Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 144 of 325
Found at i:43927760 original size:29 final size:29
Alignment explanation
Indices: 43927728--43927783 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
43927718 ATTTAATACG
43927728 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
43927757 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
43927784 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:43931452 original size:40 final size:40
Alignment explanation
Indices: 43931397--43931618 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
43931387 TATTCGAATG
* *
43931397 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
43931437 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
43931477 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
43931517 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
43931557 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
43931597 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43931619 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 152 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:43939846 original size:40 final size:40
Alignment explanation
Indices: 43939791--43939972 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
43939781 TATTCGAATG
* * *
43939791 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43939831 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43939871 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43939911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
43939951 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43939973 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.11
40 114 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43947209 original size:30 final size:30
Alignment explanation
Indices: 43947175--43947234 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43947165 ATTTAATACG
43947175 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43947205 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43947235 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43948499 original size:50 final size:50
Alignment explanation
Indices: 43948430--43948981 Score: 596
Period size: 50 Copynumber: 11.0 Consensus size: 50
43948420 TAAAATGGTT
* *
43948430 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* * * *
43948480 TTAGGTCACATGTGTAGTACTAAGTGCAAGG-TACTATGCGTACTC-GAAAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGC-AGGCTACTATGTGTAC-CAG-ATAG
* * * * *
43948531 TTCA-ATCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
*
43948581 TTAGGTCACGTGTGTAGTACTAAGTGCACGCTACTATGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* * * * * *
43948631 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAG
* * * * *
43948682 TTCA-ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* *
43948732 TCAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* * * *
43948782 TTAGGTCACATGT-TCAGTACTAAGTGCACGCTACTATGTGTACCAGACAAC
1 TTAGGTCACGTGTGT-AGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAG
* * * * * *
43948833 TTCA-ATCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* * *
43948883 TTAGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGAT-T
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
* * * *
43948932 TTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
43948982 CTTCGATTAC
Statistics
Matches: 416, Mismatches: 70, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
49 46 0.11
50 251 0.60
51 115 0.28
52 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
Found at i:43948565 original size:101 final size:99
Alignment explanation
Indices: 43948435--43948981 Score: 537
Period size: 101 Copynumber: 5.5 Consensus size: 99
43948425 TGGTTTTAGG
* *
43948435 TCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
*
43948500 TAAGTGCAAGGTACTATGCGTACTCGAAAACTTCAA
66 TAAGTGCAAGGTACTATGTGTAC-C-AAAACTTCAA
* * *
43948536 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* * * * *
43948601 TAAGTGCACGCTACTATGTGTACCAGATAGTT-AGG
66 TAAGTGCAAGGTACTATGTGTACCA-AAACTTCA-A
* * * * * * * *
43948636 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTCA-ATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTT-AGGTCACGTGTGTAGT
* * * * ***
43948700 ACTAAGTG-TAGGCTACTACGTGTATCAGATGGTCAA
64 ACTAAGTGCAAGG-TACTATGTGTACCAAAACTTCAA
* *
43948736 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGT-TCAGT
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGT-AGT
* *
43948800 ACTAAGTGCACGCTACTATGTGTACCAGACAACTTCAA
64 ACTAAGTGCAAGGTACTATGTGTACCA-A-AACTTCAA
* * * * *
43948838 TCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGCAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* * ** ***
43948903 TAAGTGC-AGGCTACTACGTGTACCAGATTTTTGG
66 TAAGTGCAAGG-TACTATGTGTACCAAAACTTCAA
* * * *
43948937 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
43948982 CTTCGATTAC
Statistics
Matches: 361, Mismatches: 71, Indels: 30
0.78 0.15 0.06
Matches are distributed among these distances:
99 46 0.13
100 77 0.21
101 231 0.64
102 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
TAAGTGCAAGGTACTATGTGTACCAAAACTTCAA
Found at i:43948666 original size:151 final size:150
Alignment explanation
Indices: 43948390--43948975 Score: 872
Period size: 151 Copynumber: 3.9 Consensus size: 150
43948380 AGAACACATT
* * * * * *
43948390 TGTAGTATTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAAGT
*
43948455 GCAGTCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAAGG-TACTATGC
64 GCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGC-AGGCTACTATGC
43948519 GTACTCGAAAACTTCAATCACGTG
128 GTAC-CGAAAACTTCAATCACGTG
*
43948543 TGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * *
43948608 ACGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
66 AGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
43948673 CCCGAAAACTTCAATCACGTG
131 -CCGAAAACTTCAATCACGTG
* * *
43948694 TGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTCAAGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * *
43948759 AGGCTACTATGTGTACCAGATAGTTAGGTCACATGT-TCAGTACTAAGTGCACGCTACTATGTGT
66 AGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGT-AGTACTAAGTGCAGGCTACTATGCGT
* *
43948823 ACCAGACAACTTCAATCACATG
130 ACC-GAAAACTTCAATCACGTG
* *
43948845 TGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGCACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * *
43948910 AGGCTACTACGTGTACCAGAT-TTTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
66 AGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
43948974 CC
131 CC
43948976 AGATAGCTTC
Statistics
Matches: 396, Mismatches: 32, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
150 44 0.11
151 320 0.81
152 1 0.00
153 31 0.08
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
AGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCGAAAACTTCAATCACGTG
Found at i:43953275 original size:27 final size:27
Alignment explanation
Indices: 43953227--43953287 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
43953217 GTGAGGCTAC
* *
43953227 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGAAA
* * *
43953254 CAGATATTGTGGCTAGGCCACCAGAAA
1 CAGATATTGTGACGAAGCCACCAGAAA
*
43953281 AAGATAT
1 CAGATAT
43953288 ATATATATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGAAA
Found at i:43953291 original size:2 final size:2
Alignment explanation
Indices: 43953284--43953321 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43953274 CCAGAAAAAG
43953284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43953322 GTGGCGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43953402 original size:27 final size:26
Alignment explanation
Indices: 43953354--43953405 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43953344 GCGAGGCTGC
*
43953354 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
43953380 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
43953406 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43953675 original size:27 final size:27
Alignment explanation
Indices: 43953645--43953913 Score: 319
Period size: 27 Copynumber: 10.0 Consensus size: 27
43953635 CCGTAGGGGA
* * *
43953645 AAAATGGTAATTTTATAAATCGAAGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
43953672 AAAACGGTAATTC-AGTAAATCGAGGGT
1 AAAACGGTAATTCTA-TAAATCGAGGGT
** *
43953699 AAAACAATAATTCTGTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
*
43953726 AAAATGGTAATTCTATAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
** * *
43953753 AAAATAGTAATT-TGTAAATCAAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
* * * *
43953779 AAAATGATAATTTTGTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
43953806 AAAACGGTAATTCTATAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
*
43953833 AAAACGGTAA-TCTATAAATTGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
* *
43953859 AAAACAGTAATTCTGTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
* * *
43953886 AAAACAGTAATTTTTTAAATCGAGGGT
1 AAAACGGTAATTCTATAAATCGAGGGT
43953913 A
1 A
43953914 TTTCAGTAAT
Statistics
Matches: 212, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 47 0.22
27 165 0.78
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAACGGTAATTCTATAAATCGAGGGT
Found at i:43953804 original size:80 final size:79
Alignment explanation
Indices: 43953645--43953913 Score: 349
Period size: 80 Copynumber: 3.4 Consensus size: 79
43953635 CCGTAGGGGA
* * * *
43953645 AAAATGGTAATTTTATAAATCGAAGGTAAAACGGTAATTCAGTAAATCGAGGGTAAAACAATAAT
1 AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAA-AATAAT
43953710 TCTGTAAATCGAGGGT
64 TCTGTAAATCGAGGGT
* ** * *
43953726 AAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTGTAAATCAAGGGTAAAATGATAATT
1 AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTGTAAATCGAGGGTAAAA-AATAATT
*
43953791 TTGTAAATCGAGGGT
65 CTGTAAATCGAGGGT
* * * *
43953806 AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATCTATAAATTGAGGGTAAAACAGTAATT
1 AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTGTAAATCGAGGGTAAAA-AATAATT
43953871 CTGTAAATCGAGGGT
65 CTGTAAATCGAGGGT
* * *
43953886 AAAACAGTAATTTTTTAAATCGAGGGTA
1 AAAACGGTAATTCTATAAATCGAGGGTA
43953914 TTTCAGTAAT
Statistics
Matches: 165, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 130 0.79
81 35 0.21
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (79 bp):
AAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTGTAAATCGAGGGTAAAAAATAATTC
TGTAAATCGAGGGT
Found at i:43953925 original size:107 final size:107
Alignment explanation
Indices: 43953651--43953913 Score: 359
Period size: 107 Copynumber: 2.4 Consensus size: 107
43953641 GGGAAAAATG
* * * ** * *
43953651 GTAATTTTATAAATCGAAGGTAAAACGGTAATTCAGTAAATCGAGGGTAAAACAATAATTCTGTA
1 GTAA-TTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
* *
43953716 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
65 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
* * *
43953759 GTAATTTGTAAATCAAGGGTAAAA-TGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
43953823 AATCGAGGGTAAAACGGTAA-TCTATAAATTGAGGGTAAAACA
65 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
*
43953865 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTTTAAATCGAGGGTA
1 GTAATT-TGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
43953914 TTTCAGTAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
106 27 0.20
107 105 0.77
108 5 0.04
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (107 bp):
GTAATTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
Found at i:43957102 original size:22 final size:22
Alignment explanation
Indices: 43957077--43957120 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43957067 AAATATTAAC
*
43957077 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
43957099 ATAATAAATTTTTATTAATTTT
1 ATAATAAATTTTAAATAATTTT
43957121 GATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:43959589 original size:124 final size:124
Alignment explanation
Indices: 43959367--43959591 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
43959357 GAATTATGTG
* * * * * *
43959367 AAATGAAATATGGATGTGTAATGATTATCGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
43959432 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
* *
43959491 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
43959556 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
43959592 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATCGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:43959713 original size:40 final size:40
Alignment explanation
Indices: 43959586--43959715 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
43959576 TTGCTGGAAA
* * *
43959586 TTATATCCGGGTTAAGACCCGAAGGCATTCGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* * *
43959626 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43959666 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43959706 TTATATCCGG
1 TTATATCCGG
43959716 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43974959 original size:36 final size:36
Alignment explanation
Indices: 43974919--43974991 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
43974909 CATAAGACTT
43974919 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
1 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
43974955 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
1 TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
43974991 T
1 T
43974992 CTCTCGAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (36 bp):
TTATTAAATCTATGCATTTATTTTTTAGCTCTTTGA
Found at i:43979838 original size:40 final size:40
Alignment explanation
Indices: 43979801--43979986 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
43979791 GCTACTCGTT
* *
43979801 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
43979841 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
43979881 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * * *
43979921 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACATAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
*
43979962 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
43979987 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:43980638 original size:38 final size:38
Alignment explanation
Indices: 43980582--43980671 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
43980572 AGGCTACCTA
*
43980582 TGGCTGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
43980620 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
43980658 TGGCCGAACATACA
1 TGGCCGAACATACA
43980672 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:43987975 original size:40 final size:40
Alignment explanation
Indices: 43987930--43988097 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
43987920 CGGAATATAA
43987930 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
43987970 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43988010 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
43988050 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43988090 CCGGATAT
1 CCGGATAT
43988098 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43988080 original size:80 final size:80
Alignment explanation
Indices: 43987946--43988095 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
43987936 ATAACCACGT
* *
43987946 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
43988011 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
43988026 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
43988089 CCCGGAT
64 CCCGGAT
43988096 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:43993174 original size:58 final size:58
Alignment explanation
Indices: 43993024--43993175 Score: 156
Period size: 57 Copynumber: 2.6 Consensus size: 58
43993014 TATTGTACAA
* *
43993024 CAGGATTACCAGTCCA-AGCTAAATCCTTTATATAACGTATGCTCAGAGGAGGTCAATT
1 CAGGATTACCAGTCCAGA-CTAAATCCTTTCTATAACATATGCTCAGAGGAGGTCAATT
*
43993082 -AGGATTACCAGTCCAGGCTAAA-CCTTAATC-ATAACATATGCTCA-A-GAGGT-ATTATAT
1 CAGGATTACCAGTCCAGACTAAATCCTT--TCTATAACATATGCTCAGAGGAGGTCA--AT-T
* *
43993139 CAGGATTACCCGTTCAGACTAAATCCTTTCTATAACA
1 CAGGATTACCAGTCCAGACTAAATCCTTTCTATAACA
43993176 GGGTCAGTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
54 1 0.01
55 5 0.06
56 7 0.09
57 36 0.46
58 26 0.33
59 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGACTAAATCCTTTCTATAACATATGCTCAGAGGAGGTCAATT
Found at i:43998129 original size:14 final size:14
Alignment explanation
Indices: 43998110--43998137 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43998100 ATGTCATTAG
43998110 GGGTTATGTGATTT
1 GGGTTATGTGATTT
43998124 GGGTTATGTGATTT
1 GGGTTATGTGATTT
43998138 AGCTGAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (14 bp):
GGGTTATGTGATTT
Found at i:44006086 original size:19 final size:19
Alignment explanation
Indices: 44006050--44006088 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44006040 TTTCCATCAT
* *
44006050 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
44006069 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
44006088 A
1 A
44006089 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:44006597 original size:27 final size:27
Alignment explanation
Indices: 44006549--44006638 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
44006539 ATGTGACAGT
44006549 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
44006578 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
44006605 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
44006633 CACCAG
1 CACCAG
44006639 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:44006791 original size:28 final size:28
Alignment explanation
Indices: 44006744--44006807 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
44006734 AAATTAACCC
*
44006744 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
44006772 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
44006800 TAGGGGTA
1 TAGGGGTA
44006808 CTCTAGTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:44013928 original size:19 final size:19
Alignment explanation
Indices: 44013892--44013930 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44013882 TTTCCATCAT
* *
44013892 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
44013911 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
44013930 A
1 A
44013931 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:44014389 original size:27 final size:27
Alignment explanation
Indices: 44014341--44014430 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
44014331 ATGTGACAGT
44014341 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
44014370 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
44014397 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
44014425 CACCAG
1 CACCAG
44014431 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:44014582 original size:28 final size:28
Alignment explanation
Indices: 44014535--44014598 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
44014525 AAATTAACCC
*
44014535 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
44014563 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
44014591 TAGGGGTA
1 TAGGGGTA
44014599 CTCTAGTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:44027769 original size:25 final size:25
Alignment explanation
Indices: 44027711--44027803 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
44027701 CCCACATCTT
** *
44027711 GTGAGAGCATATTGATTTATCAGCTT
1 GTGAGAGCATACCGATTTAT-AGCTC
44027737 GTGAGAGCATACCGATTTATAGCTC
1 GTGAGAGCATACCGATTTATAGCTC
* * * *
44027762 GTGCGAGCATTCTGATTTACAGCTC
1 GTGAGAGCATACCGATTTATAGCTC
* *
44027787 GAGTGAGCATACCGATT
1 GTGAGAGCATACCGATT
44027804 CAAAGCTTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
25 38 0.68
26 18 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (25 bp):
GTGAGAGCATACCGATTTATAGCTC
Found at i:44030378 original size:19 final size:18
Alignment explanation
Indices: 44030354--44030471 Score: 110
Period size: 19 Copynumber: 6.2 Consensus size: 18
44030344 TGTACGAGTT
*
44030354 TATGCATTTCGTGTGCCAG
1 TATGCATTT-GTGTGCTAG
* *
44030373 TATGCATTTCATATGCTAG
1 TATGCATTT-GTGTGCTAG
*
44030392 GATGCACTTTGTGTGCTAG
1 TATGCA-TTTGTGTGCTAG
*
44030411 TATGCCCTTTGTGTGCTAG
1 TATG-CATTTGTGTGCTAG
*
44030430 TATGCACTTTGTGTGTTAG
1 TATGCA-TTTGTGTGCTAG
* *
44030449 GATGCACTTCGTGTGCTAG
1 TATGCA-TTTGTGTGCTAG
44030468 TATG
1 TATG
44030472 TGTACCACCC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
18 1 0.01
19 77 0.94
20 4 0.05
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (18 bp):
TATGCATTTGTGTGCTAG
Found at i:44030432 original size:57 final size:57
Alignment explanation
Indices: 44030364--44030471 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
44030354 TATGCATTTC
*
44030364 GTGTGCCAGTATGCA-TTTCATATGCTAGGATGCACTTTGTGTGCTAGTATGCCCTTT
1 GTGTGCCAGTATGCACTTT-ATATGCTAGGATGCACTTCGTGTGCTAGTATGCCCTTT
* * * *
44030421 GTGTGCTAGTATGCACTTTGTGTGTTAGGATGCACTTCGTGTGCTAGTATG
1 GTGTGCCAGTATGCACTTTATATGCTAGGATGCACTTCGTGTGCTAGTATG
44030472 TGTACCACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
57 42 0.93
58 3 0.07
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (57 bp):
GTGTGCCAGTATGCACTTTATATGCTAGGATGCACTTCGTGTGCTAGTATGCCCTTT
Found at i:44030468 original size:38 final size:38
Alignment explanation
Indices: 44030354--44030471 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
44030344 TGTACGAGTT
* * * * *
44030354 TATGCA-TTTCGTGTGCCAGTATGCATTTCATATGCTAG
1 TATGCACTTT-GTGTGCTAGGATGCACTTCGTGTGCTAG
* * * *
44030392 GATGCACTTTGTGTGCTAGTATGCCCTTTGTGTGCTAG
1 TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
*
44030430 TATGCACTTTGTGTGTTAGGATGCACTTCGTGTGCTAG
1 TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
44030468 TATG
1 TATG
44030472 TGTACCACCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 64 0.96
39 3 0.04
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (38 bp):
TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
Found at i:44030641 original size:25 final size:25
Alignment explanation
Indices: 44030603--44030652 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
44030593 TTGATATGTG
44030603 TGAAAATTTAGTGAGCTAATTTTAT
1 TGAAAATTTAGTGAGCTAATTTTAT
*
44030628 TGAAAATTTCGTGAGCTAATTTTAT
1 TGAAAATTTAGTGAGCTAATTTTAT
44030653 CTATTGCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (25 bp):
TGAAAATTTAGTGAGCTAATTTTAT
Found at i:44033005 original size:21 final size:21
Alignment explanation
Indices: 44032963--44033005 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44032953 TTTGATGATA
* *
44032963 GTATCTGGAAGCTTGATATTG
1 GTATATGGAAGCTTAATATTG
*
44032984 GTATATGGAAGCTTAATGTTG
1 GTATATGGAAGCTTAATATTG
44033005 G
1 G
44033006 GTTAACATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (21 bp):
GTATATGGAAGCTTAATATTG
Found at i:44036974 original size:40 final size:39
Alignment explanation
Indices: 44036921--44037095 Score: 174
Period size: 40 Copynumber: 4.4 Consensus size: 39
44036911 CTACATCAGT
* * *
44036921 ATCGCACACTTAGTGCCT-TATATAGCCAAAGCTATTCCAT
1 ATCGCACACTTAGTG-CTATATATAACCAAA-CTATTTCAA
* * *
44036961 TTCGCACACTTAGTGCTATTTATAACCGCAACTATTTCAA
1 ATCGCACACTTAGTGCTATATATAACC-AAACTATTTCAA
* * * *
44037001 ATCGCAAACTTAGTGCCT-CATATAGCCAAAGCTATTTCAT
1 ATCGCACACTTAGTG-CTATATATAACCAAA-CTATTTCAA
* *
44037041 TTCGCACACTTAGTGCTATTTATAACCAGAACTATTTCAA
1 ATCGCACACTTAGTGCTATATATAACCA-AACTATTTCAA
44037081 ATCGCACACTTAGTG
1 ATCGCACACTTAGTG
44037096 TTGTATACCT
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.06
40 97 0.89
41 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTATATATAACCAAACTATTTCAA
Found at i:44037013 original size:80 final size:80
Alignment explanation
Indices: 44036921--44037095 Score: 307
Period size: 80 Copynumber: 2.2 Consensus size: 80
44036911 CTACATCAGT
*
44036921 ATCGCACACTTAGTGCCTTATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
44036986 CC-GCAACTATTTCAA
66 CCAG-AACTATTTCAA
* *
44037001 ATCGCAAACTTAGTGCCTCATATAGCCAAAGCTATTTCATTTCGCACACTTAGTGCTATTTATAA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
44037066 CCAGAACTATTTCAA
66 CCAGAACTATTTCAA
44037081 ATCGCACACTTAGTG
1 ATCGCACACTTAGTG
44037096 TTGTATACCT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 89 0.99
81 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (80 bp):
ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
CCAGAACTATTTCAA
Found at i:44042062 original size:29 final size:28
Alignment explanation
Indices: 44042027--44042130 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
44042017 ATAATCGATT
*
44042027 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
* *
44042056 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
*
44042085 TCGCACACTTAGTGCCATTTATTTCAAGC
1 TCGCACACTTAGTGCCATTAATTT-AAGC
*
44042114 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
44042131 ATCTTGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 5 0.08
29 61 0.92
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATTAATTTAAGC
Found at i:44042578 original size:2 final size:2
Alignment explanation
Indices: 44042565--44042598 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
44042555 CATACTTATG
*
44042565 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44042599 CACTTCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:44050159 original size:29 final size:28
Alignment explanation
Indices: 44050124--44050227 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
44050114 ATAATCGATT
*
44050124 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
* *
44050153 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCAT-TAATTTAAGC
*
44050182 TCGCACACTTAGTGCCATTTATTTCAAGC
1 TCGCACACTTAGTGCCATTAATTT-AAGC
*
44050211 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
44050228 ATCTTGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 5 0.08
29 61 0.92
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATTAATTTAAGC
Found at i:44050675 original size:2 final size:2
Alignment explanation
Indices: 44050662--44050697 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
44050652 CATACTTATG
*
44050662 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44050698 CACTTCCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:44058007 original size:40 final size:40
Alignment explanation
Indices: 44057906--44058088 Score: 248
Period size: 40 Copynumber: 4.5 Consensus size: 40
44057896 TATTCGGATG
44057906 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
44057949 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
44057988 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
44058028 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
44058068 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44058089 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.02
39 21 0.16
40 73 0.57
41 2 0.02
42 28 0.22
43 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:44067031 original size:56 final size:56
Alignment explanation
Indices: 44066967--44067103 Score: 222
Period size: 56 Copynumber: 2.4 Consensus size: 56
44066957 GACCATGGCA
44066967 TCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-T
1 TCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
44067022 TCTGATATATGTGTGTGAATAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
1 TC-GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
44067079 TCGATTTATGTGTCTGAGTAAGACC
1 TCGATATATGTGTGTGAGTAAGACC
44067104 CTGTCTGGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 2 0.03
56 70 0.93
57 3 0.04
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (56 bp):
TCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:44067121 original size:56 final size:57
Alignment explanation
Indices: 44066969--44067134 Score: 185
Period size: 56 Copynumber: 2.9 Consensus size: 57
44066959 CCATGGCATC
* * * * *
44066969 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TTCT
1 GATATATGTGTCTGAATAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTTCT
* * *
44067025 GATATATGTGTGTGAATAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTC-
1 GATATATGTGTCTGAATAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTTCT
* * * **
44067081 GATTTATGTGTCTGAGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGTGATT
1 GATATATGTGTCTGAATAAGACCATGTCTAAGAC-GTTGGCATCGATATGTGATT
44067135 ACATGTAAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
56 94 0.96
57 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (57 bp):
GATATATGTGTCTGAATAAGACCATGTCTAAGACGTTGGCATCGATATGTGATTTCT
Found at i:44070260 original size:40 final size:40
Alignment explanation
Indices: 44070223--44070408 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
44070213 GCTACTCGTT
*
44070223 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44070263 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44070303 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
44070343 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
44070384 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44070409 CATCATTCGA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.89
41 11 0.09
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44072445 original size:27 final size:26
Alignment explanation
Indices: 44072408--44072522 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
44072398 GGCATGGCTG
*
44072408 CCAGAACAGATACTGTGACAGAGTCA
1 CCAGAACAGATACTGTGACAGAGCCA
* *
44072434 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATACTGTGACAGAGCCA
* * * *
44072461 CCAGAACAGATATTTTTGGCATAGCCA
1 CCAGAACAGATA-CTGTGACAGAGCCA
* * * *
44072488 CCAGAAATAGATATTTGTGCCATAGCCA
1 CCAG-AACAGATA-CTGTGACAGAGCCA
44072516 CCAGAAC
1 CCAGAAC
44072523 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.16
27 41 0.53
28 24 0.31
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATACTGTGACAGAGCCA
Found at i:44072511 original size:28 final size:28
Alignment explanation
Indices: 44072432--44072521 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
44072422 GTGACAGAGT
* *
44072432 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
44072459 CACCAG-AACAGATATTTTTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
* *
44072486 CACCAGAAATAGATATTTGTGCCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
44072514 CACCAGAA
1 CACCAGAA
44072522 CGCTTCCTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.13
27 22 0.40
28 26 0.47
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:44082041 original size:40 final size:40
Alignment explanation
Indices: 44081985--44082198 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
44081975 CATGAGCATT
* * * *
44081985 TGATTGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGATT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
44082026 TGATTATATCCGGGCTAAGACCAGAAGGCATTCGTGCGAG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
44082066 TTG-TTATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
44082106 TTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 -TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* ** * * * * **
44082146 TTACCAAATCCAGGTTAAGACCCGAAGGCAATTGTGCTTG
1 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
44082186 TGGTTATATCCGG
1 TGATTATATCCGG
44082199 ATAAATTCCG
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 137 0.94
41 7 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:44082133 original size:80 final size:80
Alignment explanation
Indices: 44081995--44082198 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
44081985 TGATTGATAC
* *
44081995 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCAGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCAGAAGGCATTC
* *** *
44082059 GTGCGAGTTGTTATAT
65 GTGCAAGTTACCAAAT
* * * *
44082075 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCAGAAGGCATTCG
44082140 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
* * * * *
44082155 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGG
44082199 ATAAATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 103 0.98
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCAGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:44091178 original size:40 final size:40
Alignment explanation
Indices: 44091133--44091300 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44091123 CGGAATATAA
*
44091133 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
44091173 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
44091213 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * * *
44091253 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
44091293 CCGGATAT
1 CCGGATAT
44091301 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:44094540 original size:14 final size:16
Alignment explanation
Indices: 44094514--44094546 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
44094504 TAAATCACGA
44094514 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
44094529 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
44094544 AAA
1 AAA
44094547 CACAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:44099841 original size:2 final size:2
Alignment explanation
Indices: 44099834--44099868 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44099824 ATTTATTCGG
*
44099834 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44099869 CTTAAGCACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44101604 original size:43 final size:43
Alignment explanation
Indices: 44101521--44101606 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
44101511 ACAAATCGTA
**
44101521 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATAT
44101564 CAATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATAT
44101607 TGGAATCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATAT
Found at i:44108765 original size:29 final size:29
Alignment explanation
Indices: 44108706--44108824 Score: 107
Period size: 29 Copynumber: 4.1 Consensus size: 29
44108696 GTGAGCATGA
* * * *
44108706 ATAT-AAGGTGATTTAGGCCTAATGAGTC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
* *
44108734 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
** *
44108763 ATATGAAA-AAGAATTGGGCCTGATGGGCC
1 ATAT-AAAGGTGAATTGGGCCTAATGGGCC
* * *
44108792 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGAATTGGGCCTAATGGGCC
44108821 ATAT
1 ATAT
44108825 GAATGAGATG
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
28 6 0.08
29 67 0.88
30 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGCCTAATGGGCC
Found at i:44108825 original size:29 final size:29
Alignment explanation
Indices: 44108733--44108829 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
44108723 CCTAATGAGT
* * * * *
44108733 CATATAAAGGTGATTTGGGCCTAATAGGC
1 CATATGAATGTGAATTGGGCCTGATGGGC
***
44108762 CATATGAAAAAGAATTGGGCCTGATGGGC
1 CATATGAATGTGAATTGGGCCTGATGGGC
44108791 CATATGAATGTGAATTGGGCCTGATGGGC
1 CATATGAATGTGAATTGGGCCTGATGGGC
44108820 CATATGAATG
1 CATATGAATG
44108830 AGATGGGCCA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (29 bp):
CATATGAATGTGAATTGGGCCTGATGGGC
Found at i:44108845 original size:27 final size:29
Alignment explanation
Indices: 44108759--44108852 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
44108749 GGGCCTAATA
** *
44108759 GGCCATATGAAAAAGAATTGGGCCTGATG
1 GGCCATATGAATGAGAATTGGGCCAGATG
* *
44108788 GGCCATATGAATGTGAATTGGGCCTGATG
1 GGCCATATGAATGAGAATTGGGCCAGATG
44108817 GGCCATATGAATGAG-A-TGGGCCA-AGTG
1 GGCCATATGAATGAGAATTGGGCCAGA-TG
44108844 GGCCATATG
1 GGCCATATG
44108853 CGTGTATGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 17 0.29
28 1 0.02
29 40 0.68
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (29 bp):
GGCCATATGAATGAGAATTGGGCCAGATG
Found at i:44111726 original size:16 final size:16
Alignment explanation
Indices: 44111705--44111736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44111695 GTTGTAATGC
44111705 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
44111721 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
44111737 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:44113248 original size:16 final size:16
Alignment explanation
Indices: 44113227--44113258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44113217 TAAATGTGAT
44113227 TTGGGCCTGATGGGCC
1 TTGGGCCTGATGGGCC
*
44113243 TTGGGCTTGATGGGCC
1 TTGGGCCTGATGGGCC
44113259 ATATGAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.22, G:0.44, T:0.28
Consensus pattern (16 bp):
TTGGGCCTGATGGGCC
Found at i:44115725 original size:40 final size:39
Alignment explanation
Indices: 44115560--44115743 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44115550 AAATTGAATG
* * *
44115560 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44115600 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44115640 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44115680 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44115719 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44115744 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44115768 original size:80 final size:81
Alignment explanation
Indices: 44115600--44115788 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44115590 GCTGGAAATT
* * * *
44115600 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44115665 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44115681 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44115744 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44115760 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44115789 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44123843 original size:40 final size:39
Alignment explanation
Indices: 44123678--44123861 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44123668 AAATTGAATG
* * *
44123678 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44123718 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44123758 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44123798 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44123837 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44123862 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44123886 original size:80 final size:81
Alignment explanation
Indices: 44123718--44123906 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44123708 GCTGGAAATT
* * * *
44123718 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44123783 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44123799 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44123862 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44123878 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44123907 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44143510 original size:16 final size:16
Alignment explanation
Indices: 44143491--44143523 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44143481 TTGTAACGCC
44143491 CCAAAAATCCTAAAAT
1 CCAAAAATCCTAAAAT
*
44143507 CCAAAAATCCTGAAAT
1 CCAAAAATCCTAAAAT
44143523 C
1 C
44143524 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (16 bp):
CCAAAAATCCTAAAAT
Found at i:44145058 original size:29 final size:29
Alignment explanation
Indices: 44144992--44145068 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
44144982 TGAATGTGAC
* *
44144992 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * *
44145021 TGTGTCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
44145050 TGGGCCTAATAGACCATAT
1 TGGGCCTAATGGGCCATAT
44145069 GAATATGAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:44149578 original size:49 final size:49
Alignment explanation
Indices: 44149506--44149737 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
44149496 CTGGCACGCA
* * *
44149506 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
44149555 TAGTAGCCTGCACTTAGTACTACACAAGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * ** * *
44149605 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
44149656 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
44149705 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
44149738 TCACAATAGA
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:44164897 original size:38 final size:38
Alignment explanation
Indices: 44164846--44165135 Score: 184
Period size: 38 Copynumber: 6.9 Consensus size: 38
44164836 TGAAAAAACA
44164846 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
44164884 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAACG
* * * *
44164932 TGGTGCTAAGTGGATATGCCATGATTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------TAACG
* * * * *
44164979 TGGTGCTAAATGGATATACCACAGTTAAACATGCAATG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * *
44165017 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCACTAATG
1 TGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------TAACG
* *
44165064 TGGTGCTAAGTGGATATACCACAGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
44165102 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTATACATGT
44165136 TAATTTGAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 54
0.71 0.10 0.19
Matches are distributed among these distances:
38 84 0.43
39 3 0.02
40 7 0.04
41 4 0.02
44 4 0.02
45 6 0.03
47 56 0.28
48 33 0.17
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
Found at i:44164943 original size:48 final size:48
Alignment explanation
Indices: 44164872--44165085 Score: 227
Period size: 48 Copynumber: 4.7 Consensus size: 48
44164862 TACCACGGTT
*
44164872 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* *
44164920 ATACATGTAACGTGGTGCTAAGTGGATATGCCATGATTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* * *
44164968 ATTCAT-TAACGTGGTGCTAAATGGATATACCAC----A-GT-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* * * *
44165006 A-ACATGCAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
* * *
44165053 ATTCA-CTAATGTGGTGCTAAGTGGATATACCAC
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAC
44165086 AGTTAAACAT
Statistics
Matches: 137, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
37 3 0.02
38 24 0.18
41 2 0.01
42 2 0.01
43 2 0.01
44 2 0.01
47 50 0.36
48 52 0.38
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTG
Found at i:44165125 original size:85 final size:85
Alignment explanation
Indices: 44164922--44165128 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
44164912 ACATATTGAT
* * *
44164922 ACATGTAACGTGGTGCTAAGTGGATATGCCATGATTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCACTAACGTGGTGCTA
44164987 AATGGATATACCACAGTTAA
66 AATGGATATACCACAGTTAA
* * *
44165007 ACATGCAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCACTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCACTAACGTGGTGCTA
*
44165072 AGTGGATATACCACAGTTAA
66 AATGGATATACCACAGTTAA
44165092 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
44165129 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCACTAACGTGGTGCTA
AATGGATATACCACAGTTAA
Found at i:44171177 original size:38 final size:40
Alignment explanation
Indices: 44171126--44171325 Score: 156
Period size: 38 Copynumber: 4.7 Consensus size: 40
44171116 TGAAAAAACA
*
44171126 TGGTGCTAAGTGGATATACCACGGTTATA-TG-TGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATATTGATGTAACG
* *
44171164 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTT----ATATTG----ATGTAACG
* *
44171212 TGGTGCTAAGTGGATATGCCACGGTTAAATATATTGATTCATTAACA
1 TGGTGCTAAGTGGATATGCCACGG-T---TATATTGA-T--GTAACG
* **
44171259 TGGTGCTAAGTGGATATGCCACTGTTA-A-ACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTATATTGATGTAACG
*
44171297 TGGTGCTAAGTGGATATGCCATGGTTATA
1 TGGTGCTAAGTGGATATGCCACGGTTATA
44171326 CATGTTAATT
Statistics
Matches: 132, Mismatches: 12, Indels: 35
0.74 0.07 0.20
Matches are distributed among these distances:
38 54 0.41
39 1 0.01
40 1 0.01
41 1 0.01
42 4 0.03
43 4 0.03
44 1 0.01
45 1 0.01
46 1 0.01
47 27 0.20
48 35 0.27
49 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (40 bp):
TGGTGCTAAGTGGATATGCCACGGTTATATTGATGTAACG
Found at i:44171276 original size:47 final size:48
Alignment explanation
Indices: 44171157--44171290 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
44171147 CGGTTATATG
* * *
44171157 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATATTGATACA
* *
44171205 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATATTGATACA
* *
44171253 T-TAACATGGTGCTAAGTGGATATGCCACTGTTAAACAT
1 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACAT
44171291 GTAACGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 34 0.44
48 44 0.56
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATATTGATACA
Found at i:44174178 original size:15 final size:15
Alignment explanation
Indices: 44174158--44174200 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
44174148 AGTCCAGGAC
*
44174158 AAAGAAATCTAAGAT
1 AAAGAAATCAAAGAT
44174173 AAAGAAATCAAAGAT
1 AAAGAAATCAAAGAT
*
44174188 ATAGAAATTCAAA
1 AAAGAAA-TCAAA
44174201 ATACAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.19
Consensus pattern (15 bp):
AAAGAAATCAAAGAT
Found at i:44176865 original size:37 final size:37
Alignment explanation
Indices: 44176815--44176890 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
44176805 CCTAAATACC
44176815 TAAGGGGAATGAAACCTAAGACGAATCTTGTTATTAT
1 TAAGGGGAATGAAACCTAAGACGAATCTTGTTATTAT
44176852 TAAGGGGAATGAAACCTAAGACGAATCTTGTTATTAT
1 TAAGGGGAATGAAACCTAAGACGAATCTTGTTATTAT
44176889 TA
1 TA
44176891 TCTGAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (37 bp):
TAAGGGGAATGAAACCTAAGACGAATCTTGTTATTAT
Found at i:44180212 original size:21 final size:22
Alignment explanation
Indices: 44180188--44180241 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
44180178 AACACACAAC
*
44180188 AAACATTC-ATATTCCTCCCTT
1 AAACATTCAAAATTCCTCCCTT
*
44180209 AAACA-TCAAAATTCCTCCTTT
1 AAACATTCAAAATTCCTCCCTT
44180230 AAACA-TCAAAAT
1 AAACATTCAAAAT
44180242 ACACACATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (22 bp):
AAACATTCAAAATTCCTCCCTT
Found at i:44181282 original size:48 final size:48
Alignment explanation
Indices: 44181207--44181302 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
44181197 ATGTGAAATG
*
44181207 AATGTTTAATTGTTTTATAAGTCTGATAATGCTTCGTAACCCTATTCT
1 AATGTTTAATTGTTTTATAAGTCTGATAATGCTTCATAACCCTATTCT
* *
44181255 AATGTTTAATTTTTTTATAAGTTTGATAATGCTTCATAACCCTATTCT
1 AATGTTTAATTGTTTTATAAGTCTGATAATGCTTCATAACCCTATTCT
44181303 GGCATTGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (48 bp):
AATGTTTAATTGTTTTATAAGTCTGATAATGCTTCATAACCCTATTCT
Found at i:44183448 original size:33 final size:33
Alignment explanation
Indices: 44183401--44183487 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
44183391 ATCTGCGCCA
* * *
44183401 TAGCCTTATTCAGTAACAGAGCAGTTTGGGCTT
1 TAGCCCTATACAGTAACAGAGCAGTCTGGGCTT
44183434 TAGCCCTATACAGTAACAGAGCAGTCTGGGCTT
1 TAGCCCTATACAGTAACAGAGCAGTCTGGGCTT
* *
44183467 TAGCCCTATACAATAGCAGAG
1 TAGCCCTATACAGTAACAGAG
44183488 TGGGCCCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (33 bp):
TAGCCCTATACAGTAACAGAGCAGTCTGGGCTT
Found at i:44183655 original size:26 final size:26
Alignment explanation
Indices: 44183626--44183696 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
44183616 ATAACGCAGT
44183626 GAAGCTACTATAACAGAAAACGTGGC
1 GAAGCTACTATAACAGAAAACGTGGC
* * *
44183652 GAAGCCACTAGAATCAGAATACGTGGC
1 GAAGCTACTATAA-CAGAAAACGTGGC
* *
44183679 AAAACTACTAGT-ACAGAA
1 GAAGCTACTA-TAACAGAA
44183697 CTTCCTCTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (26 bp):
GAAGCTACTATAACAGAAAACGTGGC
Found at i:44183925 original size:26 final size:27
Alignment explanation
Indices: 44183831--44183922 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
44183821 GGGCATAATC
* *
44183831 GTCATTTTACCATACAAGGGTATTACA
1 GTCATTTTACCCTACAAGGGCATTACA
* *
44183858 GTCATTTTACCCTACAAGGGCGTTACG
1 GTCATTTTACCCTACAAGGGCATTACA
* *
44183885 GTCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGCATTACA
*
44183912 GTAATTTTACC
1 GTCATTTTACC
44183923 TATTTTAGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACA
Found at i:44191209 original size:27 final size:27
Alignment explanation
Indices: 44191151--44191241 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
44191141 GGGCAGAATC
* * *
44191151 GTCATTTTACCATATA-GGGTATTACG
1 GTCATTTTACCCTACAGGGGAATTACG
*
44191177 GCCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGAATTACG
* * *
44191204 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGAATTACG
44191231 GTCATTTTACC
1 GTCATTTTACC
44191242 TATTTTGGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
26 13 0.24
27 42 0.76
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGAATTACG
Found at i:44194434 original size:31 final size:31
Alignment explanation
Indices: 44194396--44194459 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
44194386 CCTTTTCATA
44194396 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
44194427 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
44194458 TT
1 TT
44194460 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:44194717 original size:23 final size:24
Alignment explanation
Indices: 44194653--44194769 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
44194643 GCTTTATCAT
*
44194653 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
44194678 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44194702 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44194724 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44194747 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44194770 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.12
23 45 0.53
24 18 0.21
25 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44194844 original size:20 final size:20
Alignment explanation
Indices: 44194819--44194885 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
44194809 TTATGATTAC
44194819 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44194839 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
*
44194859 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44194879 ACCATGT
1 ATCATGT
44194886 CTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44194954 original size:25 final size:25
Alignment explanation
Indices: 44194922--44194969 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44194912 ATACATAAAC
* *
44194922 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
44194947 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
44194970 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:44199097 original size:40 final size:39
Alignment explanation
Indices: 44198932--44199115 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44198922 AAATTGAATG
* * *
44198932 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44198972 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44199012 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44199052 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44199091 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44199116 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44199140 original size:80 final size:81
Alignment explanation
Indices: 44198972--44199160 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44198962 GCTGGAAATT
* * * *
44198972 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44199037 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44199053 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44199116 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44199132 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44199161 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44205690 original size:40 final size:40
Alignment explanation
Indices: 44205645--44205812 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
44205635 CGGAATATAA
44205645 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
44205685 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44205725 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
44205765 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
44205805 CCGGATAT
1 CCGGATAT
44205813 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44205795 original size:80 final size:80
Alignment explanation
Indices: 44205661--44205810 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
44205651 ATAACCACGT
* *
44205661 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
44205726 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
44205741 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
44205804 CCCGGAT
64 CCCGGAT
44205811 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:44209085 original size:31 final size:31
Alignment explanation
Indices: 44209047--44209110 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
44209037 CCTTTTCATA
*
44209047 TTTCATATCTCATAACATTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
* ** *
44209078 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
44209109 TT
1 TT
44209111 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCT
Found at i:44209368 original size:23 final size:24
Alignment explanation
Indices: 44209323--44209419 Score: 139
Period size: 23 Copynumber: 4.2 Consensus size: 24
44209313 GGCCTATCCT
* *
44209323 CTTTTAATAACTGAGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44209347 CTTTTAATAACT-GGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
44209370 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
44209393 C-TTTACTAACTGGGGCAT-AGCC
1 CTTTTAATAACTGGGGCATAAGCC
44209415 CTTTT
1 CTTTT
44209420 TCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.22
23 41 0.60
24 12 0.18
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:44209494 original size:20 final size:20
Alignment explanation
Indices: 44209469--44209535 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
44209459 TTATGATTAC
44209469 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44209489 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44209509 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44209529 ACCATGT
1 ATCATGT
44209536 TATCAAAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44209500 original size:11 final size:11
Alignment explanation
Indices: 44209469--44209524 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44209459 TTATGATTAC
44209469 ATCATGTGCAT
1 ATCATGTGCAT
*
44209480 ATCA--TACAT
1 ATCATGTGCAT
44209489 ATCATGTGCAT
1 ATCATGTGCAT
*
44209500 ATCA--TACAT
1 ATCATGTGCAT
*
44209509 GTCATGTGCAT
1 ATCATGTGCAT
44209520 ATCAT
1 ATCAT
44209525 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:44210711 original size:12 final size:13
Alignment explanation
Indices: 44210683--44210719 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
44210673 GCTGGTTTGA
44210683 AAGAAAGAGAAGG
1 AAGAAAGAGAAGG
*
44210696 AAGAAA-AGATGG
1 AAGAAAGAGAAGG
44210708 AAG-AAGAGAAGG
1 AAGAAAGAGAAGG
44210720 TAGGTTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 2 0.10
12 13 0.62
13 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (13 bp):
AAGAAAGAGAAGG
Found at i:44215566 original size:26 final size:26
Alignment explanation
Indices: 44215537--44215615 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
44215527 CAGACCTGCC
*
44215537 GAACTTAACAGATTAACCAACCTAG-A
1 GAACCTAACA-ATTAACCAACCTAGCA
*
44215563 GAACCTAACAAGTTAATCAACCTAGCA
1 GAACCTAACAA-TTAACCAACCTAGCA
*
44215590 -AACCTAGCAAATTAACCAATCCTAGC
1 GAACCTAAC-AATTAACCAA-CCTAGC
44215616 TCTAATACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
26 35 0.78
27 9 0.20
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (26 bp):
GAACCTAACAATTAACCAACCTAGCA
Found at i:44218341 original size:29 final size:29
Alignment explanation
Indices: 44218302--44218381 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
44218292 CTTAATAATC
*
44218302 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44218332 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44218361 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
44218382 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44219951 original size:11 final size:11
Alignment explanation
Indices: 44219935--44219959 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44219925 ATATAAGACA
44219935 ATTACACTTAC
1 ATTACACTTAC
44219946 ATTACACTTAC
1 ATTACACTTAC
44219957 ATT
1 ATT
44219960 TTAAGCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTACACTTAC
Found at i:44222877 original size:49 final size:49
Alignment explanation
Indices: 44222795--44222954 Score: 243
Period size: 49 Copynumber: 3.3 Consensus size: 49
44222785 CTCTTCGGGA
* * * *
44222795 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATAGGCCATTAGGC
* * *
44222842 CCTATCACATATATACACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATAGGCCATTAGGC
44222891 CTTATCACATATATACACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATAGGCCATTAGGC
44222940 CTTATCACATATATA
1 CTTATCACATATATA
44222955 TATCTCATAC
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 9 0.09
48 1 0.01
49 92 0.90
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATAGGCCATTAGGC
Found at i:44231979 original size:93 final size:93
Alignment explanation
Indices: 44231867--44232037 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
44231857 CGCCCATAAG
* *
44231867 TGAACTCGGACTCAACTCAACGAGCTCA-AGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGAACTCAACTCAACGAGCTCAGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
44231931 AATGAGCTCGGATGGCTAGTTACATCTCT
65 AACGAGCTCGGATGGCTAGTTACATCTCT
* * *
44231960 TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
44232025 ACGAGTTCGGATG
66 ACGAGCTCGGATG
44232038 CTCAACCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGGCTAGTTACATCTCT
Found at i:44232030 original size:46 final size:47
Alignment explanation
Indices: 44231860--44232035 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 47
44231850 TGTAACCCGC
* *
44231860 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-AAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
* *
44231906 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGGCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--GC-A-TTCGCAT
* *
44231956 CTC-T---TGAACTCGAACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
* *
44231999 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44232036 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 61 0.56
47 28 0.26
49 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
Found at i:44234984 original size:39 final size:40
Alignment explanation
Indices: 44234812--44234988 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
44234802 ACCAAGGCCA
* * * * * *
44234812 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
44234851 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
44234891 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
44234931 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
44234970 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
44234989 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:44242895 original size:40 final size:40
Alignment explanation
Indices: 44242836--44243004 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44242826 CGGGACTTTA
* * *
44242836 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44242876 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44242916 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44242956 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44242996 CCCGGATAT
1 CCCGGATAT
44243005 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44247722 original size:49 final size:49
Alignment explanation
Indices: 44247550--44247865 Score: 514
Period size: 49 Copynumber: 6.5 Consensus size: 49
44247540 CGGGACTTAT
* * * * * *
44247550 CATATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44247599 CATA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44247646 CATA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
44247693 CATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44247742 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* * *
44247791 CATATATACACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44247840 CATATGTATACACTTTCACATTCATC
1 CATATGTATACACTTTCACATTCATC
44247866 GCGTAGAATC
Statistics
Matches: 252, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 89 0.35
49 163 0.65
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:44258655 original size:19 final size:19
Alignment explanation
Indices: 44258619--44258657 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44258609 TTTTCACCAT
* *
44258619 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
44258638 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
44258657 A
1 A
44258658 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:44260699 original size:34 final size:34
Alignment explanation
Indices: 44260635--44260706 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
44260625 GAAACACACT
* *
44260635 CTCAAGCATACTGACTGAGTCTTACAAATTTTTG
1 CTCAAGCATACTGACTGAGTCTCACAAATTTTCG
**
44260669 CTCAAGCATACTGACTGAGTCTCATGAATTTTCG
1 CTCAAGCATACTGACTGAGTCTCACAAATTTTCG
44260703 CTCA
1 CTCA
44260707 TACACTGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (34 bp):
CTCAAGCATACTGACTGAGTCTCACAAATTTTCG
Found at i:44262594 original size:6 final size:6
Alignment explanation
Indices: 44262583--44262631 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
44262573 TAATTTTCTG
* *
44262583 CTTCCC CTTCCC CTTTCC CTTCCC CTTCCC CTTCCC CCTCCC CTTCCC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC
44262631 C
1 C
44262632 CATCCTTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTTCCC
Found at i:44268043 original size:14 final size:14
Alignment explanation
Indices: 44268024--44268061 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44268014 CCAGAAAAGT
44268024 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
44268038 AAATCATTTTCTAG
1 AAATCATTTTCCAG
*
44268052 AAAACATTTT
1 AAATCATTTT
44268062 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:44270455 original size:42 final size:42
Alignment explanation
Indices: 44270347--44270511 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 42
44270337 AGCTCGTACA
** * * * *
44270347 ATGCCAACGTCCCAGACGTGGTTTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
44270390 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCAAATACG
* * * *
44270432 ATGCCAATATCCCAAACATGGTCTTAAACGTATATCTCAAAT-TG
1 ATGCCAATATCCCAGACATGGTCTTACACG-A-A-ATCAAATACG
** * *
44270476 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCA
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCA
44270512 CATGTCAGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 34 0.35
44 26 0.27
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:44272671 original size:23 final size:23
Alignment explanation
Indices: 44272645--44272688 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44272635 TAAAAAAATA
44272645 ATTAAATGTTAAATTT-CATGTCT
1 ATTAAATG-TAAATTTACATGTCT
*
44272668 ATTATATGTAAATTTACATGT
1 ATTAAATGTAAATTTACATGT
44272689 GTGAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
ATTAAATGTAAATTTACATGTCT
Found at i:44274202 original size:48 final size:48
Alignment explanation
Indices: 44274138--44274285 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
44274128 TTGATGTACA
* *
44274138 AGATATATATATGTGGTAAAGTCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
44274186 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
44274234 AGCCATGCATATGTGGCAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
44274282 AGAT
1 AGAT
44274286 GTGTATATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:44276272 original size:40 final size:40
Alignment explanation
Indices: 44276217--44276333 Score: 182
Period size: 40 Copynumber: 3.0 Consensus size: 40
44276207 AAGTTTAGTA
44276217 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
44276257 TGTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * * *
44276297 TGATGTATCTGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
44276334 TTGACAAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 11 0.15
40 60 0.85
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:44277283 original size:23 final size:23
Alignment explanation
Indices: 44277252--44277295 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44277242 CGCAAAAATA
* *
44277252 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
44277275 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
44277296 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:44280803 original size:31 final size:31
Alignment explanation
Indices: 44280765--44280840 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
44280755 AACGGTTACC
44280765 GGGCCGAAGCCTTTTCATAAATCATATCACT
1 GGGCCGAAGCCTTTTCATAAATCATATCACT
*
44280796 GGGCCGAAGCCTTTTCATAAATCATTTCACT
1 GGGCCGAAGCCTTTTCATAAATCATATCACT
44280827 GGGCCGAAGCCTTT
1 GGGCCGAAGCCTTT
44280841 ACTGTAAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (31 bp):
GGGCCGAAGCCTTTTCATAAATCATATCACT
Found at i:44280911 original size:42 final size:42
Alignment explanation
Indices: 44280864--44280955 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
44280854 TGGCCCTTAG
* ** *
44280864 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
44280906 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44280948 GCCCATTT
1 GCCCATTT
44280956 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44281172 original size:26 final size:26
Alignment explanation
Indices: 44281088--44281223 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
44281078 CTGGAGGCCT
44281088 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
44281112 AGCACTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
44281137 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
44281163 AGCCCTTTTCGGTAAAATGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
44281189 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44281215 AGCCCTTTT
1 AGCCCTTTT
44281224 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.34
26 55 0.56
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:44281298 original size:20 final size:20
Alignment explanation
Indices: 44281273--44281359 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
44281263 TTATGAATAC
44281273 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
44281293 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44281313 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44281333 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44281353 ATCATGT
1 ATCATGT
44281360 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44282196 original size:27 final size:27
Alignment explanation
Indices: 44282163--44282529 Score: 126
Period size: 27 Copynumber: 13.6 Consensus size: 27
44282153 TTGGTAAATC
44282163 TACAAATCAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
44282190 TGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
**
44282217 TACAAATTGAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* *
44282244 CACAAA-CCAGTGGTATTT-TGGTAATTT
1 TACAAATCAAG-GGTATTTCT-GTAATTT
* * *
44282271 TACAAA-CTAGGGGTGTTT-TGGTAATTA
1 TACAAATC-AAGGGTATTTCT-GTAATTT
** * *
44282298 TACCCTAT-AGGGGTATTTCAGTAATTT
1 TA-CAAATCAAGGGTATTTCTGTAATTT
* * *** *
44282325 CAC-AATCGAGGGTAAAACGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *** * *
44282351 TATAAATCAAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCTGTAATTT
** * *** ** *
44282378 TGTAAATCGAGGGTAAAACAATAATTC
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
44282405 TATAAATCGAGGGTACTTT-GGTAATTTT
1 TACAAATCAAGGGTA-TTTCTGTAA-TTT
* * *
44282433 TACAAGTCGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
*
44282460 TACAAATCAGGGGGTATTT-TAGTAATTT
1 TACAAATCA-AGGGTATTTCT-GTAATTT
* *
44282488 TACAAACCAAGAGTATTT-TAGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
** *
44282515 TGTAAATCGAGGGTA
1 TACAAATCAAGGGTA
44282530 AAACGGTAAT
Statistics
Matches: 264, Mismatches: 59, Indels: 34
0.74 0.17 0.10
Matches are distributed among these distances:
25 2 0.01
26 19 0.07
27 197 0.75
28 46 0.17
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:44282210 original size:54 final size:54
Alignment explanation
Indices: 44282151--44282276 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
44282141 TACAATGGTG
* * *** *
44282151 TTTTGGTAAATCTACAAATCAAGGGTATTTCTG-TAATTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTC-GATAATTTCACAAACCAGGGGTA
** *
44282205 TTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCACAAACCAGGGGTA
44282259 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
44282277 CTAGGGGTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTCACAAACCAGGGGTA
Found at i:44282430 original size:54 final size:54
Alignment explanation
Indices: 44282316--44282419 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
44282306 AGGGGTATTT
* ** *
44282316 CAGTAATTT-CACAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAA
1 CAGTAATTTGTACAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAA
*
44282369 CAGTAATTCTGTA-AATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTA
1 CAGTAATT-TGTACAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTA
44282420 CTTTGGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 8 0.18
54 35 0.80
55 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (54 bp):
CAGTAATTTGTACAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAA
Found at i:44282467 original size:55 final size:54
Alignment explanation
Indices: 44282399--44282529 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 54
44282389 GGTAAAACAA
* * ** * *
44282399 TAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAAGAGTATTTCAG
* * * *
44282454 TAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAAGAGTATTTTAG
1 TAATTTTATAAATC-GAGGGTACTTTAGTAATTTTACAAACCAAGAGTATTTCAG
*
44282509 TAATTTTGTAAATCGAGGGTA
1 TAATTTTATAAATCGAGGGTA
44282530 AAACGGTAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
54 6 0.10
55 43 0.69
56 13 0.21
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
TAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACCAAGAGTATTTCAG
Found at i:44282618 original size:27 final size:27
Alignment explanation
Indices: 44282328--44282622 Score: 155
Period size: 27 Copynumber: 10.9 Consensus size: 27
44282318 GTAATTTCAC
***
44282328 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAATTTGGTAATTTTATA
* **** * *
44282355 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAATTTGGTAATTTTATA
***** *
44282382 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAATTTGGTAATTTTATA
*
44282409 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAATTTGGTAATTTTATA
* *
44282435 CAAGTCGAGGGT-ATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAATTT-GGTAATTTTATA
* * * *
44282464 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAATTTGGTAATTTTATA
* * * * * *
44282492 AACCAAGAGTATTTTAGTAATTTTGTA
1 AATCGAGGGTAATTTGGTAATTTTATA
*** *
44282519 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAATTTGGTAATTTTATA
** *
44282546 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAATTTGGTAATTTTATA
** *
44282573 AATCGAGGGTAGA-ACGGTAATTTTGTA
1 AATCGAGGGTA-ATTTGGTAATTTTATA
* *
44282600 AATCGGGGGTACTTTGGTAATTT
1 AATCGAGGGTAATTTGGTAATTT
44282623 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 43, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 172 0.79
28 39 0.18
29 4 0.02
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAATTTGGTAATTTTATA
Found at i:44287524 original size:24 final size:24
Alignment explanation
Indices: 44287492--44287538 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
44287482 CCGTTTTCTC
44287492 TATGTGAAACTAGACACATTGAGA
1 TATGTGAAACTAGACACATTGAGA
44287516 TATGTGAAACTAGACACATTGAG
1 TATGTGAAACTAGACACATTGAG
44287539 CTTTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (24 bp):
TATGTGAAACTAGACACATTGAGA
Found at i:44290436 original size:29 final size:29
Alignment explanation
Indices: 44290397--44290476 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
44290387 CTTAATAATC
*
44290397 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
44290427 AACTCGCACACTTAGTGCTATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44290456 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
44290477 TCTCTCAACC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.