Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 91 of 103
Found at i:33419826 original size:22 final size:22
Alignment explanation
Indices: 33419792--33419835 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
33419782 GTCATTTCTA
* *
33419792 GTTTATGTAATTTTGAAGTCAT
1 GTTTAAGTAATTTCGAAGTCAT
* *
33419814 GTTTAAGTTATTTCGAATTCAT
1 GTTTAAGTAATTTCGAAGTCAT
33419836 ATAGTTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (22 bp):
GTTTAAGTAATTTCGAAGTCAT
Found at i:33420022 original size:2 final size:2
Alignment explanation
Indices: 33420015--33420047 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
33420005 ATTGTACAAC
*
33420015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33420048 AACACAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33421344 original size:2 final size:2
Alignment explanation
Indices: 33421337--33421386 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
33421327 GTTGTGAAAC
33421337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33421379 AT AT AT AT
1 AT AT AT AT
33421387 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33422083 original size:2 final size:2
Alignment explanation
Indices: 33422076--33422125 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
33422066 TTTTAAGGAA
* *
33422076 AT AT AT AT AT AT AT -T AT TT AT GT AT AT AT AT AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
33422118 AT AT AT AT
1 AT AT AT AT
33422126 TGGTGAGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
AT
Found at i:33422103 original size:19 final size:19
Alignment explanation
Indices: 33422076--33422125 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
33422066 TTTTAAGGAA
* *
33422076 ATATATATATATATTATTT
1 ATATATATATATAGTATAT
*
33422095 ATGTATATATATAGTATAT
1 ATATATATATATAGTATAT
33422114 ATATATATATAT
1 ATATATATATAT
33422126 TGGTGAGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
ATATATATATATAGTATAT
Found at i:33429009 original size:3 final size:3
Alignment explanation
Indices: 33429001--33429031 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33428991 CCTGGATTGT
*
33429001 CGC CGC CGC CGC CGC CGC CGC CAC CGC CGC C
1 CGC CGC CGC CGC CGC CGC CGC CGC CGC CGC C
33429032 AGTTGGTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.68, G:0.29, T:0.00
Consensus pattern (3 bp):
CGC
Found at i:33432409 original size:2 final size:2
Alignment explanation
Indices: 33432404--33432428 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33432394 CTTCCCCCTC
33432404 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
33432429 CCCATTCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:33436398 original size:12 final size:12
Alignment explanation
Indices: 33436381--33436405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33436371 AATTATATAA
33436381 TTTTTATTAATT
1 TTTTTATTAATT
33436393 TTTTTATTAATT
1 TTTTTATTAATT
33436405 T
1 T
33436406 AAAAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATTAATT
Found at i:33436761 original size:11 final size:9
Alignment explanation
Indices: 33436736--33436760 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33436726 AAATGAAAGG
33436736 AATATATCC
1 AATATATCC
33436745 AATATATCC
1 AATATATCC
33436754 AATATAT
1 AATATAT
33436761 AATAGAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
AATATATCC
Found at i:33448989 original size:56 final size:56
Alignment explanation
Indices: 33448917--33449029 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
33448907 AATATAGTAT
* *
33448917 TTAAGTTGAAGTATAGATGAACTTGGTGGCAACACTTGATTGGAGGACATGTTGGG
1 TTAAGTTAAAGCATAGATGAACTTGGTGGCAACACTTGATTGGAGGACATGTTGGG
33448973 TTAAGTTAAAGCATAGATGAACTTGGTGGCAACACTTGATTGGAGGACATGTTGGG
1 TTAAGTTAAAGCATAGATGAACTTGGTGGCAACACTTGATTGGAGGACATGTTGGG
33449029 T
1 T
33449030 CTTTTGGTCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (56 bp):
TTAAGTTAAAGCATAGATGAACTTGGTGGCAACACTTGATTGGAGGACATGTTGGG
Found at i:33472774 original size:36 final size:36
Alignment explanation
Indices: 33472719--33472813 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
33472709 AATGGTTTTG
33472719 AAGAGGAAGAAGATGGATTTGAAATATATGTATTTC
1 AAGAGGAAGAAGATGGATTTGAAATATATGTATTTC
* * * *
33472755 AAGGGGAGGAAGCTGGATTTGAAATATATGTATTTG
1 AAGAGGAAGAAGATGGATTTGAAATATATGTATTTC
*
33472791 AAGAGGAAGAAGATGAATTTGAA
1 AAGAGGAAGAAGATGGATTTGAA
33472814 GAGGACGAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.27
Consensus pattern (36 bp):
AAGAGGAAGAAGATGGATTTGAAATATATGTATTTC
Found at i:33472854 original size:30 final size:30
Alignment explanation
Indices: 33472820--33472878 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
33472810 TGAAGAGGAC
* *
33472820 GAAGAGGAAGAATGAGCTAGTTTCAAGAAA
1 GAAGACGAAGAATGAGCTAGATTCAAGAAA
33472850 GAAGACGAAGAATGAGCTAGATTCAAGAA
1 GAAGACGAAGAATGAGCTAGATTCAAGAA
33472879 TCCAGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.29, T:0.15
Consensus pattern (30 bp):
GAAGACGAAGAATGAGCTAGATTCAAGAAA
Found at i:33474492 original size:23 final size:23
Alignment explanation
Indices: 33474462--33474514 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
33474452 TAATTACGTT
33474462 AATATTTGGTGGCTTGTGCATCA
1 AATATTTGGTGGCTTGTGCATCA
33474485 AATATTTGGTGGCTTGTGCATCA
1 AATATTTGGTGGCTTGTGCATCA
33474508 AATATTT
1 AATATTT
33474515 TGCTTGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.42
Consensus pattern (23 bp):
AATATTTGGTGGCTTGTGCATCA
Found at i:33476562 original size:31 final size:31
Alignment explanation
Indices: 33476522--33476587 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
33476512 TCTAGGTGAA
*
33476522 TTCTGATTTCTTTTTCTTCTGCCTTGTTCAC
1 TTCTAATTTCTTTTTCTTCTGCCTTGTTCAC
*
33476553 TTCTAATTTCTTTTTCTTCTGTCTTGTTCAC
1 TTCTAATTTCTTTTTCTTCTGCCTTGTTCAC
33476584 TTCT
1 TTCT
33476588 TACCTTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.61
Consensus pattern (31 bp):
TTCTAATTTCTTTTTCTTCTGCCTTGTTCAC
Found at i:33476954 original size:26 final size:27
Alignment explanation
Indices: 33476897--33476963 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
33476887 ACTTTTGATT
*
33476897 TTTTTTTCTCCTATCAAGCATATTCTA
1 TTTTTTTCTACTATCAAGCATATTCTA
33476924 TTTTTTTCTACTATCATCA-CAT-TTCTA
1 TTTTTTTCTACTATCA--AGCATATTCTA
33476951 TTTTTTCTCTACT
1 TTTTTT-TCTACT
33476964 GTTTTGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 26 0.72
28 9 0.25
29 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTTTTTCTACTATCAAGCATATTCTA
Found at i:33483782 original size:23 final size:23
Alignment explanation
Indices: 33483724--33483783 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
33483714 GAAACTGAAA
*
33483724 AGTTGTGTCTGTTGTGTTTTAAC
1 AGTTGTGTCTGTTGTGTTTCAAC
* * *
33483747 AGATATGTCTGTTGTGTTTCAAT
1 AGTTGTGTCTGTTGTGTTTCAAC
*
33483770 AGTTGTGTTTGTTG
1 AGTTGTGTCTGTTG
33483784 AAAACACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.15, C:0.07, G:0.27, T:0.52
Consensus pattern (23 bp):
AGTTGTGTCTGTTGTGTTTCAAC
Found at i:33485114 original size:2 final size:2
Alignment explanation
Indices: 33485107--33485149 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
33485097 AATAAGTAAT
* * *
33485107 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33485149 T
1 T
33485150 TATTGAAGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33485614 original size:20 final size:20
Alignment explanation
Indices: 33485585--33485630 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
33485575 ATTATGTGCC
*
33485585 TAAAAATATTTATT-TAACAA
1 TAAAATTATTTATTATAA-AA
33485605 TAAAATTATTTATTATAAAA
1 TAAAATTATTTATTATAAAA
33485625 TAAAAT
1 TAAAAT
33485631 GCACAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTATTTATTATAAAA
Found at i:33492468 original size:72 final size:71
Alignment explanation
Indices: 33492351--33492493 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
33492341 AATTGACGGG
33492351 GTAATATTCCTTCTTTGACAAAGTCTAAAGGGAAAAAAAAATTTTAACCCTAAAAAAAAAGTGTG
1 GTAATATTCCTTCTTTGACAAAGTCTAAAGGGAAAAAAAAATTTTAACCCTAAAAAAAAAGTGTG
33492416 TTTGGA
66 TTTGGA
33492422 NGTAATATTCCTTCTTTGACAAAGTCTAAAGGGAAAAAAAAATTTTAACCCTAAAAAAAAAGTGT
1 -GTAATATTCCTTCTTTGACAAAGTCTAAAGGGAAAAAAAAATTTTAACCCTAAAAAAAAAGTGT
33492487 GTTTGGA
65 GTTTGGA
33492494 AATAATCCTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.29
Consensus pattern (71 bp):
GTAATATTCCTTCTTTGACAAAGTCTAAAGGGAAAAAAAAATTTTAACCCTAAAAAAAAAGTGTG
TTTGGA
Found at i:33492968 original size:23 final size:23
Alignment explanation
Indices: 33492941--33492997 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
33492931 GTTTAAAGTT
* * *
33492941 TGTGAAACGGCATGTTGGGAATG
1 TGTGAAACAGCATGGTGGGAATA
* *
33492964 TGTGATACAGTATGGTGGGAATA
1 TGTGAAACAGCATGGTGGGAATA
*
33492987 TGTGACACAGC
1 TGTGAAACAGC
33492998 TGTGAGACGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.35, T:0.26
Consensus pattern (23 bp):
TGTGAAACAGCATGGTGGGAATA
Found at i:33493185 original size:23 final size:22
Alignment explanation
Indices: 33493158--33493350 Score: 82
Period size: 23 Copynumber: 8.3 Consensus size: 22
33493148 GGTGTGCATA
33493158 TGTGACATGCCATGGAGAGAAT
1 TGTGACATGCCATGGAGAGAAT
* * * * * *
33493180 TAGTGAGAGGGCATGGTGGGCAT
1 T-GTGACATGCCATGGAGAGAAT
* * **
33493203 ATGTGACATGGCAGGGTTTAGAATT
1 -TGTGACATGCCATGG-AGAGAA-T
** *
33493228 TGTGACACACCATGGAGGGAAT
1 TGTGACATGCCATGGAGAGAAT
*
33493250 CTGTGACATGCCATGGAGAAAAT
1 -TGTGACATGCCATGGAGAGAAT
*
33493273 CTGTGACATGCCATGGTACA-AAGTT
1 -TGTGACATGCCATGG-AGAGAA--T
* * *
33493298 TGTGACACGCCATGGTGATAAT
1 TGTGACATGCCATGGAGAGAAT
* * * *
33493320 ATGTAACATGGCATGGTGAGCAT
1 -TGTGACATGCCATGGAGAGAAT
33493343 ATGTGACA
1 -TGTGACA
33493351 CGACAAGGTT
Statistics
Matches: 128, Mismatches: 33, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
22 3 0.02
23 90 0.70
24 33 0.26
25 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGACATGCCATGGAGAGAAT
Found at i:33493278 original size:70 final size:70
Alignment explanation
Indices: 33493201--33493391 Score: 186
Period size: 70 Copynumber: 2.7 Consensus size: 70
33493191 CATGGTGGGC
* * * * * *
33493201 ATATGTGACATGGCAGGGTTTAGAATTTGTGACACACCATGGAGGGAATCTGTGACATGCCATGG
1 ATATGTGACATGACAAGGTTCAGAATTTGTGACACGCCATGGAGGGAATATGTAACATGCCATGG
33493266 AGAAA
66 AGAAA
* * * * * ** *
33493271 ATCTGTGACATGCCATGGTACA-AAGTTTGTGACACGCCATGGTGATAATATGTAACATGGCATG
1 ATATGTGACATGACAAGGTTCAGAA-TTTGTGACACGCCATGGAGGGAATATGTAACATGCCATG
* **
33493335 GTGAGC
65 GAGAAA
* * *
33493341 ATATGTGACACGACAAGGTTCAGAGTTTGTGACACGCCATGGAAGGAATAT
1 ATATGTGACATGACAAGGTTCAGAATTTGTGACACGCCATGGAGGGAATAT
33493392 ATGACACGTC
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
69 2 0.02
70 91 0.97
71 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (70 bp):
ATATGTGACATGACAAGGTTCAGAATTTGTGACACGCCATGGAGGGAATATGTAACATGCCATGG
AGAAA
Found at i:33493309 original size:24 final size:24
Alignment explanation
Indices: 33493247--33493313 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
33493237 CCATGGAGGG
*
33493247 AATCTGTGACATGCCATGG-AGAA
1 AATCTGTGACATGCCATGGTACAA
33493270 AATCTGTGACATGCCATGGTACAA
1 AATCTGTGACATGCCATGGTACAA
* * *
33493294 AGTTTGTGACACGCCATGGT
1 AATCTGTGACATGCCATGGT
33493314 GATAATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (24 bp):
AATCTGTGACATGCCATGGTACAA
Found at i:33493463 original size:23 final size:23
Alignment explanation
Indices: 33493400--33493467 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
33493390 ATATGACACG
* * *
33493400 TCATTGTGTGCATATGTGACATG
1 TCATGGTGAGCATATGTGACATA
* * ** *
33493423 CCACGGTGAAAATCTGTGACATA
1 TCATGGTGAGCATATGTGACATA
33493446 TCATGGTGAGCATATGTGACAT
1 TCATGGTGAGCATATGTGACAT
33493468 GGCTGTGACA
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (23 bp):
TCATGGTGAGCATATGTGACATA
Found at i:33494253 original size:31 final size:31
Alignment explanation
Indices: 33494215--33494582 Score: 400
Period size: 31 Copynumber: 11.6 Consensus size: 31
33494205 GTGTCAACTT
* *
33494215 TGGCGTGTAACAACATTTGACTTGATACGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* **
33494246 TGGCGTGTAACAATATTTTACTTGATATATA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* * **
33494277 TGGCATGTTACAACATTTTACTTGATACACA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* *
33494308 TGGTGTGTAACAACATTTTACAACATTTGACTTGATACACA
1 TGGCGTGTAACAACATTTT---AC--TTGA--T-AT--GCA
* *
33494349 AGGCGTGTAACAACATTGTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* * * *
33494380 TGAG-GTGTTACAACATTTTTCTTAATACGCA
1 TG-GCGTGTAACAACATTTTACTTGATATGCA
*
33494411 TGGCGTGTTACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
33494442 TGGCGTGTAACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
*
33494473 TGGCGTGT-ATAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
*
33494503 TTGG-GTGTTACAACATTTTACTTGATATGCA
1 -TGGCGTGTAACAACATTTTACTTGATATGCA
* *
33494534 TGGCGTGTAACAATATTTTACTTGATACGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
*
33494565 TGGCGTGTAACAATATTT
1 TGGCGTGTAACAACATTT
33494583 ATTTCTTTTT
Statistics
Matches: 289, Mismatches: 33, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
30 29 0.10
31 223 0.77
32 1 0.00
33 2 0.01
34 3 0.01
36 8 0.03
38 3 0.01
39 1 0.00
41 19 0.07
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (31 bp):
TGGCGTGTAACAACATTTTACTTGATATGCA
Found at i:33494341 original size:41 final size:41
Alignment explanation
Indices: 33494284--33494365 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
33494274 ATATGGCATG
* * *
33494284 TTACAACATTTTACTTGATACACATGGTGTGTAACAACATT
1 TTACAACATTTGACTTGATACACAAGGCGTGTAACAACATT
33494325 TTACAACATTTGACTTGATACACAAGGCGTGTAACAACATT
1 TTACAACATTTGACTTGATACACAAGGCGTGTAACAACATT
33494366 GTACTTGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (41 bp):
TTACAACATTTGACTTGATACACAAGGCGTGTAACAACATT
Found at i:33494530 original size:92 final size:92
Alignment explanation
Indices: 33494325--33494582 Score: 358
Period size: 92 Copynumber: 2.8 Consensus size: 92
33494315 TAACAACATT
* ** * *
33494325 TTACAACATTTGACTTGATACACAAGGCGTGTAACAACATTGTACTTGATATGCATGAG-GTGTT
1 TTACAACATTTTACTTGATATGCATGGCGTGTAACAACATTTTACTTGATATGCATG-GCGTG-T
*
33494389 ACAACATTTTTCTTAATACGCATGGCGTG
64 ACAACATTTTACTTAATACGCATGGCGTG
*
33494418 TTACAACATTTTACTTGATATGCATGGCGTGTAACAACATTTTACTTGATATGCATGGCGTGTAT
1 TTACAACATTTTACTTGATATGCATGGCGTGTAACAACATTTTACTTGATATGCATGGCGTGTAC
* *
33494483 AACATTTTACTTGATATGCATTGG-GTG
66 AACATTTTACTTAATACGCA-TGGCGTG
* *
33494510 TTACAACATTTTACTTGATATGCATGGCGTGTAACAATATTTTACTTGATACGCATGGCGTGTAA
1 TTACAACATTTTACTTGATATGCATGGCGTGTAACAACATTTTACTTGATATGCATGGCGTGT-A
*
33494575 CAATATTT
65 CAACATTT
33494583 ATTTCTTTTT
Statistics
Matches: 149, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
92 84 0.56
93 65 0.44
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (92 bp):
TTACAACATTTTACTTGATATGCATGGCGTGTAACAACATTTTACTTGATATGCATGGCGTGTAC
AACATTTTACTTAATACGCATGGCGTG
Found at i:33494552 original size:123 final size:124
Alignment explanation
Indices: 33494327--33494582 Score: 372
Period size: 123 Copynumber: 2.1 Consensus size: 124
33494317 ACAACATTTT
33494327 ACAACATTTGACTTGATACACAAGGCGTGTAACAACATTGTACTTGATATGCATGAGGTGTTACA
1 ACAACATTTGACTTGATACACAAGGCGTGTAACAACATTGTACTTGATATGCATGAGGTGTTACA
* * *
33494392 ACATTTTTCTTAATACGCATGGCGTGTTACAACATTTTACTTGATATGCATGGCGTGTA
66 ACATTTTACTTAATACGCATGGCGTGTAACAACATTTTACTTGATACGCATGGCGTGTA
* ** * * *
33494451 ACAACATTTTACTTGATATGCATGGCGTGT-ATAACATTTTACTTGATATGCATTG-GGTGTTAC
1 ACAACATTTGACTTGATACACAAGGCGTGTAACAACATTGTACTTGATATGCA-TGAGGTGTTAC
* * *
33494514 AACATTTTACTTGATATGCATGGCGTGTAACAATATTTTACTTGATACGCATGGCGTGTA
65 AACATTTTACTTAATACGCATGGCGTGTAACAACATTTTACTTGATACGCATGGCGTGTA
*
33494574 ACAATATTT
1 ACAACATTT
33494583 ATTTCTTTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
123 90 0.76
124 28 0.24
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (124 bp):
ACAACATTTGACTTGATACACAAGGCGTGTAACAACATTGTACTTGATATGCATGAGGTGTTACA
ACATTTTACTTAATACGCATGGCGTGTAACAACATTTTACTTGATACGCATGGCGTGTA
Found at i:33496797 original size:464 final size:464
Alignment explanation
Indices: 33495929--33496859 Score: 1673
Period size: 464 Copynumber: 2.0 Consensus size: 464
33495919 CCGTTGCTTT
* *
33495929 AGTTGATGAGCTGTAAGGCCCTGAATTGATGGAAGAAGGGGACGACCATGGTCCATGCAACGAAT
1 AGTTGATGAGCTGTAAGGCCCTGAATTGATGGAAGAAGAGGAAGACCATGGTCCATGCAACGAAT
33495994 AGCTGGTAAGGATTATTCTAATGGTTTGTGTTCAACAATTCCTTATGTGATTATTGAATAACATA
66 AGCTGGTAAGGATTATTCTAATGGTTTGTGTTCAACAATTCCTTATGTGATTATTGAATAACATA
* *
33496059 TCTGTGTTTGCAATTGAACCAGGCGACAGCAGCTCTACAACCACCGAGAGGTCCTCTTTAAATGC
131 TCTGTGTTTGCAATTGAACCAGGCGACAACAGCTCTACAACCACCGAGAGGTCCTCTTCAAATGC
33496124 ACAATGGTAACGAGCTGTTGGTAAGATCGGTTCTAACGATTTGTTTTCAACATTTTCACATGTTT
196 ACAATGGTAACGAGCTGTTGGTAAGATCGGTTCTAACGATTTGTTTTCAACATTTTCACATGTTT
* * *
33496189 ATCGATTAACATAGTAATTTTTATTATTATAGTTAATAGAGGTGACAATAGGTCCTCAATGACTG
261 ATCAATTAACATAGTAATTTCTATTATTACAGTTAATAGAGGTGACAATAGGTCCTCAATGACTG
33496254 ATCGATTCGGCTCAACCGCAAGTGCTAATGAACTACCGATAAGGATATTAAAATTCTAATGGTTA
326 ATCGATTCGGCTCAACCGCAAGTGCTAATGAACTACCGATAAGGATATTAAAATTCTAATGGTTA
*
33496319 ATGTTCAATAATTTCATATATGATTATTGAATAACATAGTAATATATGTTATCACAGTTGACCCA
391 ATGTTCAATAATTTCATATATGATTATTGAATAACACAGTAATATATGTTATCACAGTTGACCCA
33496384 TTCTACAAG
456 TTCTACAAG
* * *
33496393 AGTTGATGAGTTGTAAGGCCCTGAGTTGATGGAAGAAGAGGAAGACCATGGTCCATGCAGCGAAT
1 AGTTGATGAGCTGTAAGGCCCTGAATTGATGGAAGAAGAGGAAGACCATGGTCCATGCAACGAAT
33496458 AGCTGGTAAGGATTATTCTAATGGTTTGTGTTCAACAATTCCTTATGTGATTATTGAATAACATA
66 AGCTGGTAAGGATTATTCTAATGGTTTGTGTTCAACAATTCCTTATGTGATTATTGAATAACATA
* *
33496523 TCTGTGTTTGCAGTTGAACCAGGTGACAACAGCTCTACAACCACCGAGAGGTCCTCTTCAAATGC
131 TCTGTGTTTGCAATTGAACCAGGCGACAACAGCTCTACAACCACCGAGAGGTCCTCTTCAAATGC
* * *
33496588 ACATTGGTAACGAGTTGTTGGTAAGATCGGTTCTAACTATTTGTTTTCAACATTTTCACATGTTT
196 ACAATGGTAACGAGCTGTTGGTAAGATCGGTTCTAACGATTTGTTTTCAACATTTTCACATGTTT
*
33496653 ATCAATTAACATAGTAATTTCTGTTATTACAGTTAATAGAGGTGACAATAGGTCCTCAATGACTG
261 ATCAATTAACATAGTAATTTCTATTATTACAGTTAATAGAGGTGACAATAGGTCCTCAATGACTG
* * *
33496718 ATCGGTTTGGCTCAACCGCAAGTGCTAATGAACTGCCGATAAGGATATTAAAATTCTAATGGTTA
326 ATCGATTCGGCTCAACCGCAAGTGCTAATGAACTACCGATAAGGATATTAAAATTCTAATGGTTA
*
33496783 ATGTTCAATAATTTCATATATGATTATTGAATAACACAGTAATATATGTTATTACAGTTGACCCA
391 ATGTTCAATAATTTCATATATGATTATTGAATAACACAGTAATATATGTTATCACAGTTGACCCA
33496848 TTCTACAAG
456 TTCTACAAG
33496857 AGT
1 AGT
33496860 CAATAACGAA
Statistics
Matches: 446, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
464 446 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (464 bp):
AGTTGATGAGCTGTAAGGCCCTGAATTGATGGAAGAAGAGGAAGACCATGGTCCATGCAACGAAT
AGCTGGTAAGGATTATTCTAATGGTTTGTGTTCAACAATTCCTTATGTGATTATTGAATAACATA
TCTGTGTTTGCAATTGAACCAGGCGACAACAGCTCTACAACCACCGAGAGGTCCTCTTCAAATGC
ACAATGGTAACGAGCTGTTGGTAAGATCGGTTCTAACGATTTGTTTTCAACATTTTCACATGTTT
ATCAATTAACATAGTAATTTCTATTATTACAGTTAATAGAGGTGACAATAGGTCCTCAATGACTG
ATCGATTCGGCTCAACCGCAAGTGCTAATGAACTACCGATAAGGATATTAAAATTCTAATGGTTA
ATGTTCAATAATTTCATATATGATTATTGAATAACACAGTAATATATGTTATCACAGTTGACCCA
TTCTACAAG
Found at i:33498867 original size:31 final size:31
Alignment explanation
Indices: 33498832--33498912 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
33498822 CCACTCAGCA
* * *
33498832 TGTCACGCCATAAATCTGCAAGAAGTTAGCG
1 TGTCATGCCATAAATCTGCAAGAAGTCAACG
33498863 TGTCATGCCATAAATCTGCAAGAAGTCAACG
1 TGTCATGCCATAAATCTGCAAGAAGTCAACG
*
33498894 TGTCATGTCATAAATCTGC
1 TGTCATGCCATAAATCTGC
33498913 TTGCACTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (31 bp):
TGTCATGCCATAAATCTGCAAGAAGTCAACG
Found at i:33499015 original size:117 final size:117
Alignment explanation
Indices: 33498878--33499375 Score: 597
Period size: 117 Copynumber: 4.3 Consensus size: 117
33498868 TGCCATAAAT
* * * * *
33498878 CTGCAAGAAGTCAACGTGTCATGTCATAAATCTGCTTGCACTTACTGTGCCACGCCATCAATCTG
1 CTGCAAGAAGTCAACGTGTCATGCCATAAATCTACTTGCACTCACCGTGTCACGCCATCAATCTG
* * * *
33498943 CTACCACTCAGCGTGTCATAACAATTGGGACCTAGCGTGTCACCCCACAATA
66 CTACCACTCAGCGTGTCACAACAATTGGGGCGTGGCGTGTCACCCCACAATA
* * * * *
33498995 TTGCAAGAAGTCAGCATGTCATGCCATAAATCTGA-TTGCACTCATCGTGTCACGTCATCAATCT
1 CTGCAAGAAGTCAACGTGTCATGCCATAAATCT-ACTTGCACTCACCGTGTCACGCCATCAATCT
* * * **
33499059 GCTACCACTCAGCGTGTTACAACAATTAGGGCGTGACGTGTCACTTCACAATA
65 GCTACCACTCAGCGTGTCACAACAATTGGGGCGTGGCGTGTCACCCCACAATA
* * ** * *
33499112 CTACAAGAAGTCAGCGTGTCACACCATAAATCTACTTGCACTCACCATGTCATGCCATCAATCTG
1 CTGCAAGAAGTCAACGTGTCATGCCATAAATCTACTTGCACTCACCGTGTCACGCCATCAATCTG
* * *
33499177 CTACCACTCAGCTTGTCACAATAATTGGGGCGTGGCGTGTCACCTCACAATA
66 CTACCACTCAGCGTGTCACAACAATTGGGGCGTGGCGTGTCACCCCACAATA
** *
33499229 CTATAAGAATTCAACGTGTCACT-CCATAAATCTACTTGCACTCACCGTGTCACGCCATCAATCT
1 CTGCAAGAAGTCAACGTGTCA-TGCCATAAATCTACTTGCACTCACCGTGTCACGCCATCAATCT
* * * ** * *
33499293 ACTACCACTTAGCGTGTTATGACAATTGGGGCGGGGTGTGTCA-CCCACAATA
65 GCTACCACTCAGCGTGTCACAACAATTGGGGCGTGGCGTGTCACCCCACAATA
* *
33499345 CTGCAACAAGTCAACGTGTCACGCCATAAAT
1 CTGCAAGAAGTCAACGTGTCATGCCATAAAT
33499376 AAACATATTC
Statistics
Matches: 322, Mismatches: 55, Indels: 9
0.83 0.14 0.02
Matches are distributed among these distances:
116 34 0.11
117 288 0.89
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (117 bp):
CTGCAAGAAGTCAACGTGTCATGCCATAAATCTACTTGCACTCACCGTGTCACGCCATCAATCTG
CTACCACTCAGCGTGTCACAACAATTGGGGCGTGGCGTGTCACCCCACAATA
Found at i:33499309 original size:31 final size:31
Alignment explanation
Indices: 33499243--33499301 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
33499233 AAGAATTCAA
* **
33499243 CGTGTCACTCCATAAATCTACTTGCACTCAC
1 CGTGTCACGCCATAAATCTACTACCACTCAC
*
33499274 CGTGTCACGCCATCAATCTACTACCACT
1 CGTGTCACGCCATAAATCTACTACCACT
33499302 TAGCGTGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.27
Consensus pattern (31 bp):
CGTGTCACGCCATAAATCTACTACCACTCAC
Found at i:33499529 original size:21 final size:21
Alignment explanation
Indices: 33499505--33499552 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
33499495 TTTATATTTT
*
33499505 TTTATAAAAATGATAAATTAA
1 TTTATAAAAATGATAAACTAA
* *
33499526 TTTATTTAAAATTATAAACTAA
1 TTTA-TAAAAATGATAAACTAA
33499548 TTTAT
1 TTTAT
33499553 TAATTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTATAAAAATGATAAACTAA
Found at i:33499542 original size:22 final size:22
Alignment explanation
Indices: 33499511--33499553 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33499501 TTTTTTTATA
*
33499511 AAAATGATAAATTAATTTATTT
1 AAAATGATAAACTAATTTATTT
*
33499533 AAAATTATAAACTAATTTATT
1 AAAATGATAAACTAATTTATT
33499554 AATTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAATGATAAACTAATTTATTT
Found at i:33502105 original size:21 final size:21
Alignment explanation
Indices: 33502063--33502115 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
33502053 CCTACATCAA
*
33502063 CACCTCTAACAGGTTTCGTTT
1 CACCTCTAACAGGTTTCATTT
33502084 CACCTCTAACA-GTTTCCATTT
1 CACCTCTAACAGGTTT-CATTT
* *
33502105 CGCCTTTAACA
1 CACCTCTAACA
33502116 TTATTGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (21 bp):
CACCTCTAACAGGTTTCATTT
Found at i:33503021 original size:22 final size:21
Alignment explanation
Indices: 33502994--33503092 Score: 99
Period size: 22 Copynumber: 4.5 Consensus size: 21
33502984 GTTTAGAAAG
33502994 TGTTACACGCTAGTTCAAAAA
1 TGTTACACGCTAGTTCAAAAA
* *
33503015 TTGTTACATGCCTTGTTCAAAAA
1 -TGTTACACG-CTAGTTCAAAAA
* *
33503038 TGTTACACGCAAGGTCAAAAA
1 TGTTACACGCTAGTTCAAAAA
* *
33503059 TTGTTACACGCCATGTTCACAACA
1 -TGTTACACGCTA-GTTCA-AAAA
33503083 TGTTACACGC
1 TGTTACACGC
33503093 CATGTTAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.14
22 27 0.42
23 25 0.39
24 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTTACACGCTAGTTCAAAAA
Found at i:33503035 original size:23 final size:23
Alignment explanation
Indices: 33502970--33503118 Score: 126
Period size: 23 Copynumber: 6.5 Consensus size: 23
33502960 GTCAGTCATG
* * * *
33502970 TTGTCACACGCCGTGTTTAGAAA
1 TTGTTACACGCCATGTTCAAAAA
* *
33502993 GTGTTACACGCTA-GTTCAAAAA
1 TTGTTACACGCCATGTTCAAAAA
* *
33503015 TTGTTACATGCCTTGTTCAAAAA
1 TTGTTACACGCCATGTTCAAAAA
* *
33503038 -TGTTACACG-CAAGGTCAAAAA
1 TTGTTACACGCCATGTTCAAAAA
*
33503059 TTGTTACACGCCATGTTCACAACA
1 TTGTTACACGCCATGTTCA-AAAA
*
33503083 -TGTTACACGCCATGTTAAATAAAA
1 TTGTTACACGCCATGTT-CA-AAAA
*
33503107 ATGTTACACGCC
1 TTGTTACACGCC
33503119 GTGTGCTAAC
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
21 9 0.09
22 33 0.33
23 40 0.40
24 7 0.07
25 11 0.11
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (23 bp):
TTGTTACACGCCATGTTCAAAAA
Found at i:33503057 original size:44 final size:45
Alignment explanation
Indices: 33502970--33503092 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 45
33502960 GTCAGTCATG
* * * * * * *
33502970 TTGTCACACGCCGTGTTTAGAAAGTGTTACACGCTAGTTCAAAAA
1 TTGTTACACGCCATGTTCACAAAATGTTACACGCAAGGTCAAAAA
* *
33503015 TTGTTACATGCCTTGTTCA-AAAATGTTACACGCAAGGTCAAAAA
1 TTGTTACACGCCATGTTCACAAAATGTTACACGCAAGGTCAAAAA
*
33503059 TTGTTACACGCCATGTTCACAACATGTTACACGC
1 TTGTTACACGCCATGTTCACAAAATGTTACACGC
33503093 CATGTTAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 39 0.58
45 28 0.42
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
TTGTTACACGCCATGTTCACAAAATGTTACACGCAAGGTCAAAAA
Found at i:33503098 original size:12 final size:12
Alignment explanation
Indices: 33503060--33503099 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
33503050 GGTCAAAAAT
33503060 TGTTACACGCCA
1 TGTTACACGCCA
**
33503072 TGTT-CACAACA
1 TGTTACACGCCA
33503083 TGTTACACGCCA
1 TGTTACACGCCA
33503095 TGTTA
1 TGTTA
33503100 AATAAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (12 bp):
TGTTACACGCCA
Found at i:33503116 original size:25 final size:23
Alignment explanation
Indices: 33502975--33503118 Score: 96
Period size: 22 Copynumber: 6.3 Consensus size: 23
33502965 TCATGTTGTC
* * * *
33502975 ACACGCCGTGTTTAGAAAGTGTT
1 ACACGCCATGTTAAAAAAATGTT
* * *
33502998 ACACGCTA-GTTCAAAAATTGTT
1 ACACGCCATGTTAAAAAAATGTT
* * *
33503020 ACATGCCTTGTT-CAAAAATGTT
1 ACACGCCATGTTAAAAAAATGTT
* * * *
33503042 ACACG-CAAGGTCAAAAATTGTT
1 ACACGCCATGTTAAAAAAATGTT
* * *
33503064 ACACGCCATGTTCACAACATGTT
1 ACACGCCATGTTAAAAAAATGTT
33503087 ACACGCCATGTTAAATAAAAATGTT
1 ACACGCCATGTT-AA-AAAAATGTT
33503112 ACACGCC
1 ACACGCC
33503119 GTGTGCTAAC
Statistics
Matches: 92, Mismatches: 24, Indels: 8
0.74 0.19 0.06
Matches are distributed among these distances:
21 3 0.03
22 41 0.45
23 33 0.36
24 1 0.01
25 14 0.15
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (23 bp):
ACACGCCATGTTAAAAAAATGTT
Found at i:33503439 original size:63 final size:63
Alignment explanation
Indices: 33503353--33503472 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 63
33503343 CCACAACACA
* * *
33503353 ATGACGATGGTACTCAACAGAGAGTTGACAGAGCTCATACATTTCAAAGAGCTGAGAAAGTTG
1 ATGACGATGGTACTCAACAGAGAGTTCACAAAGCTCATACAGTTCAAAGAGCTGAGAAAGTTG
* * ** * * *
33503416 ATGACGATGGTGCTTAATTGAGAGTTCACAAAGTTGATACAGTTCAGAGAGCTGAGA
1 ATGACGATGGTACTCAACAGAGAGTTCACAAAGCTCATACAGTTCAAAGAGCTGAGA
33503473 GAGAAAAATA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (63 bp):
ATGACGATGGTACTCAACAGAGAGTTCACAAAGCTCATACAGTTCAAAGAGCTGAGAAAGTTG
Found at i:33504286 original size:2 final size:2
Alignment explanation
Indices: 33504279--33504305 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33504269 AATAAGTAAT
33504279 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33504306 TATTGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33504782 original size:20 final size:20
Alignment explanation
Indices: 33504737--33504782 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
33504727 AATATGTGCC
*
33504737 TAAAAATATTTATTTAACAA
1 TAAAATTATTTATTTAACAA
*
33504757 TTAAATTATTTATTATAA-AA
1 TAAAATTATTTATT-TAACAA
33504777 TAAAAT
1 TAAAAT
33504783 GCACAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAATTATTTATTTAACAA
Found at i:33505817 original size:15 final size:14
Alignment explanation
Indices: 33505784--33505828 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
33505774 TTTTAGATTC
33505784 ATAAAATATAATAT
1 ATAAAATATAATAT
33505798 ATAAAATATAA-AT
1 ATAAAATATAATAT
* *
33505811 AGTTAAATATGATAT
1 A-TAAAATATAATAT
33505826 ATA
1 ATA
33505829 GAATTTCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.12
14 20 0.77
15 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
ATAAAATATAATAT
Found at i:33506108 original size:16 final size:15
Alignment explanation
Indices: 33506076--33506110 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
33506066 GGCTTGTAAA
*
33506076 ATTATTTTATTATTT
1 ATTATTTTATTAATT
33506091 ATTATTTATATTAATT
1 ATTATTT-TATTAATT
33506107 ATTA
1 ATTA
33506111 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTTTATTAATT
Found at i:33508527 original size:18 final size:18
Alignment explanation
Indices: 33508504--33508541 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33508494 ATAAATATGT
*
33508504 CATGTATACATGTTTAAA
1 CATGTATACACGTTTAAA
33508522 CATGTATACACGTTTAAA
1 CATGTATACACGTTTAAA
33508540 CA
1 CA
33508542 CGATAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
CATGTATACACGTTTAAA
Found at i:33508550 original size:18 final size:18
Alignment explanation
Indices: 33508507--33508556 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
33508497 AATATGTCAT
* *
33508507 GTATACATGTTTAAACAT
1 GTATACACGTTTAAACAC
33508525 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
*
33508543 G-ATAACACGATTAA
1 GTAT-ACACGTTTAA
33508557 GTAAACGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (18 bp):
GTATACACGTTTAAACAC
Found at i:33519088 original size:17 final size:17
Alignment explanation
Indices: 33519066--33519099 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33519056 TTTTGAAAAT
*
33519066 TTTTTTTAGTTTAATTA
1 TTTTTTTAGATTAATTA
*
33519083 TTTTTTTGGATTAATTA
1 TTTTTTTAGATTAATTA
33519100 GTACCGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TTTTTTTAGATTAATTA
Found at i:33519956 original size:4 final size:4
Alignment explanation
Indices: 33519947--33519972 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33519937 GTTCTTATAG
33519947 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
33519973 ATGAATGGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:33524895 original size:13 final size:13
Alignment explanation
Indices: 33524877--33524902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33524867 TTTCCCCTGG
33524877 CCACATCCTTAAT
1 CCACATCCTTAAT
33524890 CCACATCCTTAAT
1 CCACATCCTTAAT
33524903 AATACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
CCACATCCTTAAT
Found at i:33542722 original size:19 final size:21
Alignment explanation
Indices: 33542698--33542737 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33542688 ATAAGGATTT
33542698 ATTTAA-A-ATTTTTTAAATA
1 ATTTAAGAGATTTTTTAAATA
*
33542717 ATTTAAGAGTTTTTTTAAATA
1 ATTTAAGAGATTTTTTAAATA
33542738 TTATGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTAAGAGATTTTTTAAATA
Found at i:33544684 original size:28 final size:28
Alignment explanation
Indices: 33544640--33544693 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
33544630 TTCAAAAAAA
*
33544640 TTTTAATAAATTTTTAT-TTTTTATTAT
1 TTTTAATAAATTCTTATATTTTTATTAT
33544667 TTTTAATCAAATTCTTATATTTTTATT
1 TTTTAAT-AAATTCTTATATTTTTATT
33544694 TTGATTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 9 0.38
29 8 0.33
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTAATAAATTCTTATATTTTTATTAT
Found at i:33548093 original size:19 final size:20
Alignment explanation
Indices: 33548069--33548106 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33548059 ATTCAAAAAT
*
33548069 ATTATTTTTTAT-AATTTTA
1 ATTATTTTTGATCAATTTTA
33548088 ATTATTTTTGATCAATTTT
1 ATTATTTTTGATCAATTTT
33548107 TGACATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTATTTTTGATCAATTTTA
Found at i:33548764 original size:22 final size:22
Alignment explanation
Indices: 33548739--33548785 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33548729 AATTGATTAG
*
33548739 ACTGGTTTTTAAGTATTACAAA
1 ACTGATTTTTAAGTATTACAAA
* *
33548761 ACTGATTTTTAGGTATTACATA
1 ACTGATTTTTAAGTATTACAAA
33548783 ACT
1 ACT
33548786 TAATCACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (22 bp):
ACTGATTTTTAAGTATTACAAA
Found at i:33548895 original size:23 final size:23
Alignment explanation
Indices: 33548863--33548944 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 23
33548853 AAGTAATGCC
* *
33548863 TAAGTCACACAATGCCTTACTCA
1 TAAGTCACACAATACCTTACTAA
*
33548886 TTAGTCACACAATACCTTACTAA
1 TAAGTCACACAATACCTTACTAA
* *
33548909 CAAGTCACGCAATACCTTACTAA
1 TAAGTCACACAATACCTTACTAA
33548932 TAAGTCACACAAT
1 TAAGTCACACAAT
33548945 GCCTATCAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (23 bp):
TAAGTCACACAATACCTTACTAA
Found at i:33565583 original size:17 final size:16
Alignment explanation
Indices: 33565558--33565601 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
33565548 TATTAGATTA
33565558 TAATATATTATATTATT
1 TAATATATTATA-TATT
*
33565575 TAATTTATTATATATT
1 TAATATATTATATATT
*
33565591 TGATAT-TTATA
1 TAATATATTATA
33565602 AAATTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 8 0.33
17 11 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TAATATATTATATATT
Found at i:33566470 original size:2 final size:2
Alignment explanation
Indices: 33566459--33566491 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
33566449 ATAGACCCAA
33566459 AT AT AT -T AT AT A- 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
33566492 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33566497 original size:1 final size:1
Alignment explanation
Indices: 33566491--33566527 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
33566481 ATATATATAT
33566491 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33566528 TATATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33568855 original size:14 final size:14
Alignment explanation
Indices: 33568836--33568883 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
33568826 ACGAGTAGAG
*
33568836 AGAAAAAAAAATAA
1 AGAAAAAAAAAGAA
* *
33568850 AGAAAAAGAAGGAA
1 AGAAAAAAAAAGAA
33568864 AGAAAAAAAATAAGAA
1 AG-AAAAAAA-AAGAA
33568880 AGAA
1 AGAA
33568884 TATGAGGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.48
15 8 0.30
16 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (14 bp):
AGAAAAAAAAAGAA
Found at i:33570027 original size:2 final size:2
Alignment explanation
Indices: 33570020--33570045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33570010 TATAAAATTT
33570020 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
33570046 ATAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33574486 original size:4 final size:4
Alignment explanation
Indices: 33574477--33574521 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
33574467 AAAATTTTGG
33574477 TTAT TTAT TTA- TTAT TTA- TTAT TTA- TTA- TTAT TTAT TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
33574520 TT
1 TT
33574522 TTATATATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 15 0.41
4 22 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:33574493 original size:7 final size:7
Alignment explanation
Indices: 33574481--33574525 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
33574471 TTTTGGTTAT
33574481 TTATTTA
1 TTATTTA
33574488 TTATTTA
1 TTATTTA
33574495 TTATTTA
1 TTATTTA
33574502 TTA-TTA
1 TTATTTA
33574508 TTTATTTA
1 -TTATTTA
33574516 TTATTT-
1 TTATTTA
33574522 TTAT
1 TTAT
33574526 ATATACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 7 0.19
7 26 0.72
8 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:33574896 original size:11 final size:11
Alignment explanation
Indices: 33574861--33574950 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 11
33574851 CTTCCAATTA
33574861 TATTATTTATTAT
1 TATTATTTA-T-T
33574874 TATTATTTATT
1 TATTATTTATT
33574885 TATT-TTTCATTT
1 TATTATTT-A-TT
33574897 TATTA-TTATCT
1 TATTATTTAT-T
*
33574908 T-TTAATT-TT
1 TATTATTTATT
*
33574917 TA-TATTT-TA
1 TATTATTTATT
33574926 TATATATTT-TT
1 TAT-TATTTATT
*
33574937 TATTATTTTTT
1 TATTATTTATT
33574948 TAT
1 TAT
33574951 CTTAATATAA
Statistics
Matches: 65, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
9 9 0.14
10 13 0.20
11 25 0.38
12 9 0.14
13 9 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTTATT
Found at i:33574898 original size:29 final size:26
Alignment explanation
Indices: 33574866--33574946 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 26
33574856 AATTATATTA
33574866 TTTATTATTATTATTTATTTATTTTTCAT
1 TTTATTATTATT-TTTA-TTATTTTT-AT
*
33574895 TTTATTATTATCTTTTAATT-TTTATAT
1 TTTATTATTAT-TTTT-ATTATTTTTAT
33574922 TTTA-TATATATTTTTTATTATTTTT
1 TTTATTAT-TA-TTTTTATTATTTTT
33574947 TTATCTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
26 6 0.13
27 16 0.36
28 5 0.11
29 16 0.36
30 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTTTATTATTTTTAT
Found at i:33574904 original size:26 final size:26
Alignment explanation
Indices: 33574870--33574940 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
33574860 ATATTATTTA
33574870 TTATTATTATTTATTTATTTTT-CATT
1 TTATTATTATTT-TTTATTTTTACATT
* *
33574896 TTATTATTATCTTTTAATTTTTATATT
1 TTATTATTAT-TTTTTATTTTTACATT
33574923 TTA-TATATATTTTTTATT
1 TTATTAT-TATTTTTTATT
33574941 ATTTTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 28 0.72
27 11 0.28
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (26 bp):
TTATTATTATTTTTTATTTTTACATT
Found at i:33575539 original size:23 final size:24
Alignment explanation
Indices: 33575497--33575544 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
33575487 TCTTAGCCGG
*
33575497 CGAATCGCTTCGCCTTCCGTTGGC
1 CGAATCGCTTCGCCTTCCGTCGGC
33575521 CGAATC-CTTC-CCTTCCCGTCGGC
1 CGAATCGCTTCGCCTT-CCGTCGGC
33575544 C
1 C
33575545 CCTCTCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.08, C:0.44, G:0.21, T:0.27
Consensus pattern (24 bp):
CGAATCGCTTCGCCTTCCGTCGGC
Found at i:33575817 original size:11 final size:11
Alignment explanation
Indices: 33575801--33575838 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
33575791 AGCCATCCCG
33575801 ATTTTTTTTTT
1 ATTTTTTTTTT
33575812 A-TTTTTTTTT
1 ATTTTTTTTTT
* *
33575822 ATTTTTTATAT
1 ATTTTTTTTTT
33575833 ATTTTT
1 ATTTTT
33575839 ATTTAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:33575818 original size:10 final size:10
Alignment explanation
Indices: 33575803--33575843 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
33575793 CCATCCCGAT
33575803 TTTTTTTTTA
1 TTTTTTTTTA
33575813 TTTTTTTTTA
1 TTTTTTTTTA
*
33575823 TTTTTTATATA
1 TTTTTT-TTTA
*
33575834 TTTTTATTTA
1 TTTTTTTTTA
33575844 AATTGTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:33575827 original size:21 final size:21
Alignment explanation
Indices: 33575801--33575843 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33575791 AGCCATCCCG
* * *
33575801 ATTTTTTTTTTATTTTTTTTT
1 ATTTTTTATATATTTTTATTT
33575822 ATTTTTTATATATTTTTATTT
1 ATTTTTTATATATTTTTATTT
33575843 A
1 A
33575844 AATTGTTATT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (21 bp):
ATTTTTTATATATTTTTATTT
Found at i:33575828 original size:17 final size:17
Alignment explanation
Indices: 33575802--33575842 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
33575792 GCCATCCCGA
* *
33575802 TTTT-TTTTTTATTTTT
1 TTTTATTTTTTATATAT
33575818 TTTTATTTTTTATATAT
1 TTTTATTTTTTATATAT
33575835 TTTTATTT
1 TTTTATTT
33575843 AAATTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTTTTTATATAT
Found at i:33575879 original size:10 final size:10
Alignment explanation
Indices: 33575851--33575889 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
33575841 TTAAATTGTT
*
33575851 ATTTTATTT-
1 ATTTAATTTA
33575860 ATTT-ATTTA
1 ATTTAATTTA
33575869 ATTTAATTTA
1 ATTTAATTTA
33575879 ATTTAATTTA
1 ATTTAATTTA
33575889 A
1 A
33575890 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 4 0.14
9 8 0.29
10 16 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTAATTTA
Found at i:33590027 original size:121 final size:120
Alignment explanation
Indices: 33589813--33590053 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 120
33589803 ATGAAAGCAG
33589813 ACAATAACACTGTGCTGGCAAAACGCTCTTCCTAAACCATATAGCAACAAGAACCCGAGCATTTC
1 ACAATAACACTGTGCTGGCAAAACGCTCTTCCTAAACCATATAGCAACAAGAACCCGAGCATTTC
33589878 ATTTCATCACCGTTGTATGATCACCCAACTCAAAGAGTAGGGTTCAAATAACCCC
66 ATTTCATCACCGTTGTATGATCACCCAACTCAAAGAGTAGGGTTCAAATAACCCC
33589933 NACAATAACACTGTGCTGGCAAAACGCTCTTCCTAAACCATATAGCAACAAGAACCCGAGCATTT
1 -ACAATAACACTGTGCTGGCAAAACGCTCTTCCTAAACCATATAGCAACAAGAACCCGAGCATTT
33589998 CATTTCATCACCGTTGTATGATCACCCAACTCAAAGAGTAGGGTTCAAATAACCCC
65 CATTTCATCACCGTTGTATGATCACCCAACTCAAAGAGTAGGGTTCAAATAACCCC
33590054 CCCCCCCCCC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.22
Consensus pattern (120 bp):
ACAATAACACTGTGCTGGCAAAACGCTCTTCCTAAACCATATAGCAACAAGAACCCGAGCATTTC
ATTTCATCACCGTTGTATGATCACCCAACTCAAAGAGTAGGGTTCAAATAACCCC
Found at i:33596981 original size:2 final size:2
Alignment explanation
Indices: 33596976--33597016 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
33596966 TATATATATA
33596976 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
33597017 CCTTGATAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:33597169 original size:35 final size:35
Alignment explanation
Indices: 33597130--33597205 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
33597120 GAGTGCGTGT
* * *
33597130 GATGATATTGAAGTGTGCAAGTAGAG-AGTGCACAC
1 GATGATATAGAAATATGCAAGTAG-GCAGTGCACAC
* *
33597165 GATGATATAGAAATATGCGAGTAGGCAGTGCACAT
1 GATGATATAGAAATATGCAAGTAGGCAGTGCACAC
33597200 GATGAT
1 GATGAT
33597206 GTTGCCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.24
Consensus pattern (35 bp):
GATGATATAGAAATATGCAAGTAGGCAGTGCACAC
Found at i:33608903 original size:118 final size:118
Alignment explanation
Indices: 33608775--33609181 Score: 362
Period size: 118 Copynumber: 3.5 Consensus size: 118
33608765 AATGCCTAAT
* * * * ** * * *
33608775 AACTAGTGAACAAATGCCCCTAAATAAGAGGTGAATTGCACAAGTCACGTGCCATCGCTCTCGCA
1 AACTACTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACGTGCAACCACTCTCGCA
* * * * * * *
33608840 ATATATAACAATAAGTCACGTAATACATAAAAATTAATAACGTAATCCTAAAA
66 ATAAATAACAACAAGTAACGCAATACATAAAAATCAATAACGCAACCCTAAAA
* *
33608893 AACTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGTGCAACCATTCTCGCA
1 AACTACTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACGTGCAACCACTCTCGCA
* * * * *
33608958 ATAAATAACAACAGGTAACGCAATATATAAAAATCAGTCACGCAACCCTCAAA
66 ATAAATAACAACAAGTAACGCAATACATAAAAATCAATAACGCAACCCTAAAA
* ** * * * *
33609011 AAC-ACTGAACAAAAGACTTTAAACAACACATAAATTGCACAAGTCA--AGC-ACCAC-CACTC-
1 AACTACTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACGTGCAACCACTCTCGCA
** * * * * * * *
33609070 AT-GCT-ACAATAGGTAACGCAATATATAAAAACCAATCACGTAAGCCTAAAA
66 ATAAATAACAACAAGTAACGCAATACATAAAAATCAATAACGCAACCCTAAAA
* * * * *
33609121 AACTACTGAACAAAAGCCTCAAAACAATACATGAATTGCACAAGTCACGCGCCACCACTCT
1 AACTACTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACGTGCAACCACTCT
33609182 TGCTACAACA
Statistics
Matches: 239, Mismatches: 45, Indels: 13
0.80 0.15 0.04
Matches are distributed among these distances:
110 43 0.18
111 39 0.16
112 2 0.01
113 5 0.02
114 9 0.04
115 3 0.01
117 40 0.17
118 98 0.41
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.19
Consensus pattern (118 bp):
AACTACTGAACAAAAGCCCCTAAACAACACATGAATTGCACAAGTCACGTGCAACCACTCTCGCA
ATAAATAACAACAAGTAACGCAATACATAAAAATCAATAACGCAACCCTAAAA
Found at i:33609167 original size:111 final size:110
Alignment explanation
Indices: 33608886--33609279 Score: 439
Period size: 111 Copynumber: 3.5 Consensus size: 110
33608876 ATAACGTAAT
* *
33608886 CCTAAAAAACTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGTGCAACCAT
1 CCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCA--AGC-ACCA-
* * * ** * *
33608951 TCTCGCAATAAATAACAACAGGTAACGCAATATATAAAAATCAGTCACGCAA
62 CCACTC-AT-GCT-ACAACAGGTAACGCAATATATAAAAACCAATCACGCAA
* * ** *
33609003 CCCTCAAAAAC-ACTGAACAAAAGACTTTAAACAACACATAAATTGCACAAGTCAAGCACCACCA
1 -CCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAGCACCACCA
* *
33609067 CTCATGCTACAATAGGTAACGCAATATATAAAAACCAATCACGTAA
65 CTCATGCTACAACAGGTAACGCAATATATAAAAACCAATCACGCAA
* * *
33609113 GCCTAAAAAACTACTGAACAAAAGCCTCAAAACAATACATGAATTGCACAAGTCACGCGCCACCA
1 -CCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAGCACCACCA
* * *
33609178 CTCTTGCTACAACAGGTAACACAATATATAAAAACCAGTCACGCACTA
65 CTCATGCTACAACAGGTAACGCAATATATAAAAACCAATCACGCA--A
* * ** *
33609226 CTTAAAAAACTACTGAATAAAAGCCTCAAAGTAACACATGAATTGTACAAGTCA
1 CCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCA
33609280 GTCACGCACC
Statistics
Matches: 239, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
110 43 0.18
111 87 0.36
112 50 0.21
113 4 0.02
114 4 0.02
115 2 0.01
117 40 0.17
118 9 0.04
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (110 bp):
CCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAGCACCACCAC
TCATGCTACAACAGGTAACGCAATATATAAAAACCAATCACGCAA
Found at i:33609955 original size:30 final size:30
Alignment explanation
Indices: 33609919--33609978 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33609909 TCTCCTGCTG
* *
33609919 GAATATGTGCAATTGGTCCCTAACACTCAA
1 GAATATGTGCAACTAGTCCCTAACACTCAA
* *
33609949 GAATATGTGCAACTAGTCCTTCACACTCAA
1 GAATATGTGCAACTAGTCCCTAACACTCAA
33609979 TAGCACCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (30 bp):
GAATATGTGCAACTAGTCCCTAACACTCAA
Found at i:33612189 original size:21 final size:20
Alignment explanation
Indices: 33612165--33612243 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 20
33612155 ACAAAATATA
33612165 TTACACACCATGATTAGGTTG
1 TTACACACCATG-TTAGGTTG
* **
33612186 TTACATACCATGTGTAAAAATATG
1 TTACACACCATGT-T--AGGT-TG
* *
33612210 TGACACTCCATGGTTAGGTTG
1 TTACACACCAT-GTTAGGTTG
33612231 TTACACACCATGT
1 TTACACACCATGT
33612244 ATAGAAACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
20 3 0.07
21 23 0.53
22 2 0.05
23 2 0.05
24 11 0.26
25 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (20 bp):
TTACACACCATGTTAGGTTG
Found at i:33612256 original size:45 final size:45
Alignment explanation
Indices: 33612150--33612452 Score: 256
Period size: 45 Copynumber: 6.6 Consensus size: 45
33612140 TGTTGCACGT
* * * *
33612150 CATGTACAAAATATAT-T-ACACACCATGATTAGGTTGTTACATAC
1 CATGTACAAAA-ACATGTGACACGCCATGGTTAGGTTGTTACACAC
** * *
33612194 CATGTGTAAAAATATGTGACACTCCATGGTTAGGTTGTTACACAC
1 CATGTACAAAAACATGTGACACGCCATGGTTAGGTTGTTACACAC
* * * ** * *
33612239 CATGTATAGAAACATGTGACACGCCAT-GTACAGAAACATGTGACACGC
1 CATGTACAAAAACATGTGACACGCCATGGT-TAG---GTTGTTACACAC
* * * *
33612287 CATATACAAAAACATGTGACACACCATGGTTAAGTTGTTACACAT
1 CATGTACAAAAACATGTGACACGCCATGGTTAGGTTGTTACACAC
* * **
33612332 CATGTACAAAAACATGTGACACGCCAT-G-TATGGAAACATGTGACATGC
1 CATGTACAAAAACATGTGACACGCCATGGTTA-GG----TTGTTACACAC
33612380 CATGTACAAAAACATGTGACACGCCATGGTTAGGTTGTTACACAC
1 CATGTACAAAAACATGTGACACGCCATGGTTAGGTTGTTACACAC
* *
33612425 CATGTACAGAAACATGTGACACGTCATG
1 CATGTACAAAAACATGTGACACGCCATG
33612453 TACAAAAACA
Statistics
Matches: 206, Mismatches: 39, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.03
44 14 0.07
45 114 0.55
48 65 0.32
49 5 0.02
50 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (45 bp):
CATGTACAAAAACATGTGACACGCCATGGTTAGGTTGTTACACAC
Found at i:33612260 original size:24 final size:24
Alignment explanation
Indices: 33612233--33612475 Score: 198
Period size: 24 Copynumber: 10.4 Consensus size: 24
33612223 TTAGGTTGTT
* *
33612233 ACACACCATGTATAGAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
33612257 ACACGCCATGTACAGAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
* *
33612281 ACACGCCATATACAAAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
* * *
33612305 ACACACCATGGTTA-AG----TTGTT
1 ACACGCCAT-G-TACAGAAACATGTG
** *
33612326 ACACATCATGTACAAAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
**
33612350 ACACGCCATGTATGGAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
* *
33612374 ACATGCCATGTACAAAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
* ** *
33612398 ACACGCCATGGT-TAG---GTTGTT
1 ACACGCCAT-GTACAGAAACATGTG
*
33612419 ACACACCATGTACAGAAACATGTG
1 ACACGCCATGTACAGAAACATGTG
* * *
33612443 ACACGTCATGTACAAAAACATGTA
1 ACACGCCATGTACAGAAACATGTG
33612467 ACACGCCAT
1 ACACGCCAT
33612476 AGTTAGGTTG
Statistics
Matches: 169, Mismatches: 38, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
19 2 0.01
20 4 0.02
21 24 0.14
24 134 0.79
25 3 0.02
26 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (24 bp):
ACACGCCATGTACAGAAACATGTG
Found at i:33612360 original size:93 final size:93
Alignment explanation
Indices: 33612201--33612476 Score: 426
Period size: 93 Copynumber: 3.0 Consensus size: 93
33612191 TACCATGTGT
* * *
33612201 AAAAATATGTGACACTCCATGGTTAGGTTGTTACACACCATGTATAGAAACATGTGACACGCCAT
1 AAAAACATGTGACACACCATGGTTAGGTTGTTACACACCATGTACAGAAACATGTGACACGCCAT
33612266 GTACAGAAACATGTGACACGCCATATAC
66 GTACAGAAACATGTGACACGCCATATAC
* * *
33612294 AAAAACATGTGACACACCATGGTTAAGTTGTTACACATCATGTACAAAAACATGTGACACGCCAT
1 AAAAACATGTGACACACCATGGTTAGGTTGTTACACACCATGTACAGAAACATGTGACACGCCAT
** * *
33612359 GTATGGAAACATGTGACATGCCATGTAC
66 GTACAGAAACATGTGACACGCCATATAC
* *
33612387 AAAAACATGTGACACGCCATGGTTAGGTTGTTACACACCATGTACAGAAACATGTGACACGTCAT
1 AAAAACATGTGACACACCATGGTTAGGTTGTTACACACCATGTACAGAAACATGTGACACGCCAT
* *
33612452 GTACAAAAACATGTAACACGCCATA
66 GTACAGAAACATGTGACACGCCATA
33612477 GTTAGGTTGT
Statistics
Matches: 162, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (93 bp):
AAAAACATGTGACACACCATGGTTAGGTTGTTACACACCATGTACAGAAACATGTGACACGCCAT
GTACAGAAACATGTGACACGCCATATAC
Found at i:33612430 original size:69 final size:69
Alignment explanation
Indices: 33612350--33612554 Score: 221
Period size: 69 Copynumber: 2.9 Consensus size: 69
33612340 AAAACATGTG
* ** * * *
33612350 ACACGCCATGTATGGAAACATGTGACATGCCATGTACAAAAACATGTGACACGCCATGGTTAGGT
1 ACACACCATGTACAGAAACATGTGACACGCCATGTACAAAAACATGTAACACGCCATAGTTAGGT
33612415 TGTT
66 TGTT
*
33612419 ACACACCATGTACAGAAACATGTGACACGTCATGTACAAAAACATGTAACACGCCATAGTTAGGT
1 ACACACCATGTACAGAAACATGTGACACGCCATGTACAAAAACATGTAACACGCCATAGTTAGGT
33612484 TGTT
66 TGTT
** * * * * * * *
33612488 ACACGTCATGCTAAAAAAATACTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATGGT
1 ACACACCATG-TACAGAAACA-TG-TG--ACACGCCATGTACAAAAACATGTAACACGCCATAGT
33612553 TA
61 TA
33612555 AAAAAGGTTG
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
69 70 0.61
70 7 0.06
71 2 0.02
72 2 0.02
74 33 0.29
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (69 bp):
ACACACCATGTACAGAAACATGTGACACGCCATGTACAAAAACATGTAACACGCCATAGTTAGGT
TGTT
Found at i:33612568 original size:26 final size:24
Alignment explanation
Indices: 33612511--33612585 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
33612501 AAAAAATACT
33612511 GTTGTTACACGCCATG-TACAAAAA
1 GTTGTTACACGCCATGTTA-AAAAA
*
33612535 -TATATTACACGCCATGGTTAAAAAA
1 GT-TGTTACACGCCAT-GTTAAAAAA
*
33612560 GGTTGTTACACGTCATGTTGAAAAAA
1 -GTTGTTACACGCCATGTT-AAAAAA
33612586 AAATATTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 1 0.02
24 12 0.29
25 9 0.21
26 19 0.45
27 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (24 bp):
GTTGTTACACGCCATGTTAAAAAA
Found at i:33612688 original size:169 final size:168
Alignment explanation
Indices: 33612498--33612852 Score: 626
Period size: 169 Copynumber: 2.1 Consensus size: 168
33612488 ACACGTCATG
*
33612498 CTAAAAAAATACTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATGGTTAAAAAAGGT
1 CTAAAAAAATATTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATGGTTAAAAAAGGT
* *
33612563 TGTTACACGTCATGTTGAAAAAAAAATATTGTTGTTGCACGTCATGTTGAAAAAATATTATTATT
66 TGTTACACGTCATGTTGAAAAAAAAA-ATTGTTGTTACACATCATGTTGAAAAAATATTATTATT
*
33612628 ACACGCCATATTCAAAAATATTTTGTTACACTTTAATGT
130 ACACGCCATATTCAAAAACATTTTGTTACACTTTAATGT
*
33612667 CTAAAAAAATATTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATTGTTAAAAAAGGT
1 CTAAAAAAATATTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATGGTTAAAAAAGGT
33612732 TGTTACACGTCATGTTGAAAAAAAAAATTGTTGTTACACATCATGTTGAAAAAATATTATTATTA
66 TGTTACACGTCATGTTGAAAAAAAAAATTGTTGTTACACATCATGTTGAAAAAATATTATTATTA
*
33612797 CACGTCATATTCAAAAACATTTTGTTACACTTTAATGT
131 CACGCCATATTCAAAAACATTTTGTTACACTTTAATGT
33612835 CT---AAAATATTGTTGTTAC
1 CTAAAAAAATATTGTTGTTAC
33612853 TTGTGAACCA
Statistics
Matches: 180, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
165 16 0.09
168 75 0.42
169 89 0.49
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (168 bp):
CTAAAAAAATATTGTTGTTACACGCCATGTACAAAAATATATTACACGCCATGGTTAAAAAAGGT
TGTTACACGTCATGTTGAAAAAAAAAATTGTTGTTACACATCATGTTGAAAAAATATTATTATTA
CACGCCATATTCAAAAACATTTTGTTACACTTTAATGT
Found at i:33612737 original size:26 final size:24
Alignment explanation
Indices: 33612680--33612754 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
33612670 AAAAAATATT
33612680 GTTGTTACACGCCATG-TACAAAAA
1 GTTGTTACACGCCATGTTA-AAAAA
*
33612704 -TATATTACACGCCATTGTTAAAAAA
1 GT-TGTTACACGCCA-TGTTAAAAAA
*
33612729 GGTTGTTACACGTCATGTTGAAAAAA
1 -GTTGTTACACGCCATGTT-AAAAAA
33612755 AAAATTGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 1 0.02
24 11 0.26
25 11 0.26
26 18 0.43
27 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (24 bp):
GTTGTTACACGCCATGTTAAAAAA
Found at i:33612797 original size:29 final size:29
Alignment explanation
Indices: 33612482--33612826 Score: 180
Period size: 29 Copynumber: 12.3 Consensus size: 29
33612472 CCATAGTTAG
* * *
33612482 GTTGTTACACGTCATGCTAAAAAAATACT
1 GTTGTTACACGTCATGTTGAAAAAATATT
*
33612511 GTTGTTACACGCCATG-T-ACAAAAATA--
1 GTTGTTACACGTCATGTTGA-AAAAATATT
* * *
33612537 --TATTACACGCCATGGTT--AAAAA-A-G
1 GTTGTTACACGTCAT-GTTGAAAAAATATT
33612561 GTTGTTACACGTCATGTTGAAAAAAAAATATT
1 GTTGTTACACGTCATGTTG---AAAAAATATT
*
33612593 GTTGTTGCACGTCATGTTGAAAAAATATT
1 GTTGTTACACGTCATGTTGAAAAAATATT
* * * * *
33612622 ATTATTACACGCCATATT-CAAAAATATT
1 GTTGTTACACGTCATGTTGAAAAAATATT
* * *
33612650 -TTGTTACACTTTAATGTCTAAAAAAATATT
1 GTTGTTACAC-GTCATGT-TGAAAAAATATT
*
33612680 GTTGTTACACGCCATG-T-ACAAAAATA--
1 GTTGTTACACGTCATGTTGA-AAAAATATT
* * *
33612706 --TATTACACGCCATTGTT--AAAAA-A-G
1 GTTGTTACACGTCA-TGTTGAAAAAATATT
*
33612730 GTTGTTACACGTCATGTTGAAAAAAAAAATT
1 GTTGTTACACGTCATGTTG--AAAAAATATT
*
33612761 GTTGTTACACATCATGTTGAAAAAATATT
1 GTTGTTACACGTCATGTTGAAAAAATATT
* * * * *
33612790 ATTATTACACGTCATATT-CAAAAACATT
1 GTTGTTACACGTCATGTTGAAAAAATATT
33612818 -TTGTTACAC
1 GTTGTTACAC
33612827 TTTAATGTCT
Statistics
Matches: 253, Mismatches: 34, Indels: 60
0.73 0.10 0.17
Matches are distributed among these distances:
23 2 0.01
24 33 0.13
25 10 0.04
26 23 0.09
27 18 0.07
28 36 0.14
29 67 0.26
30 18 0.07
31 28 0.11
32 18 0.07
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (29 bp):
GTTGTTACACGTCATGTTGAAAAAATATT
Found at i:33613233 original size:23 final size:23
Alignment explanation
Indices: 33613201--33613246 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33613191 CTTGGTGTCT
*
33613201 TGAAAGTGCAAGAAAGAGAAATC
1 TGAAAATGCAAGAAAGAGAAATC
* *
33613224 TGAAAATGCAGGAGAGAGAAATC
1 TGAAAATGCAAGAAAGAGAAATC
33613247 AGAAGCATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.28, T:0.13
Consensus pattern (23 bp):
TGAAAATGCAAGAAAGAGAAATC
Found at i:33617725 original size:3 final size:3
Alignment explanation
Indices: 33617717--33617746 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33617707 CTGGAGCCCA
33617717 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33617747 CTATGGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:33624213 original size:24 final size:24
Alignment explanation
Indices: 33624181--33624228 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33624171 AAAGCCAGAG
*
33624181 ATGCCTTTCCTCTATTTAATGAAT
1 ATGCCTTTCCTATATTTAATGAAT
33624205 ATGCCTTTCCTATATTTAATGAAT
1 ATGCCTTTCCTATATTTAATGAAT
33624229 TGTCAAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (24 bp):
ATGCCTTTCCTATATTTAATGAAT
Found at i:33627949 original size:16 final size:15
Alignment explanation
Indices: 33627932--33627992 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 15
33627922 TTAATCATAG
33627932 AAAAAAAAAAGAATA
1 AAAAAAAAAAGAATA
*
33627947 GAAAAGAAAAAGTAA-A
1 -AAAAAAAAAAG-AATA
*
33627963 AAAATAAAAAATTAATA
1 AAAA-AAAAAA-GAATA
33627980 AAAAAACAAAAGA
1 AAAAAA-AAAAGA
33627993 CAAATACCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
15 4 0.11
16 21 0.58
17 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAGAATA
Found at i:33627998 original size:19 final size:19
Alignment explanation
Indices: 33627948--33627998 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
33627938 AAAAGAATAG
*
33627948 AAAAGAAAAAGTAAAAAAAT
1 AAAAGAAAAA-TAAAAAAAC
*
33627968 AAAA-AATTAATAAAAAAAC
1 AAAAGAA-AAATAAAAAAAC
*
33627987 AAAAGACAAATA
1 AAAAGAAAAATA
33627999 CCTAAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAGAAAAATAAAAAAAC
Found at i:33649582 original size:32 final size:32
Alignment explanation
Indices: 33649546--33649610 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
33649536 AACAAAAAAT
33649546 TAACTTCTCAACGCATCAACCGGAAACAAGGC
1 TAACTTCTCAACGCATCAACCGGAAACAAGGC
33649578 TAACTTCTCAACGCATCAACCGGAAACAAGGC
1 TAACTTCTCAACGCATCAACCGGAAACAAGGC
33649610 T
1 T
33649611 TTGGCTCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (32 bp):
TAACTTCTCAACGCATCAACCGGAAACAAGGC
Found at i:33653791 original size:30 final size:31
Alignment explanation
Indices: 33653755--33653817 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33653745 CCAAATTCCC
*
33653755 ACTTAAAATGGAA-ATCCACATAGATTTTCA
1 ACTTAAAATGGAAGATCCACATAGAATTTCA
* *
33653785 ACTTAAAATGGAAGATTCACATTGAATTTCA
1 ACTTAAAATGGAAGATCCACATAGAATTTCA
33653816 AC
1 AC
33653818 AAATATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (31 bp):
ACTTAAAATGGAAGATCCACATAGAATTTCA
Found at i:33658393 original size:30 final size:30
Alignment explanation
Indices: 33658327--33658400 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
33658317 GAGAAAATTT
* *
33658327 AAATAAATTTTTAT-TTTTTAATTATATTT
1 AAATAAATTTTTATATTTTTAATTATAATG
* *
33658356 AATTAAATTTTTATATTTTT-ATTTTAGATG
1 AAATAAATTTTTATATTTTTAATTATA-ATG
*
33658386 AAATAAATCTTTATA
1 AAATAAATTTTTATA
33658401 ATTAACAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (30 bp):
AAATAAATTTTTATATTTTTAATTATAATG
Found at i:33663368 original size:18 final size:18
Alignment explanation
Indices: 33663347--33663405 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
33663337 ATAACCAGCT
33663347 GGTGGATATCCACCATGC
1 GGTGGATATCCACCATGC
33663365 GGTGGATA---ACCA-GC
1 GGTGGATATCCACCATGC
33663379 TGGTGGATATCCACCATGC
1 -GGTGGATATCCACCATGC
33663398 GGTGGATA
1 GGTGGATA
33663406 CGCAGCTGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.06
15 12 0.33
18 20 0.56
19 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (18 bp):
GGTGGATATCCACCATGC
Found at i:33663377 original size:33 final size:33
Alignment explanation
Indices: 33663335--33663414 Score: 144
Period size: 33 Copynumber: 2.4 Consensus size: 33
33663325 AAGCCTACCA
33663335 GGATAACCAGCTGGTGGATATCCACCATGCGGT
1 GGATAACCAGCTGGTGGATATCCACCATGCGGT
33663368 GGATAACCAGCTGGTGGATATCCACCATGCGGT
1 GGATAACCAGCTGGTGGATATCCACCATGCGGT
33663401 GGAT-ACGCAGCTGG
1 GGATAAC-CAGCTGG
33663415 AGGGTGTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 2 0.04
33 44 0.96
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.20
Consensus pattern (33 bp):
GGATAACCAGCTGGTGGATATCCACCATGCGGT
Found at i:33663383 original size:15 final size:15
Alignment explanation
Indices: 33663335--33663387 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
33663325 AAGCCTACCA
33663335 GGATAACCAGCTGGT
1 GGATAACCAGCTGGT
33663350 GGATATCCACCATGC-GGT
1 GGATA---ACCA-GCTGGT
33663368 GGATAACCAGCTGGT
1 GGATAACCAGCTGGT
33663383 GGATA
1 GGATA
33663388 TCCACCATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.06
15 17 0.52
18 12 0.36
19 2 0.06
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (15 bp):
GGATAACCAGCTGGT
Found at i:33663470 original size:18 final size:18
Alignment explanation
Indices: 33663449--33663498 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
33663439 TCCAGTAGGT
*
33663449 GGATATCCGCCAGGAGGA
1 GGATATCCACCAGGAGGA
*
33663467 GGATATCCACCTGGAGGA
1 GGATATCCACCAGGAGGA
* *
33663485 GGGTATCCAGCAGG
1 GGATATCCACCAGG
33663499 TGGGTAGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.38, T:0.14
Consensus pattern (18 bp):
GGATATCCACCAGGAGGA
Found at i:33663748 original size:14 final size:15
Alignment explanation
Indices: 33663723--33663760 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
33663713 AACACACTTC
*
33663723 AAAGAGAAATATT-GA
1 AAAGA-AAATATTAAA
33663738 AAAGAAAATATTAAA
1 AAAGAAAATATTAAA
33663753 AAAGAAAA
1 AAAGAAAA
33663761 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAGAAAATATTAAA
Found at i:33663753 original size:13 final size:15
Alignment explanation
Indices: 33663723--33663759 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
33663713 AACACACTTC
33663723 AAAGAGAAATATTGA
1 AAAGAGAAATATTGA
33663738 AAAGA-AAATATT-A
1 AAAGAGAAATATTGA
*
33663751 AAAAAGAAA
1 AAAGAGAAA
33663760 AAAAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 10 0.50
15 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (15 bp):
AAAGAGAAATATTGA
Found at i:33663887 original size:2 final size:2
Alignment explanation
Indices: 33663880--33663909 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33663870 TTCTTAAGAT
*
33663880 AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
33663910 TCATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33672476 original size:13 final size:14
Alignment explanation
Indices: 33672458--33672486 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33672448 CACTTGATTC
33672458 TTCTTTTTT-TTTT
1 TTCTTTTTTCTTTT
33672471 TTCTTTTTTCTTTT
1 TTCTTTTTTCTTTT
33672485 TT
1 TT
33672487 ATCATTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTCTTTT
Found at i:33672477 original size:7 final size:7
Alignment explanation
Indices: 33672458--33672486 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
33672448 CACTTGATTC
33672458 TTCTTTT
1 TTCTTTT
33672465 TT-TTTT
1 TTCTTTT
33672471 TTCTTTT
1 TTCTTTT
33672478 TTCTTTT
1 TTCTTTT
33672485 TT
1 TT
33672487 ATCATTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTCTTTT
Found at i:33688375 original size:21 final size:21
Alignment explanation
Indices: 33688309--33688375 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
33688299 TTTAGCATGC
33688309 TCCTTTTCCATTTGCTCTATT
1 TCCTTTTCCATTTGCTCTATT
** * *
33688330 TCCGCTTCCACTTGCTCTCTT
1 TCCTTTTCCATTTGCTCTATT
33688351 TCCTTTTCCATTTGCTCTATT
1 TCCTTTTCCATTTGCTCTATT
33688372 TCCT
1 TCCT
33688376 CCTTTTCTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.07, C:0.34, G:0.06, T:0.52
Consensus pattern (21 bp):
TCCTTTTCCATTTGCTCTATT
Found at i:33688684 original size:14 final size:14
Alignment explanation
Indices: 33688665--33688695 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33688655 ATTTCTATTT
33688665 TCTCCTTTTAGATA
1 TCTCCTTTTAGATA
33688679 TCTCCTTTTAGATA
1 TCTCCTTTTAGATA
33688693 TCT
1 TCT
33688696 TTGGCGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (14 bp):
TCTCCTTTTAGATA
Found at i:33691932 original size:7 final size:7
Alignment explanation
Indices: 33691920--33691946 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33691910 TTTTTTTGTA
33691920 AAAAATT
1 AAAAATT
33691927 AAAAATT
1 AAAAATT
33691934 AAAAATT
1 AAAAATT
33691941 AAAAAT
1 AAAAAT
33691947 ATAATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:33704421 original size:18 final size:18
Alignment explanation
Indices: 33704384--33704434 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
33704374 AGATTAACTA
33704384 TTGATTAAT-ATCTTAAAGG
1 TTGATTAATGATC--AAAGG
33704403 TTGATTAATGATCAAAGG
1 TTGATTAATGATCAAAGG
*
33704421 TTGATTAAAGATCA
1 TTGATTAATGATCA
33704435 TTAGTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 18 0.60
19 9 0.30
20 3 0.10
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (18 bp):
TTGATTAATGATCAAAGG
Found at i:33705322 original size:3 final size:3
Alignment explanation
Indices: 33705303--33705385 Score: 94
Period size: 3 Copynumber: 27.3 Consensus size: 3
33705293 GGACTTGGAG
* * * *
33705303 AGA AAA AGA AGGA AGA AGA AGG AGA AGA AGA AGA GGA AGA GGA AGA
1 AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
33705349 GGA AGA TGA AGA AGA AGA AGA AGG AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
33705386 AATAATGAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:33705407 original size:12 final size:11
Alignment explanation
Indices: 33705304--33705411 Score: 69
Period size: 12 Copynumber: 9.5 Consensus size: 11
33705294 GACTTGGAGA
33705304 GAAA-AAGAAG
1 GAAAGAAGAAG
33705314 G-AAGAAGAAG
1 GAAAGAAGAAG
33705324 GAGAAGAAGAAG
1 GA-AAGAAGAAG
* *
33705336 AGGAAGAGGAAG
1 -GAAAGAAGAAG
* *
33705348 AGGAAGATGAAG
1 -GAAAGAAGAAG
*
33705360 AAGAAGAAGAAG
1 GA-AAGAAGAAG
33705372 GAGAAGAAGAAG
1 GA-AAGAAGAAG
* *
33705384 AAAATAATGAAG
1 GAAAGAA-GAAG
33705396 GCAAAGAAGAA-
1 G-AAAGAAGAAG
33705407 GAAAG
1 GAAAG
33705412 GACTAAGCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
9 2 0.03
10 12 0.15
11 5 0.06
12 55 0.69
13 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.36, T:0.03
Consensus pattern (11 bp):
GAAAGAAGAAG
Found at i:33711270 original size:32 final size:33
Alignment explanation
Indices: 33711228--33711292 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
33711218 CAAAGGAGAA
*
33711228 AGAATTTTTTTTCC-TTTTTAAATTTTCTTTCC
1 AGAATGTTTTTTCCTTTTTTAAATTTTCTTTCC
33711260 AGAATGTTTTTTCCTTTTTTAAATTTTCTTTCC
1 AGAATGTTTTTTCCTTTTTTAAATTTTCTTTCC
33711293 CTTGCTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (33 bp):
AGAATGTTTTTTCCTTTTTTAAATTTTCTTTCC
Found at i:33719650 original size:30 final size:30
Alignment explanation
Indices: 33719605--33719661 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
33719595 AAATGTTTTT
* * *
33719605 TATATTTTTATTTTAAATTAAATAAATTTG
1 TATACTTTAATTTTAAACTAAATAAATTTG
33719635 TATACTTTAATTTTAAACTAAATAAAT
1 TATACTTTAATTTTAAACTAAATAAAT
33719662 CTTTATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (30 bp):
TATACTTTAATTTTAAACTAAATAAATTTG
Found at i:33723222 original size:30 final size:30
Alignment explanation
Indices: 33723186--33723277 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
33723176 AAGAGATGCA
33723186 TTCCAACTTCAACAAAGAGTGTGGATATCT
1 TTCCAACTTCAACAAAGAGTGTGGATATCT
*
33723216 TTCCAACTTCAACAACGAGTGTGGATATCT
1 TTCCAACTTCAACAAAGAGTGTGGATATCT
33723246 TTCCAACTTCAACAAAGAGTGTGGATATCT
1 TTCCAACTTCAACAAAGAGTGTGGATATCT
33723276 TT
1 TT
33723278 GCCTTTGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (30 bp):
TTCCAACTTCAACAAAGAGTGTGGATATCT
Found at i:33726070 original size:2 final size:2
Alignment explanation
Indices: 33726006--33726051 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
33725996 AAGGCACCAA
*
33726006 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33726048 CT CT
1 CT CT
33726052 AGTGGACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:33743493 original size:2 final size:2
Alignment explanation
Indices: 33743486--33743534 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
33743476 TTCTTGCTTT
33743486 TA TA TA TA TA TA T- 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 TA TA TA
33743527 TA TA TA TA
1 TA TA TA TA
33743535 ATTAGTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33759846 original size:20 final size:19
Alignment explanation
Indices: 33759823--33759861 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33759813 CTATTGAACA
33759823 TTCAAGTTAAAACAACAAAG
1 TTCAAGTT-AAACAACAAAG
* *
33759843 TTCATGTTTAACAACAAAG
1 TTCAAGTTAAACAACAAAG
33759862 AAAGAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (19 bp):
TTCAAGTTAAACAACAAAG
Found at i:33763703 original size:2 final size:2
Alignment explanation
Indices: 33763692--33763740 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
33763682 AAATAAATAA
*
33763692 AT AT -T AT AT AT AT A- AT AT AT AT AT -T AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33763731 A- AT AT AT AT A
1 AT AT AT AT AT A
33763741 AACCAGTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33763709 original size:9 final size:9
Alignment explanation
Indices: 33763687--33763741 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
33763677 TGCCAAAATA
*
33763687 AATAAATAT
1 AATATATAT
*
33763696 TATATATAT
1 AATATATAT
33763705 AATATATAT
1 AATATATAT
*
33763714 ATTATATAT
1 AATATATAT
*
33763723 -ATAAATAT
1 AATATATAT
33763731 AATATATAT
1 AATATATAT
33763740 AA
1 AA
33763742 ACCAGTAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATATAT
Found at i:33763712 original size:11 final size:11
Alignment explanation
Indices: 33763696--33763738 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
33763686 AAATAAATAT
33763696 TATATATATAA
1 TATATATATAA
*
33763707 TATATATATTA
1 TATATATATAA
33763718 TATATATA-AA
1 TATATATATAA
33763728 TATAATATATA
1 TAT-ATATATA
33763739 TAAACCAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 4 0.14
11 23 0.82
12 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATATAA
Found at i:33763741 original size:15 final size:15
Alignment explanation
Indices: 33763684--33763742 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
33763674 CCATGCCAAA
33763684 ATAAATA-AATAT-T
1 ATAAATATAATATAT
*
33763697 ATATATATAATATAT
1 ATAAATATAATATAT
33763712 AT--AT-T-ATATAT
1 ATAAATATAATATAT
33763723 ATAAATATAATATAT
1 ATAAATATAATATAT
33763738 ATAAA
1 ATAAA
33763743 CCAGTAGATC
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 8 0.21
12 1 0.03
13 10 0.26
14 6 0.15
15 14 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATATAATATAT
Found at i:33770090 original size:15 final size:16
Alignment explanation
Indices: 33770059--33770091 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33770049 TTTGTGACAA
33770059 AATTATATATAATAAT
1 AATTATATATAATAAT
*
33770075 AATTAT-TATTATAAT
1 AATTATATATAATAAT
33770090 AA
1 AA
33770092 AGAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATATAATAAT
Done.