Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 64 of 78
Found at i:12879692 original size:17 final size:17
Alignment explanation
Indices: 12879672--12879731 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
12879662 TTTACTATGT
12879672 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
12879689 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
12879711 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
12879728 ATAT
1 ATAT
12879732 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:12879790 original size:18 final size:18
Alignment explanation
Indices: 12879764--12879801 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12879754 TATATATATA
12879764 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
12879782 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
12879800 TT
1 TT
12879802 TTTAATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:12879933 original size:19 final size:18
Alignment explanation
Indices: 12879909--12879945 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12879899 TATTTTTATT
12879909 CTTTTTTAATTTCTTTTAC
1 CTTTTTTAATTT-TTTTAC
*
12879928 CTTTTTTTATTTTTTTAC
1 CTTTTTTAATTTTTTTAC
12879946 TCCATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (18 bp):
CTTTTTTAATTTTTTTAC
Found at i:12880030 original size:19 final size:19
Alignment explanation
Indices: 12879988--12880038 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
12879978 TTTTTTAACA
*
12879988 TTTTATTCATTTTGTTTATT
1 TTTTATT-ATTTTGTTTATG
* *
12880008 TTTTATTATTTTTTTTGTG
1 TTTTATTATTTTGTTTATG
*
12880027 TTTTGTTATTTT
1 TTTTATTATTTT
12880039 CCATTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTATTATTTTGTTTATG
Found at i:12883167 original size:47 final size:48
Alignment explanation
Indices: 12883077--12883189 Score: 192
Period size: 47 Copynumber: 2.4 Consensus size: 48
12883067 TCATATTATT
*
12883077 TAGTTCTCATGCTTATTTAGAAAAAATAAACTTAATATCATTCTTTTC
1 TAGTTCTCATGCTTATTTAGAAAAAATAAACTTAATAACATTCTTTTC
12883125 TAGTTCTCATGCTTATTTAG-AAAAATAAACTTAATAACATTCTTTTC
1 TAGTTCTCATGCTTATTTAGAAAAAATAAACTTAATAACATTCTTTTC
*
12883172 TAGTTCTAATGCTATATT
1 TAGTTCTCATGCT-TATT
12883190 CGAGAATGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
47 38 0.61
48 24 0.39
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (48 bp):
TAGTTCTCATGCTTATTTAGAAAAAATAAACTTAATAACATTCTTTTC
Found at i:12892427 original size:51 final size:51
Alignment explanation
Indices: 12892343--12892448 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 51
12892333 CTTGATCCTC
* *
12892343 TTGTAGAGCAGGCTCATCATCTGGTACGTGATCGTCGATGTCTTGCATAAG
1 TTGTAGAGCAGGCTCATCATCTGGTACGAGATCGTCAATGTCTTGCATAAG
* *
12892394 TTGTGGAGCAGGCTCATCATCTGGTACGAGATCGTCAATTTCTTGCATAAG
1 TTGTAGAGCAGGCTCATCATCTGGTACGAGATCGTCAATGTCTTGCATAAG
12892445 TTGT
1 TTGT
12892449 TGAAATTCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (51 bp):
TTGTAGAGCAGGCTCATCATCTGGTACGAGATCGTCAATGTCTTGCATAAG
Found at i:12893978 original size:20 final size:21
Alignment explanation
Indices: 12893952--12894049 Score: 92
Period size: 20 Copynumber: 4.6 Consensus size: 21
12893942 AACCCGATGA
*
12893952 ATGCATCGATGCATGAACATG
1 ATGCATCGATGCATCAACATG
*
12893973 -TGCATCGGTGCATCAACATG
1 ATGCATCGATGCATCAACATG
* *
12893993 ATGAATCGATGCA-CAATCAAGG
1 ATGCATCGATGCATCAA-C-ATG
* *
12894015 CATGCATTGGTGCATCAACATG
1 -ATGCATCGATGCATCAACATG
*
12894037 ATGAATCGATGCA
1 ATGCATCGATGCA
12894050 CATTCAAAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
20 21 0.35
21 21 0.35
22 4 0.07
23 11 0.18
24 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (21 bp):
ATGCATCGATGCATCAACATG
Found at i:12894027 original size:44 final size:45
Alignment explanation
Indices: 12893973--12894073 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 45
12893963 CATGAACATG
*
12893973 TGCATCGGTGCATCAACATGATGAATCGATGCACAATCAAGGC-A
1 TGCATCGGTGCATCAACATGATGAATCGATGCACAATCAAAGCGA
* *
12894017 TGCATTGGTGCATCAACATGATGAATCGATGCACATTCAAAGCGA
1 TGCATCGGTGCATCAACATGATGAATCGATGCACAATCAAAGCGA
*
12894062 TGCATCGATGCA
1 TGCATCGGTGCA
12894074 CTGTTAAGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 40 0.78
45 11 0.22
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (45 bp):
TGCATCGGTGCATCAACATGATGAATCGATGCACAATCAAAGCGA
Found at i:12896891 original size:90 final size:89
Alignment explanation
Indices: 12896786--12896949 Score: 301
Period size: 90 Copynumber: 1.8 Consensus size: 89
12896776 TTAATTTTAA
12896786 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCCAATATGATTAGGGTAAC
1 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCCAATATGATTAGGGTAAC
12896851 TTGGATATAAGAGGATTATTAAATT
65 TTGGATATAAGAGGATTATTAAATT
*
12896876 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACT
1 TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATTAGGGTAACT
*
12896941 TGGCTATAA
66 TGGATATAA
12896950 AAGGGTGGGT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 29 0.40
90 43 0.60
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (89 bp):
TTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATTAGGGTAACT
TGGATATAAGAGGATTATTAAATT
Found at i:12899426 original size:22 final size:21
Alignment explanation
Indices: 12899384--12899423 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12899374 GAGTTTATTT
*
12899384 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
12899405 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
12899424 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:12905417 original size:13 final size:14
Alignment explanation
Indices: 12905396--12905425 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12905386 TTAAAAATCT
12905396 CTTCTAAAAAGGTA
1 CTTCTAAAAAGGTA
12905410 CTTC-AAAAAGGTA
1 CTTCTAAAAAGGTA
12905423 CTT
1 CTT
12905426 ATTCATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
CTTCTAAAAAGGTA
Found at i:12918977 original size:26 final size:26
Alignment explanation
Indices: 12918923--12918975 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
12918913 AATAATCCCG
*
12918923 AATATTTAATTTAAATTAATTAAATA
1 AATATTTAATTTAAATTAAATAAATA
*
12918949 AATATTTAA-TTAATTTAAA-ATAATA
1 AATATTTAATTTAAATTAAATA-AATA
12918974 AA
1 AA
12918976 ATCCCTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 14 0.58
26 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATTTAATTTAAATTAAATAAATA
Found at i:12919479 original size:23 final size:23
Alignment explanation
Indices: 12919453--12919506 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
12919443 TTGTATGACT
12919453 TAAAATGTAGCTTTTCAATCTAA
1 TAAAATGTAGCTTTTCAATCTAA
12919476 TAAAATGTAGCTTTTCAATCTAA
1 TAAAATGTAGCTTTTCAATCTAA
12919499 TAAAATGT
1 TAAAATGT
12919507 CTCTGAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
TAAAATGTAGCTTTTCAATCTAA
Found at i:12921860 original size:28 final size:28
Alignment explanation
Indices: 12921791--12921852 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
12921781 ACGAGAGAGA
*
12921791 TCGCGAGCTACTCGAGATCGATTCTAGC
1 TCGCGAGCTACTCGAGATCGACTCTAGC
12921819 TCGCGAGCTACTCGAGATCGACTCTAGC
1 TCGCGAGCTACTCGAGATCGACTCTAGC
12921847 TCGCGA
1 TCGCGA
12921853 TCGACTCGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (28 bp):
TCGCGAGCTACTCGAGATCGACTCTAGC
Found at i:12930334 original size:21 final size:21
Alignment explanation
Indices: 12930310--12930500 Score: 80
Period size: 21 Copynumber: 8.3 Consensus size: 21
12930300 TTGGTTATAT
12930310 ATATATATATAGTTTTAAAAAA
1 ATATATATATAGTTTT-AAAAA
12930332 TATATATAATATAGTTTTGAAAATAA
1 -ATATAT-ATATAGTTTT--AAA-AA
* **
12930358 ATATATATGTAGTATAATTTTGAAA
1 ATATATATATAG--T--TTTAAAAA
* *
12930383 ATACATATATAGTTTTGAAAA
1 ATATATATATAGTTTTAAAAA
* *
12930404 ATATATATATA--TATAATATAG
1 ATATATATATAGTTTTAA-A-AA
* * * *
12930425 TTTTAGAAAATATGTTTTGGAAAAA
1 ATATA-TATATA-GTTTT--AAAAA
*
12930450 TATATATAATATAGTTTTAAAAT
1 -ATATAT-ATATAGTTTTAAAAA
* *
12930473 ATATATATATAGTATTAAAAT
1 ATATATATATAGTTTTAAAAA
12930494 ATATATA
1 ATATATA
12930501 AATATATAAT
Statistics
Matches: 128, Mismatches: 23, Indels: 36
0.68 0.12 0.19
Matches are distributed among these distances:
19 3 0.02
20 1 0.01
21 41 0.32
22 10 0.08
23 11 0.09
24 15 0.12
25 30 0.23
26 12 0.09
27 2 0.02
28 3 0.02
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATATATATAGTTTTAAAAA
Found at i:12930334 original size:23 final size:23
Alignment explanation
Indices: 12930308--12930416 Score: 98
Period size: 23 Copynumber: 4.6 Consensus size: 23
12930298 TTTTGGTTAT
12930308 ATATATATATATAGTTTTAAAAA
1 ATATATATATATAGTTTTAAAAA
12930331 ATATATATAATATAGTTTTGAAAATAA
1 ATATATAT-ATATAGTTTT--AAA-AA
* *
12930358 ATATATATGTAGTATAATTTT--GAA
1 ATATATA--TA-TATAGTTTTAAAAA
* *
12930382 A-ATACATATATAGTTTTGAAAA
1 ATATATATATATAGTTTTAAAAA
12930404 ATATATATATATA
1 ATATATATATATA
12930417 TAATATAGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
20 8 0.11
21 2 0.03
22 3 0.04
23 22 0.31
24 13 0.19
26 3 0.04
27 9 0.13
28 1 0.01
29 9 0.13
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (23 bp):
ATATATATATATAGTTTTAAAAA
Found at i:12930334 original size:25 final size:25
Alignment explanation
Indices: 12930306--12930418 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 25
12930296 TATTTTGGTT
12930306 ATATATATATATATAGTTTTAAAAA
1 ATATATATATATATAGTTTTAAAAA
12930331 ATATATATA-ATATAGTTTTGAAAATAA
1 ATATATATATATATAGTTTT--AAA-AA
* * *
12930358 ATATATATGTAGTATAATTTT---GA
1 ATATATATATA-TATAGTTTTAAAAA
* *
12930381 A-A-ATACATATATAGTTTTGAAAA
1 ATATATATATATATAGTTTTAAAAA
12930404 ATATATATATATATA
1 ATATATATATATATA
12930419 ATATAGTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
20 8 0.11
21 5 0.07
22 1 0.01
23 4 0.06
24 11 0.16
25 19 0.27
26 3 0.04
27 10 0.14
28 1 0.01
29 8 0.11
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (25 bp):
ATATATATATATATAGTTTTAAAAA
Found at i:12930363 original size:29 final size:29
Alignment explanation
Indices: 12930305--12930393 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
12930295 TTATTTTGGT
12930305 TATATATATATATATAGTTTT---AA-AAA
1 TATATATATA-ATATAGTTTTGAAAATAAA
12930331 -ATATATATAATATAGTTTTGAAAATAAA
1 TATATATATAATATAGTTTTGAAAATAAA
* * * *
12930359 TATATATGTAGTATAATTTTGAAAATACA
1 TATATATATAATATAGTTTTGAAAATAAA
12930388 TATATA
1 TATATA
12930394 GTTTTGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
24 10 0.19
25 9 0.17
27 2 0.04
28 3 0.06
29 30 0.56
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (29 bp):
TATATATATAATATAGTTTTGAAAATAAA
Found at i:12930412 original size:50 final size:50
Alignment explanation
Indices: 12930305--12930436 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
12930295 TTATTTTGGT
* * *
12930305 TATATATATATATATAGTTTTAAAAAATATATATAATATAGTTTTGAAAATAAA
1 TATATATATA-ATATAATTTT-AGAAA-ATACAT-ATATAGTTTTGAAAATAAA
* * *
12930359 TATATATGTAGTATAATTTT-GAAAATACATATATAGTTTTGAAAAATATA
1 TATATATATAATATAATTTTAGAAAATACATATATAGTTTTG-AAAATAAA
*
12930409 TATATATATAATATAGTTTTAGAAAATA
1 TATATATATAATATAATTTTAGAAAATA
12930437 TGTTTTGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
49 11 0.16
50 29 0.43
51 10 0.15
53 8 0.12
54 9 0.13
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (50 bp):
TATATATATAATATAATTTTAGAAAATACATATATAGTTTTGAAAATAAA
Found at i:12930436 original size:15 final size:16
Alignment explanation
Indices: 12930389--12930453 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 16
12930379 GAAAATACAT
12930389 ATATAGTTTT-GAAAA
1 ATATAGTTTTAGAAAA
* * *
12930404 ATATA-TATATA-TATA
1 ATATAGT-TTTAGAAAA
12930419 ATATAGTTTTAG-AAA
1 ATATAGTTTTAGAAAA
*
12930434 ATAT-GTTTTGGAAAA
1 ATATAGTTTTAGAAAA
12930449 ATATA
1 ATATA
12930454 TATAATATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
14 7 0.18
15 30 0.79
16 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (16 bp):
ATATAGTTTTAGAAAA
Found at i:12930460 original size:24 final size:24
Alignment explanation
Indices: 12930445--12930506 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 24
12930435 TATGTTTTGG
12930445 AAAA-ATATATATAATATAGTTTT
1 AAAATATATATATAATATAGTTTT
*
12930468 -AAA-ATATATAT-ATATAGTATT
1 AAAATATATATATAATATAGTTTT
12930489 AAAATATATATA-AATATA
1 AAAATATATATATAATATA
12930507 TAATTTATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 9 0.26
22 14 0.40
23 12 0.34
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
AAAATATATATATAATATAGTTTT
Found at i:12930467 original size:25 final size:24
Alignment explanation
Indices: 12930445--12930506 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
12930435 TATGTTTTGG
12930445 AAAAATATATATAATATAGTTTT-
1 AAAAATATATATAATATAGTTTTA
*
12930468 -AAAATATATAT-ATATAGTATTA
1 AAAAATATATATAATATAGTTTTA
*
12930490 AAATATATATA-AATATA
1 AAAAATATATATAATATA
12930507 TAATTTATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 9 0.26
22 11 0.32
23 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
AAAAATATATATAATATAGTTTTA
Found at i:12930495 original size:19 final size:21
Alignment explanation
Indices: 12930446--12930500 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
12930436 ATGTTTTGGA
*
12930446 AAAATATATATAATATAGTTTT
1 AAAATATATAT-ATATAGTATT
12930468 AAAATATATATATATAGTATT
1 AAAATATATATATATAGTATT
12930489 AAAATATATATA
1 AAAATATATATA
12930501 AATATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AAAATATATATATATAGTATT
Found at i:12930548 original size:3 final size:3
Alignment explanation
Indices: 12930540--12930570 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12930530 TATATAAATA
12930540 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12930571 ATGTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12930656 original size:18 final size:18
Alignment explanation
Indices: 12930633--12930677 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
12930623 GTCAACAAGT
* *
12930633 CAAGTCTAATTTTGGTAG
1 CAAGTCCAATTTGGGTAG
12930651 CAAGTCCAATTTGGGTAG
1 CAAGTCCAATTTGGGTAG
12930669 CAAGTCCAA
1 CAAGTCCAA
12930678 ATTCAAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (18 bp):
CAAGTCCAATTTGGGTAG
Found at i:12931265 original size:13 final size:13
Alignment explanation
Indices: 12931232--12931275 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
12931222 ACAAAGGGAG
*
12931232 AAAACAACAACAA
1 AAAACAGCAACAA
12931245 AAACACAG-AACCAA
1 AAA-ACAGCAA-CAA
12931259 AAAACAGCAACAA
1 AAAACAGCAACAA
12931272 AAAA
1 AAAA
12931276 AACCAGAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.73, C:0.23, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAACAGCAACAA
Found at i:12931276 original size:14 final size:14
Alignment explanation
Indices: 12931232--12931276 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
12931222 ACAAAGGGAG
*
12931232 AAAACAACAACAAA
1 AAAACAGCAACAAA
* *
12931246 AACACAG-AACCAA
1 AAAACAGCAACAAA
12931259 AAAACAGCAACAAA
1 AAAACAGCAACAAA
12931273 AAAA
1 AAAA
12931277 ACCAGAGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.73, C:0.22, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAACAGCAACAAA
Found at i:12944951 original size:181 final size:180
Alignment explanation
Indices: 12944635--12945041 Score: 535
Period size: 181 Copynumber: 2.2 Consensus size: 180
12944625 CTAAAAAGAG
* * * ** *
12944635 AGTTGTTCAAAATTTATCTCTAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCATCTTCCC
1 AGTTGATCAAAATTTTTCTCAAGTCTGATCT-CCCTAAAGAGTAGTGGAGCAGACCCATATTCCC
* *
12944700 TTAGATCTGATATCTCCTAAAGAGTAGCAAAGAAGATCGTCATTTTCCAGATTTGATCTTCCTAA
65 TTAGATCTGATATCTCCTAAAGAGTAGCAAAGAAGATCATCATTTTCCAAATTTGATCTTCCTAA
** *
12944765 AGAGTAGTAAAGCAAATCAAGTTTGATTCAATCTTCCTTAAAGAGCAGCGA
130 AGAGTAGTAAAGCAAATCAAGTTCAATTCAATCTTCCCTAAAGAGCAGCGA
* * *
12944816 AGTTGATCAAAATTTTTCTCGAGTCTGATCTCCACTAAAGAGTATTGGAGCAGACCCGTATTCCC
1 AGTTGATCAAAATTTTTCTCAAGTCTGATCTCC-CTAAAGAGTAGTGGAGCAGACCCATATTCCC
* * * * * * * * *
12944881 TTAGATTTGATCTCTCTTAAATAGTAGGAGAGAAGATCATTATTTTCTAAATTTGATCTTCCTGA
65 TTAGATCTGATATCTCCTAAAGAGTAGCAAAGAAGATCATCATTTTCCAAATTTGATCTTCCTAA
* * *
12944946 AGAGTAGTGAGGCAAATCAAGTTCAATTCAATCTTCCCTAAAGAGCAGTGA
130 AGAGTAGTAAAGCAAATCAAGTTCAATTCAATCTTCCCTAAAGAGCAGCGA
* *
12944997 AGTGGATCAAAAATTTTCTCAAGTCTGATCTCCCTTAAAGAGTAG
1 AGTTGATCAAAATTTTTCTCAAGTCTGATCTCCC-TAAAGAGTAG
12945042 CAGAGCATAT
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
180 3 0.02
181 192 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (180 bp):
AGTTGATCAAAATTTTTCTCAAGTCTGATCTCCCTAAAGAGTAGTGGAGCAGACCCATATTCCCT
TAGATCTGATATCTCCTAAAGAGTAGCAAAGAAGATCATCATTTTCCAAATTTGATCTTCCTAAA
GAGTAGTAAAGCAAATCAAGTTCAATTCAATCTTCCCTAAAGAGCAGCGA
Found at i:12945062 original size:134 final size:134
Alignment explanation
Indices: 12944888--12945175 Score: 398
Period size: 134 Copynumber: 2.1 Consensus size: 134
12944878 CCCTTAGATT
* * * * * * *
12944888 TGATCTCTCTTAAATAGTAGGAGAGAAGATCATTATTTTCTAAATTTGATCTTCCTGAAGAGTAG
1 TGATCTCCCTTAAAGAGTAGCAGAGAAGATCATCATTTTCTAAATTTGATCTTCCTAAAAAGAAG
* *
12944953 TGAGGCAAATCAAGT-TCAATTCAATCTTCCCTAAAGAGCAGTGAAGTGGATCAAAAATTTTCTC
66 TGAAGCAAATCAA-TCTCAATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTC
12945017 AAGTC
130 AAGTC
* * * *
12945022 TGATCTCCCTTAAAGAGTAGCAGAGCATATCGTCATTTTCTAGATTTGATCTTCCTAAAAAGAAG
1 TGATCTCCCTTAAAGAGTAGCAGAGAAGATCATCATTTTCTAAATTTGATCTTCCTAAAAAGAAG
** * *
12945087 TGAAGCAAATCAATCTTGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAATTTTCTCT
66 TGAAGCAAATCAATCTCAATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTCA
12945152 AGTC
131 AGTC
*
12945156 TGATCTCCCCTAAAGAGTAG
1 TGATCTCCCTTAAAGAGTAG
12945176 TGGAGTAGAC
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 1 0.01
134 134 0.99
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (134 bp):
TGATCTCCCTTAAAGAGTAGCAGAGAAGATCATCATTTTCTAAATTTGATCTTCCTAAAAAGAAG
TGAAGCAAATCAATCTCAATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTCA
AGTC
Found at i:12945292 original size:315 final size:315
Alignment explanation
Indices: 12944717--12945323 Score: 858
Period size: 315 Copynumber: 1.9 Consensus size: 315
12944707 TGATATCTCC
* *
12944717 TAAAGAGTAGCAAAGAAGATCGTCATTTTCCAGATTTGATCTTCCTAAAGAGTAGTAAAGCAAAT
1 TAAAGAGTAGCAAAGAAGATCGTCATTTTCCAGATTTGATCTTCCTAAAAAGAAGTAAAGCAAAT
* * *
12944782 CAAGTTTGATTCAATCTTCCTTAAAGAGCAGCGAAGTTGATCAAAATTTTTCTCGAGTCTGATCT
66 CAAGTTTGATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTCGAGTCTGATCT
* * * * * * *
12944847 CCACTAAAGAGTATTGGAGCAGACCCGTATTCCCTTAGATTTGATCTCTCTTAAATAGTAGGAGA
131 CCACTAAAGAGTAGTGGAGCAGACACGTATTCCCTTAGATCTGATCTCTCCTAAAGAGCAGCAGA
* * *
12944912 GAAGATCATTATTTTCTAAATTTGATCTTCCTGAAGAGTAGTGAGGCAAATCAAGTTCAATTCAA
196 GAAGATCATCATTTTCTAAATTTGATCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCAATTCAA
* *
12944977 TCTTCCCT-AAAGAGCAGTGAAGTGGATCAAAAATTTTCTCAAGTCTGATCTCCCT
261 TCTACCCTGAAA-AGCAGTGAAGTGAATCAAAAATTTTCTCAAGTCTGATCTCCCT
* * * * *
12945032 TAAAGAGTAGCAGAGCATATCGTCATTTTCTAGATTTGATCTTCCTAAAAAGAAGTGAAGCAAAT
1 TAAAGAGTAGCAAAGAAGATCGTCATTTTCCAGATTTGATCTTCCTAAAAAGAAGTAAAGCAAAT
* *
12945097 CAA-TCTTGATTCAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAAATTTTCTCTAGTCTGATC
66 CAAGT-TTGATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTCGAGTCTGATC
* * * * *
12945161 TCCCCTAAAGAGTAGTGGAGTAGACATGTCTTCCTTTAGATCTGATCTCTCCTAAAGAGCAGCAG
130 TCCACTAAAGAGTAGTGGAGCAGACACGTATTCCCTTAGATCTGATCTCTCCTAAAGAGCAGCAG
* * * * * **
12945226 AGTATATCATCATTTTCTATATTTGATCTTCCTGAAGTGCAGTGAAGCAAATCAATTTTGATTCA
195 AGAAGATCATCATTTTCTAAATTTGATCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCAATTCA
12945291 ATCTACCCTGAAAAGCAGTGAAGTGAATCAAAA
260 ATCTACCCTGAAAAGCAGTGAAGTGAATCAAAA
12945324 TTTATCAAAT
Statistics
Matches: 254, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
314 1 0.00
315 250 0.98
316 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (315 bp):
TAAAGAGTAGCAAAGAAGATCGTCATTTTCCAGATTTGATCTTCCTAAAAAGAAGTAAAGCAAAT
CAAGTTTGATTCAATCTTCCCTAAAGAGCAGCGAAGTGGATCAAAAATTTTCTCGAGTCTGATCT
CCACTAAAGAGTAGTGGAGCAGACACGTATTCCCTTAGATCTGATCTCTCCTAAAGAGCAGCAGA
GAAGATCATCATTTTCTAAATTTGATCTTCCTGAAGAGCAGTGAAGCAAATCAAGTTCAATTCAA
TCTACCCTGAAAAGCAGTGAAGTGAATCAAAAATTTTCTCAAGTCTGATCTCCCT
Found at i:12945649 original size:38 final size:39
Alignment explanation
Indices: 12945590--12945672 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 39
12945580 GAAAATATAT
* *
12945590 ATATAGTTTTGCAAAATATAT-ATAATATAGCTTTAGAAA
1 ATATAGTTTTGCAAAAAATATAACAATATAGCTTTA-AAA
* *
12945629 ATAT-GTTTTGGAAAAAATATAAACAATATAGTTTTAAAA
1 ATATAGTTTTGCAAAAAATAT-AACAATATAGCTTTAAAA
12945668 ATATA
1 ATATA
12945673 TATAGTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
38 14 0.38
39 11 0.30
40 12 0.32
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (39 bp):
ATATAGTTTTGCAAAAAATATAACAATATAGCTTTAAAA
Found at i:12945687 original size:17 final size:18
Alignment explanation
Indices: 12945654--12945693 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
12945644 AATATAAACA
*
12945654 ATATAGTTTTAAAAATAT
1 ATATAGTATTAAAAATAT
12945672 ATATAGTATT-AAAATAT
1 ATATAGTATTAAAAATAT
12945689 ATATA
1 ATATA
12945694 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATAGTATTAAAAATAT
Found at i:12945741 original size:3 final size:3
Alignment explanation
Indices: 12945733--12945770 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12945723 TATATAAATA
12945733 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12945771 ATGTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:12946406 original size:19 final size:19
Alignment explanation
Indices: 12946374--12946428 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
12946364 CCCAAACATG
* *
12946374 CAACAACCATAAAGAACAA
1 CAACAACAACAAAGAACAA
* *
12946393 CAACAACAACAAAGGTAGAA
1 CAACAACAACAAA-GAACAA
12946413 -AACAACAACAAA-AACA
1 CAACAACAACAAAGAACA
12946429 CATAACCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 2 0.07
19 23 0.79
20 4 0.14
ACGTcount: A:0.65, C:0.24, G:0.07, T:0.04
Consensus pattern (19 bp):
CAACAACAACAAAGAACAA
Found at i:12946454 original size:14 final size:12
Alignment explanation
Indices: 12946411--12946453 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
12946401 ACAAAGGTAG
12946411 AAAACAACAACA
1 AAAACAACAACA
*
12946423 AAAACACATAACCA
1 AAAACA-ACAA-CA
12946437 AAAACCAACAACA
1 AAAA-CAACAACA
12946450 AAAA
1 AAAA
12946454 AAATTAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.23
13 9 0.35
14 9 0.35
15 2 0.08
ACGTcount: A:0.72, C:0.26, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAACAACAACA
Found at i:12947849 original size:17 final size:16
Alignment explanation
Indices: 12947827--12947871 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
12947817 TAAGCGCAGA
12947827 TAAAATT-TTTTATCTTT
1 TAAAATTATTTTATC--T
12947844 TAAAATTATTTT-TCT
1 TAAAATTATTTTATCT
12947859 TAAAATTATTTTA
1 TAAAATTATTTTA
12947872 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAAATTATTTTATCT
Found at i:12948388 original size:34 final size:35
Alignment explanation
Indices: 12948350--12948418 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
12948340 TTATGGTTAC
*
12948350 AATCAA-AAAATAAATA-GAATAGATTAAGGGATAT
1 AATCAACAAAAT-AATAGGAATAGAATAAGGGATAT
* *
12948384 AATCAACTAACTAATAGGAATAGAATAAGGGATAT
1 AATCAACAAAATAATAGGAATAGAATAAGGGATAT
12948419 GTTTGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (35 bp):
AATCAACAAAATAATAGGAATAGAATAAGGGATAT
Found at i:12949335 original size:28 final size:27
Alignment explanation
Indices: 12949254--12949343 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
12949244 AAAAATCATG
*
12949254 AAATTAAAATAAAAGATTATTTTTTTTAT
1 AAATTAAAATAAAAGA--ATATTTTTTAT
** * ** *
12949283 AAATTTTAATAAATGTCTAAATTTTTAT
1 AAATTAAAATAAAAGAAT-ATTTTTTAT
*
12949311 AAATTACAATAAAAGAATATTTTTTAT
1 AAATTAAAATAAAAGAATATTTTTTAT
12949338 AAATTA
1 AAATTA
12949344 TATTTAACGA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
27 15 0.32
28 20 0.43
29 12 0.26
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATTAAAATAAAAGAATATTTTTTAT
Found at i:12949392 original size:29 final size:29
Alignment explanation
Indices: 12949331--12949400 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
12949321 AAAAGAATAT
**
12949331 TTTTTATAAATTATATTTAACGATAACAC
1 TTTTTATAAATTATATAAAACGATAACAC
*
12949360 TTTTTATAAATTATATAAAAGGCA-AAC-C
1 TTTTTATAAATTATATAAAACG-ATAACAC
*
12949388 TTTTTATAGATTA
1 TTTTTATAAATTA
12949401 CAGTGAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 13 0.36
29 22 0.61
30 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (29 bp):
TTTTTATAAATTATATAAAACGATAACAC
Found at i:12949539 original size:3 final size:3
Alignment explanation
Indices: 12949524--12949579 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
12949514 TTTTTACCCA
* *
12949524 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12949572 TAT TAT TA
1 TAT TAT TA
12949580 AATATATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:12949602 original size:14 final size:15
Alignment explanation
Indices: 12949578--12949607 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12949568 TTATTATTAT
12949578 TAAATATATATTAAA
1 TAAATATATATTAAA
12949593 TAAATA-ATATTAAA
1 TAAATATATATTAAA
12949607 T
1 T
12949608 TACAAAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:12950977 original size:13 final size:13
Alignment explanation
Indices: 12950961--12951007 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
12950951 ATATAATAAA
12950961 TAAATATTTATTT
1 TAAATATTTATTT
*
12950974 TAAATAAATTATTT
1 TAAAT-ATTTATTT
12950988 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
12951001 TCAATAT
1 TAAATAT
12951008 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:12951687 original size:18 final size:17
Alignment explanation
Indices: 12951664--12951714 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
12951654 TTCTTGTCAA
12951664 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
12951681 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
12951699 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
12951715 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:12962357 original size:17 final size:16
Alignment explanation
Indices: 12962337--12962382 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
12962327 ATGCTTGAAG
*
12962337 AAAAAAAAAAGAGAGA
1 AAAAAAAAAAAAGAGA
*
12962353 AAAAAGAAGAAAAGAGA
1 AAAAA-AAAAAAAGAGA
*
12962370 AAAAAGAAAAAAG
1 AAAAAAAAAAAAG
12962383 GGGGGTCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAGAGA
Found at i:12962380 original size:15 final size:15
Alignment explanation
Indices: 12962335--12962380 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
12962325 TTATGCTTGA
12962335 AGAAAAAA-AAAAGAG
1 AGAAAAAAGAAAA-AG
12962350 AGAAAAAAGAAGAAAAG
1 AGAAAAAAG-A-AAAAG
12962367 AGAAAAAAGAAAAA
1 AGAAAAAAGAAAAA
12962381 AGGGGGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 12 0.43
16 1 0.04
17 12 0.43
18 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAAAG
Found at i:12963479 original size:83 final size:83
Alignment explanation
Indices: 12963340--12963728 Score: 656
Period size: 83 Copynumber: 4.7 Consensus size: 83
12963330 ACTGGAACAA
12963340 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
*
12963405 AATCATTGAATTTGGAAG
66 AATCATTGAATTTAGAAG
* *
12963423 ATGAATGTATTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
*
12963488 AATCATTGAATTTTGAAG
66 AATCATTGAATTTAGAAG
* *
12963506 ATGAATGTATTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAAC
12963570 CAATCATTGAATTTAGAAG
65 CAATCATTGAATTTAGAAG
* * *
12963589 ATGAATTTAC-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
12963653 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
12963671 ATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
12963729 TAGGAACTAC
Statistics
Matches: 291, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
82 76 0.26
83 215 0.74
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
AATCATTGAATTTAGAAG
Found at i:12963693 original size:165 final size:165
Alignment explanation
Indices: 12963340--12963725 Score: 648
Period size: 165 Copynumber: 2.3 Consensus size: 165
12963330 ACTGGAACAA
12963340 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGCAGAACC
* *
12963405 AATCATTGAATTTGGAAGATGAATGTATTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
65 AATCATTGAATTTAGAAGATGAATGTATCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* *
12963470 ATCTGGTTTGGCAGAACCAATCATTGAATTTTGAAG
130 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
* *
12963506 ATGAATGTATTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG-CAGAACC
* *
12963571 AATCATTGAATTTAGAAGATGAATTTA-CCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
65 AATCATTGAATTTAGAAGATGAATGTATCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
12963635 ATCTGGTTTGGTAAAACCAATCATTGAATTTAGAAG
130 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
* *
12963671 ATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
12963726 TGGTAGGAAC
Statistics
Matches: 206, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
165 123 0.60
166 83 0.40
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (165 bp):
ATGAATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGCAGAACCA
ATCATTGAATTTAGAAGATGAATGTATCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
TCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
Found at i:12965008 original size:116 final size:112
Alignment explanation
Indices: 12964446--12965333 Score: 1269
Period size: 112 Copynumber: 7.8 Consensus size: 112
12964436 AATCTACCAT
* *
12964446 TTGATGGATCATTTTTTCCGAGAAAGTTCATAACGAGAAGAACTTATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
12964511 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
*
12964558 TTGATGGATTATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
12964623 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
*
12964670 TTGATGGATTATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
12964735 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
* *
12964782 TTGATGGATTATTTTTTCCGAGAAAGTTCATAGTGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATCATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
12964847 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
* * * *
12964894 TGGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGA
1 TTGATGGATCATTTTTTCC-GAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGA
* * * *
12964959 AAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-ACTTGAATCCATCAT
62 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTC-TGAATTCATCAC
** *
12965010 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATA
1 TTGATGGATCATTTTTTCC-GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * *
12965075 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCAT
65 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
*** * * *
12965123 TTGATGGATCAACATTGCC-AGGAAGAGTTCGTAATGAGAAGAACTCGTCATCTGAAGAAGGAAT
1 TTGATGGATCATTTTTTCCGA-GAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* * * *
12965187 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCAT
61 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
*** * *
12965239 TTGATGGATCAACATTGCC-AGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATCATTTTTTCCGA-G-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* *
12965303 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
61 AAGAAGTTCATAATGAGAAGAATTTGTTCAA
12965334 TAATTCTATC
Statistics
Matches: 731, Mismatches: 33, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.00
112 352 0.48
113 117 0.16
114 1 0.00
115 3 0.00
116 256 0.35
117 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (112 bp):
TTGATGGATCATTTTTTCCGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCAC
Found at i:12965405 original size:229 final size:222
Alignment explanation
Indices: 12964465--12965419 Score: 1041
Period size: 229 Copynumber: 4.2 Consensus size: 222
12964455 CATTTTTTCC
* *
12964465 GAGAAAGTTCATAACGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
1 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
* **
12964530 TGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTTCCGAGAAAGTTCATAATGAG
66 TGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATCATTTCCGAGAAAGTTCATAATGAG
* * *
12964595 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTG
131 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGACAG
* ** * * *
12964660 AATTCATCACTTGAT-GGATTATTTTTTCC-
196 AA-TCATAACAGGATCAGATCA---TTGCCA
12964689 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
1 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
* ** *
12964754 TGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTTCCGAGAAAGTTCATAGTGAG
66 TGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATCATTTCCGAGAAAGTTCATAATGAG
* * *
12964819 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTG
131 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGACAG
* * * *
12964884 AATTCATCACTGGAT-GGATTATTTTTGCCA
196 AA-TCATAACAGGATCAGATCA---TTGCCA
* *
12964914 GAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGA
1 GAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * *
12964979 ATTTGTTCAACCTTTT-ACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATA
63 ATTTGTTCAACCTTTTGTC-TGAATTCATCACTTGATGGATCATCATTTCC-GAGAAAGTTCATA
* *
12965043 ATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
126 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
*** **
12965108 GTTTGAATTCATCATTTGATGGATCA-A-CATTGCCA
191 GACAGAA-TCAT-A--ACA-GGATCAGATCATTGCCA
* *
12965143 G-GAAGAGTTCGTAATGAGAAGAACTCGTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAG
1 GAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * * * * * *
12965207 AACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCC-AGGTAGAGTTCAT
62 AATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATCATTTCCGA-G-AAAGTTCAT
* *
12965271 AATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAATA
125 AATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-C
* * ** * **
12965336 ATTCTATCACAGAAAGA-AAGAGG-TCAGCATCATCCCCA
186 CTT-T-TGACAGAATCATAACAGGATCAG-ATCATTGCCA
*
12965374 GCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 G-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
12965420 TTTATTCAAT
Statistics
Matches: 653, Mismatches: 52, Indels: 48
0.87 0.07 0.06
Matches are distributed among these distances:
224 219 0.34
225 22 0.03
227 3 0.00
228 92 0.14
229 224 0.34
230 4 0.01
231 8 0.01
232 65 0.10
233 10 0.02
234 2 0.00
235 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (222 bp):
GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
TGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATCATTTCCGAGAAAGTTCATAATGAG
AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGACAG
AATCATAACAGGATCAGATCATTGCCA
Found at i:12965570 original size:3 final size:3
Alignment explanation
Indices: 12965555--12965604 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
12965545 TTTTTACCCA
* *
12965555 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12965603 TA
1 TA
12965605 AATATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:12965627 original size:14 final size:15
Alignment explanation
Indices: 12965603--12965632 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12965593 TTATTATTAT
12965603 TAAATATATATTAAA
1 TAAATATATATTAAA
12965618 TAAATA-ATATTAAA
1 TAAATATATATTAAA
12965632 T
1 T
12965633 TACAAAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:12966964 original size:13 final size:13
Alignment explanation
Indices: 12966948--12966994 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
12966938 ATATAATAAA
12966948 TAAATATTTATTT
1 TAAATATTTATTT
*
12966961 TAAATAAATTATTT
1 TAAAT-ATTTATTT
12966975 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
12966988 TCAATAT
1 TAAATAT
12966995 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:12967545 original size:2 final size:2
Alignment explanation
Indices: 12967538--12967608 Score: 133
Period size: 2 Copynumber: 35.0 Consensus size: 2
12967528 GGTTACAACA
12967538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12967580 AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
12967609 CATTACACAT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 66 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12968753 original size:48 final size:50
Alignment explanation
Indices: 12968701--12968810 Score: 131
Period size: 50 Copynumber: 2.2 Consensus size: 50
12968691 GTTTTGATTA
*
12968701 TTATTATTATTTATTTATTTAATCTAACA-TTT-TAT-T-TATATATATTTT
1 TTATTATTATTTATTT-TTT-ACCTAACATTTTGTATATATATATATATTTT
*
12968749 TTATT-TTATTTGTTTTTTACCTAACATTTTTGTATATATATATATATTTT
1 TTATTATTATTTATTTTTTACCTAACA-TTTTGTATATATATATATATTTT
*
12968799 TTATCATTATTT
1 TTATTATTATTT
12968811 TTCCCCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
45 7 0.13
46 3 0.06
47 12 0.23
48 8 0.15
49 1 0.02
50 16 0.30
51 6 0.11
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (50 bp):
TTATTATTATTTATTTTTTACCTAACATTTTGTATATATATATATATTTT
Found at i:12968764 original size:16 final size:17
Alignment explanation
Indices: 12968730--12968802 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 17
12968720 TAATCTAACA
12968730 TTTTATTTATATATATT
1 TTTTATTTATATATATT
* *
12968747 TTTTATTT-TATTTGTT
1 TTTTATTTATATATATT
** *
12968763 TTTTACCTA-ACAT-TT
1 TTTTATTTATATATATT
*
12968778 TTGTATATATATATATATT
1 TT-T-TATTTATATATATT
12968797 TTTTAT
1 TTTTAT
12968803 CATTATTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
15 4 0.10
16 15 0.36
17 15 0.36
18 4 0.10
19 4 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTATTTATATATATT
Found at i:12968885 original size:27 final size:26
Alignment explanation
Indices: 12968833--12968891 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
12968823 TTTAAATATG
*
12968833 TTATA-TATTTTTAATTTTTATTTAT
1 TTATATTATTTTTAATATTTATTTAT
*
12968858 TTATATTATTTGTTACTATTTATTTAT
1 TTATATTATTT-TTAATATTTATTTAT
*
12968885 TTTTATT
1 TTATATT
12968892 TTACTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 5 0.17
27 19 0.66
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TTATATTATTTTTAATATTTATTTAT
Found at i:12969103 original size:2 final size:2
Alignment explanation
Indices: 12969096--12969135 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
12969086 ATTTTACCTA
12969096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12969136 TATTTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12969209 original size:21 final size:23
Alignment explanation
Indices: 12969169--12969210 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12969159 TTTTGTTTTG
*
12969169 TTTCTGTTTTTTATTATTATTAT
1 TTTCTGTTTTTTAGTATTATTAT
12969192 TTTCT-TTTTTTAGT-TTATT
1 TTTCTGTTTTTTAGTATTATT
12969211 TGATTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (23 bp):
TTTCTGTTTTTTAGTATTATTAT
Found at i:12969216 original size:23 final size:23
Alignment explanation
Indices: 12969169--12969216 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
12969159 TTTTGTTTTG
*
12969169 TTTCTGTTTTTTATTATTATTAT
1 TTTCTGTTTTTTATTATTATGAT
12969192 TTTCT-TTTTTTAGTTTATT-TGAT
1 TTTCTGTTTTTTA--TTATTATGAT
12969215 TT
1 TT
12969217 GTTTCCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 10 0.45
24 5 0.23
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (23 bp):
TTTCTGTTTTTTATTATTATGAT
Found at i:12971148 original size:17 final size:18
Alignment explanation
Indices: 12971114--12971153 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12971104 AAAACAACTA
*
12971114 TTATATTAATATATTATT
1 TTATTTTAATATATTATT
12971132 TTATTTTAATA-ATTATT
1 TTATTTTAATATATTATT
*
12971149 ATATT
1 TTATT
12971154 GACAATGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTTTAATATATTATT
Found at i:12971457 original size:24 final size:25
Alignment explanation
Indices: 12971425--12971474 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
12971415 TTCAATAAAT
*
12971425 TAATTTAATATATT-TAATAT-TTTA
1 TAATATAAT-TATTGTAATATATTTA
12971449 TAATATAATTATTGTAATATATTTA
1 TAATATAATTATTGTAATATATTTA
12971474 T
1 T
12971475 CTACTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TAATATAATTATTGTAATATATTTA
Found at i:12977110 original size:74 final size:74
Alignment explanation
Indices: 12977017--12977347 Score: 529
Period size: 74 Copynumber: 4.5 Consensus size: 74
12977007 TAACCTAATT
* *
12977017 TGAGCATTTTCATTATCAAAATTGAGCATTATCAAGAAATGACCATTTTGAGCATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
12977082 CTAGTTGAA
66 CTAGTTGAA
* * *
12977091 TGAGCATTATCATTCTCAAAATTGAGCATTATCAGGAAAAGACAATTTTGAGCATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
12977156 CTAGTTGAA
66 CTAGTTGAA
*
12977165 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGATAATTTTGAGCATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
12977230 CTAGTTGAA
66 CTAGTTGAA
* * *
12977239 TGAGCGTGATCATTATCAACATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
*
12977304 CTAGTTGCA
66 CTAGTTGAA
* **
12977313 TGAGCATTATCCAATA-CTTAATTGAGCATTATCAA
1 TGAGCATTAT-CATTATCAAAATTGAGCATTATCAA
12977348 CATTCCCCCA
Statistics
Matches: 236, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
74 232 0.98
75 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (74 bp):
TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATG
CTAGTTGAA
Found at i:12977452 original size:28 final size:29
Alignment explanation
Indices: 12977378--12977474 Score: 178
Period size: 29 Copynumber: 3.3 Consensus size: 29
12977368 AGATATTTGT
12977378 AAATTAGGTAAATGCTCATTGAATATTGGA
1 AAATTAGGT-AATGCTCATTGAATATTGGA
12977408 AAATTAGGTAATGCTCATTGAATATTGGA
1 AAATTAGGTAATGCTCATTGAATATTGGA
12977437 AAA-TAGGTAATGCTCATTGAATATTGGA
1 AAATTAGGTAATGCTCATTGAATATTGGA
12977465 AAATTAGGTA
1 AAATTAGGTA
12977475 TTTCCACTAG
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 28 0.42
29 29 0.44
30 9 0.14
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (29 bp):
AAATTAGGTAATGCTCATTGAATATTGGA
Found at i:12982201 original size:31 final size:31
Alignment explanation
Indices: 12982166--12982225 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
12982156 TCAAACCCAA
12982166 GAGTTCCTAGTGAGAAGGACATATTGAATGG
1 GAGTTCCTAGTGAGAAGGACATATTGAATGG
12982197 GAGTTCCTAGTGAGAAGGACATATTGAAT
1 GAGTTCCTAGTGAGAAGGACATATTGAAT
12982226 TCACCGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (31 bp):
GAGTTCCTAGTGAGAAGGACATATTGAATGG
Found at i:12984894 original size:31 final size:31
Alignment explanation
Indices: 12984856--12984914 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
12984846 CCCAAGAGCT
*
12984856 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAGTGAAAAGGACATATTGAA
*
12984887 TGGGAGTTCCTAGTGAAAATGACATATT
1 TGGGAGTTCCTAGTGAAAAGGACATATT
12984915 AAATTCACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (31 bp):
TGGGAGTTCCTAGTGAAAAGGACATATTGAA
Found at i:12985526 original size:30 final size:30
Alignment explanation
Indices: 12985488--12985568 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 30
12985478 CTCATTGAAT
*
12985488 ATTG-ATATTGAAAAATTAGGTAAATGCTC
1 ATTGAATATTGGAAAATTAGGTAAATGCTC
*
12985517 ATTGAATATTGGAAAATTAGGT-AATGTTC
1 ATTGAATATTGGAAAATTAGGTAAATGCTC
12985546 ATTGAATATTGGAAAATTAGGTA
1 ATTGAATATTGGAAAATTAGGTA
12985569 TTTCTACTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
29 32 0.67
30 16 0.33
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.36
Consensus pattern (30 bp):
ATTGAATATTGGAAAATTAGGTAAATGCTC
Found at i:12986955 original size:42 final size:43
Alignment explanation
Indices: 12986899--12986979 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
12986889 CATTGGTGGT
*
12986899 GTTTCTATATACAAACGCCGCAATAGAGTAGTACTTTAGTGAC
1 GTTTCTATATACAAACGCCGCAATAGAGTAGTACGTTAGTGAC
* * *
12986942 GTTTCTGTA-ACAAACTCTGCAATAGAGTAGTACGTTAG
1 GTTTCTATATACAAACGCCGCAATAGAGTAGTACGTTAG
12986980 CGGCTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
GTTTCTATATACAAACGCCGCAATAGAGTAGTACGTTAGTGAC
Found at i:12987021 original size:41 final size:41
Alignment explanation
Indices: 12986961--12987048 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
12986951 ACAAACTCTG
* * * * * *
12986961 CAATAGAGTAGTACGTTAGCGGCTTTTTTATAGAAATGCCA
1 CAATAGAGAAGCACGTTAGCGGCATTTGTATACAAATGACA
*
12987002 CAATAGAGAAGCACTTTAGCGGCATTTGTATACAAATGACA
1 CAATAGAGAAGCACGTTAGCGGCATTTGTATACAAATGACA
12987043 CAATAG
1 CAATAG
12987049 GATTAATCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (41 bp):
CAATAGAGAAGCACGTTAGCGGCATTTGTATACAAATGACA
Found at i:12987392 original size:41 final size:41
Alignment explanation
Indices: 12987347--12987449 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 41
12987337 TCAAGTGTCA
*
12987347 CAATAGTCATGTACTTTAGTGG-CATTTTTTAATAAACACCG
1 CAATA-TCATGTACTTTAGTGGTCATTTTGTAATAAACACCG
* * *
12987388 CAATAATCATGTAATTTAGTGGTTTATTTTGTAATAAACGCCG
1 CAAT-ATCATGTACTTTAGTGG-TCATTTTGTAATAAACACCG
*
12987431 CAATATCATGTACCTTAGT
1 CAATATCATGTACTTTAGT
12987450 AGCTTTTGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 19 0.36
42 14 0.26
43 20 0.38
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (41 bp):
CAATATCATGTACTTTAGTGGTCATTTTGTAATAAACACCG
Found at i:12987432 original size:43 final size:41
Alignment explanation
Indices: 12987347--12987468 Score: 122
Period size: 41 Copynumber: 2.9 Consensus size: 41
12987337 TCAAGTGTCA
* * *
12987347 CAATAGTCATGTACTTTAGTGGCATTTTTTAATAAACACCG
1 CAATAATCATGTAATTTAGTGGCATTTTGTAATAAACACCG
* *
12987388 CAATAATCATGTAATTTAGTGGTTTATTTTGTAATAAACGCCG
1 CAATAATCATGTAATTTAGTGG--CATTTTGTAATAAACACCG
** *
12987431 CAAT-ATCATGTACCTTAGTAGC-TTTTGTATTATAAACA
1 CAATAATCATGTAATTTAGTGGCATTTTGTA--ATAAACA
12987469 TCGTTTTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.10
41 26 0.39
42 14 0.21
43 20 0.30
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (41 bp):
CAATAATCATGTAATTTAGTGGCATTTTGTAATAAACACCG
Found at i:12992374 original size:21 final size:21
Alignment explanation
Indices: 12992349--12992392 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12992339 ATTTACTATA
* *
12992349 ATGGATTTGAAGTTGGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
*
12992370 ATGGAATTAAAGTTTGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
12992391 AT
1 AT
12992393 AGATGTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
ATGGAATTAAAGTTGGTTGTT
Found at i:12993531 original size:21 final size:21
Alignment explanation
Indices: 12993505--12993544 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12993495 TGTATGGCCA
12993505 TGAAGTTTAGAGT-TAGGAGAT
1 TGAAGTTTA-AGTGTAGGAGAT
12993526 TGAAGTTTAAGTGTAGGAG
1 TGAAGTTTAAGTGTAGGAG
12993545 TAGGCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (21 bp):
TGAAGTTTAAGTGTAGGAGAT
Found at i:12995378 original size:18 final size:18
Alignment explanation
Indices: 12995349--12995398 Score: 91
Period size: 18 Copynumber: 2.7 Consensus size: 18
12995339 TTAGTGAGGC
12995349 ATAATCAATAATACAAAAT
1 ATAAT-AATAATACAAAAT
12995368 ATAATAATAATACAAAAT
1 ATAATAATAATACAAAAT
12995386 ATAATAATAATAC
1 ATAATAATAATAC
12995399 GAAACATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAATAATACAAAAT
Found at i:12999632 original size:55 final size:55
Alignment explanation
Indices: 12999517--13000071 Score: 648
Period size: 55 Copynumber: 10.1 Consensus size: 55
12999507 TTAGATCAAT
* * * * * *
12999517 TTTGGAAGACGGATTTGCTCTACTCTTCTTTCAGGGAGAT--GACTCGAAAATTT
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
* * * *
12999570 TTTGGAAGATGGGTCTGCTTCACTATTCTTTTAGGGAGATATGACTCGAAAAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
* * * * *
12999625 TTCGGAAGACGGGTTTGCTCTACTCTTCTTTCAAGGAGATAAGACTCGAAAAAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCG-AAAAATC
* * * *
12999681 TTTGGAAGATGGGTCTTCTCCACTATTCTTTCACGGAGATAAGACTCAAAAAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
* *
12999736 TTCGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATT
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
** *
12999791 TTTGGAAGACAGGTCTGCTCCACTCTTCTTTCAGGGAGATAGGACTCGAAACAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAA-AATC
*
12999847 TTCGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAAT-
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCG-AAAAATC
* * * *
12999902 TTTGGAATATGGGTCTGCTCCACTCCTCTTTTAGGGAGATAGGACTCGAAACAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAA-AATC
** * * * **
12999958 TTTGGAAGATGGGTCAACTCCATTCTTCTTTCAAGGAGATAAAACTAAAAAAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
** ** * * * * *
13000013 TTCAGAAGAAAGGTATGCTACACTCTTCTTACAGGGAGATAAGACCCAAAAAATC
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
13000068 TTTG
1 TTTG
13000072 ATCCTCTTCA
Statistics
Matches: 422, Mismatches: 73, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
53 33 0.08
54 3 0.01
55 246 0.58
56 137 0.32
57 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (55 bp):
TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAATC
Found at i:12999727 original size:111 final size:111
Alignment explanation
Indices: 12999532--13000069 Score: 665
Period size: 111 Copynumber: 4.9 Consensus size: 111
12999522 AAGACGGATT
* * * *
12999532 TGCTCTACTCTTCTTTCAGGGAGAT--GACTCG-AAAATTTTTTGGAAGATGGGTCTGCTTCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
* * * * *
12999594 ATTCTTTTAGGGAGATATGACTCGAAAAATCTTCGGAAGACGGGTT
66 CTTCTTTCAGGGAGATAAGACTCGAAAAATCTTCGGAAGATGGGTC
* * *
12999640 TGCTCTACTCTTCTTTCAAGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTTCTCCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
* * *
12999705 ATTCTTTCACGGAGATAAGACTCAAAAAATCTTCGGAAGATGGGTC
66 CTTCTTTCAGGGAGATAAGACTCGAAAAATCTTCGGAAGATGGGTC
* **
12999751 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCG-AAAAATTTTTGGAAGACAGGTCTGCTCCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
*
12999815 CTTCTTTCAGGGAGATAGGACTCGAAACAATCTTCGGAAGATGGGTC
66 CTTCTTTCAGGGAGATAAGACTCGAAA-AATCTTCGGAAGATGGGTC
*
12999862 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAAT-TTTGGAATATGGGTCTGCTCCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
* * * *
12999926 CCTCTTTTAGGGAGATAGGACTCGAAACAATCTTTGGAAGATGGGTC
66 CTTCTTTCAGGGAGATAAGACTCGAAA-AATCTTCGGAAGATGGGTC
** * * * * ** ** * *
12999973 AACTCCATTCTTCTTTCAAGGAGATAAAACT-AAAAAAATCTTCAGAAGAAAGGTATGCTACACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
* * *
13000037 CTTCTTACAGGGAGATAAGACCCAAAAAATCTT
66 CTTCTTTCAGGGAGATAAGACTCGAAAAATCTT
13000070 TGATCCTCTT
Statistics
Matches: 378, Mismatches: 46, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
108 24 0.06
110 69 0.18
111 279 0.74
112 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (111 bp):
TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTCTGCTCCACT
CTTCTTTCAGGGAGATAAGACTCGAAAAATCTTCGGAAGATGGGTC
Found at i:12999789 original size:166 final size:166
Alignment explanation
Indices: 12999532--13000071 Score: 701
Period size: 166 Copynumber: 3.3 Consensus size: 166
12999522 AAGACGGATT
* * * * * *
12999532 TGCTCTACTCTTCTTTCAGGGAGAT--GACTCGAAAATTTTTTGGAAGATGGGTCTGCTTCACTA
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAGATGGGTCTGCTCCACTC
* * * *
12999595 TTCTTTTAGGGAGATATGACTCGAAAAATCTTCGGAAGACGGGTTTGCTCTACTCTTCTTTCAAG
66 TTCTTTTAGGGAGATAAGACTCGAAAAATCTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAAG
*
12999660 GAGATAAGACTCGAAAAAATCTTTGGAAGATGGGTC
131 GAGATAAGACTCGAAAAAATCTTCGGAAGATGGGTC
* * * *
12999696 TTCTCCACTATTCTTTCACGGAGATAAGACTCAAAAAATCTTCGGAAGATGGGTCTGCTCCACTC
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAGATGGGTCTGCTCCACTC
* * * *
12999761 TTCTTTCAGGGAGATAAGACTCGAAAAATTTTTGGAAGACAGGTCTGCTCCACTCTTCTTTCAGG
66 TTCTTTTAGGGAGATAAGACTCGAAAAATCTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAAG
* *
12999826 GAGATAGGACTCGAAACAATCTTCGGAAGATGGGTC
131 GAGATAAGACTCGAAAAAATCTTCGGAAGATGGGTC
*
12999862 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAAAAAAT-TTTGGAATATGGGTCTGCTCCACT
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTC-AAAAAATCTTTGGAAGATGGGTCTGCTCCACT
* * * ** *
12999926 CCTCTTTTAGGGAGATAGGACTCGAAACAATCTTTGGAAGATGGGTCAACTCCATTCTTCTTTCA
65 CTTCTTTTAGGGAGATAAGACTCGAAA-AATCTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCA
* * * ** *
12999991 AGGAGATAAAACT-AAAAAAATCTTCAGAAGAAAGGTA
129 AGGAGATAAGACTCGAAAAAATCTTCGGAAGATGGGTC
* * *
13000028 TGCTACACTCTTCTTACAGGGAGATAAGACCCAAAAAATCTTTG
1 TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTG
13000072 ATCCTCTTCA
Statistics
Matches: 324, Mismatches: 47, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
164 21 0.06
165 7 0.02
166 248 0.77
167 48 0.15
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (166 bp):
TGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATCTTTGGAAGATGGGTCTGCTCCACTC
TTCTTTTAGGGAGATAAGACTCGAAAAATCTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAAG
GAGATAAGACTCGAAAAAATCTTCGGAAGATGGGTC
Found at i:13001409 original size:6 final size:6
Alignment explanation
Indices: 13001398--13001427 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13001388 TCTTGAACCC
13001398 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
13001428 TCTTCTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:13010882 original size:16 final size:16
Alignment explanation
Indices: 13010861--13010891 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13010851 GTGCAATGCA
*
13010861 AAAAAATAAAATAAAG
1 AAAAAACAAAATAAAG
13010877 AAAAAACAAAATAAA
1 AAAAAACAAAATAAA
13010892 ATTAGTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAACAAAATAAAG
Found at i:13014388 original size:43 final size:43
Alignment explanation
Indices: 13014298--13014404 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
13014288 GTAGAGGTGG
* * * * * *
13014298 TGATCCAACTCTTTATGTGAAGACTCAAGCACATGGTTGTCAT
1 TGATCCAACTCATTCTGTGAAGAATCAAGCAAAAGGTTGTCAC
13014341 TGATCCAACTCATTCTGTGAAGAATCAAG-AGAAAGGCTT-TCAC
1 TGATCCAACTCATTCTGTGAAGAATCAAGCA-AAAGG-TTGTCAC
*
13014384 TGATCCAACTCCTTCTGTGAA
1 TGATCCAACTCATTCTGTGAA
13014405 AGGAAGAGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.95
44 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
TGATCCAACTCATTCTGTGAAGAATCAAGCAAAAGGTTGTCAC
Found at i:13017759 original size:18 final size:18
Alignment explanation
Indices: 13017736--13017778 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
13017726 TTTAAAATGT
13017736 ATGAAAAATAAATAATAA
1 ATGAAAAATAAATAATAA
13017754 ATGAAAAATAAATAATAA
1 ATGAAAAATAAATAATAA
13017772 ATGAAAA
1 ATGAAAA
13017779 CAAATTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
ATGAAAAATAAATAATAA
Found at i:13019529 original size:12 final size:12
Alignment explanation
Indices: 13019502--13019536 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13019492 ATAAATGATA
13019502 AAATGTAAAGATGC
1 AAATGT-AA-ATGC
13019516 AAATGTAAATGC
1 AAATGTAAATGC
13019528 AAATGTAAA
1 AAATGTAAA
13019537 AGGTATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 2 0.10
14 6 0.29
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (12 bp):
AAATGTAAATGC
Found at i:13026850 original size:21 final size:20
Alignment explanation
Indices: 13026825--13026869 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
13026815 CTAAAAATGT
13026825 TAAAA-AATATTGATTTTTAGA
1 TAAAATAATATT-A-TTTTAGA
13026846 TAAAAATAATATTATTTTAGA
1 T-AAAATAATATTATTTTAGA
13026867 TAA
1 TAA
13026870 TTTTTTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.09
21 9 0.41
22 5 0.23
23 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
TAAAATAATATTATTTTAGA
Found at i:13028540 original size:16 final size:16
Alignment explanation
Indices: 13028516--13028547 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13028506 ATGACACACT
*
13028516 AAACTATATAATATGA
1 AAACAATATAATATGA
13028532 AAACAATATAATATGA
1 AAACAATATAATATGA
13028548 GACTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.28
Consensus pattern (16 bp):
AAACAATATAATATGA
Found at i:13031111 original size:66 final size:68
Alignment explanation
Indices: 13030980--13031113 Score: 218
Period size: 66 Copynumber: 2.0 Consensus size: 68
13030970 ACCAGAACTG
* * * *
13030980 CGTCTGTAGGGCTTACCCTAAGCACACAGCAAAAAGGGGGCCAACCTAAGGATATGCCTTGGGGC
1 CGTCCGTAGGGCTTACCCTAAGAACACAACAAAAAGGGAGCCAACCTAAGGATATGCCTTGGGGC
13031045 CTA
66 CTA
13031048 CGTCCGTAGGGCTTACCCTAAGAACACAAC-AAAA-GGAGCCAACCTAAGGATATGCCTTGGGGC
1 CGTCCGTAGGGCTTACCCTAAGAACACAACAAAAAGGGAGCCAACCTAAGGATATGCCTTGGGGC
13031111 CTA
66 CTA
13031114 TGAGCCTACC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 31 0.50
67 4 0.06
68 27 0.44
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.17
Consensus pattern (68 bp):
CGTCCGTAGGGCTTACCCTAAGAACACAACAAAAAGGGAGCCAACCTAAGGATATGCCTTGGGGC
CTA
Found at i:13034224 original size:18 final size:18
Alignment explanation
Indices: 13034180--13034226 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
13034170 GCTTGGCTCA
13034180 GCTCGGCTCGACGACTCG
1 GCTCGGCTCGACGACTCG
** *
13034198 GCTTC-GCTCGGTGTCTCG
1 GC-TCGGCTCGACGACTCG
13034216 GCTCGGCTCGA
1 GCTCGGCTCGA
13034227 TCAAGATCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.06, C:0.36, G:0.34, T:0.23
Consensus pattern (18 bp):
GCTCGGCTCGACGACTCG
Found at i:13037065 original size:131 final size:130
Alignment explanation
Indices: 13036817--13037185 Score: 497
Period size: 130 Copynumber: 2.8 Consensus size: 130
13036807 ATAATTTTAA
* * *
13036817 GAGAGAAGACGATAATATTTAATTA-TTTCTAATCAAGAATAAATGACCTCTCATACCTTAAAGT
1 GAGAGAAAACGATAATATCTAATTATTTTC-AATCGAGAATAAATGACCTCTCATACCTTAAAGT
* * * *
13036881 AATCATTTATTACTCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAATATTGAT
65 AATCATTTATTACTCCAAACGAAATGAAAAGATATCACTATTCCATC-TAAAAATCAATATTAAT
13036946 TC
129 TC
* *
13036948 GAGTGAAAACGATAATATCTAATGATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
1 GAGAGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
* * * * *
13037013 GTCATTTATTGCTCCAATCAAAATGAATAGATATCACTATTCCATCTAAAAATCAATATTAATTC
66 ATCATTTATTACTCCAAACGAAATGAAAAGATATCACTATTCCATCTAAAAATCAATATTAATTC
* * * * * * *
13037078 GAGAGAAAACGGTAATATCAAATTATTTTCGATTGATAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
* * *
13037143 ATAATTTATTACTCCAACCGAAATGAAAAGATATTACTATTCC
66 ATCATTTATTACTCCAAACGAAATGAAAAGATATCACTATTCC
13037186 TAATATCGAT
Statistics
Matches: 208, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
130 109 0.52
131 95 0.46
132 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGTA
ATCATTTATTACTCCAAACGAAATGAAAAGATATCACTATTCCATCTAAAAATCAATATTAATTC
Found at i:13039217 original size:3 final size:3
Alignment explanation
Indices: 13039209--13039271 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
13039199 AAAAATTTAT
* * * *
13039209 TAA TAA TAA TAA TAT TAT TAA TAA TAA TAT TAA TAA TAA TAT TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
13039255 TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
13039272 AGGGATGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:13039232 original size:12 final size:12
Alignment explanation
Indices: 13039209--13039271 Score: 92
Period size: 12 Copynumber: 5.2 Consensus size: 12
13039199 AAAAATTTAT
*
13039209 TAATAATAATAA
1 TAATATTAATAA
*
13039221 TATTATTAATAA
1 TAATATTAATAA
13039233 TAATATTAATAA
1 TAATATTAATAA
13039245 TAATATTAAATAA
1 TAATATT-AATAA
13039258 TAATA-TAATAA
1 TAATATTAATAA
13039269 TAA
1 TAA
13039272 AGGGATGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
11 8 0.17
12 29 0.62
13 10 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:13039964 original size:134 final size:134
Alignment explanation
Indices: 13039634--13040237 Score: 797
Period size: 134 Copynumber: 4.5 Consensus size: 134
13039624 GTTATTCTTT
* * * *
13039634 TTCTTGAGGG-AAATCATATTTAGGGACGTTGATTCATTCCACTGTTACTCAGGGAAAATTGAAT
1 TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGATTGAAT
* * * * * *
13039698 CGAGGCATATTTGTTCCACTGTTACTTAAGGAATATCAAATCTTGAAAGAGATGGATATG-TTC-
66 CGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCG
*
13039761 C-GC
131 CTTC
* * * * * *
13039764 TTCTAAAGGGAAAATCAGATCTGGGGTCGTTGATTTATTCCACTGTTATTCAGGGAAGATTGAAT
1 TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGATTGAAT
* * *
13039829 CGAGGTAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTTG
66 CGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCG
13039894 CTTC
131 CTTC
*
13039898 TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCTTTCCGA-TGTTACTCAGGGAAGATTGAA
1 TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCC-ACTGTTACTCAGGGAAGATTGAA
*
13039962 TCGAGGAAGACTTGTTCCAATGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTC
65 TCGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTC
*
13040027 GCTTT
130 GCTTC
* * * *
13040032 TTCTTGAGGGAAAATCATATATGGAGACGTTGATTCATTACGCTGTTACTCAGGGAAGATTGAAT
1 TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGATTGAAT
** * * * * *
13040097 CGAGGAAGACTTGTTCTGCTGTTACTTAGGGAATATTAAATCTTGGAATAGAGGGATCTGTTTCG
66 CGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCG
13040162 CTTC
131 CTTC
* * * *
13040166 TTTCTT-AGGGAAATTCAGATCTGGGGACGTTGATTCATTCCACTGTTACTTAGGGAAGATTGAA
1 -TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGATTGAA
*
13040230 TCAAGGAA
65 TCGAGGAA
13040238 AATTTATTTT
Statistics
Matches: 415, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
130 8 0.02
131 100 0.24
132 2 0.00
133 1 0.00
134 298 0.72
135 6 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (134 bp):
TTCTTAAGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTACTCAGGGAAGATTGAAT
CGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCG
CTTC
Found at i:13040526 original size:17 final size:17
Alignment explanation
Indices: 13040504--13040545 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
13040494 ATCATGCATT
13040504 TTTATGCCATGATCCTA
1 TTTATGCCATGATCCTA
13040521 TTTATGCCATGATCCTA
1 TTTATGCCATGATCCTA
13040538 TTTATGCC
1 TTTATGCC
13040546 TAAAATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTATGCCATGATCCTA
Found at i:13041344 original size:58 final size:56
Alignment explanation
Indices: 13041254--13041368 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 56
13041244 ATGCCATATA
13041254 CCAGTATTTGAATCTCATTTACTTTCTAGTTATCCAAGCCTTTTTTTTATTTCATGTC
1 CCAGTATTTGAATCTCATTTACTTTCTAGTTATCCAAGCC--TTTTTTATTTCATGTC
13041312 CCAGTATTTGAATCTCATTTACTTTCTAGTTATCCAAGCCTTTTTTATTTCATGTC
1 CCAGTATTTGAATCTCATTTACTTTCTAGTTATCCAAGCCTTTTTTATTTCATGTC
13041368 C
1 C
13041369 TAACCCTGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 17 0.30
58 40 0.70
ACGTcount: A:0.21, C:0.22, G:0.09, T:0.49
Consensus pattern (56 bp):
CCAGTATTTGAATCTCATTTACTTTCTAGTTATCCAAGCCTTTTTTATTTCATGTC
Found at i:13041532 original size:19 final size:18
Alignment explanation
Indices: 13041501--13041554 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
13041491 TTTTTGTTTA
*
13041501 TTCTCTTTTTATTTTTTC
1 TTCTTTTTTTATTTTTTC
13041519 TTCTTTTCTTTA--TTTTC
1 TTCTTTT-TTTATTTTTTC
13041536 -TCTTTTTTTATTTTTTC
1 TTCTTTTTTTATTTTTTC
13041553 TT
1 TT
13041555 TTCATTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 4 0.13
16 6 0.19
17 10 0.32
18 7 0.23
19 4 0.13
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTTTTTATTTTTTC
Found at i:13041539 original size:47 final size:46
Alignment explanation
Indices: 13041488--13041589 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 46
13041478 CATCTTGAAC
* *
13041488 CTCTTTTTGTT-TATTCTCTTTTTATTTTTTC-TTCTTTTCTTTATTTT
1 CTCTTTTT-TTATATTCTCTTTTCA-TTTTTCATTC-ATTCTTTATTTT
* *
13041535 CTCTTTTTTTATTTTTTCTTTTCATTTTTCATTCATTCTTTATTTT
1 CTCTTTTTTTATATTCTCTTTTCATTTTTCATTCATTCTTTATTTT
13041581 C-CTTTTTTT
1 CTCTTTTTTT
13041590 TTCTTTTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 8 0.16
46 20 0.41
47 21 0.43
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.75
Consensus pattern (46 bp):
CTCTTTTTTTATATTCTCTTTTCATTTTTCATTCATTCTTTATTTT
Found at i:13041548 original size:15 final size:15
Alignment explanation
Indices: 13041488--13041563 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
13041478 CATCTTGAAC
* *
13041488 CTCTTTTTGTTTATT
1 CTCTTTTTATTTTTT
13041503 CTCTTTTTATTTTTT
1 CTCTTTTTATTTTTT
13041518 CTTCTTTTCT-TTATTTT
1 C-TCTTTT-TATT-TTTT
13041535 CTCTTTTT-TTATTTT
1 CTCTTTTTATT-TTTT
* *
13041550 TTCTTTTCATTTTT
1 CTCTTTTTATTTTT
13041564 CATTCATTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
15 31 0.58
16 16 0.30
17 6 0.11
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (15 bp):
CTCTTTTTATTTTTT
Found at i:13041575 original size:35 final size:35
Alignment explanation
Indices: 13041536--13041603 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
13041526 CTTTATTTTC
*
13041536 TCTTT-TTTTATTTTTTCTTTTCATTTTTCATTCAT
1 TCTTTATTTTACTTTTT-TTTTCATTTTTCATTCAT
* *
13041571 TCTTTATTTTCCTTTTTTTTTCTTTTTTCATTC
1 TCTTTATTTTACTTTTTTTTTCATTTTTCATTC
13041604 TTCAGGCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 20 0.69
36 9 0.31
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (35 bp):
TCTTTATTTTACTTTTTTTTTCATTTTTCATTCAT
Found at i:13041593 original size:20 final size:21
Alignment explanation
Indices: 13041524--13041595 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 21
13041514 TTTTCTTCTT
13041524 TTCTTTATTTTCTCTTTTTTTA
1 TTCTTTATTTTC-CTTTTTTTA
* * *
13041546 TTTTTTCTTTTCATTTTTCATTCA
1 TTCTTTATTTTCCTTTTT--TT-A
13041570 TTCTTTATTTTCCTTTTTTT-
1 TTCTTTATTTTCCTTTTTTTA
13041590 TTCTTT
1 TTCTTT
13041596 TTTCATTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 6 0.15
21 5 0.12
22 12 0.29
23 2 0.05
24 16 0.39
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTTTATTTTCCTTTTTTTA
Found at i:13044570 original size:18 final size:18
Alignment explanation
Indices: 13044544--13044585 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13044534 CATGCTACTT
13044544 CATTT-AAGCATGC-ATTG
1 CATTTAAAGCAT-CTATTG
*
13044561 CATTTAAAGCATCTATTT
1 CATTTAAAGCATCTATTG
13044579 CATTTAA
1 CATTTAA
13044586 TAAAGTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (18 bp):
CATTTAAAGCATCTATTG
Found at i:13044612 original size:17 final size:17
Alignment explanation
Indices: 13044592--13044644 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
13044582 TTAATAAAGT
13044592 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
13044609 TAGTTCATAAATCAAAC
1 TAGTTCATTAATTAAAC
*
13044626 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
13044643 TA
1 TA
13044645 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:13047664 original size:19 final size:19
Alignment explanation
Indices: 13047640--13047678 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13047630 TCGAATGCAT
13047640 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
13047659 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
13047678 T
1 T
13047679 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:13047780 original size:64 final size:65
Alignment explanation
Indices: 13047626--13047784 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
13047616 GAATTAATTG
* * *** *
13047626 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
13047691 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
13047754 A
65 A
*
13047755 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
13047785 TCCTTAGTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
64 34 0.41
65 49 0.59
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:13049893 original size:20 final size:21
Alignment explanation
Indices: 13049860--13049899 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13049850 TTTTAACGTA
13049860 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
13049880 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
13049900 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:13049907 original size:22 final size:20
Alignment explanation
Indices: 13049859--13049903 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13049849 ATTTTAACGT
13049859 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
13049879 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
13049900 AATT
1 AATT
13049904 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:13054834 original size:21 final size:21
Alignment explanation
Indices: 13054792--13054835 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13054782 ACCCCGGGAG
* *
13054792 CTAGTTTTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
13054813 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
13054834 CT
1 CT
13054836 CCTCCTCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:13055887 original size:19 final size:19
Alignment explanation
Indices: 13055863--13055901 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13055853 TCGAATGCAT
13055863 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
13055882 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
13055901 T
1 T
13055902 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:13056003 original size:64 final size:65
Alignment explanation
Indices: 13055849--13056007 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
13055839 GAATTAATTG
* * *** *
13055849 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
13055914 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
13055977 A
65 A
*
13055978 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
13056008 TCCTTAGTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
64 34 0.41
65 49 0.59
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:13057248 original size:18 final size:18
Alignment explanation
Indices: 13057222--13057263 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13057212 CATGCTACTT
13057222 CATTT-AAGCATGC-ATTG
1 CATTTAAAGCAT-CTATTG
*
13057239 CATTTAAAGCATCTATTT
1 CATTTAAAGCATCTATTG
13057257 CATTTAA
1 CATTTAA
13057264 TAAAGTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (18 bp):
CATTTAAAGCATCTATTG
Found at i:13057290 original size:17 final size:17
Alignment explanation
Indices: 13057270--13057305 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13057260 TTAATAAAGT
13057270 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
13057287 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
13057304 TA
1 TA
13057306 ACTCTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:13063783 original size:65 final size:64
Alignment explanation
Indices: 13063714--13063893 Score: 213
Period size: 65 Copynumber: 2.8 Consensus size: 64
13063704 AATTAAATTG
* *
13063714 AACATCGAATGCATTTCATGCATCGATGCACATATCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATATCATGCACCGATGCACTCAGGATATTT-T-A
13063778 A
64 A
** * * *
13063779 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATATCATGCACCGATGCACTCAGGATATTTTAA
* * *
13063843 AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACATATCA-TGCACCGATGCACT
13063894 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
63 2 0.02
64 44 0.44
65 48 0.48
66 5 0.05
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATATCATGCACCGATGCACTCAGGATATTTTAA
Found at i:13063870 original size:64 final size:66
Alignment explanation
Indices: 13063664--13063873 Score: 211
Period size: 65 Copynumber: 3.2 Consensus size: 66
13063654 TTTTTCAGAG
* * * **
13063664 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG--AACATCGAATG
1 TGATGCATCGATGCACCATA-CCATGCACCGATGCACTCA-GGATTTTA-TGAAAACATCGAATG
13063725 CATT
63 CATT
* * *
13063729 TCATGCATCGATGCA-CATATCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
13063793 T
66 T
* * * *
13063794 TGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-T-AAAACATCGAATGCA
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCA
*
13063856 CT
65 TT
13063858 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
13063874 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 53 0.43
65 63 0.51
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (66 bp):
TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
T
Found at i:13063873 original size:17 final size:19
Alignment explanation
Indices: 13063845--13063893 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
13063835 TATTTTAAAA
13063845 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
13063863 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
13063882 CACCGATGCACT
1 CATCGATGCACT
13063894 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:13069966 original size:15 final size:15
Alignment explanation
Indices: 13069946--13069978 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13069936 GGGTAACTAT
13069946 TATAACATTGTTATG
1 TATAACATTGTTATG
*
13069961 TATAACATTGTTTTG
1 TATAACATTGTTATG
13069976 TAT
1 TAT
13069979 GTATGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (15 bp):
TATAACATTGTTATG
Found at i:13070306 original size:6 final size:6
Alignment explanation
Indices: 13070295--13070406 Score: 109
Period size: 6 Copynumber: 18.7 Consensus size: 6
13070285 TTTATGCAAT
* * *
13070295 TTTCAA TTTCAA TTTGAGA -TTGAA TTTCAA TTTCAA TTTCAA TTTTAA
1 TTTCAA TTTCAA TTTCA-A TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* * * * * * *
13070343 TTTGAG TTTCAA TTTCAG TTTCAA TTTCAA TTTTAA TTTGAG TTTAAA
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
*
13070391 TTTTAA TTTCAA TTTC
1 TTTCAA TTTCAA TTTC
13070407 GGCTCCACTA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
5 1 0.01
6 86 0.98
7 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (6 bp):
TTTCAA
Found at i:13070339 original size:36 final size:36
Alignment explanation
Indices: 13070295--13070406 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 36
13070285 TTTATGCAAT
* * *
13070295 TTTCAATTTCAATTTGAGATTGAATTTCAATTTCAA
1 TTTCAATTTTAATTTGAGTTTAAATTTCAATTTCAA
* *
13070331 TTTCAATTTTAATTTGAGTTTCAATTTCAGTTTCAA
1 TTTCAATTTTAATTTGAGTTTAAATTTCAATTTCAA
*
13070367 TTTCAATTTTAATTTGAGTTTAAATTTTAATTTCAA
1 TTTCAATTTTAATTTGAGTTTAAATTTCAATTTCAA
13070403 TTTC
1 TTTC
13070407 GGCTCCACTA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTCAATTTTAATTTGAGTTTAAATTTCAATTTCAA
Found at i:13075316 original size:227 final size:225
Alignment explanation
Indices: 13074892--13075497 Score: 867
Period size: 227 Copynumber: 2.7 Consensus size: 225
13074882 TGTACACGAC
* *
13074892 AATATGTTGATAAAGGTTGATAAAAAAATCAAGTAATTAACTGGTTATGTTATCGTCCGATTTCT
1 AATATGTTGATAAAGGTTGAT-AACAAATCAAGTAATTAACCGGTTATGTTATCGT-CGATTTCT
* * * *
13074957 AAAGCTCCATCAGATTAAACATTAGTAACATTTTAGGCGTTACCTAATATGTTGATAATATTGAT
64 AAGGCTCCATCA-ATTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGAT
* * *
13075022 AACAAATTAAGTAATTAACCTATTTTATTATCGTCAGATTTCTAAGGCCCCATCAGCTTTTAAAA
128 AACAAATTAAGTAATTAACCTATTTTATCATCGTCAAATTTCTAAGGCCCCATCAGCTTTAAAAA
*
13075087 GGCGCTACCTATTACGTTACATAAGCACTACCT
193 GGCGCTACCTATTACATTACATAAGCACTACCT
* *
13075120 AATATGTTGATAAAGGTTGATTACAAATCAAGTAATTAACCGGTTATGTTTTCGTCGAATTTCTA
1 AATATGTTGATAAAGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCG-ATTTCTA
* *
13075185 AGGCTCCATCAACTTAAACTTTGGTAACATTTCAGGCGTTACCTAATATGTTGATAATACTGACA
65 AGGCTCCATCAA-TTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATA
* * * *
13075250 ACAAATTAAGTAATTAACCTATTTTGTCATTGTCAAATTTCTAAGGCCCTATTAGCTTTAAAAAG
129 ACAAATTAAGTAATTAACCTATTTTATCATCGTCAAATTTCTAAGGCCCCATCAGCTTTAAAAAG
*
13075315 GCGCTACCTATTACATTACATAAGCGCTACCT
194 GCGCTACCTATTACATTACATAAGCACTACCT
* * * *
13075347 AATATATTGATAAAGG--GATAACAAATCAAGTAATTAATCGGTTACGCTATCGTCGGATTTCTA
1 AATATGTTGATAAAGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTC-GATTTCTA
* ** *
13075410 AGGCTCCATCAGTTTAAACTTTGGTAACATTTTATACATTACCTCAA-ATGTTGATAATACTGAT
65 AGGCTCCATCA-ATTAAACTTTGGTAACATTTTAGGCGTTACCT-AATATGTTGATAATACTGAT
*
13075474 AACAAATTAAGTAATTATCCTATT
128 AACAAATTAAGTAATTAACCTATT
13075498 ATGTTACATA
Statistics
Matches: 341, Mismatches: 32, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
225 117 0.34
226 6 0.02
227 197 0.58
228 21 0.06
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (225 bp):
AATATGTTGATAAAGGTTGATAACAAATCAAGTAATTAACCGGTTATGTTATCGTCGATTTCTAA
GGCTCCATCAATTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAAC
AAATTAAGTAATTAACCTATTTTATCATCGTCAAATTTCTAAGGCCCCATCAGCTTTAAAAAGGC
GCTACCTATTACATTACATAAGCACTACCT
Found at i:13075612 original size:172 final size:171
Alignment explanation
Indices: 13075321--13075661 Score: 479
Period size: 172 Copynumber: 2.0 Consensus size: 171
13075311 AAAGGCGCTA
* *
13075321 CCTATTACATTACATAAGCGCTACCTAATATATTGATAAAGGGATAACAAATCAAGTAATTAATC
1 CCTATTACATTACATAAGCGCTACCTAATATATTGATAAAGGAATAACAAATCAAGTAATTAACC
* * * * *
13075386 GGTTACGCTATCGTCGGATTTCTAAGGCTCCATCAGTTTAAACTTTGGTAACATTTTATACATTA
66 GATTACGCTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGATAACATTTTAGACATTA
13075451 CCTCAA-ATGTTGATAATACTGATAACAAATTAAGTAATTAT
131 CCT-AATATGTTGATAATACTGATAACAAATTAAGTAATTAT
** * * *
13075492 CCTATTATGTTACATAAGCGCTACCTAATATGTT-ATTATGGTTAATAACAAATCAAGTAATTAA
1 CCTATTACATTACATAAGCGCTACCTAATATATTGATAAAGG--AATAACAAATCAAGTAATTAA
* * * *
13075556 CCGATTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGATAACATTTTAGGCGT
64 CCGATTACGCTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGATAACATTTTAGACAT
* *
13075621 TACCTAATATGTTGATAGTACTGATAGCAAATTAAGTAATT
129 TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
13075662 TACTTATTTT
Statistics
Matches: 149, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
170 5 0.03
171 33 0.22
172 111 0.74
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (171 bp):
CCTATTACATTACATAAGCGCTACCTAATATATTGATAAAGGAATAACAAATCAAGTAATTAACC
GATTACGCTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGATAACATTTTAGACATTA
CCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAT
Found at i:13076391 original size:30 final size:30
Alignment explanation
Indices: 13076350--13076413 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
13076340 GTTCCAAGAA
*
13076350 AAGATCATGCAAATCGAATATGTACCATGG
1 AAGATCATGCAAATCGAATATGTACCATAG
* *
13076380 AAGATCGTGCAAATTGAATATGTACCATAG
1 AAGATCATGCAAATCGAATATGTACCATAG
13076410 AAGA
1 AAGA
13076414 AAGTTGAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (30 bp):
AAGATCATGCAAATCGAATATGTACCATAG
Found at i:13077694 original size:21 final size:21
Alignment explanation
Indices: 13077665--13077704 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13077655 AGAATTATTA
*
13077665 TAATATTTTAAAATTAATAAT
1 TAATATTTTAAAATAAATAAT
* *
13077686 TAATTTTTTATAATAAATA
1 TAATATTTTAAAATAAATA
13077705 TTATAAATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTAAAATAAATAAT
Found at i:13077889 original size:30 final size:32
Alignment explanation
Indices: 13077823--13077890 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 32
13077813 AAATTTAACT
*
13077823 AAATAATAATTATATAAATCTTATTTTAATAAA
1 AAATAATAATTATATAAA-CTTATATTAATAAA
* * *
13077856 AAATAATATTTATAT-AA-TTATATTACTATA
1 AAATAATAATTATATAAACTTATATTAATAAA
13077886 AAATA
1 AAATA
13077891 TAAAACTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 15 0.48
32 2 0.06
33 14 0.45
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATAATAATTATATAAACTTATATTAATAAA
Found at i:13089537 original size:82 final size:82
Alignment explanation
Indices: 13089400--13089558 Score: 228
Period size: 82 Copynumber: 1.9 Consensus size: 82
13089390 TTTATTATGG
* * * ** * *
13089400 GATTAAATTATAGGGTGAACTATATGTTTAATATCATAAGTTTTAATGTAAAAATAAGTGTTAAA
1 GATTAAATTATAGAGTAAACTATATGTTTAATACCATAAGGGTTAATGTAAAAATAAATATTAAA
*
13089465 ATTATATTTAAAGTTGA
66 ATTATACTTAAAGTTGA
* *
13089482 GATTAAATTATAGAGTAAACTATATGTTTAATACCATAAGGGTTCATGTAAAAATAAATATTCAA
1 GATTAAATTATAGAGTAAACTATATGTTTAATACCATAAGGGTTAATGTAAAAATAAATATTAAA
13089547 ATTATACTTAAA
66 ATTATACTTAAA
13089559 ATTATCTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.38
Consensus pattern (82 bp):
GATTAAATTATAGAGTAAACTATATGTTTAATACCATAAGGGTTAATGTAAAAATAAATATTAAA
ATTATACTTAAAGTTGA
Found at i:13091837 original size:564 final size:564
Alignment explanation
Indices: 13091057--13092180 Score: 1876
Period size: 564 Copynumber: 2.0 Consensus size: 564
13091047 AGAGTCGATT
*
13091057 ACGTGTGAGGAAGGATTATCATCCCCACAACGTCCTAAAATCGGTACCTAGTCGATTAATTATTA
1 ACGTGTGAGGAAGGATTATCATCCCCACAACATCCTAAAATCGGTACCTAGTCGATTAATTATTA
* *
13091122 TCTTCGCAATGGAAAAATAAGAATTCAAGTTTAATTTAATTAATGATCCCTTTTTAGTTGAATAA
66 TCTTCGCAATGAAAAAATAAGAATTCAAGTTTAATTTAATTAATGATCCCATTTTAGTTGAATAA
*
13091187 ATACAGAGTTATTTAACCGATTAAAATTCTAAAGAGAAAAGTTAACAATCCATTGCATTTAACTA
131 ATACAAAGTTATTTAACCGATTAAAATTCTAAAGAGAAAAGTTAACAATCCATTGCATTTAACTA
* *
13091252 GAGAGAGTTAGCCACCTAATATGAAGTAAGACAACGTCCCTTCCTTTTCCAATAAAAGTGGTGAA
196 GAGAGAGTTAGCCACCTAATATGAAGTAAGACAACGTCCCTCCCTTTTCCAATAAAAGCGGTGAA
13091317 TTGTCAATATTTCTTC-TCAGGAACTTAAAGTAAATTGACAACACTTCAACATTTCAAACCAAGG
261 TTGTCAATATTTCTTCAT-AGGAACTTAAAGTAAATTGACAACACTTCAACATTTCAAACCAAGG
* * *
13091381 AGAAACACATCTAATATGAAGTAGAATGGTTATTTTCGCA-GGAAAGAAATAAGAAATTGTAACA
325 AGAAACACATCTAATATGAAGTAGAATGGTGATTTTCCCATGAAAAGAAATAAGAAATTGTAACA
* *
13091445 CCCATCTCTTGTATACCTTTCCGTACACA-AGATACAAATGTCACATCACTTTTTAAAACATTTT
390 CCCATCTCTCGTATACATTTCCGTACA-AGAGATACAAATGTCACATCACTTTTTAAAACATTTT
13091509 GTCATTTGAAAACCCGTAAAATTTTATTTCAATTTTTAACAACCACAAAAGTATAACATTCATAG
454 GTCATTTGAAAACCCGTAAAATTTTATTTCAATTTTTAACAACCACAAAAGTATAACATTCATAG
* *
13091574 TAGCATAATACTAAAACTATCACTTTAAATATATTACATCCCCACA
519 TAGCATAATACTAAAACTATCACTTTAAAAACATTACATCCCCACA
*
13091620 ACGTGTGGGGAAGGATTATCATCCCCACAACATCCTAAAATCGGTACCTAGTCGATTAATTATTA
1 ACGTGTGAGGAAGGATTATCATCCCCACAACATCCTAAAATCGGTACCTAGTCGATTAATTATTA
*
13091685 TCTTCGCAATGAAAAAAATTAGAATTCAAGTTTAATTTAATTAATGATCCCATTTTAGTTGAATA
66 TCTTCGCAATG-AAAAAATAAGAATTCAAGTTTAATTTAATTAATGATCCCATTTTAGTTGAATA
* ***
13091750 AATACAAAGTTATTTAACCGATTAAACTTCTAAAGAGAAAAGTTAACAATTTGTTGCATTTAACT
130 AATACAAAGTTATTTAACCGATTAAAATTCTAAAGAGAAAAGTTAACAATCCATTGCATTTAACT
* * * * *
13091815 AGAGAGAGTTAGTCATCTAATATGAAGTAAGACGACGTCCCTCCCTTTTCCGATTAAAGCGGTGA
195 AGAGAGAGTTAGCCACCTAATATGAAGTAAGACAACGTCCCTCCCTTTTCCAATAAAAGCGGTGA
* ** *
13091880 ATTGTCAATATTTCTTCATAGGAACTTAGAGTAAATTGACAACACTTCAACATTTTGAACCAATG
260 ATTGTCAATATTTCTTCATAGGAACTTAAAGTAAATTGACAACACTTCAACATTTCAAACCAAGG
*
13091945 AGAAATACATCTAATATGAAGTAGAATGGTGATTTTCCCATTCTCGAAAAGAAATAAGAAATTGT
325 AGAAACACATCTAATATGAAGTAGAATGGTGATTTTCCCA---T-GAAAAGAAATAAGAAATTGT
*
13092010 AACACCCATCTCTCGTATACATTTTCGTACAAGAGATACAAATGTCACATCACTTTTTAAAACAT
386 AACACCCATCTCTCGTATACATTTCCGTACAAGAGATACAAATGTCACATCACTTTTTAAAACAT
* *
13092075 TTTGTCATTTGAAAACCCGTAAAATTTTGTTTCAATTTTTAATAACCACAAAAGTATAACATTCA
451 TTTGTCATTTGAAAACCCGTAAAATTTTATTTCAATTTTTAACAACCACAAAAGTATAACATTCA
13092140 TAGTAGCATAATACTAAAACTATCACTTTAAAAACATTACA
516 TAGTAGCATAATACTAAAACTATCACTTTAAAAACATTACA
13092181 AAATATTTCC
Statistics
Matches: 521, Mismatches: 32, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
563 74 0.14
564 264 0.51
565 1 0.00
568 1 0.00
569 181 0.35
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (564 bp):
ACGTGTGAGGAAGGATTATCATCCCCACAACATCCTAAAATCGGTACCTAGTCGATTAATTATTA
TCTTCGCAATGAAAAAATAAGAATTCAAGTTTAATTTAATTAATGATCCCATTTTAGTTGAATAA
ATACAAAGTTATTTAACCGATTAAAATTCTAAAGAGAAAAGTTAACAATCCATTGCATTTAACTA
GAGAGAGTTAGCCACCTAATATGAAGTAAGACAACGTCCCTCCCTTTTCCAATAAAAGCGGTGAA
TTGTCAATATTTCTTCATAGGAACTTAAAGTAAATTGACAACACTTCAACATTTCAAACCAAGGA
GAAACACATCTAATATGAAGTAGAATGGTGATTTTCCCATGAAAAGAAATAAGAAATTGTAACAC
CCATCTCTCGTATACATTTCCGTACAAGAGATACAAATGTCACATCACTTTTTAAAACATTTTGT
CATTTGAAAACCCGTAAAATTTTATTTCAATTTTTAACAACCACAAAAGTATAACATTCATAGTA
GCATAATACTAAAACTATCACTTTAAAAACATTACATCCCCACA
Done.