Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 185 of 313
Found at i:57201073 original size:6 final size:6
Alignment explanation
Indices: 57201054--57201087 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
57201044 ATAAGTCTAA
* *
57201054 AAAAAT AACAAT AAACAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
57201088 CAAATGGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:57201998 original size:13 final size:13
Alignment explanation
Indices: 57201982--57202006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57201972 TAAAAATACA
57201982 TTTTAACTTGAAT
1 TTTTAACTTGAAT
57201995 TTTTAACTTGAA
1 TTTTAACTTGAA
57202007 AAAAATTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TTTTAACTTGAAT
Found at i:57208276 original size:16 final size:16
Alignment explanation
Indices: 57208255--57208288 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
57208245 AAGAGGATAT
57208255 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
*
57208271 TTCTTGGGTAGGTGCA
1 TTCTTGGGTAAGTGCA
57208287 TT
1 TT
57208289 GTAGTCTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (16 bp):
TTCTTGGGTAAGTGCA
Found at i:57209720 original size:5 final size:5
Alignment explanation
Indices: 57209710--57209735 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57209700 GGTAAGTTCG
57209710 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
57209736 CTGTTTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:57209960 original size:45 final size:45
Alignment explanation
Indices: 57209844--57209962 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
57209834 TTCAAACATG
* * * *
57209844 TAAGACCATAATTGAAAGACACTATGACACTATACCATAGATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATGAA
*
57209889 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATGAA
* *
57209934 TAAGTCCATAGTTGAAAGGCACTATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
57209963 TCATGTCAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATGAA
Found at i:57209996 original size:45 final size:45
Alignment explanation
Indices: 57209844--57209985 Score: 169
Period size: 45 Copynumber: 3.2 Consensus size: 45
57209834 TTCAAACATG
* * * * * *
57209844 TAAGACCATAATTGAAAGACACTATGACACTATACCATAGATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATAAA
*
57209889 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATAAA
* * * *
57209934 TAAGTCCATAGTTGAAAGGCACTATGGCA-TCATGTCAGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACT-ATATCAAAAATAAA
57209979 TAAGACC
1 TAAGACC
57209986 GTGGCTGAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 84 0.99
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATATCAAAAATAAA
Found at i:57215733 original size:34 final size:34
Alignment explanation
Indices: 57215693--57215767 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
57215683 CTAACAAACT
*
57215693 CTAACAAA-TTCAACTTCTTACTCGTACTAACAAG
1 CTAACAAACTT-AACTTCTTACTCCTACTAACAAG
57215727 CTAACAAACTTAACTTCTTACTCCTACTAACAAG
1 CTAACAAACTTAACTTCTTACTCCTACTAACAAG
57215761 CTAACAA
1 CTAACAA
57215768 TCTCCTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (34 bp):
CTAACAAACTTAACTTCTTACTCCTACTAACAAG
Found at i:57225389 original size:20 final size:20
Alignment explanation
Indices: 57225366--57225408 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
57225356 TAAATATATT
*
57225366 TATTATGTT-TTATTATTATA
1 TATTATATTATTA-TATTATA
57225386 TATTATATTATTATATTATA
1 TATTATATTATTATATTATA
57225406 TAT
1 TAT
57225409 AAAGTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATATTATTATATTATA
Found at i:57225400 original size:13 final size:13
Alignment explanation
Indices: 57225336--57225406 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
57225326 GTTTAATAAA
57225336 TATATTATATTAT
1 TATATTATATTAT
* * *
57225349 TA-AATA-ATAAA
1 TATATTATATTAT
57225360 TATATT-TATTAT
1 TATATTATATTAT
57225372 GT-T-TTATTATTA-
1 -TATATTA-TATTAT
57225384 TATATTATATTAT
1 TATATTATATTAT
57225397 TATATTATAT
1 TATATTATAT
57225407 ATAAAGTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
11 8 0.18
12 15 0.34
13 21 0.48
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:57225407 original size:15 final size:15
Alignment explanation
Indices: 57225359--57225408 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
57225349 TAAATAATAA
*
57225359 ATATATTTATTATGTT
1 ATATA-TTATTATATT
57225375 -T-TATTATTATA-T
1 ATATATTATTATATT
57225387 ATTATATTATTATATT
1 A-TATATTATTATATT
57225403 ATATAT
1 ATATAT
57225409 AAAGTAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
12 1 0.03
13 7 0.24
14 3 0.10
15 16 0.55
16 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATATATTATTATATT
Found at i:57226224 original size:36 final size:36
Alignment explanation
Indices: 57226187--57226276 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
57226177 ATGTGTGGAA
*
57226187 TTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGAAT
1 TTGAAATGAAT-TGTGA-TTGAAAATGAAAAAGTGAAT
* *
57226224 TTTAAATTGAATTGTGATTGAAAGTGAAAAAGTGAAT
1 TTGAAA-TGAATTGTGATTGAAAATGAAAAAGTGAAT
* *
57226261 TTGAATTGAAATGTGA
1 TTGAAATGAATTGTGA
57226277 AATTGGAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 9 0.20
37 28 0.62
38 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.22, T:0.33
Consensus pattern (36 bp):
TTGAAATGAATTGTGATTGAAAATGAAAAAGTGAAT
Found at i:57233485 original size:42 final size:44
Alignment explanation
Indices: 57233409--57233582 Score: 154
Period size: 48 Copynumber: 3.8 Consensus size: 44
57233399 TACGTGGAAA
* * * *
57233409 TCTCATATCGATGCAAATAGCCCAGCTATGGTCTTACACG-AA-G
1 TCTCATATCGATGC-CATATCCCAGATATGGTCTTACACGAAATC
*
57233452 TCTCATATCGATGCCATATCCCAGATATGGTCTTATACGAAATC
1 TCTCATATCGATGCCATATCCCAGATATGGTCTTACACGAAATC
* **
57233496 TCAAATCAATATCGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TC---TC-ATATCGATGCCATATCCCAGATATGGTCTTACACGAAATC
* **
57233544 CCAAATCGATGCCGATGCCATATCCCAGATATGGTCTTA
1 TC---TC-ATATCGATGCCATATCCCAGATATGGTCTTA
57233583 TACAGGATCT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
42 21 0.18
43 16 0.14
44 2 0.02
47 2 0.02
48 73 0.64
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
TCTCATATCGATGCCATATCCCAGATATGGTCTTACACGAAATC
Found at i:57233527 original size:48 final size:48
Alignment explanation
Indices: 57233456--57233605 Score: 223
Period size: 48 Copynumber: 3.1 Consensus size: 48
57233446 ACGAAGTCTC
*
57233456 ATATCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCAAATCA
1 ATATCGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCA
* * *
57233504 ATATCGATGCCATATCCCAGATATGGTCTTATACGGGATCCCAAATCG
1 ATATCGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCA
**
57233552 ATGCCGATGCCATATCCCAGATATGGTCTTATAC-AGGATCTCAAATCA
1 ATATCGATGCCATATCCCAGATATGGTCTTATACGA-GATCTCAAATCA
57233600 AT-TCGA
1 ATATCGA
57233606 CAATATATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
47 3 0.03
48 88 0.97
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (48 bp):
ATATCGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCA
Found at i:57236331 original size:251 final size:251
Alignment explanation
Indices: 57235888--57236395 Score: 1009
Period size: 251 Copynumber: 2.0 Consensus size: 251
57235878 AAGTTGGTAA
57235888 AATGTTGTAAAATAAGGTTCCCAATTGAACACTCGGATTAGACCGGGATTCATTGAATGTAAGGG
1 AATGTTGTAAAATAAGGTTCCCAATTGAACACTCGGATTAGACCGGGATTCATTGAATGTAAGGG
57235953 GTTGCTAAGTGCAGATTCCCTAAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAG
66 GTTGCTAAGTGCAGATTCCCTAAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAG
57236018 GGGTTGCTAAGTGTTGATCCTGGAATTATTAATTTTAAAGGTGGTTGCTAAGTGCTGATTCCACC
131 GGGTTGCTAAGTGTTGATCCTGGAATTATTAATTTTAAAGGTGGTTGCTAAGTGCTGATTCCACC
57236083 GTATCCTTGATTGTGAAAGGGGTTTCTATGTGCTAATTCCCCGTATCACTGAATAT
196 GTATCCTTGATTGTGAAAGGGGTTTCTATGTGCTAATTCCCCGTATCACTGAATAT
57236139 AATGTTGTAAAATAAGGTTCCCAATTGAACACTCGGATTAGACCGGGATTCATTGAATGTAAGGG
1 AATGTTGTAAAATAAGGTTCCCAATTGAACACTCGGATTAGACCGGGATTCATTGAATGTAAGGG
57236204 GTTGCTAAGTGCAGATTCCCTAAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAG
66 GTTGCTAAGTGCAGATTCCCTAAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAG
57236269 GGGTTGCTAAGTGTTGATCCTGGAATTATTAATTTTAAAGGTGGTTGCTAAGTGCTGATTCCACC
131 GGGTTGCTAAGTGTTGATCCTGGAATTATTAATTTTAAAGGTGGTTGCTAAGTGCTGATTCCACC
57236334 GTATCCTTGATTGTGAAAGGGGTTTCTATGTGCTAATTCCCCGTATCACTGAATAT
196 GTATCCTTGATTGTGAAAGGGGTTTCTATGTGCTAATTCCCCGTATCACTGAATAT
57236390 AA-GTTG
1 AATGTTG
57236396 GTTGCTAAGT
Statistics
Matches: 257, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
250 4 0.02
251 253 0.98
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (251 bp):
AATGTTGTAAAATAAGGTTCCCAATTGAACACTCGGATTAGACCGGGATTCATTGAATGTAAGGG
GTTGCTAAGTGCAGATTCCCTAAATCACTGATCAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAG
GGGTTGCTAAGTGTTGATCCTGGAATTATTAATTTTAAAGGTGGTTGCTAAGTGCTGATTCCACC
GTATCCTTGATTGTGAAAGGGGTTTCTATGTGCTAATTCCCCGTATCACTGAATAT
Found at i:57236414 original size:41 final size:42
Alignment explanation
Indices: 57236304--57236418 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 42
57236294 TTATTAATTT
* *
57236304 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAA-GTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATA
* * * *
57236347 TGAAAGGGGTTTCTATGTGCTAATTCC-CCGTATCAC-TGAATA
1 T-AAAGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGAATA
57236389 T-AAGTTGGTTGCTAAGTGCTGATTCCACCG
1 TAAAG-TGGTTGCTAAGTGCTGATTCCACCG
57236419 AGTAACGGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.05
41 17 0.29
42 15 0.26
43 20 0.34
44 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (42 bp):
TAAAGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATA
Found at i:57239380 original size:21 final size:21
Alignment explanation
Indices: 57239354--57239395 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57239344 GAAATTGAAA
57239354 TGTTTTAATTTCACA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
57239375 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
57239396 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:57243403 original size:16 final size:16
Alignment explanation
Indices: 57243359--57243411 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 16
57243349 TGTAGTTGAT
57243359 TTTAATAAGATTATTAA
1 TTTAATAAGATTATT-A
57243376 TATAAATAATAAGATTATTA
1 T-T---TAATAAGATTATTA
57243396 TTTAATAAGATTATTA
1 TTTAATAAGATTATTA
57243412 ATATAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 14 0.44
17 1 0.03
18 1 0.03
19 1 0.03
20 2 0.06
21 13 0.41
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTAATAAGATTATTA
Found at i:57243492 original size:21 final size:21
Alignment explanation
Indices: 57243409--57243494 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 21
57243399 AATAAGATTA
57243409 TTAATATAAATAATAAATAAT
1 TTAATATAAATAATAAATAAT
* * * *
57243430 TTAAAATAATTATTTAAT-AT
1 TTAATATAAATAATAAATAAT
* *
57243450 TGT--TAT--TTAATAAGATTA-
1 T-TAATATAAATAATAA-ATAAT
57243468 TTAATATAAATAATAAATAAT
1 TTAATATAAATAATAAATAAT
57243489 TTAATA
1 TTAATA
57243495 ATAATTTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
17 6 0.12
18 3 0.06
19 6 0.12
20 6 0.12
21 27 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATATAAATAATAAATAAT
Found at i:57243497 original size:11 final size:11
Alignment explanation
Indices: 57243478--57243510 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
57243468 TTAATATAAA
57243478 TAATAAATAATT
1 TAAT-AATAATT
57243490 TAATAATAATT
1 TAATAATAATT
57243501 TAA-AATAATT
1 TAATAATAATT
57243511 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:57243591 original size:55 final size:55
Alignment explanation
Indices: 57243473--57243590 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 55
57243463 GATTATTAAT
*
57243473 ATAAATAATAAATAATTTAATAATAATTTAAAATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAATAATTTAAAATAAATATTATTAAATATAATTTA
* * * *
57243529 ATAAAAATATATAATTTAATAA-AATTCTTAATATTAAATATTCTTATATA-AATTTA
1 ATAAAAATAAATAATTTAATAATAA-T-TTAA-AATAAATATTATTAAATATAATTTA
57243585 ATAAAA
1 ATAAAA
57243591 TCATAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
54 2 0.04
55 17 0.31
56 21 0.39
57 14 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (55 bp):
ATAAAAATAAATAATTTAATAATAATTTAAAATAAATATTATTAAATATAATTTA
Found at i:57243621 original size:38 final size:39
Alignment explanation
Indices: 57243537--57243623 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 39
57243527 TAATAAAAAT
* * * * *
57243537 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAT
1 ATATAATTTAATAAAATTCATAATATTAAATACTATAAA
57243576 ATA-AATTTAATAAAA-TCATAATA-TATAATACTATAAA
1 ATATAATTTAATAAAATTCATAATATTA-AATACTATAAA
57243613 ATATAATTTAA
1 ATATAATTTAA
57243624 AATAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 2 0.05
37 17 0.41
38 19 0.46
39 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.43
Consensus pattern (39 bp):
ATATAATTTAATAAAATTCATAATATTAAATACTATAAA
Found at i:57243665 original size:12 final size:12
Alignment explanation
Indices: 57243648--57243672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57243638 AATATTTAAA
57243648 ATAAATATTCTT
1 ATAAATATTCTT
57243660 ATAAATATTCTT
1 ATAAATATTCTT
57243672 A
1 A
57243673 ATATTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATATTCTT
Found at i:57244010 original size:12 final size:12
Alignment explanation
Indices: 57243993--57244018 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57243983 TGTATACAAG
57243993 GTTTATCATATT
1 GTTTATCATATT
57244005 GTTTATCATATT
1 GTTTATCATATT
57244017 GT
1 GT
57244019 ACAAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
GTTTATCATATT
Found at i:57244045 original size:67 final size:67
Alignment explanation
Indices: 57243967--57244112 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 67
57243957 AACTAAATAC
* * *
57243967 AATATTAATTACAGAATGTATACAAGGTTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
1 AATA-TAATTACACAATATATACAAGATTTATCATATTGTTTATCATATTGTACAAATTTTCTAT
57244032 AAT
65 AAT
* * ** * * ** * *
57244035 ATTATAATTACCCTTTATTTAGATTATTTATCGTATTGTTTATCATATTGTTCAAATTTTCTATA
1 AATATAATTACACAATATATACAAGATTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
57244100 AT
66 AT
57244102 AATATAATTAC
1 AATATAATTAC
57244113 CCTTTATTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
67 61 0.95
68 3 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (67 bp):
AATATAATTACACAATATATACAAGATTTATCATATTGTTTATCATATTGTACAAATTTTCTATA
AT
Found at i:57244113 original size:67 final size:67
Alignment explanation
Indices: 57243994--57244141 Score: 260
Period size: 67 Copynumber: 2.2 Consensus size: 67
57243984 GTATACAAGG
*
57243994 TTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATATTATAATTACCCTTTATTTAGAT
1 TTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGAT
57244059 TA
66 TA
* *
57244061 TTTATCGTATTGTTTATCATATTGTTCAAATTTTCTATAATAATATAATTACCCTTTATTTAGAT
1 TTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGAT
*
57244126 TG
66 TA
57244128 TTTATCATATTGTT
1 TTTATCATATTGTT
57244142 AAAATTTTCT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 76 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.53
Consensus pattern (67 bp):
TTTATCATATTGTTTATCATATTGTACAAATTTTCTATAATAATATAATTACCCTTTATTTAGAT
TA
Found at i:57245954 original size:77 final size:77
Alignment explanation
Indices: 57245840--57246002 Score: 290
Period size: 77 Copynumber: 2.1 Consensus size: 77
57245830 GAGGGAGAGA
*
57245840 GAGGGAGAGGGTGGAGGTGATTTTGTAGAAACAGCTTCTGTTGATGTTGGGAGGTCGATTTCGAC
1 GAGGGAGAGGGTGGAGGTGATTTTGCAGAAACAGCTTCTGTTGATGTTGGGAGGTCGATTTCGAC
57245905 GATTTCCGGAGG
66 GATTTCCGGAGG
**
57245917 GAGGGAGAGGGTGGAGGTGATTTTGCAGAAACAGCTTCTGTTGATGTTGGGAGGTCGATTTCGGT
1 GAGGGAGAGGGTGGAGGTGATTTTGCAGAAACAGCTTCTGTTGATGTTGGGAGGTCGATTTCGAC
*
57245982 GATTTCGGGAGG
66 GATTTCCGGAGG
57245994 GAGGGAGAG
1 GAGGGAGAG
57246003 AGAGAGGCTG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.21, C:0.09, G:0.43, T:0.27
Consensus pattern (77 bp):
GAGGGAGAGGGTGGAGGTGATTTTGCAGAAACAGCTTCTGTTGATGTTGGGAGGTCGATTTCGAC
GATTTCCGGAGG
Found at i:57255823 original size:125 final size:125
Alignment explanation
Indices: 57255611--57256176 Score: 688
Period size: 125 Copynumber: 4.5 Consensus size: 125
57255601 GATAAAATCA
* * * * * * * ** *
57255611 AAGCAGTATGATTTATTAGAAGGATTTTTGAAGTTGCGCCCATATGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
** *
57255676 AGGTCCTGGAAAAATAGGTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAATGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * * *
57255736 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGTCCTCGTGGACGTGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
57255801 TGGTCCTGGAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * *
57255861 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGATGCGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
57255926 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTCC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAA-AACGCTTC
* * * * ** *
57255987 AAGCAGTATGC-TAATTGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACTTGCTTTTGCTATAG
1 AAGCAGGATGCTTTA-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
57256051 TTA-GTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 -TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * *
57256111 TAGCAGGATGCTTTATGAGAAGAATTTGCGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
57256176 A
66 A
57256177 ACATGTTTGG
Statistics
Matches: 372, Mismatches: 65, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
123 2 0.01
124 56 0.15
125 212 0.57
126 100 0.27
127 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:57256134 original size:250 final size:250
Alignment explanation
Indices: 57255611--57256173 Score: 761
Period size: 250 Copynumber: 2.3 Consensus size: 250
57255601 GATAAAATCA
* * * * * ** * *
57255611 AAGCAGTATGATTTATTAGAAGGATTTTTGAAGTTGCGCCCATATGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTTGCGCCCACGTGGACGCGCTTTTGCTACAAT
* * * * *
57255676 AGGTCCTGGAAAAATAGGTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAATGCTTCAAGCA
66 AGGTCCTGAAAAAATAAGTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTCCAAGCA
* * *
57255741 GGATGCTTTGTGAGAAGAATTTGTGAAATCGCGTCCTCGTGGACGTGCTTTTACTACAGTTGGTC
131 GGATGCTATGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGCTTTTACTACAGTTAGTC
* * * *
57255806 CTGGAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
196 CTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
57255861 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGATGCGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTTGCGCCCACGTGGACGCGCTTTTGCTACAAT
* * *
57255926 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTCCAAGC
66 AGGTCCTGAAAAAATAAGTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTCCAAGC
* * * * *
57255991 AGTATGCTAAT-TGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACTTGCTTTTGCTATAGTTAG
130 AGGATGCT-ATGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGCTTTTACTACAGTTAG
*
57256055 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
194 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
57256111 TAGCAGGATGCTTTATGAGAAGAATTTGCGAAATTGCACCCACGTGGACGCGCTTTTGCTACA
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTTGCGCCCACGTGGACGCGCTTTTGCTACA
57256174 GTAACATGTT
Statistics
Matches: 272, Mismatches: 39, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
250 166 0.61
251 105 0.39
252 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTTGCGCCCACGTGGACGCGCTTTTGCTACAAT
AGGTCCTGAAAAAATAAGTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTCCAAGCA
GGATGCTATGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGCTTTTACTACAGTTAGTC
CTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:57259417 original size:43 final size:43
Alignment explanation
Indices: 57259350--57260212 Score: 904
Period size: 43 Copynumber: 20.0 Consensus size: 43
57259340 TCAAATTATA
*
57259350 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGATTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * * * * *
57259393 TTAAAGCTAAGGATTTATGGTTTTAAAGTCAAGGGTTTAGGGTT
1 TTTAAGTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* *
57259437 TTTAGGTTAAGGGTTAGGGTTTTTATGTTAAGGGTTT-AGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAG-GTT
* * *
57259480 TTTAATTTAAGGGGTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
57259523 TTAAAGTTAAGGGTCTAGGGTTTTAAAATTAA-GGTTTAAGGGT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
57259566 TTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGATTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
57259609 TTTAATTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* *
57259652 TTTAAGTTAAGGGTCTAGGGTTTTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* *
57259695 TTTAGGTTAAGGGTTAGGGTTTTTATGTTAAGGGTTT-AGGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TT
* *
57259738 TTTAATTTAAAGGTTAGGG-TTTTAAGTTAAGGGTTT-AGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAG-GTT
* * *
57259780 TTTAAGTCAAGGGTCTAGGGTTTTAAAGTTAA-GGTTTATGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
57259823 TTTAGGTTAAGGGTTAGGGTTTTTTAGTTTAGGGTTTAGGGTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TT
* * *
57259867 TTTAATTTAA-GGTTAGGGTTTTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
57259909 TTTAAGTTAAGGGTCTAGAGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
57259952 TTCAAGTTAAGAGTTAGGGTTTTTAATTTAAGGGTTT-AGTGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAG-GTT
* * * * * *
57259995 TTTAATTTAAGAGTTTAATGCTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAG-GGTT-AGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * * * *
57260040 TTAAAGTTAAGAGTTAAGGTTTTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
57260083 TTAAAGTTAATGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * * *
57260126 TTAAAGTTAAAGGTTAAGGTTTTTAGGTTAAAGGG-ATAGAGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AAGGGTTTA-AGGTT
*
57260169 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
57260212 T
1 T
57260213 GTCAATTAAA
Statistics
Matches: 688, Mismatches: 107, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
42 114 0.17
43 429 0.62
44 114 0.17
45 30 0.04
46 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
Found at i:57259448 original size:22 final size:22
Alignment explanation
Indices: 57259350--57260212 Score: 926
Period size: 22 Copynumber: 40.0 Consensus size: 22
57259340 TCAAATTATA
57259350 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259371 TTTAAGTTAAGGATTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
57259393 TTAAAGCTAAGGATTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259415 TTAAAGTCAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259437 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259458 TTTATGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259480 TTTAATTTAAGGG-GTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
57259501 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259523 TTAAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259545 TTAAAATTAA-GGTTTAAGGG-T
1 TTTAAGTTAAGGGTTT-AGGGTT
*
57259566 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259587 TTTAGGTTAAGGGATTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259609 TTTAATTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
57259630 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259652 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259674 TTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259695 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259716 TTTATGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259738 TTTAATTTAAAGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259758 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259780 TTTAAGTCAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259802 TTAAAGTTAA-GGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259823 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259844 TTTTAGTTTAGGGTTTAGGGTTT
1 TTTAAGTTAAGGGTTTAGGG-TT
*
57259867 TTTAATTTAA-GG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259887 TTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259909 TTTAAGTTAAGGGTCTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57259931 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259952 TTCAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57259973 TTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
57259995 TTTAATTTAAGAGTTTAATGCTT
1 TTTAAGTTAAGGGTTT-AGGGTT
*
57260018 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
57260040 TTAAAGTTAAGAG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57260061 TTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57260083 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
57260104 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
57260126 TTAAAGTTAAAGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57260147 TTTAGGTTAAAGGG-ATAGAGG-T
1 TTTAAGTT-AAGGGTTTAG-GGTT
57260169 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
57260190 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
57260212 T
1 T
57260213 GTCAATTAAA
Statistics
Matches: 706, Mismatches: 111, Indels: 49
0.82 0.13 0.06
Matches are distributed among these distances:
20 29 0.04
21 291 0.41
22 359 0.51
23 27 0.04
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:57261428 original size:7 final size:7
Alignment explanation
Indices: 57261416--57261448 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
57261406 TTATATAAAT
57261416 AATACTA
1 AATACTA
57261423 AATACTA
1 AATACTA
57261430 AATACTA
1 AATACTA
57261437 AATACTA
1 AATACTA
57261444 AATAC
1 AATAC
57261449 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:57262666 original size:11 final size:11
Alignment explanation
Indices: 57262652--57262717 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
57262642 ATAAATATGG
57262652 ATTTGAGAGAA
1 ATTTGAGAGAA
* *
57262663 ATTTTGA-TGTA
1 A-TTTGAGAGAA
57262674 ATTTGAGAGGAA
1 ATTTGAGA-GAA
57262686 ATTT-AGAAGAA
1 ATTTGAG-AGAA
57262697 A-TTGAGAGGAA
1 ATTTGAGA-GAA
57262708 ATTTGAGAGA
1 ATTTGAGAGA
57262718 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
10 8 0.18
11 18 0.41
12 18 0.41
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:57262677 original size:22 final size:22
Alignment explanation
Indices: 57262652--57262711 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
57262642 ATAAATATGG
* *
57262652 ATTTGAGA-GAAATTTTGATGTA
1 ATTTGAGAGGAAATTTAGAAG-A
57262674 ATTTGAGAGGAAATTTAGAAGA
1 ATTTGAGAGGAAATTTAGAAGA
*
57262696 AATTGAGAGGAAATTT
1 ATTTGAGAGGAAATTT
57262712 GAGAGAGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 24 0.71
23 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (22 bp):
ATTTGAGAGGAAATTTAGAAGA
Found at i:57271328 original size:26 final size:26
Alignment explanation
Indices: 57271292--57271342 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
57271282 TCTTCTAATT
* * *
57271292 CTAACATCAAATTAAAAATATAAATC
1 CTAAAATCAAACTAAAAATAAAAATC
*
57271318 CTAAAATCAAACTAACAATAAAAAT
1 CTAAAATCAAACTAAAAATAAAAAT
57271343 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.24
Consensus pattern (26 bp):
CTAAAATCAAACTAAAAATAAAAATC
Found at i:57272870 original size:10 final size:10
Alignment explanation
Indices: 57272855--57272881 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
57272845 TAAATTATTA
57272855 AACCTAAATT
1 AACCTAAATT
57272865 AACCTAAATT
1 AACCTAAATT
57272875 AACCTAA
1 AACCTAA
57272882 TAGTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (10 bp):
AACCTAAATT
Found at i:57274207 original size:15 final size:17
Alignment explanation
Indices: 57274168--57274200 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57274158 CTAACCCGAC
57274168 CCTCTTAAAACCCTAAA
1 CCTCTTAAAACCCTAAA
*
57274185 CCTCTTAAATCCCTAA
1 CCTCTTAAAACCCTAA
57274201 CTCTTAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (17 bp):
CCTCTTAAAACCCTAAA
Found at i:57275261 original size:114 final size:113
Alignment explanation
Indices: 57275061--57275301 Score: 317
Period size: 114 Copynumber: 2.1 Consensus size: 113
57275051 CGCTTTAACA
* * * * *
57275061 AAAACGCCGCTAAAACCTATATTATTCGCGGCGCTAATCTAAACGCCACTAAAGTCATTGAAGTG
1 AAAACGCCGCTAATACCTATATTATTAGCGGCGCTAATCAAAACGACACTAAAGTCACTGAAGTG
57275126 TCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA-
66 TCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAC
* * *
57275173 GAAACGCCGCTAATA-CTCATATTATTAGCGGCGCTATTCAAAAAACGACACTAATGTCACCT-A
1 AAAACGCCGCTAATACCT-ATATTATTAGCGGCGCTAATC--AAAACGACACTAAAGTCA-CTGA
* * *
57275236 AGTGTCTCCAGACGACGTCGTCTGGGTTTTAGTTTTTGCGGCGTTTTTATAC
62 AGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAC
*
57275288 AAAACGCCACTAAT
1 AAAACGCCGCTAAT
57275302 GTCACCGAAG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
111 2 0.02
112 32 0.29
114 64 0.58
115 13 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (113 bp):
AAAACGCCGCTAATACCTATATTATTAGCGGCGCTAATCAAAACGACACTAAAGTCACTGAAGTG
TCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAC
Found at i:57275336 original size:74 final size:74
Alignment explanation
Indices: 57275214--57275357 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 74
57275204 CGCTATTCAA
* * * *
57275214 AAAACGACACTAATGTCACCTAAGTGTCTCCAGACGACGTCGTCTGGGTTTTAGTTTTTGCGGCG
1 AAAACGACACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGTTTTAGTTTTTCCGGCG
57275279 TTTTTATAC
66 TTTTTATAC
* *
57275288 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCG
1 AAAACGACACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGTTTTAGTTTTTCCGGCG
57275353 TTTTT
66 TTTTT
57275358 GTGGAAATGC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (74 bp):
AAAACGACACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGTTTTAGTTTTTCCGGCG
TTTTTATAC
Found at i:57275429 original size:188 final size:187
Alignment explanation
Indices: 57275101--57275488 Score: 573
Period size: 188 Copynumber: 2.1 Consensus size: 187
57275091 GCGCTAATCT
* ** * *
57275101 AAACGCCACTAAAGTCATTGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCAT
1 AAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGGTTTAGTTTTTCCGGCAT
*
57275166 TTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGACACTAATGTC
66 TTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGACACTAAAGTC
* * *
57275231 ACCTAAGTGTCTCCAGACGACGTCGTCT-GGGTTTTAGTTTTTGCGGCGTTTTTATACA
131 ACCGAAGTGTCTCCAAACGACGTCGTCTAGGG-TTTAGTTTTTGCGGCATTTTTATA-A
* * *
57275289 AAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCGT
1 AAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGGTTTAGTTTTTCCGGCAT
* * * *
57275354 TTTTGTGGAAATGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAAAGT
66 TTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACGACACTAAAGT
*
57275418 CACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGTTTTTGCGGCATTTTTATAG
130 CACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGTTTTTGCGGCATTTTTATAA
*
57275476 AAACGCCGCTAAT
1 AAACGCCACTAAT
57275489 ACTCATATTA
Statistics
Matches: 180, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
187 13 0.07
188 164 0.91
189 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (187 bp):
AAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTCTGGGGTTTAGTTTTTCCGGCAT
TTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGACACTAAAGTC
ACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGTTTTTGCGGCATTTTTATAA
Found at i:57275488 original size:114 final size:114
Alignment explanation
Indices: 57275288--57275720 Score: 683
Period size: 114 Copynumber: 3.8 Consensus size: 114
57275278 GTTTTTATAC
* * * *
57275288 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTTTGGGTTTTAGTTTTTCCGGCG
1 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCA
* * *
57275353 TTTTTGTGGAAATGCCGCTAATACTCATATTATTAGCGGCGCTATTAGA
66 TTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGA
*
57275402 AAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTCGTCTAGGG-TTTAGTTTTTGCGGC
1 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCT-GGGTTTTAGTTTTTGCGGC
*
57275466 ATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCAGCGCTATTCA-A
65 ATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGA
* *
57275516 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACAACGTCGTCTGGGTTTTAGTTTTTGCAGCA
1 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCA
* *
57275581 TTTTTACAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCGA
66 TTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGA
* * *
57275630 AAAACGCCACTAATGTCACCGAAGTTTCTCCAAAGGACGTCGTCTGGG-TTTAGTTTTTGCGGCG
1 AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCA
57275694 TTTTTATAGAAACGCCGCTAATACTCA
66 TTTTTATAGAAACGCCGCTAATACTCA
57275721 ATCGGTTGCG
Statistics
Matches: 294, Mismatches: 21, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
113 43 0.15
114 247 0.84
115 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (114 bp):
AAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCA
TTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGCTATTAGA
Found at i:57276041 original size:22 final size:22
Alignment explanation
Indices: 57276014--57276058 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
57276004 AAAACAAGCT
57276014 TTTAGCGGCGCTTTTTAAGGCC
1 TTTAGCGGCGCTTTTTAAGGCC
*
57276036 TTTAGCGGCGCTTTTTAATGCC
1 TTTAGCGGCGCTTTTTAAGGCC
57276058 T
1 T
57276059 CTAAAAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (22 bp):
TTTAGCGGCGCTTTTTAAGGCC
Found at i:57276210 original size:43 final size:42
Alignment explanation
Indices: 57276123--57276265 Score: 180
Period size: 43 Copynumber: 3.4 Consensus size: 42
57276113 TCGTCGCTAA
* * *
57276123 CTTTAGCGGCGCTTTTCCC-CCAACGCCGCTAAAGACAATAAC
1 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAAAACAA-GAC
57276165 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAAAACCAAGAC
1 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAAAA-CAAGAC
* * *
57276208 CTTTAGCGGCGCTTTTTCCTGAAGCGCCGCTAAAAAACAAGAC
1 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCT-AAAAACAAGAC
* *
57276251 CTTTAGTGACGCTTT
1 CTTTAGCGGCGCTTT
57276266 CTCTAAAAAC
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 19 0.21
43 63 0.70
44 8 0.09
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAAAACAAGAC
Found at i:57276276 original size:86 final size:85
Alignment explanation
Indices: 57276123--57276284 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
57276113 TCGTCGCTAA
* * *
57276123 CTTTAGCGGCGCTTTTCCCCCAACGCCGCTAAAGACAATAACCTTTAGCGGCGCTTTTCCCTCAA
1 CTTTAGCGGCGCTTTTCCCCCAACGCCGCTAAAAACAATAACCTTTAGCGACGCTTTTCCCTAAA
*
57276188 ACGCCGCTAAAAACCAAGAC
66 ACGCCACTAAAAACCAAGAC
* ** * * *
57276208 CTTTAGCGGCGCTTTTTCCTGAAGCGCCGCTAAAAAACAA-GACCTTTAGTGACGC-TTTCTCTA
1 CTTTAGCGGCGCTTTTCCCCCAA-CGCCGCT-AAAAACAATAACCTTTAGCGACGCTTTTCCCT-
57276271 AAAACGCCACTAAA
63 AAAACGCCACTAAA
57276285 GGTCACGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 26 0.41
86 31 0.48
87 7 0.11
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTCCCCCAACGCCGCTAAAAACAATAACCTTTAGCGACGCTTTTCCCTAAA
ACGCCACTAAAAACCAAGAC
Found at i:57276284 original size:43 final size:43
Alignment explanation
Indices: 57276144--57276284 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
57276134 CTTTTCCCCC
* * * *
57276144 AACGCCGCT-AAAGACAATAACCTTTAGCGGCGCTTT-TCCCTCA
1 AACGCCGCTAAAAAACAA-GACCTTTAGCGACGCTTTCT-CCTAA
* * * *
57276187 AACGCCGCTAAAAACCAAGACCTTTAGCGGCGCTTTTTCCTGA
1 AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCTCCTAA
* *
57276230 AGCGCCGCTAAAAAACAAGACCTTTAGTGACGCTTTCT-CTAAA
1 AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCTCCT-AA
*
57276273 AACGCCACTAAA
1 AACGCCGCTAAA
57276285 GGTCACGAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.02
43 74 0.89
44 7 0.08
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
AACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTCTCCTAA
Found at i:57277207 original size:23 final size:23
Alignment explanation
Indices: 57277173--57277452 Score: 154
Period size: 23 Copynumber: 12.3 Consensus size: 23
57277163 AATGGAAAGT
*
57277173 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
57277196 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
*
57277219 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
57277242 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
57277265 AGCACTTAAACA-TATCAATTAAT
1 AGCACTTAAACACT-TCAATTTAC
* * * *
57277288 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
57277310 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
57277333 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
57277356 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
57277379 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
57277401 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
57277424 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
57277447 AGCACT
1 AGCACT
57277453 ATCAAATCTC
Statistics
Matches: 196, Mismatches: 40, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
22 36 0.18
23 156 0.80
24 4 0.02
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:57277329 original size:45 final size:45
Alignment explanation
Indices: 57277272--57277420 Score: 156
Period size: 45 Copynumber: 3.3 Consensus size: 45
57277262 TGCAGCACTT
*
57277272 AAACATATCAATTAATAACATTTATACACCTCAATTACAGCGATA
1 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
* ** * ** * * * * *
57277317 AAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGC-ACTT
1 AAACATATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TA
57277363 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
1 AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
*
57277408 AAACATCTCAATT
1 AAACATATCAATT
57277421 TCCAGCAACT
Statistics
Matches: 77, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
45 44 0.57
46 33 0.43
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.29
Consensus pattern (45 bp):
AAACATATCAATTAACAACATTTATACACCTCAATTACAGCGATA
Found at i:57277348 original size:91 final size:91
Alignment explanation
Indices: 57277233--57277452 Score: 397
Period size: 91 Copynumber: 2.4 Consensus size: 91
57277223 ACTAAACACT
* * *
57277233 TCAATTTGCAGC-ACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAATAACATTTAT
1 TCAATTTCCAGCAAC-TAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTAT
57277297 ACACCTCAATTACAGCGATAAAACATC
65 ACACCTCAATTACAGCGATAAAACATC
57277324 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
57277389 CACCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
57277415 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACT
1 TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACT
57277453 ATCAAATCTC
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
91 123 0.98
92 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (91 bp):
TCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
CACCTCAATTACAGCGATAAAACATC
Found at i:57277397 original size:114 final size:114
Alignment explanation
Indices: 57277178--57277399 Score: 322
Period size: 114 Copynumber: 1.9 Consensus size: 114
57277168 AAAGTAGCAC
* *
57277178 TTTAACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCA
1 TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
** * *
57277243 GCACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAATAACA
66 GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAATAACA
*
57277292 TTTATACACCTCAA-TTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGC
1 TTTA-ACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGC
* * *
57277356 AGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAATTA
65 AGCACTTAAACACT-TCAATTAACAACACTTAAACACATCAATTA
57277400 CAGCGATAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 87 0.91
115 8 0.08
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (114 bp):
TTTAACACCTCAATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCA
GCACTTAAACACTTCAATTAACAACACTTAAACACATCAATTAATAACA
Found at i:57277442 original size:114 final size:114
Alignment explanation
Indices: 57277181--57277450 Score: 289
Period size: 114 Copynumber: 2.4 Consensus size: 114
57277171 GTAGCACTTT
* *
57277181 AACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCA
1 AACACCTCAA-TTACAGCAATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCA
** * * * *
57277246 CTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAATAACATTTA
65 CTTAAACACTTCAATTAACAACACTTAAACACATCAATTAACAACATTAA
* * * *
57277296 TACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCAC
1 AACACCTCAATTACAGCAATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCAC
* * * *
57277361 TTAAACA-TATCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAA
66 TTAAACACT-TCAATTAACAACACTTAAACACATCAATTAACAAC-ATTAA
* *
57277409 AACATCTCAATTTCCAGCAACTAAATAC-T-TCAATTTGCAGCA
1 AACACCTCAA-TTACAGCAA-TAAA-ACATCTCAATTTGCAGCA
57277451 CTATCAAATC
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
113 14 0.11
114 102 0.78
115 13 0.10
116 2 0.02
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (114 bp):
AACACCTCAATTACAGCAATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCAC
TTAAACACTTCAATTAACAACACTTAAACACATCAATTAACAACATTAA
Found at i:57277871 original size:41 final size:39
Alignment explanation
Indices: 57277788--57277871 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
57277778 GCACAATACA
* **
57277788 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
*
57277827 ATATAAAAAGCATATATAAATATATGTATGTCACAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
57277868 ATAT
1 ATAT
57277872 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:57279574 original size:138 final size:142
Alignment explanation
Indices: 57279318--57279703 Score: 438
Period size: 138 Copynumber: 2.7 Consensus size: 142
57279308 TTATTTATAT
* * * * * * * *
57279318 AAAAACGCCGTAAATTTTTTTTATTTTGAACAAAACGATGTCGTTTTACTATTTTAAAAATTTTT
1 AAAAACGCCGCAAATATTTTTCATTTTGAACAAAACCACGCCGTTTTGCTATTCT-AAAA--TTT
* ** * * *
57279383 TATTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACACCGCTGTTGTTTACCT
63 T-TTTATAAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCT
57279448 TCAGCGGCGCTTCTTA
127 TCAGCGGCGCTTCTTA
* * *
57279464 AAAAACGCCGTAAA-ATTTTTCATTTTGAACGAAACGACGCCGTTTTGCTATTCT-AAA-TTTTT
1 AAAAACGCCGCAAATATTTTTCATTTTGAACAAAACCACGCCGTTTTGCTATTCTAAAATTTTTT
* * * *
57279526 TA-AAAAAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAAACGCCGCTATTGCTTACCTTTAG
66 TATAAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTCAG
57279590 CGGCGCTTCTTA
131 CGGCGCTTCTTA
* * *
57279602 TAAAACGCCGCAAATTTTTTTCATTTTGAACAAAACCTCGCCGTTTTGCTATTCTAAAATTTTTT
1 AAAAACGCCGCAAATATTTTTCATTTTGAACAAAACCACGCCGTTTTGCTATTCTAAAATTTTTT
* *
57279667 TATTTTTTAATAAATTGATTTATTCTTTGCGGCGTTT
66 TA----TAAAAAAATTGATTTATTCTTTGCGGCGTTT
57279704 ACCTTTAGCG
Statistics
Matches: 207, Mismatches: 25, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
138 77 0.37
139 39 0.19
140 6 0.03
141 7 0.03
143 3 0.01
145 33 0.16
146 42 0.20
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (142 bp):
AAAAACGCCGCAAATATTTTTCATTTTGAACAAAACCACGCCGTTTTGCTATTCTAAAATTTTTT
TATAAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTCAG
CGGCGCTTCTTA
Found at i:57279725 original size:122 final size:123
Alignment explanation
Indices: 57279580--57279959 Score: 600
Period size: 133 Copynumber: 3.0 Consensus size: 123
57279570 CCGCTATTGC
* **
57279580 TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAATTTTTTTCATTTTGAACAAAACCTCGCCG
1 TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
57279645 TTTTGCTATTCTAAAATTTTTTTA-TTTTTTAATAAATTGATTTATTCTTTGCGGCGT
66 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
*
57279702 TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
1 TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
* *
57279767 TTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTTATTTATTCTTTGCGGCGTTTTCTAT
66 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCG--------
57279832 T
123 T
*
57279833 GCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAACGACGC
1 --TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGC
57279898 CGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
64 CGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
57279958 TT
1 TT
57279960 TTATAGAAAA
Statistics
Matches: 237, Mismatches: 10, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
122 84 0.35
123 33 0.14
125 1 0.00
131 1 0.00
133 118 0.50
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (123 bp):
TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
Found at i:57279854 original size:133 final size:133
Alignment explanation
Indices: 57279702--57280110 Score: 631
Period size: 133 Copynumber: 3.0 Consensus size: 133
57279692 TTTGCGGCGT
57279702 TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
1 TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
* *
57279767 TTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTTATTTATTCTTTGCGGCGTTTTCTAT
66 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTCTAT
57279832 TGC
131 TGC
* *
57279835 TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAACGACGCCG
1 TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
57279900 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATA
66 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCG--TTT-T-
57279965 GAAAACGCCGCTATTGC
127 ----------CTATTGC
*
57279982 TTACTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCA-TTTGAACAAAACGACGCCG
1 TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
*
57280046 TTTTGCTGTTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTCTAT
66 TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTCTAT
57280111 AAAAACGCCG
Statistics
Matches: 254, Mismatches: 8, Indels: 29
0.87 0.03 0.10
Matches are distributed among these distances:
132 4 0.02
133 118 0.46
135 3 0.01
136 1 0.00
143 1 0.00
144 3 0.01
146 75 0.30
147 49 0.19
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (133 bp):
TTACCTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCG
TTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTCTAT
TGC
Found at i:57279901 original size:255 final size:261
Alignment explanation
Indices: 57279573--57280110 Score: 793
Period size: 255 Copynumber: 2.0 Consensus size: 261
57279563 GAAAACGCCG
* *
57279573 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAATTTTTTTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
*
57279638 CTCGCCGTTTTGCTATTCTAAAATTTTTTTA-TTTTTTAATAAATTGATTTATTCTTTGCGGCG-
66 CACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
57279701 TT-T-A-C-C-TTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACG
131 TTATAACCTCTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCA-TTTGAACAAAACG
* *
57279761 ACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTTATTTATTCTTTGCGGCGTT
195 ACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTT
57279826 TT
260 TT
57279828 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
*
57279893 GACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
66 CACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCG-
57279958 TTTTATAGAAAACGCCGCTATTGCTTACTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTT
130 -TTTAT----AA-----C-----C-T-CTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTT
*
57280023 TTCATTTGAACAAAACGACGCCGTTTTGCTGTTCTAAAATTTTTTTATTTTTTTAATAAATTGAT
178 TTCATTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGAT
57280088 TTATTCTTTGCGGCGTTTT
243 TTATTCTTTGCGGCGTTTT
57280107 CTAT
1 CTAT
57280111 AAAAACGCCG
Statistics
Matches: 251, Mismatches: 7, Indels: 26
0.88 0.02 0.09
Matches are distributed among these distances:
255 92 0.37
256 32 0.13
259 2 0.01
260 1 0.00
265 1 0.00
276 1 0.00
279 82 0.33
280 40 0.16
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (261 bp):
CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
CACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
TTATAACCTCTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTGAACAAAACGA
CGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTT
T
Found at i:57280077 original size:402 final size:395
Alignment explanation
Indices: 57279319--57280105 Score: 1114
Period size: 402 Copynumber: 1.9 Consensus size: 395
57279309 TATTTATATA
* * * * * *
57279319 AAAACGCCGTAAATTTTTTTTATTTTGAACAAAACGATGTCGTTTTACTATTTTAAAAATTTTTT
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTACTATTCTAAAAATTTTTT
* *
57279384 ATTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACACCGCTGTTGTTTACCTT
66 ATTTTTTTATAAATTGATTTATTCTTTGCGGCG-TTTTAT-------A---CTATTGCTTACCTT
* *
57279449 CAGCGGCGCTTCTTAAAAAACGCCGTAAAATTTTTCATTTTGAACGAAACGACGCCGTTTTGCTA
120 CAGCGGCGCTTCTTAAAAAACGCCGCAAAATTTTTCATTTTGAACAAAACGACGCCGTTTTGCTA
* *
57279514 TTCTAAATTTTTTAAAAAAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAAACGCCGCTATTG
185 TTCTAAATTTTTTAAAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTG
* *
57279579 CTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAATTTTTTTCATTTTGAACAAAACCTCGCC
250 CTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACCACGCC
57279644 GTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTACCTT
315 GTTTTGCTATTCTAAAATTTTTTTATTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTACCTT
57279709 TAGCGGTGCTTCTTAT
380 TAGCGGTGCTTCTTAT
* **
57279725 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTT
1 AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTACTATTCTAAAAATTTTTT
* *
57279790 ATTTTTTTAATAAATTTATTTATTCTTTGCGGCG-TTT-T-CTATTGCTTACCTTTAGCGGCGCT
66 ATTTTTTT-ATAAATTGATTTATTCTTTGCGGCGTTTTATACTATTGCTTACCTTCAGCGGCGCT
*
57279852 TCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAT
130 TCTTAAAAAACGCCGCAAAATTTT-TCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAA-
* *
57279917 TTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGC
192 TTTTTTA------AAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGC
* * *
57279982 TTACTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCA-TTTGAACAAAACGACGCCG
251 TTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACCACGCCG
*
57280046 TTTTGCTGTTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGTTT
316 TTTTGCTATTCTAAAATTTTTTTA-TTTTTTAATAAATTGATTTATTCTTTGCGGCGTTT
57280106 TCTATAAAAA
Statistics
Matches: 344, Mismatches: 26, Indels: 26
0.87 0.07 0.07
Matches are distributed among these distances:
393 43 0.12
394 34 0.10
395 3 0.01
396 7 0.02
401 40 0.12
402 125 0.36
404 1 0.00
405 3 0.01
406 64 0.19
407 24 0.07
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (395 bp):
AAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTACTATTCTAAAAATTTTTT
ATTTTTTTATAAATTGATTTATTCTTTGCGGCGTTTTATACTATTGCTTACCTTCAGCGGCGCTT
CTTAAAAAACGCCGCAAAATTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTT
TTAAAAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAG
CGGCGCTTCTTATAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACCACGCCGTTTTGCTATT
CTAAAATTTTTTTATTTTTTAATAAATTGATTTATTCTTTGCGGCGTTTACCTTTAGCGGTGCTT
CTTAT
Found at i:57280093 original size:146 final size:147
Alignment explanation
Indices: 57279828--57280125 Score: 537
Period size: 146 Copynumber: 2.0 Consensus size: 147
57279818 GCGGCGTTTT
57279828 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
57279893 GACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
66 GACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
57279958 TTT-TATAGAAAACGCCG
131 TTTCTATA-AAAACGCCG
* * *
57279975 CTATTGCTTACTTTTAGCGGTGCTTCTTATAAAACGCCGCAAAATTTTTTCA-TTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
*
57280039 GACGCCGTTTTGCTGTTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
66 GACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
57280104 TTTCTATAAAAACGCCG
131 TTTCTATAAAAACGCCG
57280121 CTATT
1 CTATT
57280126 TCATTTTGAA
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 93 0.64
147 53 0.36
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (147 bp):
CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCGCAAAATTTTATCATTTTGAACAAAAC
GACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAATAAATTGATTTATTCTTTGCGGCGT
TTTCTATAAAAACGCCG
Found at i:57280516 original size:15 final size:14
Alignment explanation
Indices: 57280499--57280569 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
57280489 ACCCCTGAAT
*
57280499 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
57280514 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
57280528 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
57280542 CCCTAAACCTCTAAC
1 CCCTAAACCT-TAAC
*
57280557 CCCAAAACCTTAA
1 CCCTAAACCTTAA
57280570 ATCCCAACCC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
13 1 0.02
14 23 0.47
15 25 0.51
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:57280533 original size:14 final size:14
Alignment explanation
Indices: 57280514--57280559 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
57280504 AACCTTAAAT
57280514 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
57280528 CCCTAACATCTAAC
1 CCCTAACATCTAAC
*
57280542 CCCTAAACCTCTAAC
1 CCCT-AACATCTAAC
57280557 CCC
1 CCC
57280560 AAAACCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:57280595 original size:15 final size:14
Alignment explanation
Indices: 57280581--57280629 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
57280571 TCCCAACCCT
57280581 TAAACCATAATCCC
1 TAAACCATAATCCC
**
57280595 TAATTCATAATCCC
1 TAAACCATAATCCC
*
57280609 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
57280624 TAAACC
1 TAAACC
57280630 TTAAATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:57280883 original size:15 final size:15
Alignment explanation
Indices: 57280848--57280894 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
57280838 CCCTAAACCT
*
57280848 TAAATCC-TAACCCC
1 TAAATCCATAATCCC
57280862 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
57280876 TAAATCCATACTCCC
1 TAAATCCATAATCCC
57280891 TAAA
1 TAAA
57280895 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 8 0.28
15 16 0.55
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:57281365 original size:113 final size:112
Alignment explanation
Indices: 57281141--57281398 Score: 378
Period size: 113 Copynumber: 2.3 Consensus size: 112
57281131 AGATAAAATA
* * *
57281141 TTTTTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
1 TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTTCTTAAAAA
* * *
57281206 CGCCGCTAAATCCCTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG
66 CGCCGCTAAATCCCGAAAGCTCAGAAAACGACGTCGTTGAGCTTAGG
* *
57281253 TTTTTTTGCGGCGCTTTTGCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTTCTTAGAA
1 -TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTTCTTAAAA
57281318 ACGCCGCTAAATCCCCGAAAGCTC-GAGAAACGACGTCGTTGAG-TTAGG
65 ACGCCGCTAAAT-CCCGAAAGCTCAGA-AAACGACGTCGTTGAGCTTAGG
*
57281366 TTTTTTGTGGCG-TTTTCTCAAAAACGCCGCTAA
1 TTTTTTGCGGCGCTTTTC-CAAAAACGCCGCTAA
57281399 TGCTTATTTT
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
111 4 0.03
112 26 0.20
113 78 0.59
114 24 0.18
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (112 bp):
TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTTCTTAAAAA
CGCCGCTAAATCCCGAAAGCTCAGAAAACGACGTCGTTGAGCTTAGG
Found at i:57281490 original size:12 final size:12
Alignment explanation
Indices: 57281473--57281498 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57281463 TTTTTTATCC
57281473 AAACGCCGCTAA
1 AAACGCCGCTAA
57281485 AAACGCCGCTAA
1 AAACGCCGCTAA
57281497 AA
1 AA
57281499 TCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:57291066 original size:6 final size:6
Alignment explanation
Indices: 57291055--57291079 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57291045 GTTAGATGGT
57291055 TTAGGG TTAGGG TTAGGG TTAGGG T
1 TTAGGG TTAGGG TTAGGG TTAGGG T
57291080 ACATATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:57293273 original size:57 final size:57
Alignment explanation
Indices: 57293204--57293324 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 57
57293194 CATTTTTAAG
*
57293204 TCATTTTCATTTTGGA-GAAAGCCACATTC-TTTTCCAAATTATTCTATTTCTCCATTT
1 TCATTTTCATTTTGGAGGAAA-CCACAATCATTTT-CAAATTATTCTATTTCTCCATTT
* * * * *
57293261 TCATTTTTATTTTGGAGGAAACCATAATCATTTTCAAATTTTTCTGTTTCTCTATTT
1 TCATTTTCATTTTGGAGGAAACCACAATCATTTTCAAATTATTCTATTTCTCCATTT
57293318 TCATTTT
1 TCATTTT
57293325 GGAGAAAACC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 48 0.86
58 8 0.14
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.51
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGGAAACCACAATCATTTTCAAATTATTCTATTTCTCCATTT
Found at i:57302590 original size:25 final size:25
Alignment explanation
Indices: 57302549--57302623 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
57302539 TTCTCACCCT
57302549 AATTTTACCCTAGTAAAATTTTGAA
1 AATTTTACCCTAGTAAAATTTTGAA
* *
57302574 AATTTTA-CCTCGTTAAAATTTTGAT
1 AATTTTACCCTAG-TAAAATTTTGAA
** *
57302599 GGTTTTACCCCTAATAAAATTTTGA
1 AATTTTA-CCCTAGTAAAATTTTGA
57302624 GAAAATTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
24 4 0.10
25 23 0.56
26 11 0.27
27 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (25 bp):
AATTTTACCCTAGTAAAATTTTGAA
Found at i:57317338 original size:36 final size:36
Alignment explanation
Indices: 57317279--57317355 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
57317269 ATTCCAACTA
* *
57317279 AAACACACCAGATGCTCATAAGAGCTAATCAATCTG
1 AAACACACCAGATGCTCAGAAGAGCTAATCAATCCG
* *
57317315 AAACACACCA-ATGGCTCCGAAGAGCTAATCGATCCG
1 AAACACACCAGAT-GCTCAGAAGAGCTAATCAATCCG
57317351 AAACA
1 AAACA
57317356 TATATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.42, C:0.27, G:0.16, T:0.16
Consensus pattern (36 bp):
AAACACACCAGATGCTCAGAAGAGCTAATCAATCCG
Found at i:57323305 original size:53 final size:53
Alignment explanation
Indices: 57323233--57323335 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
57323223 AAAAATATCA
57323233 TTTTATGGTGAATAAGGGGATTGTCTTGGGGCATTAAATATCTAAAAAAGTCG
1 TTTTATGGTGAATAAGGGGATTGTCTTGGGGCATTAAATATCTAAAAAAGTCG
* ** *
57323286 TTTTATGTTGAATGGGGGGATTGTCTTGGGGTATTAAATATCTAAAAAAG
1 TTTTATGGTGAATAAGGGGATTGTCTTGGGGCATTAAATATCTAAAAAAG
57323336 GGTTGAAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (53 bp):
TTTTATGGTGAATAAGGGGATTGTCTTGGGGCATTAAATATCTAAAAAAGTCG
Found at i:57329301 original size:15 final size:16
Alignment explanation
Indices: 57329271--57329304 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
57329261 AAAATGTAAT
57329271 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
57329287 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
57329302 TTT
1 TTT
57329305 TTAAAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:57331206 original size:45 final size:43
Alignment explanation
Indices: 57331107--57331218 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 43
57331097 TTAATCCGCT
* * * *
57331107 CCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCC
1 CCACTGCAACTTCA-GGAGATAAGATTCGTTCATTTAGTATGCC
*
57331151 CCACTGCAACTTCAGAGAGATAAGATTCG-TCATCTTCAGTTTGCC
1 CCACTGCAACTTCAG-GAGATAAGATTCGTTCAT-TT-AGTATGCC
57331196 CCACTGCAACTTCAGGAGGATAA
1 CCACTGCAACTTCAGGA-GATAA
57331219 AAAAAGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
43 4 0.07
44 28 0.47
45 27 0.46
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
CCACTGCAACTTCAGGAGATAAGATTCGTTCATTTAGTATGCC
Found at i:57331880 original size:4 final size:4
Alignment explanation
Indices: 57331871--57331935 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
57331861 ATATTTGTTT
* * *
57331871 TAAA TAAA TAAA TAAA TAAA TAAA AACAA AAAA TATATA TAAA TAAA -AAC
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TA-A-A TAAA TAAA TAAA
*
57331921 TAAT TAAA -AAA TAAA
1 TAAA TAAA TAAA TAAA
57331936 AGAAATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
3 5 0.10
4 37 0.73
5 6 0.12
6 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:57331918 original size:17 final size:17
Alignment explanation
Indices: 57331874--57331919 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
57331864 TTTGTTTTAA
57331874 ATAAATAAATAAATAAAT
1 ATAAATAAA-AAATAAAT
* * *
57331892 AAAAACAAAAAATATAT
1 ATAAATAAAAAATAAAT
57331909 ATAAATAAAAA
1 ATAAATAAAAA
57331920 CTAATTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAATAAAAAATAAAT
Found at i:57332329 original size:19 final size:21
Alignment explanation
Indices: 57332291--57332329 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57332281 CCTTTTTTAA
*
57332291 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
57332312 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
57332330 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:57332537 original size:22 final size:21
Alignment explanation
Indices: 57332502--57332559 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
57332492 AAAGGGTATC
* * *
57332502 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCCAAGAT
57332523 TACAAAATCATATCTTCCAAGAT
1 TAC-AAATCATATC-TCCAAGAT
*
57332546 TACATATCATATCT
1 TACAAATCATATCT
57332560 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:57332553 original size:17 final size:17
Alignment explanation
Indices: 57332531--57332583 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
57332521 ATTACAAAAT
57332531 CATATCTTCCAAGATTA
1 CATATCTTCCAAGATTA
* *
57332548 CATATCATATCTAAGATTG
1 CATATC-T-TCCAAGATTA
* *
57332567 CATATCCTCGAAGATTA
1 CATATCTTCCAAGATTA
57332584 TGTTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 14 0.48
18 1 0.03
19 14 0.48
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (17 bp):
CATATCTTCCAAGATTA
Found at i:57332565 original size:19 final size:19
Alignment explanation
Indices: 57332515--57332572 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
57332505 AAATTAAATC
*
57332515 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
57332535 TCTTCCAAGATTACATATCATA
1 TC-T--AAGATTACATATCATA
*
57332557 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
57332573 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
21 2 0.06
22 9 0.27
23 8 0.24
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:57333210 original size:44 final size:44
Alignment explanation
Indices: 57332882--57333987 Score: 456
Period size: 44 Copynumber: 25.6 Consensus size: 44
57332872 CTCTAATCCA
* * * * * * *
57332882 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * * *
57332925 CCCCACTGCAATTTCAATGG-GATAAGGCTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTGATTACTT-AGTCTG
* * * *
57332970 CTCCACTGCAACTTCAGGGAGATAAGACTCGA-T-GTGA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * *
57333011 CTCTACTGCAACTTCA--GAGAGAAGATCTGTGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * * *
57333053 CTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * *
57333097 CCCCACTGCAACTTCAGAGAGATAAGA-TTCG-TCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTA-CTT-AGTCTG
* *
57333142 CCCCACTGCAACTTCA-GGAGGATAAAACTTGATTACTTAGTCTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * *
57333186 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
** * * * * **
57333227 CT-CTTTGCAACTTCAGAGAGATAAGATCTAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * ** **
57333270 CTTCACTGCAACTTCAGGAAGATATGA-TT-ATCGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTG
* * *
57333314 CCCCACTGCAACTTCA-GGAGGATAAGACTTGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* ** ** * * **
57333355 CT-CTCTGCAACTTCAAAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGATTACTTAGTCTG
* * * **
57333398 CTCCACTGCAACTTCAGGAAGATAGGA-TT-ATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-AC-TTAGTCTG
* *
57333442 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAGTCT-
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-CTT-AGTCTG
* * * *
57333486 CCCTCACTACAACTTCA-GGAGGATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * *
57333531 CTCCATTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * *
57333572 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTAATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * *
57333615 CTCCACTGCAACTTCAGGGAGATAGGA-TTG-TCGACTTTAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTG
* * *
57333659 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCA-T-CTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTACTT-AGTCTG
*
57333704 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * *
57333748 CTCCACTACAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * * *
57333789 CT-CTCTGCAACTTCAGAGAGATAGGA-TTG-TCGACTTTAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTG
* * *
57333832 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCA-T-CTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTACTT-AGTCTG
*
57333877 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * *
57333921 CTCCACTACAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* *
57333962 CT-CTCTGCAACTTCAGAGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
57333988 TCCAAAATTT
Statistics
Matches: 803, Mismatches: 170, Indels: 183
0.69 0.15 0.16
Matches are distributed among these distances:
39 10 0.01
40 109 0.14
41 55 0.07
42 39 0.05
43 48 0.06
44 355 0.44
45 181 0.23
46 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
Found at i:57333318 original size:217 final size:216
Alignment explanation
Indices: 57332923--57333340 Score: 531
Period size: 217 Copynumber: 1.9 Consensus size: 216
57332913 TTATTTAGTA
* * ** * *
57332923 TGCCCCACTGCAATTTCAATGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGG
1 TGCCCCACTGCAACTTCAAGGGGATAAAACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAGG
* * ** *
57332988 GAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCAGAGAGAAGATCTGTGGTTTTAATCCG
66 GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGAAGATCTAAGGTTTTAATCCA
* * **
57333053 CTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAACTTCA-GAGA
131 CTCCACTGCAACTTCAGGAAGACAGGATTTG-TGATTTAACATGCCCCACTGCAACTTCAGGAG-
57333117 GATAAGATTCGTCATCTTCAGTT
194 GATAAGATTCGTCATCTTCAGTT
57333140 TGCCCCACTGCAACTTC-AGGAGGATAAAACTTGATTACTT-AGTCTGCTCCACTGCAACTTCAG
1 TGCCCCACTGCAACTTCAAGG-GGATAAAACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAG
* * *
57333203 GGAGATAAGACTAGATGCGATTTGCTCT-TTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT
65 GGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAG--AAGATCTAAGGTTTTAAT
* * * * *
57333267 CCACTTCACTGCAACTTCAGGAAGATATGATTATCG-GCTTTAACCTGCCCCACTGCAACTTCAG
128 CCACTCCACTGCAACTTCAGGAAGACAGGATT-T-GTGATTTAACATGCCCCACTGCAACTTCAG
57333331 GAGGATAAGA
191 GAGGATAAGA
57333341 CTTGATGCGA
Statistics
Matches: 172, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
215 15 0.09
216 49 0.28
217 103 0.60
218 4 0.02
219 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (216 bp):
TGCCCCACTGCAACTTCAAGGGGATAAAACTTGATTACTTGAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGAAGATCTAAGGTTTTAATCCA
CTCCACTGCAACTTCAGGAAGACAGGATTTGTGATTTAACATGCCCCACTGCAACTTCAGGAGGA
TAAGATTCGTCATCTTCAGTT
Found at i:57333322 original size:128 final size:128
Alignment explanation
Indices: 57333183--57333468 Score: 475
Period size: 128 Copynumber: 2.2 Consensus size: 128
57333173 ATTACTTAGT
* * *
57333183 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTTTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
* * *
57333248 TAAGATCTAAGGTTTTAATCCACTTCACTGCAACTTCAGGAAGATATGATTATCGGCTTTAAC
66 TAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAAC
* *
57333311 CTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAG
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAG
*
57333375 ATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAAC
65 ATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAAC
57333439 CTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
57333469 TTTGTCATCT
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
127 3 0.02
128 140 0.96
129 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (128 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
TAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAAC
Found at i:57333559 original size:345 final size:343
Alignment explanation
Indices: 57332967--57333685 Score: 998
Period size: 345 Copynumber: 2.1 Consensus size: 343
57332957 TTTCTTGAGT
*
57332967 CTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGCGATCTACTCTACTGCAACTTCAGAGAG
*** * * ** **
57333032 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATG
66 AAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGTGGATTTAACATG
* *
57333097 CCCCACTGCAACTTCAGAGAGATAAGATTCGTCATCTTCAGTTTGCCCCACTGCAACTTCAGGAG
131 CCCCACTGCAACTTCAGAGAGATAAGATTCGTCATCTTCAGTCTGCCCCACTACAACTTCAGGAG
*
57333162 GATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTG
196 GATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* *
57333227 CTCTTTGCAACTTCAGAGAGATAAGATC-TAAGGTTTTAATCCACTTCACTGCAACTTCAGGAAG
261 CTCTCTGCAACTTCAGAGAGATAAGATCGTAA--TTTTAATCCACTCCACTGCAACTTCAGGAAG
* *
57333291 ATATGATTATCGGCTTTAAC
324 ATAGGATTATCGACTTTAAC
* * *
57333311 CTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCT-CTGCAACTTCAAAGA
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTCGATGCGATCTACTCTACTGCAACTTC--AGA
* * *
57333374 GATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAT-TGGCTTTAA
63 GAGAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATT-TGTGGATTTAA
* * * *
57333438 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCT-CCCTCACTACAACTTC
127 CATGCCCCACTGCAACTTCAGAGAGATAAGATTCGTCATCTTCAGTCTGCCC-CACTACAACTTC
* * * *
57333502 AGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCG
191 AGGAGGATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
*
57333567 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAG
256 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATC-GTAATTTTAATCCACTCCACTGCAACTTCAG
* * *
57333632 GGAGATAGGATTGTCGACTTTAAT
320 GAAGATAGGATTATCGACTTTAAC
* *
57333656 TTGCTCCACTGCAACCTCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
57333686 ATTGCCATCT
Statistics
Matches: 329, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
343 13 0.04
344 43 0.13
345 266 0.81
346 4 0.01
347 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (343 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGCGATCTACTCTACTGCAACTTCAGAGAG
AAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGACAGGATTTGTGGATTTAACATG
CCCCACTGCAACTTCAGAGAGATAAGATTCGTCATCTTCAGTCTGCCCCACTACAACTTCAGGAG
GATAAAACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCGTAATTTTAATCCACTCCACTGCAACTTCAGGAAGAT
AGGATTATCGACTTTAAC
Found at i:57333716 original size:173 final size:169
Alignment explanation
Indices: 57333099--57333947 Score: 624
Period size: 173 Copynumber: 4.9 Consensus size: 169
57333089 TTAGTATGCC
* * *
57333099 CCACTGCAACTTCAGAGAGATAAGATTCGTC-ATCTTCAGTTTGCCCCACTGCAACTTCAGGAGG
1 CCACTGCAACTTCAGGGAGATAAGATT-GTCGA-CTTTAATTTGCCCCACTGCAACTTCAGGAGG
*
57333163 ATAA-AACTTG-ATTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATT
64 ATAAGAA-TTGCA-T-CTTCAGTCTGCT-CACTGCAACTTCA-GGAGATAAGACTAGATGCGATC
** *
57333225 TGCT-CTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
124 TGCTCCACTGCAACTTCAGAGAGATAAGATCTAA--TTTTAATCCGCT
* * * * * **
57333272 TCACTGCAACTTCAGGAAGATATGATTATCGGCTTTAACCTGCCCCACTGCAACTTCAGGAGGAT
1 CCACTGCAACTTCAGGGAGATAAGATTGTCGACTTTAATTTGCCCCACTGCAACTTCAGGAGGAT
* * * * * * *** **
57333337 AAGACTTG-A--TGC-GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCA
66 AAGAATTGCATCTTCAG-TCTGCTCACTGCAACTTC-AGGAGATAAGA--CTA-GATGCGATCTG
* *
57333398 CTCCACTGCAACTTCAG-GAAGATAGGAT-TATTGGCTTTAA-CCTGCT
126 CTCCACTGCAACTTCAGAG-AGATAAGATCTAAT---TTTAATCC-GCT
* * * *
57333444 CCACTGCAACTTCAGGGAGATAAGATTTGTC-ATCTTCAGTCT-CCCTCACTACAACTTCAGGAG
1 CCACTGCAACTTCAGGGAGATAAGA-TTGTCGA-CTTTAATTTGCCC-CACTGCAACTTCAGGAG
* * *
57333507 GATAAGACTTGCTTGCTT-AGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
63 GATAAGAATTGCAT-CTTCAGTCTGCT-CACTGCAACTTCA-GGAGATAAGACTAGATGCGATCT
*
57333571 GCT-CTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCT
125 GCTCCACTGCAACTTCAGAGAGATAAGATC--TAATTTTAATCCGCT
* * *
57333617 CCACTGCAACTTCAGGGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGG-GAGA
1 CCACTGCAACTTCAGGGAGATAAGATTGTCGACTTTAATTTGCCCCACTGCAACTTCAGGAG-GA
* * * * *
57333681 TAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
65 TAAGAATTG-CATCTTCAGTCTG-CTCACTGCAACTTCAGGA-GATAAGACTAG-ATGC-GA-TC
* * *** *
57333746 TGCTCCACTACAACTTCAGGGAGATAAGA-CTAGA-TGCGATCTGCT
124 TGCTCCACTGCAACTTCAGAGAGATAAGATCTA-ATTTTAATCCGCT
* * * * *
57333791 -CTCTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGG-GAGA
1 CCACTGCAACTTCAGGGAGATAAGATTGTCGACTTTAATTTGCCCCACTGCAACTTCAGGAG-GA
* * * * *
57333854 TAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
65 TAAGAATTG-CATCTTCAGTCTG-CTCACTGCAACTTCAGGA-GATAAGACTAG-ATGC-GA-TC
* *
57333919 TGCTCCACTACAACTTCAGGGAGATAAGA
124 TGCTCCACTGCAACTTCAGAGAGATAAGA
57333948 CTAGATGCGA
Statistics
Matches: 560, Mismatches: 75, Indels: 82
0.78 0.10 0.11
Matches are distributed among these distances:
168 22 0.04
169 8 0.01
170 2 0.00
171 12 0.02
172 129 0.23
173 301 0.54
174 23 0.04
175 4 0.01
176 17 0.03
177 42 0.08
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (169 bp):
CCACTGCAACTTCAGGGAGATAAGATTGTCGACTTTAATTTGCCCCACTGCAACTTCAGGAGGAT
AAGAATTGCATCTTCAGTCTGCTCACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCTCCA
CTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCGCT
Found at i:57333750 original size:89 final size:89
Alignment explanation
Indices: 57333657--57333947 Score: 366
Period size: 89 Copynumber: 3.3 Consensus size: 89
57333647 GACTTTAATT
*
57333657 TGCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGG
1 TGCTCCACTACAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGG
57333722 AGGATAAGACTTGCTTACTTAGTC
66 AGGATAAGACTTGCTTACTTAGTC
* * * * * *
57333746 TGCTCCACTACAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTG-CTCTCTGCAACTTCA-
1 TGCTCCACTACAACCTCAGGGAGATAAGAATTGCCATCTTCAG-TTTGCCTCACTGCAACTTCAG
* * * *
57333804 GAGAGATAGGA-TTG-TCGACTTTAATT
65 GAG-GATAAGACTTGCT-TAC-TTAGTC
*
57333830 TGCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGG
1 TGCTCCACTACAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGG
57333895 AGGATAAGACTTGCTTACTTAGTC
66 AGGATAAGACTTGCTTACTTAGTC
*
57333919 TGCTCCACTACAACTTCAGGGAGATAAGA
1 TGCTCCACTACAACCTCAGGGAGATAAGA
57333948 CTAGATGCGA
Statistics
Matches: 165, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
82 1 0.01
83 8 0.05
84 54 0.33
85 5 0.03
86 1 0.01
87 1 0.01
88 5 0.03
89 81 0.49
90 8 0.05
91 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (89 bp):
TGCTCCACTACAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGG
AGGATAAGACTTGCTTACTTAGTC
Found at i:57333837 original size:217 final size:216
Alignment explanation
Indices: 57333311--57333855 Score: 786
Period size: 217 Copynumber: 2.5 Consensus size: 216
57333301 CGGCTTTAAC
* * *
57333311 CTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAG
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
*** * * * * *
57333375 ATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACC
65 ATAAGAT-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAACC
* * *
57333440 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTCCCTCACTACAACTTCAGG
129 TGCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTCTCCCTCACTACAACTTCAGG
*
57333505 AGGATAAGACTTGCTTGCTTAGT
194 AGGATAAGACTTGCTTACTTAGT
*
57333528 CTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
* * **
57333593 TAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTTTAATTT
66 TAAGAT-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAACCT
* * *
57333658 GCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGA
130 GCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTCTCCCTCACTACAACTTCAGGA
57333723 GGATAAGACTTGCTTACTTAGT
195 GGATAAGACTTGCTTACTTAGT
*
57333745 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
* * ** *
57333810 TAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATA
66 TAAGATTGT-GATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
57333856 AGAATTGCCA
Statistics
Matches: 295, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
216 3 0.01
217 289 0.98
218 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (216 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAACCTG
CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTCTCCCTCACTACAACTTCAGGAG
GATAAGACTTGCTTACTTAGT
Found at i:57333935 original size:217 final size:217
Alignment explanation
Indices: 57333311--57333949 Score: 782
Period size: 217 Copynumber: 2.9 Consensus size: 217
57333301 CGGCTTTAAC
* * *
57333311 CTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAAAGAG
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
*** * * * * *
57333375 ATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGC-T-TTAA
65 ATAAGAT-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA--ATTGCCATCTTAA
** * *
57333438 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAGTCTCCCTCACTACAACTTC
127 TTTGCTCCACTGCAACTTCAGGGAGATAAGAATTGCTCATCTTCAGTCTGCCTCACTACAACTTC
*
57333502 AGGAGGATAAGACTTGCTTGCTTAGT
192 AGGAGGATAAGACTTGCTTACTTAGT
*
57333528 CTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
* * *
57333593 TAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT-AGGATTGTCGA-CTTTAAT
66 TAAGAT-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAATTG-CCATC-TTAAT
* * *
57333656 TTGCTCCACTGCAACCTCAGGGAGATAAGAATTGC-CATCTTCAGTTTGCCTCACTGCAACTTCA
128 TTGCTCCACTGCAACTTCAGGGAGATAAGAATTGCTCATCTTCAGTCTGCCTCACTACAACTTCA
57333720 GGAGGATAAGACTTGCTTACTTAGT
193 GGAGGATAAGACTTGCTTACTTAGT
*
57333745 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
* * ** * *
57333810 TAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTT
66 TAAGATTGT-GATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAATTGCCATCTT-AATT
* *
57333875 TGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA-CTT-AGTCTG-CTCCACTACAACTT
129 TGCTC-CACTGCAACTTCAGGGA-GATAAGAATTGCTCATCTTCAGTCTGCCT-CACTACAACTT
57333935 CAGG-GAGATAAGACT
191 CAGGAG-GATAAGACT
57333950 AGATGCGATC
Statistics
Matches: 368, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
214 4 0.01
216 7 0.02
217 314 0.85
218 42 0.11
219 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAATTGCCATCTTAATTTG
CTCCACTGCAACTTCAGGGAGATAAGAATTGCTCATCTTCAGTCTGCCTCACTACAACTTCAGGA
GGATAAGACTTGCTTACTTAGT
Found at i:57333948 original size:173 final size:173
Alignment explanation
Indices: 57333620--57333984 Score: 721
Period size: 173 Copynumber: 2.1 Consensus size: 173
57333610 ATCCGCTCCA
*
57333620 CTGCAACTTCAGGGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAG
57333685 AATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
66 AATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
57333750 CCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
57333793 CTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAG
57333858 AATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
66 AATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
57333923 CCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
57333966 CTGCAACTTCAGAGAGATA
1 CTGCAACTTCAGAGAGATA
57333985 AGATCCAAAA
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 191 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTGCTCCACTGCAACCTCAGGGAGATAAG
AATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
CCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
Found at i:57334009 original size:84 final size:82
Alignment explanation
Indices: 57333744--57334026 Score: 255
Period size: 84 Copynumber: 3.3 Consensus size: 82
57333734 GCTTACTTAG
57333744 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * * *
57333809 ATAGGATTGTCGACTTTAA
66 ATAAGA-T-CCAAATTTAA
* * * * * * * *
57333828 TTTGCTCCACTGCAACCTCAGGGAGATAAGAATTGCCAT-CTTCAGTTTGCCTCACTGCAACTTC
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCTCTGCAACTTC
* ** * *
57333892 AG-GAGGATAAGACTTGCTTACTTAG
60 AGAGA-GATAAGA--TCCAAATTTAA
57333917 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
57333982 ATAAGATCCAAAATTTTAA
66 ATAAGATCC-AAA-TTTAA
** *
57334001 TCCACTCCACTGCAACTTCAGGGAGA
1 TCTGCTCCACTACAACTTCAGGGAGA
57334027 CAAGGCTTGG
Statistics
Matches: 156, Mismatches: 31, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
82 2 0.01
83 1 0.01
84 78 0.50
85 6 0.04
86 3 0.02
87 3 0.02
88 6 0.04
89 55 0.35
90 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (82 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCCAAATTTAA
Found at i:57334011 original size:173 final size:173
Alignment explanation
Indices: 57333659--57334026 Score: 637
Period size: 173 Copynumber: 2.1 Consensus size: 173
57333649 CTTTAATTTG
57333659 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
57333724 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
66 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
* ***** ***
57333789 CTCTCTGCAACTTCAGAGAGATAGGATTGTCGACTTTAATTTG
131 CTCTCTGCAACTTCAGAGAGATAAGATCCAAAACTTTAATCCA
57333832 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
57333897 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
66 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
*
57333962 CTCTCTGCAACTTCAGAGAGATAAGATCCAAAATTTTAATCCA
131 CTCTCTGCAACTTCAGAGAGATAAGATCCAAAACTTTAATCCA
*
57334005 CTCCACTGCAACTTCAGGGAGA
1 CTCCACTGCAACCTCAGGGAGA
57334027 CAAGGCTTGG
Statistics
Matches: 184, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 184 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (173 bp):
CTCCACTGCAACCTCAGGGAGATAAGAATTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAAACTTTAATCCA
Found at i:57334119 original size:132 final size:132
Alignment explanation
Indices: 57334018--57334429 Score: 646
Period size: 132 Copynumber: 3.1 Consensus size: 132
57334008 CACTGCAACT
57334018 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTACCG
* * *
57334083 TCTTCGATCTGCTCCACTACTGTTTAGGGAGGTAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
57334148 GC
131 GC
* * **
57334150 TCAGAGAGACAAGGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAAT-ATTTTTC
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGAT-ATGATTTACC
* *
57334214 GTCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
65 GTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
57334279 TGC
130 TGC
*
57334282 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTACCG
* * * * * * * *
57334347 TCCTCGATCTACTCTACTACTACTTAAGGAGATAAGATCTACGATCCTCAACCTACTCCGTTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
57334412 GC
131 GC
57334414 TCAGGGAGACAAGGCT
1 TCAGGGAGACAAGGCT
57334430 AAGTGTTTCA
Statistics
Matches: 255, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 252 0.99
133 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTACCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:57334854 original size:82 final size:82
Alignment explanation
Indices: 57334717--57334880 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
57334707 CCCCTACTGT
57334717 AAACTTCAAAGTTCAATCCACTAGGACACAAAAATTTGTACCATCATTTTCCCACTACAACCCGA
1 AAACTTCAAAGTTCAATCCACTAGGACACAAAAATTTGTACCATCATTTTCCCACTACAACCCGA
*
57334782 TGGTAGAAATATATGGA
66 TGGAAGAAATATATGGA
57334799 AAACTTCAAAGTTCAATCCACTAGGACACAAAAATTTGTACCATCATTTTCCCACTACAACCCGA
1 AAACTTCAAAGTTCAATCCACTAGGACACAAAAATTTGTACCATCATTTTCCCACTACAACCCGA
57334864 TGGAAGAAATATATGGA
66 TGGAAGAAATATATGGA
57334881 TTTTTCTCCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (82 bp):
AAACTTCAAAGTTCAATCCACTAGGACACAAAAATTTGTACCATCATTTTCCCACTACAACCCGA
TGGAAGAAATATATGGA
Found at i:57341294 original size:19 final size:21
Alignment explanation
Indices: 57341256--57341294 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57341246 CCTTTTTTAA
*
57341256 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
57341277 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
57341295 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:57345819 original size:14 final size:15
Alignment explanation
Indices: 57345800--57345828 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57345790 AAGTTTCCTC
57345800 TTCTTTTTT-TTTCT
1 TTCTTTTTTCTTTCT
57345814 TTCTTTTTTCTTTCT
1 TTCTTTTTTCTTTCT
57345829 AATATGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTTTTTCTTTCT
Found at i:57345822 original size:11 final size:11
Alignment explanation
Indices: 57345800--57345828 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57345790 AAGTTTCCTC
57345800 TTCTTT-TTTT
1 TTCTTTCTTTT
57345810 TTCTTTCTTTT
1 TTCTTTCTTTT
57345821 TTCTTTCT
1 TTCTTTCT
57345829 AATATGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:57358854 original size:38 final size:38
Alignment explanation
Indices: 57358812--57358888 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
57358802 TAAAGGGGAA
57358812 AGAAAATGAGAGAAAGAATCAAAGAATAAGAGAAGGAG
1 AGAAAATGAGAGAAAGAATCAAAGAATAAGAGAAGGAG
57358850 AGAAAATGAGAGAAAGAATCAAAGAATAAGAGAAGGAG
1 AGAAAATGAGAGAAAGAATCAAAGAATAAGAGAAGGAG
57358888 A
1 A
57358889 ACAAGAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.61, C:0.03, G:0.29, T:0.08
Consensus pattern (38 bp):
AGAAAATGAGAGAAAGAATCAAAGAATAAGAGAAGGAG
Found at i:57359560 original size:21 final size:20
Alignment explanation
Indices: 57359536--57359585 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
57359526 AAGAATGGAG
57359536 AAATGATAATCTTGTT-AAGCC
1 AAATGATAAT-TTGTTAAAG-C
57359557 AAATG-TCAATTTGTTCAAAGC
1 AAATGAT-AATTTGTT-AAAGC
57359578 AAATGATA
1 AAATGATA
57359586 TCATTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 6 0.24
21 15 0.60
22 4 0.16
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AAATGATAATTTGTTAAAGC
Found at i:57372338 original size:19 final size:19
Alignment explanation
Indices: 57372314--57372351 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
57372304 TCCTGCACTT
57372314 GGAAGAAAAAGTAGAAAAA
1 GGAAGAAAAAGTAGAAAAA
*
57372333 GGAAGAAGAAGTAGAAAAA
1 GGAAGAAAAAGTAGAAAAA
57372352 AGAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (19 bp):
GGAAGAAAAAGTAGAAAAA
Found at i:57376981 original size:25 final size:25
Alignment explanation
Indices: 57376953--57377023 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
57376943 AGCTATTCCA
* *
57376953 AGCTGAATAACGGGAAGCTCAAGTG
1 AGCTGAATAACAGGAAGCTCAAGCG
* * *
57376978 AGCTGTATACCAGGAAGCTCATGCG
1 AGCTGAATAACAGGAAGCTCAAGCG
* * *
57377003 AGCTGAGTATCAGCAAGCTCA
1 AGCTGAATAACAGGAAGCTCA
57377024 TAAGAGCTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.18
Consensus pattern (25 bp):
AGCTGAATAACAGGAAGCTCAAGCG
Found at i:57384319 original size:25 final size:25
Alignment explanation
Indices: 57384291--57384348 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
57384281 TGTAAACAGT
* * *
57384291 AAGCTCTTCCAAGCTGAATAATGGG
1 AAGCTCATCCAAGCTAAATAACGGG
* *
57384316 AAGCTCATGCGAGCTAAATAACGGG
1 AAGCTCATCCAAGCTAAATAACGGG
57384341 AAGCTCAT
1 AAGCTCAT
57384349 GTGAGCTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
AAGCTCATCCAAGCTAAATAACGGG
Found at i:57384349 original size:25 final size:25
Alignment explanation
Indices: 57384302--57384373 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
57384292 AGCTCTTCCA
*
57384302 AGCTGAATAATGGGAAGCTCATGCG
1 AGCTGAATAACGGGAAGCTCATGCG
* *
57384327 AGCTAAATAACGGGAAGCTCATGTG
1 AGCTGAATAACGGGAAGCTCATGCG
* *
57384352 AGCTGTAT-ACAGGAAGCTCATG
1 AGCTGAATAACGGGAAGCTCATG
57384374 AGAGTTGAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 13 0.32
25 28 0.68
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
AGCTGAATAACGGGAAGCTCATGCG
Found at i:57393845 original size:16 final size:16
Alignment explanation
Indices: 57393824--57393854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57393814 TCCCAACCCC
*
57393824 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
57393840 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
57393855 CTCAAAATCA
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:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:57401455 original size:22 final size:22
Alignment explanation
Indices: 57401427--57401478 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
57401417 AAGTATTTTA
57401427 AAAGACA-TGATGCAAAAATATT
1 AAAGACATTG-TGCAAAAATATT
*
57401449 AAAGACATTGTTCAAAAATATT
1 AAAGACATTGTGCAAAAATATT
57401471 AAATGACA
1 AAA-GACA
57401479 ATATTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.25
Consensus pattern (22 bp):
AAAGACATTGTGCAAAAATATT
Found at i:57401507 original size:16 final size:16
Alignment explanation
Indices: 57401486--57401529 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
57401476 ACAATATTAA
57401486 GAATTTTTAGATAATT
1 GAATTTTTAGATAATT
*
57401502 GAATTTTTAAATAATT
1 GAATTTTTAGATAATT
*
57401518 GAAATTTTAGAT
1 GAATTTTTAGAT
57401530 GTTTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (16 bp):
GAATTTTTAGATAATT
Found at i:57403694 original size:26 final size:23
Alignment explanation
Indices: 57403658--57403706 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 23
57403648 GACATTGCTA
*
57403658 TATATGTTTGATTAGTCTGATATATG
1 TATATATTTGA-TA-TCTG-TATATG
57403684 TATATATTTGATATCTGTATATG
1 TATATATTTGATATCTGTATATG
57403707 AGCATGTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 2 0.09
26 10 0.45
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (23 bp):
TATATATTTGATATCTGTATATG
Found at i:57415813 original size:15 final size:15
Alignment explanation
Indices: 57415795--57415825 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57415785 GTAAAAACTG
57415795 AAAACAATTAAATAA
1 AAAACAATTAAATAA
*
57415810 AAAACAGTTAAATAA
1 AAAACAATTAAATAA
57415825 A
1 A
57415826 TCTGAAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAACAATTAAATAA
Found at i:57420032 original size:3 final size:3
Alignment explanation
Indices: 57420026--57420053 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57420016 GTTACTTTTG
57420026 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
57420054 ACCTATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57430111 original size:24 final size:24
Alignment explanation
Indices: 57430082--57430130 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
57430072 TTTCTAGAAG
* *
57430082 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
57430106 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
57430130 A
1 A
57430131 GTTGACTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:57430252 original size:24 final size:23
Alignment explanation
Indices: 57430224--57430269 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
57430214 TTTGGAGAAT
*
57430224 TTTGTGTTTATGTTTTGAGGGTTA
1 TTTGTGTTTAGGTTTTG-GGGTTA
* *
57430248 TTTGTTTTTGGGTTTTGGGGTT
1 TTTGTGTTTAGGTTTTGGGGTT
57430270 TAATTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.61
Consensus pattern (23 bp):
TTTGTGTTTAGGTTTTGGGGTTA
Found at i:57433623 original size:15 final size:15
Alignment explanation
Indices: 57433603--57433656 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
57433593 AACCTAACTT
57433603 TTTTAATTTTAATTA
1 TTTTAATTTTAATTA
*
57433618 TTTTAATATTTATTTA
1 TTTTAAT-TTTAATTA
* *
57433634 -ATTAATTCCTAATTA
1 TTTTAATT-TTAATTA
57433649 TTTTAATT
1 TTTTAATT
57433657 ACCTAACCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
16 13 0.42
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATTTTAATTA
Found at i:57435175 original size:23 final size:24
Alignment explanation
Indices: 57435149--57435215 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
57435139 AGATGACTTT
*
57435149 ATATAAAATTTTAATAAATA-AAA
1 ATATAAAATATTAATAAATATAAA
*
57435172 ATATATAAA-ATTATTAAATATAAA
1 ATATA-AAATATTAATAAATATAAA
*
57435196 AT-TAAAATAAT-ATAAATATA
1 ATATAAAATATTAATAAATATA
57435216 TATTTTGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 11 0.30
23 18 0.49
24 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATAAAATATTAATAAATATAAA
Found at i:57435176 original size:25 final size:25
Alignment explanation
Indices: 57435148--57435196 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
57435138 AAGATGACTT
57435148 TATATAAAATT-TTAATAAATAAAAA
1 TATATAAAATTATTAA-AAATAAAAA
*
57435173 TATATAAAATTATTAAATATAAAA
1 TATATAAAATTATTAAAAATAAAA
57435197 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TATATAAAATTATTAAAAATAAAAA
Found at i:57435212 original size:15 final size:14
Alignment explanation
Indices: 57435162--57435212 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
57435152 TAAAATTTTA
*
57435162 ATAAATAAAAATAT
1 ATAAATTAAAATAT
57435176 ATAAAATTATTAAATAT
1 AT-AAATTA--AAATAT
57435193 A-AAATTAAAATAAT
1 ATAAATTAAAAT-AT
57435207 ATAAAT
1 ATAAAT
57435213 ATATATTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 15 0.48
17 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATTAAAATAT
Found at i:57444127 original size:16 final size:18
Alignment explanation
Indices: 57444102--57444139 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57444092 TATTATTGAC
*
57444102 TTTT-ATTTTTAA-TTTT
1 TTTTAATTTTCAAGTTTT
57444118 TTTTAATTTTCAAGTTTT
1 TTTTAATTTTCAAGTTTT
57444136 TTTT
1 TTTT
57444140 TCTCTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTAATTTTCAAGTTTT
Found at i:57448368 original size:23 final size:23
Alignment explanation
Indices: 57448333--57448402 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
57448323 TACGAGTAGG
* *
57448333 ATCTAAATCTGTATCTGTTATGC
1 ATCTGAATATGTATCTGTTATGC
* *
57448356 ATCTGAATTTGTATCT-ATATGC
1 ATCTGAATATGTATCTGTTATGC
*
57448378 ATCTGAAAGATGTATCTGTTATGC
1 ATCTG-AATATGTATCTGTTATGC
57448402 A
1 A
57448403 CTTGTGTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
22 10 0.26
23 23 0.59
24 6 0.15
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
ATCTGAATATGTATCTGTTATGC
Found at i:57450647 original size:21 final size:21
Alignment explanation
Indices: 57450622--57450661 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57450612 CAAGCACAAT
57450622 ATAATGTA-AATATATAATCCA
1 ATAAT-TATAATATATAATCCA
*
57450643 ATAATTATAATATCTAATC
1 ATAATTATAATATATAATC
57450662 AAATTAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAATTATAATATATAATCCA
Found at i:57452907 original size:152 final size:152
Alignment explanation
Indices: 57452751--57453050 Score: 447
Period size: 152 Copynumber: 2.0 Consensus size: 152
57452741 AGTAGTGCAT
* * * *
57452751 TATATATTAATGTTTATTATTATACTAGTTGAAATATGCTCTAAGTTCCTATCCTTTTCGTACAT
1 TATATACTAATGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCATACAT
* ** * * *
57452816 TTGAAAGTTAGCTGTCATACTATATTATATAATGCTATATCATGTCATGTATTAATAATATTTAT
66 TTAAAAGTTAGCCCTCATACTATATTATATAATGCTATATCATATCATATATCAATAATATTTAT
*
57452881 ATATGCACAAATTATTAATTAG
131 ATATGCACAAATGATTAATTAG
* *
57452903 TATATACTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATATTTTTCATACAT
1 TATATACTAATGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCATACAT
* * *
57452968 TTAAAAGTTAGCCCTCCTACTATATTATATAATGTTATATCATATCATATATCAATAATTTTTAT
66 TTAAAAGTTAGCCCTCATACTATATTATATAATGCTATATCATATCATATATCAATAATATTTAT
*
57453033 ATATGCATAAATGATTAA
131 ATATGCACAAATGATTAA
57453051 ACATTATAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
152 131 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (152 bp):
TATATACTAATGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCATACAT
TTAAAAGTTAGCCCTCATACTATATTATATAATGCTATATCATATCATATATCAATAATATTTAT
ATATGCACAAATGATTAATTAG
Found at i:57453176 original size:238 final size:245
Alignment explanation
Indices: 57452893--57453363 Score: 634
Period size: 238 Copynumber: 1.9 Consensus size: 245
57452883 ATGCACAAAT
57452893 TATTAATTAGTATATACTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATA-T
1 TATTAATTAGTATATACTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACT
*
57452957 TTTTCATACATTTAAAAGTTAGCCCTCCTACTATATTATATAATGTTATATCATATCATA-TAT-
66 TTTT-ATACATTTAAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATTATA
* * ** *
57453020 CA-A-TAAT-TTT-TATATATGCATAAATGATTAAACATTATAATATCATGTAATGTTGTA-TCT
130 CATATTAATATTTATATATATGCATAAATGATGAAACATTATAATATAATGTAATACTATATTCT
*
57453080 TTTATTATAATCTATATTATAATTATAGTTATATAACAGTAGTACATTATA
195 TTTATTATAATCTATATTATAATAATAGTTATATAACAGTAGTACATTATA
* * * * **
57453131 TATTACTTATTATATATTATTGTTTATTATTATACTAGTTGAAATATGTTCTAAGTCTTTATACT
1 TATTAATTAGTATATACTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACT
* * * *
57453196 TTTTGTACATTTAAAAGTTAGTCCTCCTACTATATTATTTAATGCTATATCATATCATATTATAT
66 TTTTATACATTTAAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATTATAC
*** *
57453261 ATTATTTTAATAGTTTATATATATGCATTTTTTATGAAACATTATAATATAATGTAATACTATAT
131 A-TA--TTAATA-TTTATATATATGCATAAATGATGAAACATTATAATATAATGTAATACTATAT
* *
57453326 TTTTTTATTATAATCTATATTATTATAATAGTTATATA
192 TCTTTTATTATAATCTATATTATAATAATAGTTATATA
57453364 TGTATTAATA
Statistics
Matches: 198, Mismatches: 23, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
238 108 0.55
239 8 0.04
240 1 0.01
242 1 0.01
245 4 0.02
247 3 0.02
248 38 0.19
249 35 0.18
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (245 bp):
TATTAATTAGTATATACTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGTCCCTATACT
TTTTATACATTTAAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATTATAC
ATATTAATATTTATATATATGCATAAATGATGAAACATTATAATATAATGTAATACTATATTCTT
TTATTATAATCTATATTATAATAATAGTTATATAACAGTAGTACATTATA
Found at i:57453385 original size:30 final size:27
Alignment explanation
Indices: 57453342--57453406 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 27
57453332 ATTATAATCT
57453342 ATATTATTATAATAGTTATATATGTATTA
1 ATATTATTATAATAGTTATATAT-TA-TA
*
57453371 ATATTTTTAGTAATAGTTATATATTATA
1 ATATTATTA-TAATAGTTATATATTATA
57453399 ATATTATT
1 ATATTATT
57453407 TTATTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 9 0.27
29 10 0.30
30 14 0.42
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
ATATTATTATAATAGTTATATATTATA
Found at i:57453409 original size:30 final size:29
Alignment explanation
Indices: 57453331--57453410 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
57453321 TATATTTTTT
*
57453331 TATTATAATCTATATTATTATAATAGTTATA
1 TATTATAATAT-TATT-TTATAATAGTTATA
57453362 TATGTATTAATA-T-TTTTAGTAATAGTTATA
1 TAT-TA-TAATATTATTTTA-TAATAGTTATA
57453392 TATTATAATATTATTTTAT
1 TATTATAATATTATTTTAT
57453411 TTATTAGTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
28 5 0.12
29 7 0.16
30 21 0.49
31 4 0.09
32 2 0.05
33 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (29 bp):
TATTATAATATTATTTTATAATAGTTATA
Found at i:57455054 original size:53 final size:53
Alignment explanation
Indices: 57454943--57455066 Score: 194
Period size: 53 Copynumber: 2.3 Consensus size: 53
57454933 GCCACACAAT
*
57454943 CGTGTGCTAGGCCATGTGACAAATCGTGTGTGATATTAAGATGGACACACAGG
1 CGTGTGCTAGGCCATGTGACAAATCGTGTGTGATATTAAGAGGGACACACAGG
* *
57454996 CGTGTGCTAGGCCATGTGACAAATCGTGTGTGATATTAAGAGGGCCACACGGG
1 CGTGTGCTAGGCCATGTGACAAATCGTGTGTGATATTAAGAGGGACACACAGG
* * *
57455049 TGTGTGGTAGACCATGTG
1 CGTGTGCTAGGCCATGTG
57455067 GACCACATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (53 bp):
CGTGTGCTAGGCCATGTGACAAATCGTGTGTGATATTAAGAGGGACACACAGG
Found at i:57455352 original size:15 final size:16
Alignment explanation
Indices: 57455332--57455361 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57455322 TACGCATATC
57455332 TGATATCTG-TAAATT
1 TGATATCTGTTAAATT
57455347 TGATATCTGTTAAAT
1 TGATATCTGTTAAAT
57455362 CTGCATCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (16 bp):
TGATATCTGTTAAATT
Found at i:57456255 original size:13 final size:13
Alignment explanation
Indices: 57456237--57456262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57456227 AGTTTTTTTC
57456237 TATTTTTAATTAA
1 TATTTTTAATTAA
57456250 TATTTTTAATTAA
1 TATTTTTAATTAA
57456263 GAAATATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTAATTAA
Found at i:57456731 original size:26 final size:25
Alignment explanation
Indices: 57456680--57456731 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
57456670 ATTAATTTCA
*
57456680 AATATTTTTAATATAATGATATATAT
1 AATATTTTTAATATAAT-ATACATAT
57456706 AATATTTTTATTATATAAT-TACATAT
1 AATATTTTTA--ATATAATATACATAT
57456732 TTATTATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 16 0.70
28 7 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
AATATTTTTAATATAATATACATAT
Done.