGGTCTTACATTGGC--TCTCATAAGGTGGCCGAAGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTC-TATCGAGGCCGATGCATGTCCCA
20177328 GACATGTCTTACACTGG
65 GACATGTCTTACACTGG
20177345 AGCACAAATC
Statistics
Matches: 303, Mismatches: 45, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
91 32 0.11
92 18 0.06
93 29 0.10
94 121 0.40
95 101 0.33
96 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCTATCGAGGCCGATGCATGTCCCAG
ACATGTCTTACACTGGCACTCATCTCTGTA
Found at i:20177248 original size:189 final size:187
Alignment explanation
Indices: 20176889--20177351 Score: 491
Period size: 189 Copynumber: 2.5 Consensus size: 187
20176879 GGATATATTG
* *
20176889 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATACGCGTGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATATACGAGTGCCGATGCATGTCCC
** **
20176953 AGACATGTCTTACACTAGCACAACTCTTAGCCGATGTGTGTCCCAGACACGTCTTACACTGGCTA
66 AGACAAATCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTA
* * *
20177018 TATCTGTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTG-TA
131 TATCAGTC-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCT-GGATA
* *
20177076 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCTC-T-TTCGAG-GCCGATGCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCTCATATACGAGTGCCGATGCATGTCC
* * * * *
20177138 TAGACAAATCTTACACTGGCACTCATCTCTGT-GCTGATGCCATGTCCCAGACATGGTCTTACAC
65 CAGACAAATCTTACACTAGCA--CAACTCT-TAGCCGATG-CATGTCCCAGACA-CGTCTTACAC
* * * * * *
20177202 TGGCTATCAT-AGT-ATGGCTGATGCATGTCCTAAACATGTTTTACACTAGCCCTCGTCTGGATG
125 TGGCTAT-ATCAGTCA-GGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTGGATA
* *
20177265 CCGATGCCATGTCCCAGACATGGTCTTACATTGGC-TCTCATA-A-G-GTGGCCGAAGCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATATACGAGT-GCCGATGCATGTCC
**
20177326 CAGACATGTCTTACACTGGAGCACAA
65 CAGACAAATCTTACACT--AGCACAA
20177352 ATCACCCAAT
Statistics
Matches: 229, Mismatches: 31, Indels: 31
0.79 0.11 0.11
Matches are distributed among these distances:
186 31 0.14
187 43 0.19
188 45 0.20
189 87 0.38
190 21 0.09
191 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (187 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATATACGAGTGCCGATGCATGTCCC
AGACAAATCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTA
TATCAGTCAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTGGATA
Found at i:20181858 original size:43 final size:42
Alignment explanation
Indices: 20181750--20181869 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
20181740 ATTGAGATGT
* * * *
20181750 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTAA
20181792 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTAA
* * * * *
20181833 TCGATTTCGTGTAAGACCCTATCTGGGATAGTGGCAT
1 --GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
20181870 TGATATGTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.04
42 34 0.51
43 30 0.45
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTAA
Found at i:20187303 original size:27 final size:27
Alignment explanation
Indices: 20187069--20187302 Score: 297
Period size: 27 Copynumber: 8.7 Consensus size: 27
20187059 CTGAAATGCT
** *
20187069 CTCGATTTGTAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
20187096 CTCAATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
20187123 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
20187150 CTCAATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
20187177 CTCGATTTACAGAATTGCTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
20187204 CTCGATTTACAGAATTACCATTTTACT
1 CTCGATTTACAGAATTACCGTTTTACC
*
20187231 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** ** *
20187258 CTTAATTTGTAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
20187285 CTTGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
20187303 TAAAATACCC
Statistics
Matches: 181, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:20187311 original size:27 final size:27
Alignment explanation
Indices: 20187281--20187613 Score: 228
Period size: 27 Copynumber: 12.3 Consensus size: 27
20187271 ATTACTGTTT
* *
20187281 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
20187308 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
20187335 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * * *
20187362 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
20187388 TACCCCTGGTTTATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
20187415 TACCCCT-AGTTTGTAAAGTTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * * *
20187442 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
** *
20187469 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
20187496 TACCCCTAATTTACAAAATTA-CAGAAA
1 TACCCTTGATTTATAAAATTACCA-AAA
* *
20187523 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACCA-AAA
* * *
20187552 TACCATT-AGTTTACAAAATTACTAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * *
20187579 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
20187606 CACCCTTG
1 TACCCTTG
20187614 TAGGATGAAA
Statistics
Matches: 243, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 22 0.09
27 194 0.80
28 9 0.04
29 18 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:20187321 original size:81 final size:80
Alignment explanation
Indices: 20187069--20187331 Score: 294
Period size: 81 Copynumber: 3.2 Consensus size: 80
20187059 CTGAAATGCT
** * * *
20187069 CTCGATTTGTAGAATTATCGTTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACA
1 CTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACA
20187134 GAATTATCGT-TTTACC
66 GAATTA-C-TATTTACC
* * * * *
20187150 CTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTGCTGTTTTACCCTCGATTTACA
1 CTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACA
* *
20187215 GAATTACCATTTTACT
66 GAATTACTA-TTTACC
* * *
20187231 CTCGATTTACAGAATTACCATTTTACCCTTAATTTGTAGAATTACTGTTTTACCCTTGATTTACA
1 CTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACA
* **
20187296 AAATTACTAAAATACC
66 GAATTACT-ATTTACC
* * *
20187312 CTTGGTTTACAAAATTACCA
1 CTCGATTTACAGAATTACCA
20187332 AAATACCCTC
Statistics
Matches: 153, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 151 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (80 bp):
CTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTACA
GAATTACTATTTACC
Found at i:20187339 original size:54 final size:54
Alignment explanation
Indices: 20187281--20187613 Score: 271
Period size: 54 Copynumber: 6.1 Consensus size: 54
20187271 ATTACTGTTT
* **
20187281 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * * *
20187335 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * * *
20187388 TACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *** * ***
20187442 TACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * *
20187496 TACCCCTAATTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTACCA-AAA
* * * *
20187552 TACCATT-AGTTTACAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
20187606 CACCCTTG
1 TACCCTTG
20187614 TAGGATGAAA
Statistics
Matches: 218, Mismatches: 50, Indels: 21
0.75 0.17 0.07
Matches are distributed among these distances:
53 44 0.20
54 124 0.57
55 11 0.05
56 38 0.17
57 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:20187339 original size:81 final size:81
Alignment explanation
Indices: 20187187--20187429 Score: 182
Period size: 81 Copynumber: 3.0 Consensus size: 81
20187177 CTCGATTTAC
* * * * *** * * * * *
20187187 AGAATTGCTGTTTTACCCTCGATTTACAGAATTACCATTTTACTCTCGATTTACAGAATTACCAT
1 AGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
**
20187252 TTTACCCTTAATTTGT
66 AATACCCTTAATTTGT
20187268 AGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
1 AGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
** **
20187333 AATACCCTCGATCAGT
66 AATACCCTTAATTTGT
* ***** * * ** * * *
20187349 AAAATTACCAAAATACCC-TGGTCTGTAAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAA
1 AGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
* *
20187413 AATACCCCTAGTTTGT
66 AATACCCTTAATTTGT
20187429 A
1 A
20187430 AAGTTACCAA
Statistics
Matches: 125, Mismatches: 37, Indels: 1
0.77 0.23 0.01
Matches are distributed among these distances:
80 50 0.40
81 75 0.60
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (81 bp):
AGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
AATACCCTTAATTTGT
Found at i:20187406 original size:80 final size:81
Alignment explanation
Indices: 20187295--20187501 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
20187285 CTTGATTTAC
* *
20187295 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
20187359 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* * ** *
20187375 AAAATTGCTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
* *
20187440 AATACCATTGGTTTGT
66 AATACCACTGGTCTGT
* ** ** *
20187456 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTATAAAATTACCAAAATACCCC
20187502 TAATTTACAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 65 0.60
81 41 0.38
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:20187674 original size:27 final size:27
Alignment explanation
Indices: 20187631--20187704 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
20187621 AAATGACTAC
* *
20187631 AATACCCCTAATA-GGTAAAAATACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
*
20187658 AA-AGCCCCTGTAGGGTAAAGAGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
20187685 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
20187705 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:20188440 original size:20 final size:20
Alignment explanation
Indices: 20188406--20188481 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
20188396 GATACGTGGG
20188406 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
20188423 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
20188444 GCATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
*
20188464 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
20188482 GAATTCATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 41 0.79
21 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:20188442 original size:11 final size:11
Alignment explanation
Indices: 20188426--20188481 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
20188416 CATGATTGAT
20188426 ATGATATGCAC
1 ATGATATGCAC
20188437 ATGATATG--C
1 ATGATATGCAC
20188446 ATGATATGCAC
1 ATGATATGCAC
*
20188457 ATGATATG--T
1 ATGATATGCAC
*
20188466 ATGAAATGCAC
1 ATGATATGCAC
20188477 ATGAT
1 ATGAT
20188482 GAATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:20188654 original size:25 final size:26
Alignment explanation
Indices: 20188531--20188689 Score: 216
Period size: 26 Copynumber: 6.2 Consensus size: 26
20188521 GAGGAAGTGC
*
20188531 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
20188557 AAAAGGGCTTATGCCACAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
20188583 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
20188609 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
20188635 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
20188660 AAAAGGGCTT-TGCCCCAG-TTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
20188684 AAAAGG
1 AAAAGG
20188690 CTAGGCCTCC
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
24 9 0.08
25 30 0.26
26 78 0.67
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:20188884 original size:42 final size:42
Alignment explanation
Indices: 20188824--20188915 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20188814 TAGTCTCCCC
*
20188824 AAATGGGCTTGCACACATTCATTGGTATTTCAGGTGATATTG
1 AAATGGGCTTGCACACATTCATTGATATTTCAGGTGATATTG
* * *
20188866 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCACACATTCATTGATATTTCAGGTGATATTG
20188908 AAATGGGC
1 AAATGGGC
20188916 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCACACATTCATTGATATTTCAGGTGATATTG
Found at i:20188974 original size:31 final size:31
Alignment explanation
Indices: 20188939--20189017 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
20188929 CGTTTACAAT
20188939 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
20188970 AAAGGCTTTGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20189001 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
20189018 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:20208590 original size:22 final size:21
Alignment explanation
Indices: 20208564--20208620 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
20208554 ATGTTTACTT
20208564 ATATTATAAGTAAATAATAATA
1 ATATTATAA-TAAATAATAATA
20208586 ATATTACT-A-AAAT-ATAATA
1 ATATTA-TAATAAATAATAATA
*
20208605 ATAATATAATAAATAA
1 ATATTATAATAAATAA
20208621 AAGAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 8 0.27
21 1 0.03
22 7 0.23
23 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATTATAATAAATAATAATA
Found at i:20208622 original size:25 final size:22
Alignment explanation
Indices: 20208577--20208617 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20208567 TTATAAGTAA
*
20208577 ATAATAATAATATTACTAAAAT
1 ATAATAATAATATTAATAAAAT
20208599 ATAATAATAATA-TAATAAA
1 ATAATAATAATATTAATAAA
20208618 TAAAAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAATAATAATATTAATAAAAT
Found at i:20208688 original size:31 final size:31
Alignment explanation
Indices: 20208620--20208688 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
20208610 ATAATAAATA
*
20208620 AAAG-AAACAAAATAGAAAAAGGGAACAGAG
1 AAAGAAAACAAAATAGAAAAAAGGAACAGAG
*
20208650 AATGAAAACAAAATAGAAAGAAAAGGAA-AG-G
1 AAAGAAAACAAAATAG-AA-AAAAGGAACAGAG
20208681 AAAGAAAA
1 AAAGAAAA
20208689 AGAAAAGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 19 0.58
32 4 0.12
33 7 0.21
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (31 bp):
AAAGAAAACAAAATAGAAAAAAGGAACAGAG
Found at i:20210396 original size:277 final size:276
Alignment explanation
Indices: 20209904--20210421 Score: 993
Period size: 277 Copynumber: 1.9 Consensus size: 276
20209894 AGGAATGATA
*
20209904 TGTACCTAGGTTGTCTTAATGTTATTTTGAGTATGAATATTACTAGTGTAAGGATGATAAAGGTT
1 TGTACCTAAGTTGTCTTAATGTTATTTTGAGTATGAATATTACTAGTGTAAGGATGATAAAGGTT
20209969 AATCTATATAAGCAAAATTTATGTTTATAAAATAGTCACTTATATAGTTTATTTTGAATTGATTT
66 AATCTATATAAGCAAAATTTATGTTTATAAAATAGTCACTTATATAGTTTATTTTGAATTGATTT
20210034 GGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTTAAATAGTTATCAAAAATACGTGAGTTA
131 GGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTTAAATAGTTATCAAAAATACGTGAGTTA
*
20210099 AATCATTATACTAGTGGTTTTA-TGTGTATTAGATATGTTTAATCAAAATAAACTATATAAGTGA
196 AATAATTATACTAGTGGTTTTAGTGTGTATTAGATATGTTTAATCAAAATAAACTATATAAGTGA
20210163 CTATTTTATAAATCAT
261 CTATTTTATAAATCAT
20210179 TGTACCTAAGTTGTCTTAATGTTATTTTGAGTATGAATATTACTAGTGTAAGGATGATAAAGGTT
1 TGTACCTAAGTTGTCTTAATGTTATTTTGAGTATGAATATTACTAGTGTAAGGATGATAAAGGTT
20210244 AATCTATATAAGCAAAATTTATGTTTAATCAAAATAGTCACTTATATAGTTTATTTTGAATTGAT
66 AATCTATATAAGCAAAATTTATGTTT-AT-AAAATAGTCACTTATATAGTTTATTTTGAATTGAT
20210309 TTGGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTTAAATAGTTATCAAAAATACGTGAGT
129 TTGGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTTAAATAGTTATCAAAAATACGTGAGT
20210374 TAAATAATTATACTAGTGGTTTTAGTGTGTATTAGATATGTTTAATCA
194 TAAATAATTATACTAGTGGTTTTAGTGTGTATTAGATATGTTTAATCA
20210422 TGTTTTGGAC
Statistics
Matches: 238, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
275 90 0.38
276 2 0.01
277 123 0.52
278 23 0.10
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (276 bp):
TGTACCTAAGTTGTCTTAATGTTATTTTGAGTATGAATATTACTAGTGTAAGGATGATAAAGGTT
AATCTATATAAGCAAAATTTATGTTTATAAAATAGTCACTTATATAGTTTATTTTGAATTGATTT
GGATGGTATTTAAGTATAATGTTTGGAAACTCTATGTTAAATAGTTATCAAAAATACGTGAGTTA
AATAATTATACTAGTGGTTTTAGTGTGTATTAGATATGTTTAATCAAAATAAACTATATAAGTGA
CTATTTTATAAATCAT
Found at i:20210591 original size:41 final size:42
Alignment explanation
Indices: 20210517--20210596 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
20210507 AGTTTGAGTC
20210517 CACACGGCATGTCACACAAGCATGTGATCAGACCGTGTGAGA
1 CACACGGCATGTCACACAAGCATGTGATCAGACCGTGTGAGA
* **
20210559 CACACGGCTTGT-ACACGGGCATGTTGAT-AGACCGTGTG
1 CACACGGCATGTCACACAAGCATG-TGATCAGACCGTGTG
20210597 TCCCCTGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 19 0.56
42 15 0.44
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (42 bp):
CACACGGCATGTCACACAAGCATGTGATCAGACCGTGTGAGA
Found at i:20213089 original size:16 final size:17
Alignment explanation
Indices: 20213064--20213097 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
20213054 GTTTATGAGT
20213064 TTTCCTATTTAAATTTA
1 TTTCCTATTTAAATTTA
20213081 TTTCC-ATTTAAATTTA
1 TTTCCTATTTAAATTTA
20213097 T
1 T
20213098 AAATATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCCTATTTAAATTTA
Found at i:20218505 original size:30 final size:30
Alignment explanation
Indices: 20218433--20218505 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
20218423 GATTAAATCA
*
20218433 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * * *
20218463 ACAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
20218494 AAATTAAAGTTT
1 AAATTAAAGTTT
20218506 TATATATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:20225701 original size:28 final size:27
Alignment explanation
Indices: 20225640--20225702 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
20225630 ATAGATAAAA
*
20225640 AATTTAAAAAAAATTATTTGATCTTCT
1 AATTTAAAAAAAATTATTTGAGCTTCT
*
20225667 AACTTTATAAAAAAATTATTTTAGCTCTCT
1 AA-TTTA-AAAAAAATTATTTGAGCT-TCT
20225697 -ATTTAA
1 AATTTAA
20225703 TTTTTAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 3 0.10
28 8 0.26
29 17 0.55
30 3 0.10
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (27 bp):
AATTTAAAAAAAATTATTTGAGCTTCT
Found at i:20225986 original size:57 final size:57
Alignment explanation
Indices: 20225898--20226013 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
20225888 ATCACACTAT
*
20225898 ATAGTTGATTCTTAAGAAATTAGTTACCTAAAATACTGATATTCTATATTAGTTAAG
1 ATAGTTGATTCTTAAGAAATTAGTTACCTAAAATACTGATATTCTATATCAGTTAAG
*
20225955 ATAGTTGATTCTTAGGAAATTAGTTACCTAAAATACTGATATTCTATATCAGTTAAG
1 ATAGTTGATTCTTAAGAAATTAGTTACCTAAAATACTGATATTCTATATCAGTTAAG
20226012 AT
1 AT
20226014 TTTGTATGTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (57 bp):
ATAGTTGATTCTTAAGAAATTAGTTACCTAAAATACTGATATTCTATATCAGTTAAG
Found at i:20231929 original size:53 final size:54
Alignment explanation
Indices: 20231836--20231943 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 54
20231826 TATTGAAAAG
* *
20231836 TTTATTTTAGGAAATAGAAAAACAAATATTGACTTGGATCGAATTATAAAGTAT
1 TTTATTTTAGGAAACAGAAAAACAAATATCGACTTGGATCGAATTATAAAGTAT
* *
20231890 TTTATTTTGGGAAACAG-AAAACAAATATCGAGTTGGATCGAATTATAAAGTAT
1 TTTATTTTAGGAAACAGAAAAACAAATATCGACTTGGATCGAATTATAAAGTAT
20231943 T
1 T
20231944 CATTTAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 35 0.70
54 15 0.30
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (54 bp):
TTTATTTTAGGAAACAGAAAAACAAATATCGACTTGGATCGAATTATAAAGTAT
Found at i:20241089 original size:14 final size:14
Alignment explanation
Indices: 20241070--20241098 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20241060 TTTGTTGAGG
20241070 GATTTTCGATGATT
1 GATTTTCGATGATT
20241084 GATTTTCGATGATT
1 GATTTTCGATGATT
20241098 G
1 G
20241099 CTCTCCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (14 bp):
GATTTTCGATGATT
Found at i:20245069 original size:27 final size:28
Alignment explanation
Indices: 20244985--20245082 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
20244975 CATGAGATTG
* * *
20244985 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
20245014 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
20245042 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20245069 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
20245083 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20245096 original size:29 final size:27
Alignment explanation
Indices: 20245013--20245096 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
20245003 TAAATTGTTC
* *
20245013 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
20245041 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
20245068 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
20245097 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:20249398 original size:57 final size:57
Alignment explanation
Indices: 20249305--20249473 Score: 223
Period size: 57 Copynumber: 3.0 Consensus size: 57
20249295 CACTGTATAC
* ** *
20249305 CTGATTCTTAGGAGATTAGTTACCTAAAATAATGATATTTTATACAAGTTAAGATAG
1 CTGATTCTTAGAAGATTAGTTACCTAAAATAATGATATTTTATATTAGTTAAGATAA
* * * *
20249362 CTGATTCTTAGAAGATTAATTACCTGAAATACTGATATTTTATATTAGTTAAGACAA
1 CTGATTCTTAGAAGATTAGTTACCTAAAATAATGATATTTTATATTAGTTAAGATAA
* * *
20249419 CTGATTCTCACGAA-ATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAGAT
1 CTGATTCTTA-GAAGATTAGTTACCTAAAATAATGATATTTTATATTAGTTAAGAT
20249474 TTTGTATTTC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 94 0.97
58 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (57 bp):
CTGATTCTTAGAAGATTAGTTACCTAAAATAATGATATTTTATATTAGTTAAGATAA
Found at i:20250265 original size:18 final size:16
Alignment explanation
Indices: 20250232--20250264 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20250222 AATTCTATCG
20250232 GTTTCTATAAGAGAGA
1 GTTTCTATAAGAGAGA
*
20250248 GTTTCTATAAAAGAGA
1 GTTTCTATAAGAGAGA
20250264 G
1 G
20250265 ATTTACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
GTTTCTATAAGAGAGA
Found at i:20252183 original size:19 final size:19
Alignment explanation
Indices: 20252159--20252195 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20252149 CATGTGTGTG
*
20252159 TTACCCTCGTATGATATCC
1 TTACCCTCATATGATATCC
20252178 TTACCCTCATATGATATC
1 TTACCCTCATATGATATC
20252196 ATTGATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (19 bp):
TTACCCTCATATGATATCC
Found at i:20267799 original size:93 final size:93
Alignment explanation
Indices: 20267687--20267857 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20267677 GCCCCTAAGT
* *
20267687 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20267752 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
20267780 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20267845 CGAGTTCAGATGC
66 CGAGCTCAGATGC
20267858 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:20267851 original size:46 final size:46
Alignment explanation
Indices: 20267682--20267848 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
20267672 AACCCGCCCC
* * *
20267682 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* *
20267728 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-CA
* *
20267778 T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
20267821 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
20267849 TTCAGATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 56 0.55
47 28 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:20267873 original size:46 final size:46
Alignment explanation
Indices: 20267684--20267873 Score: 110
Period size: 46 Copynumber: 4.1 Consensus size: 46
20267674 CCCGCCCCTA
* ** * *
20267684 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCTCAACCATCC-T
*
20267729 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCTC-A---ACCATC-CT
* * * * * *
20267779 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC--AGATGCT-CAACCATCCT
*
20267823 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCTCAACCATCCT
20267869 AGTGA
1 AGTGA
20267874 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 63 0.56
47 28 0.25
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCTCAACCATCCT
Found at i:20270267 original size:15 final size:15
Alignment explanation
Indices: 20270245--20270322 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
20270235 AAGAAACCGA
20270245 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
20270260 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
20270274 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
20270289 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
20270305 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
20270320 ATA
1 ATA
20270323 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20270277 original size:30 final size:30
Alignment explanation
Indices: 20270235--20270322 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
20270225 CAAAGATAAC
20270235 AAGAAA-CC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
20270263 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
20270293 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
20270323 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.10
29 4 0.08
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:20276524 original size:16 final size:18
Alignment explanation
Indices: 20276489--20276526 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20276479 ATCGTTATTT
20276489 AAATAAAATACAATGGTA
1 AAATAAAATACAATGGTA
20276507 AAATAAAATA-AA-GGTA
1 AAATAAAATACAATGGTA
20276523 AAAT
1 AAAT
20276527 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATGGTA
Found at i:20277866 original size:44 final size:44
Alignment explanation
Indices: 20277802--20277913 Score: 190
Period size: 44 Copynumber: 2.5 Consensus size: 44
20277792 CATAGGATTC
* *
20277802 CGATATATGTGTGCGAGTAAGACCATGGGATTGATATGTGAC-T
1 CGATATATGTGTGCGAGTAAGACCATGGCATCGATATGTGACTT
20277845 CTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGTGACTT
1 C-GATATATGTGTGCGAGTAAGACCATGGCATCGATATGTGACTT
20277890 CGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
20277914 CTGTCTGGGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 1 0.02
44 62 0.95
45 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (44 bp):
CGATATATGTGTGCGAGTAAGACCATGGCATCGATATGTGACTT
Found at i:20280218 original size:27 final size:27
Alignment explanation
Indices: 20280195--20280318 Score: 203
Period size: 27 Copynumber: 4.6 Consensus size: 27
20280185 AAGTACCATT
*
20280195 GATTTATAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
*
20280222 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
* *
20280249 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACTGTTTTACCCTC
20280276 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
*
20280303 GATTTACAAAATTACT
1 GATTTACAGAATTACT
20280319 AAAATACCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACTGTTTTACCCTC
Found at i:20280219 original size:54 final size:54
Alignment explanation
Indices: 20280161--20280290 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
20280151 ATTACTGAAA
*
20280161 TACCCTCAAATTGTA-A-AATTACCAAAGTACCATTGATTTATAGAATTACTGTTT
1 TACCCTC-AATT-TACAGAATTACCAAAGTACCATCGATTTATAGAATTACTGTTT
* **** *
20280215 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAGTACCATCGATTTATAGAATTACTGTTT
**
20280269 TACCCTTGATTTACAGAATTAC
1 TACCCTCAATTTACAGAATTAC
20280291 TGTTTTACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 4 0.06
54 60 0.91
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTACCAAAGTACCATCGATTTATAGAATTACTGTTT
Found at i:20280326 original size:27 final size:27
Alignment explanation
Indices: 20280296--20280570 Score: 222
Period size: 27 Copynumber: 10.2 Consensus size: 27
20280286 ATTACTGTTT
* *
20280296 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
20280323 TACCATCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
20280350 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
20280377 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
20280403 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
20280430 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
20280457 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
20280484 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
20280511 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
20280538 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
20280565 TACCCT
1 TACCCT
20280571 TGACTTTCTA
Statistics
Matches: 205, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
26 27 0.13
27 176 0.86
28 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:20280336 original size:54 final size:54
Alignment explanation
Indices: 20280215--20280345 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
20280205 ATTACTGTTT
* * ****
20280215 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
20280269 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* * *
20280323 TACCATCGGTTTACAAAATTACC
1 TACCCTCGATTTACAGAATTACC
20280346 AAAATACCCT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:20280343 original size:81 final size:81
Alignment explanation
Indices: 20280188--20280344 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
20280178 ATTACCAAAG
* * **** *
20280188 TACCATTGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCATTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCGATT
* *
20280253 TATAGAATTACTGTTT
66 TACAAAATTACTGTTT
* * *
20280269 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCATCGGTT
1 TACCATTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCGATT
20280334 TACAAAATTAC
66 TACAAAATTAC
20280345 CAAAATACCC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (81 bp):
TACCATTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAAAATACCATCGATT
TACAAAATTACTGTTT
Found at i:20280354 original size:54 final size:55
Alignment explanation
Indices: 20280296--20280648 Score: 231
Period size: 54 Copynumber: 6.5 Consensus size: 55
20280286 ATTACTGTTT
** *
20280296 TACCCTCGA-TTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
** * * * ** * *
20280350 TACCCTCGA-TCAGTAAAATTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
* * ** **
20280403 TACCCT-TAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
* *** *
20280457 TACCC-CTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACCGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCATC-GGTTTACAAAATTACCAAAA
* * * *
20280511 TACCCTC-AATTTGTAAAATTACCAAAATACC-CCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCATC-GGTTTACAAAATTACCA-AAA
* * * *** * * **
20280565 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTAACAAAACTACTGAAA
1 TACCCTCGAGTTTGT-AAAATTACCAAAATACCATCGGTTT-ACAAAATTACCAAAA
* * *
20280622 TACCCTTG-GTTTGTAGATTTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAA
20280649 CACCCTTGTA
Statistics
Matches: 236, Mismatches: 51, Indels: 23
0.76 0.16 0.07
Matches are distributed among these distances:
52 1 0.00
53 44 0.19
54 137 0.58
55 14 0.06
56 22 0.09
57 18 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (55 bp):
TACCCTCGAGTTTGTAAAATTACCAAAATACCATCGGTTTACAAAATTACCAAAA
Found at i:20280354 original size:81 final size:81
Alignment explanation
Indices: 20280175--20280355 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 81
20280165 CTCAAATTGT
* * * * **
20280175 AAAATTACCAAAGTACCATTGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
** * *
20280240 TTTACCCTCGATTTAT
66 AATACCATCGATTTAC
* ***** *
20280256 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
*
20280321 AATACCATCGGTTTAC
66 AATACCATCGATTTAC
20280337 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
20280356 CGATCAGTAA
Statistics
Matches: 77, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
AATACCATCGATTTAC
Found at i:20280381 original size:81 final size:80
Alignment explanation
Indices: 20280296--20280568 Score: 291
Period size: 81 Copynumber: 3.4 Consensus size: 80
20280286 ATTACTGTTT
** * *
20280296 TACCCTCGATTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCAAAATACCCTCAATT
*
20280361 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * **
20280377 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCAAAATACCCTCAATT
20280441 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * * *
20280457 TACCCCTAGTTTGTAAAATTACCAAAATACCA-CTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCATC-GGTTTGTAAAATTACCAAAATACCCTCAAT
20280521 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
20280538 TACCCCTGATTTACAAAGTTAC-AGAAATACC
1 TACCCC-GATTTACAAAATTACTA-AAATACC
20280569 CTTGACTTTC
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.01
80 65 0.40
81 94 0.58
82 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCATCGGTTTGTAAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:20280751 original size:27 final size:27
Alignment explanation
Indices: 20280674--20280751 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
20280664 AAATGACTAA
* *
20280674 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
20280701 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
20280728 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
20280752 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:20281581 original size:26 final size:26
Alignment explanation
Indices: 20281552--20281701 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
20281542 GAGGAAGTGC
*
20281552 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
20281578 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20281604 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
20281630 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20281656 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20281682 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20281702 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.09
26 105 0.91
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20281630 original size:52 final size:52
Alignment explanation
Indices: 20281552--20281701 Score: 284
Period size: 52 Copynumber: 2.9 Consensus size: 52
20281542 GAGGAAGTGC
*
20281552 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
20281604 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
20281656 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
20281702 ATTAAAGAGG
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 10 0.10
52 87 0.90
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:20281922 original size:42 final size:42
Alignment explanation
Indices: 20281846--20281937 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
20281836 TAGTCTCCCC
* ** *
20281846 AAATGGGCTTGCATACATTAATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
* *
20281888 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
*
20281930 AAACGGGC
1 AAATGGGC
20281938 CTATGGGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCAATTGACATTACATGTGATATTG
Found at i:20282008 original size:31 final size:31
Alignment explanation
Indices: 20281961--20282039 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
20281951 CGTTTACAGT
*
20281961 AAAGTCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
20281992 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
20282023 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
20282040 AATCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:20291135 original size:27 final size:27
Alignment explanation
Indices: 20291103--20291156 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
20291093 CTTATTCTTA
*
20291103 GTGTTCTTAGAGTTAGTTAAGTTAGTT
1 GTGTTCTTAGAATTAGTTAAGTTAGTT
*
20291130 GTGTTCTTGGAATTAGTTAAGTTAGTT
1 GTGTTCTTAGAATTAGTTAAGTTAGTT
20291157 ATCATTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.48
Consensus pattern (27 bp):
GTGTTCTTAGAATTAGTTAAGTTAGTT
Found at i:20295198 original size:26 final size:26
Alignment explanation
Indices: 20295162--20295213 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20295152 TAGGTGATAC
20295162 CCTAACTGAGTATCACAATATCCCTT
1 CCTAACTGAGTATCACAATATCCCTT
20295188 CCTAACTGAGTATCACAATATCCCTT
1 CCTAACTGAGTATCACAATATCCCTT
20295214 ATTTTGGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (26 bp):
CCTAACTGAGTATCACAATATCCCTT
Found at i:20297403 original size:49 final size:49
Alignment explanation
Indices: 20297331--20297459 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
20297321 ATTAAAGTCA
* ** *
20297331 ATGCCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
* * * * *
20297380 ATGCCATGTCCCAAAAAGGTCTTACACTGGCCCTCATTTATCAATGTCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
*
20297429 ATGCCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAAACAGGTCTTACACTGAC
20297460 AGCTAACAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
Found at i:20297621 original size:46 final size:46
Alignment explanation
Indices: 20297520--20297640 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
20297510 ATCCCGAGGT
* * * * *
20297520 CGATGCATGTCCCAGACATGTCTTACAATAGCTCTCGTCTCAATGT
1 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAATGC
* * **
20297566 CGATACATGTCCCAAACATGTCTTACACTAGCACTCATGT-TGTGGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAAT-GC
*
20297612 CGATGCATGTCCCTAACATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
20297641 GGCTCACATA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAATGC
Found at i:20298067 original size:33 final size:31
Alignment explanation
Indices: 20297989--20298074 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
20297979 AGCCCTTCCT
* *
20297989 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATACAACCAAAAACAGCAAATATA
* *
20298020 GCATAAAATGCAACCAAAAACAGCAAATTTA
1 GCATAAAATACAACCAAAAACAGCAAATATA
20298051 GCATAAAAAATACAACCAAAAACA
1 GCAT--AAAATACAACCAAAAACA
20298075 TTAATTCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 32 0.65
33 17 0.35
ACGTcount: A:0.58, C:0.21, G:0.07, T:0.14
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAGCAAATATA
Found at i:20298796 original size:13 final size:14
Alignment explanation
Indices: 20298770--20298798 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20298760 ACTAATGATG
20298770 AATTAAACCATTAT
1 AATTAAACCATTAT
20298784 AATTAAA-CATTAT
1 AATTAAACCATTAT
20298797 AA
1 AA
20298799 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:20303848 original size:9 final size:9
Alignment explanation
Indices: 20303834--20303974 Score: 201
Period size: 9 Copynumber: 15.7 Consensus size: 9
20303824 TAAGTATAAT
20303834 TAAGTTATG
1 TAAGTTATG
*
20303843 TAAGTTCTG
1 TAAGTTATG
20303852 TAAGTTATG
1 TAAGTTATG
20303861 TAAGTTATG
1 TAAGTTATG
*
20303870 TAAGTTATA
1 TAAGTTATG
20303879 TAAGTTATG
1 TAAGTTATG
*
20303888 TGAGTTATG
1 TAAGTTATG
*
20303897 TGAGTTATG
1 TAAGTTATG
*
20303906 TGAGTTATG
1 TAAGTTATG
*
20303915 TGAGTTATG
1 TAAGTTATG
20303924 TAAGTTATG
1 TAAGTTATG
*
20303933 TAAGTTATA
1 TAAGTTATG
*
20303942 TAAGTTATA
1 TAAGTTATG
20303951 TAAGTTATG
1 TAAGTTATG
*
20303960 TGAGTTATG
1 TAAGTTATG
20303969 TAAGTT
1 TAAGTT
20303975 CAAGTATATA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 122 1.00
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:20304282 original size:29 final size:29
Alignment explanation
Indices: 20304249--20304312 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
20304239 ATGCAAAAAC
*
20304249 AAATTATTTTAATTAAATAATATTTATAA-
1 AAATTATATTAATTAAATAATATTTA-AAT
*
20304278 AAATTATATTAATTTAATAATATTTAAAT
1 AAATTATATTAATTAAATAATATTTAAAT
20304307 AAATTA
1 AAATTA
20304313 ATCCAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAATTATATTAATTAAATAATATTTAAAT
Found at i:20304335 original size:15 final size:14
Alignment explanation
Indices: 20304249--20304333 Score: 52
Period size: 15 Copynumber: 6.2 Consensus size: 14
20304239 ATGCAAAAAC
*
20304249 AAATTATTTTAATT
1 AAATTATATTAATT
* * *
20304263 AAATAATATTTATAA
1 AAATTATATTAAT-T
20304278 AAATTATATTAATT
1 AAATTATATTAATT
* *
20304292 TAA-TA-A-TATTT
1 AAATTATATTAATT
* *
20304303 AAA-TAAATTAATCC
1 AAATTATATTAAT-T
20304317 AAATTATATTAATT
1 AAATTATATTAATT
20304331 AAA
1 AAA
20304334 ATAAGATTGA
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 5 0.10
14 18 0.35
15 19 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATATTAATT
Found at i:20304579 original size:24 final size:24
Alignment explanation
Indices: 20304547--20304593 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
20304537 TTAACTTAAA
*
20304547 TGATAAAACGGATGATAATATTTG
1 TGATAAAACGGATGAGAATATTTG
*
20304571 TGATAAAACGTATGAGAATATTT
1 TGATAAAACGGATGAGAATATTT
20304594 AAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (24 bp):
TGATAAAACGGATGAGAATATTTG
Found at i:20307298 original size:27 final size:28
Alignment explanation
Indices: 20307257--20307311 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
20307247 TGCAACAGAG
20307257 GAGTGCGACAGTGATGCAACAGATGGTC
1 GAGTGCGACAGTGATGCAACAGATGGTC
* *
20307285 GAGT-CGACGGTGATGCGACAGATGGTC
1 GAGTGCGACAGTGATGCAACAGATGGTC
20307312 AGGTCCGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.25, C:0.18, G:0.38, T:0.18
Consensus pattern (28 bp):
GAGTGCGACAGTGATGCAACAGATGGTC
Found at i:20308053 original size:26 final size:26
Alignment explanation
Indices: 20308024--20308124 Score: 134
Period size: 26 Copynumber: 3.9 Consensus size: 26
20308014 AAGAATTAGA
*
20308024 TAAATTTTGAAATATTGAAAATTATT
1 TAAATTTTGAAATCTTGAAAATTATT
*
20308050 TAAAATTTGAAATCTTGAAAATTATT
1 TAAATTTTGAAATCTTGAAAATTATT
*
20308076 TAAAATTTT-AATTCTTGAAAATTATT
1 T-AAATTTTGAAATCTTGAAAATTATT
*
20308102 CTAAA-TTTGAAATCTTTAAAATT
1 -TAAATTTTGAAATCTTGAAAATT
20308125 TGAAATTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.05
26 56 0.85
27 7 0.11
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (26 bp):
TAAATTTTGAAATCTTGAAAATTATT
Found at i:20308422 original size:38 final size:38
Alignment explanation
Indices: 20308374--20308446 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
20308364 ATAAACCATA
*
20308374 AACCCCTAACCCATGTCCCCTTAACCATTAAACCCCTT
1 AACCCCTAACCCATATCCCCTTAACCATTAAACCCCTT
**
20308412 AACCCCTAACCTTTATCCCCTTAACCATTAAACCC
1 AACCCCTAACCCATATCCCCTTAACCATTAAACCC
20308447 ATAACCTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.44, G:0.01, T:0.25
Consensus pattern (38 bp):
AACCCCTAACCCATATCCCCTTAACCATTAAACCCCTT
Found at i:20308451 original size:15 final size:15
Alignment explanation
Indices: 20308433--20308498 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
20308423 TTTATCCCCT
*
20308433 TAACCATTAAACCCA
1 TAACCCTTAAACCCA
*
20308448 TAA-CC-TATAACCCT
1 TAACCCTTA-AACCCA
*
20308462 TGACCCTTAAACCCA
1 TAACCCTTAAACCCA
*
20308477 TAACCCTTAAAACCCT
1 TAACCCTT-AAACCCA
20308493 TAACCC
1 TAACCC
20308499 ATACCCACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 17 0.41
16 14 0.34
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.23
Consensus pattern (15 bp):
TAACCCTTAAACCCA
Found at i:20308462 original size:29 final size:31
Alignment explanation
Indices: 20308429--20308497 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
20308419 AACCTTTATC
*
20308429 CCCTTAACCATTAAACCCATAA-CC-TATAA
1 CCCTTAACCATTAAACCCATAACCCTTAAAA
* *
20308458 CCCTTGACCCTTAAACCCATAACCCTTAAAA
1 CCCTTAACCATTAAACCCATAACCCTTAAAA
20308489 CCCTTAACC
1 CCCTTAACC
20308498 CATACCCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 20 0.59
30 2 0.06
31 12 0.35
ACGTcount: A:0.36, C:0.39, G:0.01, T:0.23
Consensus pattern (31 bp):
CCCTTAACCATTAAACCCATAACCCTTAAAA
Found at i:20308582 original size:7 final size:7
Alignment explanation
Indices: 20308570--20308609 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
20308560 AATATTAACT
20308570 CATAAAC
1 CATAAAC
20308577 CATAAAC
1 CATAAAC
*
20308584 CCTAAAC
1 CATAAAC
20308591 CATAAAC
1 CATAAAC
*
20308598 CCTAAAC
1 CATAAAC
*
20308605 TATAA
1 CATAA
20308610 TGCTAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
CATAAAC
Found at i:20308591 original size:14 final size:14
Alignment explanation
Indices: 20308572--20308609 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
20308562 TATTAACTCA
20308572 TAAACCATAAACCC
1 TAAACCATAAACCC
20308586 TAAACCATAAACCC
1 TAAACCATAAACCC
*
20308600 TAAACTATAA
1 TAAACCATAA
20308610 TGCTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:20309425 original size:40 final size:41
Alignment explanation
Indices: 20309381--20309473 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
20309371 GGTGAACCTA
20309381 TAGCGGCGTTTTTT-ATA-AAGCGCCGCTAATGCTCATTCTT
1 TAGCGGCGTTTTTTGA-AGAAGCGCCGCTAATGCTCATTCTT
* *
20309421 TAGCGG-ATTTTTTGAAGAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTTGAAGAAGCGCCGCTAATGCTCATTCTT
*
20309461 TAGCAGCGTTTTT
1 TAGCGGCGTTTTT
20309474 CATTAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 7 0.15
40 34 0.74
41 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TAGCGGCGTTTTTTGAAGAAGCGCCGCTAATGCTCATTCTT
Found at i:20311227 original size:22 final size:21
Alignment explanation
Indices: 20311188--20311228 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
20311178 CACTAGACAG
* *
20311188 AGGGGCACACGGCTGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
20311209 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
20311229 ACCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.24, G:0.44, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGA
Found at i:20312662 original size:46 final size:47
Alignment explanation
Indices: 20312432--20312704 Score: 193
Period size: 46 Copynumber: 5.7 Consensus size: 47
20312422 TATCTTAAGT
*
20312432 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGTCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCTCGTC-TCGAGGC
* * * * * * * * *
20312481 TGACGCCATGTCCTAGACATGTTTTTACACTAGCTCTCACATATCTG-TGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCT--CGTCTC-GAGGC
* * * *
20312531 CGATTCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GC
1 CGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCG-AGGC
* * * *
20312577 CGATACATGTCCCATACAT-GTCTGACACTGGCT-TACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCTCGAGGC
** * *
20312623 TAATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCGAGGC
20312669 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTC
20312705 ACAATAACCC
Statistics
Matches: 174, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.05
45 17 0.10
46 56 0.32
47 15 0.09
48 16 0.09
49 30 0.17
50 28 0.16
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCGAGGC
Found at i:20313391 original size:13 final size:13
Alignment explanation
Indices: 20313373--20313397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20313363 CTAAAAGTAC
20313373 AAAAATCATCAAG
1 AAAAATCATCAAG
20313386 AAAAATCATCAA
1 AAAAATCATCAA
20313398 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:20328279 original size:19 final size:20
Alignment explanation
Indices: 20328242--20328280 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
20328232 ATAACGAGCA
20328242 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
20328262 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
20328281 CGTTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:20331398 original size:44 final size:44
Alignment explanation
Indices: 20331335--20331422 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
20331325 TGTGTTGAAG
20331335 ACTTGTTAGCTAATTGTAATGTTATTTGAGTTGTTTTAAGATTC
1 ACTTGTTAGCTAATTGTAATGTTATTTGAGTTGTTTTAAGATTC
20331379 ACTTGTTAGCTAATTGTAATGTTATTTGAGTTGTTTTAAGATTC
1 ACTTGTTAGCTAATTGTAATGTTATTTGAGTTGTTTTAAGATTC
20331423 CCTAACCCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (44 bp):
ACTTGTTAGCTAATTGTAATGTTATTTGAGTTGTTTTAAGATTC
Found at i:20333083 original size:26 final size:27
Alignment explanation
Indices: 20333054--20333114 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
20333044 CACCAATATC
*
20333054 GTAGCAAAACTGCCAGTAATAAT-AAT
1 GTAGCAAAACTGCCAGAAATAATAAAT
* * *
20333080 GTAGCATAGCTGCCAGAAATAGTAAAT
1 GTAGCAAAACTGCCAGAAATAATAAAT
*
20333107 GTGGCAAA
1 GTAGCAAA
20333115 GCCACCAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
GTAGCAAAACTGCCAGAAATAATAAAT
Found at i:20333322 original size:27 final size:27
Alignment explanation
Indices: 20333292--20333463 Score: 200
Period size: 27 Copynumber: 6.4 Consensus size: 27
20333282 GGCATAATCA
* * *
20333292 TCATTTTACCATACATGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
20333319 TCATTTTACCCTATAGGGGCATTACGT
1 TCATTTTACCCTACAGGGGCATTACGG
* *
20333346 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
20333373 TTATTTTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
20333400 TAATTTTACCCTACAGTGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
20333427 TCATTTTACCCTAAAGAGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
20333454 TTATTTTACC
1 TCATTTTACC
20333464 AATTTTGGTG
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:20333431 original size:81 final size:81
Alignment explanation
Indices: 20333294--20333464 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
20333284 CATAATCATC
* * * *
20333294 ATTTTACCATACATGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGTTCATTTTACCCTA
1 ATTTTACCATACAGGGGCATTACGGTAATTTTACCCTACAGGGGCATTACGTTCATTTTACCCTA
* * *
20333359 TAGGGGTATTACGGTT
66 AAGAGGCATTACGGTT
* * *
20333375 ATTTTACCCTACAGGGGCATTATGGTAATTTTACCCTACAGTGGCATTACAG-TCATTTTACCCT
1 ATTTTACCATACAGGGGCATTACGGTAATTTTACCCTACAGGGGCATTAC-GTTCATTTTACCCT
*
20333439 AAAGAGGCATTATGGTT
65 AAAGAGGCATTACGGTT
20333456 ATTTTACCA
1 ATTTTACCA
20333465 ATTTTGGTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 76 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTTACCATACAGGGGCATTACGGTAATTTTACCCTACAGGGGCATTACGTTCATTTTACCCTA
AAGAGGCATTACGGTT
Found at i:20337891 original size:47 final size:47
Alignment explanation
Indices: 20337812--20338035 Score: 260
Period size: 47 Copynumber: 4.8 Consensus size: 47
20337802 GATATGCATT
* * *
20337812 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAG
* * *
20337860 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAG
20337906 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAG
* * * * *
20337952 ATGATAGTCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAG
* *
20337999 ATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
20338036 GACCATGTCT
Statistics
Matches: 152, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
45 3 0.02
46 62 0.41
47 64 0.42
48 23 0.15
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAG
Found at i:20337929 original size:46 final size:47
Alignment explanation
Indices: 20337812--20338032 Score: 245
Period size: 46 Copynumber: 4.7 Consensus size: 47
20337802 GATATGCATT
* * * *
20337812 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG
* * *
20337860 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAG
20337906 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAG
* * * * *
20337952 ATGATAGTCAGTGTAAGACCATGTCTGAGACATGGCATC-GACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG
* *
20337999 ATGTGAGCCAGTGTAAGACCATGTCTGGAACATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
20338033 GCAGACCATG
Statistics
Matches: 149, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.02
46 64 0.43
47 60 0.40
48 22 0.15
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAG
Found at i:20337977 original size:93 final size:93
Alignment explanation
Indices: 20337817--20338032 Score: 260
Period size: 93 Copynumber: 2.3 Consensus size: 93
20337807 GCATTATGAG
* * *
20337817 AGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCTAGTGTAAGACATG
* *
20337882 TCTGGGACAT-GCATCGGCCTCGAAATGTA
65 TCTGAGACATGGCATC-GACTCGAAATGTA
* *
20337911 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACGAGATGATAG-TCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGAGAGCT-AGTGTAAGA-CA
* * *
20337973 TGTCTGAGACATGGCATCGACTTGAGATGTG
63 TGTCTGAGACATGGCATCGACTCGAAATGTA
*
20338004 AGCCAGTGTAAGACCATGTCTGGAACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
20338033 GCAGACCATG
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
91 2 0.02
92 24 0.23
93 49 0.46
94 31 0.29
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGT
CTGAGACATGGCATCGACTCGAAATGTA
Found at i:20338038 original size:21 final size:21
Alignment explanation
Indices: 20338014--20338056 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20338004 AGCCAGTGTA
20338014 AGACCATGTCTGGAACATGGC
1 AGACCATGTCTGGAACATGGC
*
20338035 AGACCATGTCTGGGACATGGC
1 AGACCATGTCTGGAACATGGC
20338056 A
1 A
20338057 TTTGTAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (21 bp):
AGACCATGTCTGGAACATGGC
Found at i:20338912 original size:37 final size:37
Alignment explanation
Indices: 20338853--20338961 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
20338843 AGCTCAGATG
* *
20338853 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
20338890 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
20338927 TAATCTCCATACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
20338962 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:20339160 original size:48 final size:48
Alignment explanation
Indices: 20339102--20339345 Score: 425
Period size: 48 Copynumber: 5.0 Consensus size: 48
20339092 ATATACACAC
*
20339102 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
20339150 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
20339198 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
20339246 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
20339294 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
20339344 AT
1 AT
20339346 TTATCTTGTG
Statistics
Matches: 189, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 148 0.78
50 41 0.22
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:20362240 original size:17 final size:19
Alignment explanation
Indices: 20362211--20362245 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20362201 TTTCTTTTCT
20362211 CTTTGCAAAGCTC-TTCAG
1 CTTTGCAAAGCTCGTTCAG
20362229 CTTTGC-AAGCTCGTTCA
1 CTTTGCAAAGCTCGTTCA
20362246 ACCAATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (19 bp):
CTTTGCAAAGCTCGTTCAG
Found at i:20368672 original size:46 final size:47
Alignment explanation
Indices: 20368565--20368690 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
20368555 AAGCTGACAC
* * *
20368565 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTACATCCCAAGGCCGATG
* * *
20368613 -ATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAAGGCCGATG
*
20368658 CATGTCCCAGACATGTCTTACACTGGCTC-ACAT
1 CATGTCCCAGACATGTCTTACACTAGCTCTACAT
20368691 ACCACCCAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 12 0.18
46 31 0.46
47 25 0.37
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAAGGCCGATG
Found at i:20368964 original size:29 final size:29
Alignment explanation
Indices: 20368932--20368990 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
20368922 CCAACTTTTG
20368932 ACACATCATAAGCATGTTTCAATCATCTC
1 ACACATCATAAGCATGTTTCAATCATCTC
20368961 ACACATCATAAGCATGTTTCAATCATCTC
1 ACACATCATAAGCATGTTTCAATCATCTC
20368990 A
1 A
20368991 ATATCCTTTT
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:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (29 bp):
ACACATCATAAGCATGTTTCAATCATCTC
Found at i:20376398 original size:6 final size:6
Alignment explanation
Indices: 20376387--20376413 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20376377 AGATGAAACT
20376387 GAGGAA GAGGAA GAGGAA GAGGAA GAG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAG
20376414 AACGATTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:20379228 original size:25 final size:25
Alignment explanation
Indices: 20379176--20379229 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
20379166 AAGTACTTGA
* **
20379176 ACTTGGCTTCTTGGTTCAAATTGGT
1 ACTTGGCTTCTTGGTCCAAATTAAT
*
20379201 ACTTGGCTTTTTGGTCCAAATTAAT
1 ACTTGGCTTCTTGGTCCAAATTAAT
20379226 ACTT
1 ACTT
20379230 TCTGTGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (25 bp):
ACTTGGCTTCTTGGTCCAAATTAAT
Found at i:20379296 original size:31 final size:33
Alignment explanation
Indices: 20379256--20379322 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
20379246 TTGAACCATG
* * *
20379256 AAGCTAAGTTTAGGTA-TTAATTGG-AATAAAA
1 AAGCCAAGTTCAGGTACCTAATTGGAAATAAAA
20379287 AAGCCAAGTTCAGGTACCTAATTGGATAATAAAA
1 AAGCCAAGTTCAGGTACCTAATTGGA-AATAAAA
20379321 AA
1 AA
20379323 AAGTTTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.47
32 7 0.23
34 9 0.30
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
AAGCCAAGTTCAGGTACCTAATTGGAAATAAAA
Found at i:20381216 original size:24 final size:24
Alignment explanation
Indices: 20381188--20381236 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
20381178 CTTGAGCCTT
20381188 ATTGGATTACATTTTAAAGAAAGA
1 ATTGGATTACATTTTAAAGAAAGA
*
20381212 ATTGGATTACATTTTAAAGGAAGA
1 ATTGGATTACATTTTAAAGAAAGA
20381236 A
1 A
20381237 ATACCACCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (24 bp):
ATTGGATTACATTTTAAAGAAAGA
Found at i:20394353 original size:33 final size:33
Alignment explanation
Indices: 20394317--20394381 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 33
20394307 GGCCTTTCAC
20394317 TTTTTTGTTAATTAAGTTAATTAATTTAATTACT
1 TTTTTTG-TAATTAAGTTAATTAATTTAATTACT
20394351 TTTTTTGTAATTAAGTTAATTAATTTAATTA
1 TTTTTTGTAATTAAGTTAATTAATTTAATTA
20394382 ATCTCATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (33 bp):
TTTTTTGTAATTAAGTTAATTAATTTAATTACT
Found at i:20394383 original size:9 final size:9
Alignment explanation
Indices: 20394324--20394383 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
20394314 CACTTTTTTG
*
20394324 TTAATTAAG
1 TTAATTAAT
20394333 TTAATTAAT
1 TTAATTAAT
*
20394342 TTAATTACT
1 TTAATTAAT
20394351 TT--TT--T
1 TTAATTAAT
*
20394356 TGTAATTAAG
1 T-TAATTAAT
20394366 TTAATTAAT
1 TTAATTAAT
20394375 TTAATTAAT
1 TTAATTAAT
20394384 CTCATGTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 1 0.02
7 2 0.05
8 2 0.05
9 34 0.81
10 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (9 bp):
TTAATTAAT
Done.