Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 182 of 378
Found at i:53190364 original size:46 final size:46
Alignment explanation
Indices: 53190297--53190472 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53190287 TATTTGGGCA
53190297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53190343 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53190390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53190436 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53190473 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53190452 original size:93 final size:93
Alignment explanation
Indices: 53190293--53190464 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53190283 GGGATATTTG
* *
53190293 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53190358 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53190386 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53190451 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53190465 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53193481 original size:21 final size:20
Alignment explanation
Indices: 53193447--53193485 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
53193437 AAACTTGTAT
* *
53193447 ATCTATGAATAAACATTCATA
1 ATCTATCAAGAAAC-TTCATA
53193468 ATCTATCAAGAAACTTCA
1 ATCTATCAAGAAACTTCA
53193486 AAATACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (20 bp):
ATCTATCAAGAAACTTCATA
Found at i:53196294 original size:43 final size:43
Alignment explanation
Indices: 53196219--53196334 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
53196209 GTACCAATGT
53196219 AATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC
1 AATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC
* *
53196262 AATAACCCAGCTATGGTCTTAC-TCG-AAGTCTCATATCGATGCC
1 AATATCCCAGATATGGTCTTACAT-GTAA-TCTCATATCGATGCC
*
53196305 -ATATCCCAGATATGGTCTTACACGTAATCT
1 AATATCCCAGATATGGTCTTACATGTAATCT
53196335 TAGTAACCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 26 0.41
43 38 0.59
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
AATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC
Found at i:53203678 original size:31 final size:31
Alignment explanation
Indices: 53203640--53203700 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
53203630 TTTCATATTT
53203640 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
53203671 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
53203701 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:53203943 original size:24 final size:24
Alignment explanation
Indices: 53203907--53204033 Score: 197
Period size: 23 Copynumber: 5.4 Consensus size: 24
53203897 CTGGAGGCCT
*
53203907 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
53203932 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
53203956 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
53203979 AGCCCTTTTGATAACT-GGGTATA
1 AGCCCTTTTAATAACTGGGGCATA
53204002 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
53204025 AGCCCTTTT
1 AGCCCTTTT
53204034 TCACTTCCTC
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
22 9 0.10
23 45 0.48
24 36 0.38
25 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:53204107 original size:20 final size:20
Alignment explanation
Indices: 53204082--53204148 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
53204072 TTATGATTAC
53204082 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
53204102 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53204122 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53204142 ACCATGT
1 ATCATGT
53204149 TTATCAAAAT
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:53204113 original size:11 final size:11
Alignment explanation
Indices: 53204082--53204137 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
53204072 TTATGATTAC
53204082 ATCATGTGCAT
1 ATCATGTGCAT
*
53204093 ATCA--TACAT
1 ATCATGTGCAT
53204102 ATCATGTGCAT
1 ATCATGTGCAT
*
53204113 ATCA--TACAT
1 ATCATGTGCAT
*
53204122 GTCATGTGCAT
1 ATCATGTGCAT
53204133 ATCAT
1 ATCAT
53204138 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:53204217 original size:25 final size:25
Alignment explanation
Indices: 53204185--53204232 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53204175 ATACATAAAC
* * *
53204185 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
53204210 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
53204233 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:53207851 original size:43 final size:42
Alignment explanation
Indices: 53207788--53207899 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
53207778 TACCGTACTA
* * *
53207788 ATGCCATATCCCTGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGCTATGGTCTTACATG-AAGTCTCATATCG
*
53207830 ATGCCA-ATGGCCTAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATAT--CCCAGCTATGGTCTTACATGAAGTCTCATATCG
*
53207873 ATGCCATATCCCAGGTATGGTCTTACA
1 ATGCCATATCCCAGCTATGGTCTTACA
53207900 CGCAATCTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.03
42 24 0.40
43 32 0.53
44 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGCTATGGTCTTACATGAAGTCTCATATCG
Found at i:53215025 original size:10 final size:10
Alignment explanation
Indices: 53215013--53215047 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
53215003 TGAATAGAAG
*
53215013 AAAGAAAAAG
1 AAAGAAAAAA
53215023 AAAGAAAAAAA
1 AAAG-AAAAAA
53215034 AAAGAAAAAA
1 AAAGAAAAAA
53215044 AAAG
1 AAAG
53215048 CTCTCATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:53215037 original size:11 final size:11
Alignment explanation
Indices: 53215013--53215046 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
53215003 TGAATAGAAG
*
53215013 AAAG-AAAAAG
1 AAAGAAAAAAA
53215023 AAAGAAAAAAA
1 AAAGAAAAAAA
53215034 AAAGAAAAAAA
1 AAAGAAAAAAA
53215045 AA
1 AA
53215047 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:53215037 original size:15 final size:14
Alignment explanation
Indices: 53215017--53215046 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
53215007 TAGAAGAAAG
53215017 AAAAAGAAAGAAAAA
1 AAAAAGAAA-AAAAA
53215032 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
53215046 A
1 A
53215047 GCTCTCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:53216369 original size:40 final size:39
Alignment explanation
Indices: 53216279--53216482 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 39
53216269 TCGAATGATG
* *
53216279 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTATA
* *
53216319 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * *
53216358 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
53216398 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* * **
53216438 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATA
53216478 TCCGG
1 TCCGG
53216483 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.26
40 93 0.66
41 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:53216485 original size:79 final size:79
Alignment explanation
Indices: 53216332--53216496 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
53216322 GGACTAAGAT
* **
53216332 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
53216397 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53216411 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
53216474 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53216490 CCGAAGG
1 CCGAAGG
53216497 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53222788 original size:40 final size:39
Alignment explanation
Indices: 53222744--53222869 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
53222734 GGGACTCAAC
*
53222744 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
53222784 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
53222824 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
53222864 CCGGAT
1 CCGGAT
53222870 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:53229318 original size:15 final size:15
Alignment explanation
Indices: 53229294--53229330 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
53229284 TCGTATCTTA
*
53229294 GGTTTCTTTATTCTG
1 GGTTTTTTTATTCTG
53229309 GGTTTTTTTATTCTG
1 GGTTTTTTTATTCTG
53229324 GGTTTTT
1 GGTTTTT
53229331 CTATCTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.08, G:0.22, T:0.65
Consensus pattern (15 bp):
GGTTTTTTTATTCTG
Found at i:53231573 original size:26 final size:26
Alignment explanation
Indices: 53231544--53231625 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
53231534 TATGATCACG
53231544 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
53231570 TGTGTATTA-GATGGTG-AGG-TCAC-G
1 TGTGTAGTACTA-AGTGCAGGCT-ACTA
53231594 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
53231620 CGTGTA
1 TGTGTA
53231626 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 17 0.41
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:53231611 original size:50 final size:49
Alignment explanation
Indices: 53231493--53231670 Score: 189
Period size: 50 Copynumber: 3.6 Consensus size: 49
53231483 TGAGGTCGCA
* * * * *
53231493 TGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGAAAACTAT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CC--AGACTGTAGGTCACG
**
53231544 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-GT-AGGTCACG
* * * *
53231594 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTAGGTCACG
*
53231643 TGTGTAGTACTAAGTGCAGGCTATTATG
1 TGTGTAGTACTAAGTGCAGGCTACTATG
53231671 CATACTAGAT
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 31 0.29
50 42 0.39
51 31 0.29
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTAGGTCACG
Found at i:53231812 original size:39 final size:39
Alignment explanation
Indices: 53231769--53231912 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
53231759 TCTATCACGC
*
53231769 AGCCTGCGGACCTTAAGTCTGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCTGGATATAATTCCAGCACAT
*
53231808 AGCCTGCGGACCTTAAGTCTGAATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCTGGATATAATTCCAGCACAT
* *
53231847 AGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCTGGATATAATTCCAGCACAT
*
53231886 AGCCTGCGGACCTTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCTGGATATA
53231913 CTTCATCACT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCTGGATATAATTCCAGCACAT
Found at i:53239991 original size:39 final size:39
Alignment explanation
Indices: 53239938--53240091 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
53239928 CAGGACATGT
* *
53239938 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
53239977 TTCCGGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* * * *
53240016 TTCTAGCACATAGCCTGTGGACCTTCAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
53240055 TTCCAGCACATAGCCTGCGG-CCTTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
53240092 CTTCATCAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 15 0.15
39 88 0.85
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:53245413 original size:17 final size:16
Alignment explanation
Indices: 53245391--53245424 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53245381 CCGAACCTAG
53245391 CTTTTGTTGTTTCTTTT
1 CTTTTGTT-TTTCTTTT
*
53245408 CTTTTGTTTTTGTTTT
1 CTTTTGTTTTTCTTTT
53245424 C
1 C
53245425 GATGGAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (16 bp):
CTTTTGTTTTTCTTTT
Found at i:53247045 original size:16 final size:16
Alignment explanation
Indices: 53247019--53247058 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
53247009 ACATGTAACG
*
53247019 CCCCAAAAATCTCGAAA
1 CCCC-AAAATCCCGAAA
53247036 CCCCAAAATCCCGAAA
1 CCCCAAAATCCCGAAA
*
53247052 TCCCAAA
1 CCCCAAA
53247059 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.45, C:0.40, G:0.05, T:0.10
Consensus pattern (16 bp):
CCCCAAAATCCCGAAA
Found at i:53247702 original size:19 final size:21
Alignment explanation
Indices: 53247674--53247716 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
53247664 TTTGTTTTTC
*
53247674 TTTCTTTTCTTCT-TGC-CAA
1 TTTCTATTCTTCTCTGCACAA
53247693 TTTCTATTCTTCTCTGCACAA
1 TTTCTATTCTTCTCTGCACAA
53247714 TTT
1 TTT
53247717 TTTTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 3 0.14
21 6 0.29
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTCTATTCTTCTCTGCACAA
Found at i:53248399 original size:29 final size:29
Alignment explanation
Indices: 53248350--53248427 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53248340 AGCATGATTC
*
53248350 TGAATGTGATTTGGGCCTAATGGACCATA
1 TGAATGTGATTTGGGCTTAATGGACCATA
*
53248379 T-ACATGTGATTTGGGCTTAATGGGCCATA
1 TGA-ATGTGATTTGGGCTTAATGGACCATA
*
53248408 TGAATATGA-TTGGGCTTAAT
1 TGAATGTGATTTGGGCTTAAT
53248428 AGGCCAGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 12 0.27
29 31 0.70
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (29 bp):
TGAATGTGATTTGGGCTTAATGGACCATA
Found at i:53251323 original size:16 final size:17
Alignment explanation
Indices: 53251302--53251340 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
53251292 GTTGTAACGC
*
53251302 CCCAAAAATCTCGAAA-
1 CCCAAAAATCCCGAAAT
53251318 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
53251335 CCCAAA
1 CCCAAA
53251341 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:53258987 original size:12 final size:12
Alignment explanation
Indices: 53258970--53259004 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
53258960 GAAGCTGTGC
53258970 ACCAGGTAGGAA
1 ACCAGGTAGGAA
53258982 ACCAGGTAGGAA
1 ACCAGGTAGGAA
*
53258994 ACCAGGAAGGA
1 ACCAGGTAGGA
53259005 GAGGAGGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.34, T:0.06
Consensus pattern (12 bp):
ACCAGGTAGGAA
Found at i:53264941 original size:34 final size:34
Alignment explanation
Indices: 53264898--53264965 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
53264888 GCATTTCTAT
*
53264898 TACTGTTACTGGGAT-GGGCTAAGG-CCTACATTGA
1 TACTGTTACT-GAATAGGGCTAAGGCCCTA-ATTGA
53264932 TACTGTTACTGAATAGGGCTAAGGCCCTAATTGA
1 TACTGTTACTGAATAGGGCTAAGGCCCTAATTGA
53264966 GATTGAACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 3 0.10
34 24 0.77
35 4 0.13
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (34 bp):
TACTGTTACTGAATAGGGCTAAGGCCCTAATTGA
Found at i:53279987 original size:29 final size:29
Alignment explanation
Indices: 53279951--53280056 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
53279941 GTCGTAATCG
***
53279951 TCCCTTTTCATATTTGATGGTTAAAACCA
1 TCCCTTTTCATATTTGATGGTTGTCACCA
* * * * *
53279980 TCCTTTTTCATTAATCGATGGTCGTCACTA
1 TCCCTTTTCA-TATTTGATGGTTGTCACCA
*
53280010 TCCCTTTTCATAGTTGATGGTTGTCACCA
1 TCCCTTTTCATATTTGATGGTTGTCACCA
53280039 TCCCTTTTCATATTTGAT
1 TCCCTTTTCATATTTGAT
53280057 AGCCGAAGCT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 41 0.66
30 21 0.34
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (29 bp):
TCCCTTTTCATATTTGATGGTTGTCACCA
Found at i:53282099 original size:43 final size:43
Alignment explanation
Indices: 53282051--53282205 Score: 256
Period size: 43 Copynumber: 3.6 Consensus size: 43
53282041 CCGGCATTAC
**
53282051 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
53282094 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
53282137 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
53282180 GCCTGCTAGGCACGAAGGGCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
53282206 TAATACCAGC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:53282246 original size:38 final size:38
Alignment explanation
Indices: 53282203--53282277 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
53282193 GAAGGGCCGA
* * *
53282203 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
53282241 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
53282278 AATAAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:53287956 original size:20 final size:20
Alignment explanation
Indices: 53287928--53288002 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
53287918 TAAACTATGA
* *
53287928 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
53287948 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
53287968 TCCATTTCATTTACTTACTCT
1 ACCATTCCATTTACTTACT-T
*
53287989 -CCATTCTATTTACT
1 ACCATTCCATTTACT
53288003 AAGCATAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:53288600 original size:89 final size:89
Alignment explanation
Indices: 53288449--53288611 Score: 272
Period size: 89 Copynumber: 1.8 Consensus size: 89
53288439 ATTTATCATT
* * *
53288449 CCTCTCCTTTTCATGCCCGTTGAACTGTTTAGAATACTATCAGATACGCGGGATAGCTGACACGA
1 CCTCTCCTTTTCATGCCCGTTGAACCGCTTAGAATACTATCAGATACACGGGATAGCTGACACGA
53288514 AATGTACTAAACATATAACTGTAA
66 AATGTACTAAACATATAACTGTAA
* * *
53288538 CCTCTCCTTTTTATGCCCGTTGAACCGCTTAGAATCCTATCGGATACACGGGATAGCTGACACGA
1 CCTCTCCTTTTCATGCCCGTTGAACCGCTTAGAATACTATCAGATACACGGGATAGCTGACACGA
53288603 AATGTACTA
66 AATGTACTA
53288612 TAACTGTAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (89 bp):
CCTCTCCTTTTCATGCCCGTTGAACCGCTTAGAATACTATCAGATACACGGGATAGCTGACACGA
AATGTACTAAACATATAACTGTAA
Found at i:53291368 original size:79 final size:81
Alignment explanation
Indices: 53291259--53291441 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
53291249 TACTCGTTCA
* *
53291259 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
53291322 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
53291339 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATTTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
53291402 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
53291418 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53291442 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:53291441 original size:40 final size:40
Alignment explanation
Indices: 53291238--53291441 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
53291228 CGGAATTTAA
** *
53291238 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53291278 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53291318 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53291357 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATTTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
53291397 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53291437 CCGGA
1 CCGGA
53291442 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53293694 original size:37 final size:37
Alignment explanation
Indices: 53293639--53293725 Score: 140
Period size: 37 Copynumber: 2.3 Consensus size: 37
53293629 TACGAAGTCT
53293639 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
53293676 TACCTGGACATAATCTCCACACGTAGTCATCGGGTC-
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
53293712 TCACCCGGAACATA
1 T-ACCCGG-ACATA
53293726 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:53293861 original size:49 final size:49
Alignment explanation
Indices: 53293794--53294044 Score: 457
Period size: 49 Copynumber: 5.1 Consensus size: 49
53293784 TTTACCACAT
* * *
53293794 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
53293843 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
53293892 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
53293941 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
53293990 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
53294039 ATATAT
1 ATATAT
53294045 TATTATGTAC
Statistics
Matches: 196, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 196 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:53300180 original size:29 final size:29
Alignment explanation
Indices: 53300145--53300378 Score: 161
Period size: 29 Copynumber: 8.0 Consensus size: 29
53300135 CGATCACTCA
53300145 ATTATGAAAAAGGATGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
* **
53300174 ACTATGAAATGGGATGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
* * * **
53300203 AATTTTGAAAAAGGATAGCTTTA-G-CTGTCG
1 -ATTATGAAAAAGGAT-G-GTGACGACCATCG
* *
53300233 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAAGGATGGTGACGACCATCG
* *
53300262 ACTATGAAAAAGGGTGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
* ** *
53300291 AATTATGAAAAGGGATAACT-TC-ACCTATCG
1 -ATTATGAAAAAGGAT-GGTGACGACC-ATCG
** * * *
53300321 ATTATGAAAGGGGATGGTAATGACCATCA
1 ATTATGAAAAAGGATGGTGACGACCATCG
* * * *
53300350 ACTAAGAAAAATGATGGTGAAGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
53300379 TGATTCCACT
Statistics
Matches: 153, Mismatches: 42, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
27 2 0.01
28 3 0.02
29 108 0.71
30 35 0.23
31 3 0.02
32 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAAGGATGGTGACGACCATCG
Found at i:53300294 original size:88 final size:88
Alignment explanation
Indices: 53300145--53300378 Score: 308
Period size: 88 Copynumber: 2.7 Consensus size: 88
53300135 CGATCACTCA
* * * *
53300145 ATTATGAAAAAGGATGGTGACGACCATCGACTATG-AAATGGGATGGTGACGACCATCGAATTTT
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGG-TGGTGACGACCATCGAATTAT
* * * *
53300209 GAAAAAGGATAGCTTTAGCTGTCG
65 GAAAAAGGATAACTTCACCTATCG
53300233 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
*
53300298 AAAAGGGATAACTTCACCTATCG
66 AAAAAGGATAACTTCACCTATCG
* * * * * * *
53300321 ATTATGAAAGGGGATGGTAATGACCATCAACTAAGAAAAATGATGGTGAAGACCATCG
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCG
53300379 TGATTCCACT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 123 0.95
89 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (88 bp):
ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
AAAAAGGATAACTTCACCTATCG
Found at i:53300296 original size:59 final size:58
Alignment explanation
Indices: 53300133--53300306 Score: 199
Period size: 59 Copynumber: 2.9 Consensus size: 58
53300123 ACGACGTATC
* * *
53300133 GACGATCACTCAATTATGAAAAAGGATGGTGACGACCATCGACTATGAAATGGGATGGT
1 GACGACCA-TCAATTATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATGGT
* * * **
53300192 GACGACCATCGAATTTTGAAAAAGGATAGCTTTA-G-CTGTCGATTATGAAAAGGGATGGT
1 GACGACCATC-AATTATGAAAAAGGAT-G-GTGACGACCATCGATTATGAAAAGGGATGGT
* *
53300251 GACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATGAAAAGGGAT
1 GACGACCATCAATTATGAAAAAGGATGGTGACGACCATCG-ATTATGAAAAGGGAT
53300307 AACTTCACCT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
56 2 0.02
57 2 0.02
58 19 0.20
59 67 0.71
60 2 0.02
61 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (58 bp):
GACGACCATCAATTATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATGGT
Found at i:53302990 original size:46 final size:45
Alignment explanation
Indices: 53302831--53302996 Score: 185
Period size: 45 Copynumber: 3.6 Consensus size: 45
53302821 ATTTGGGCAT
* * *
53302831 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAACGC
* * *
53302876 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAC---GC
*
53302921 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-AACGC
*
53302969 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
53302997 GCTTATGGGC
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.28
46 28 0.27
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAACGC
Found at i:53305955 original size:15 final size:15
Alignment explanation
Indices: 53305935--53305990 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
53305925 GTATCTTGGG
53305935 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53305950 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53305965 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53305980 TTTCTTTATTC
1 TTTCTTTATTC
53305991 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53308421 original size:46 final size:46
Alignment explanation
Indices: 53308368--53308543 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
53308358 TATTTGGGCA
*
53308368 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53308414 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
53308461 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53308507 -CCCAAGCTCGTTGAGTTGAGTTCAAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53308544 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
45 6 0.06
46 56 0.54
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53308523 original size:93 final size:93
Alignment explanation
Indices: 53308364--53308536 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
53308354 AGGATATTTG
* * * *
53308364 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAG
*
53308429 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* *
53308457 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAA-CTCGTTGA
*
53308521 GTTGAGTTCAAGTTCG
65 GTTGAGTCCAAGTTCG
53308537 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:53315978 original size:79 final size:81
Alignment explanation
Indices: 53315865--53316047 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
53315855 TACTCGTTCA
* *
53315865 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
53315928 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
53315945 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
53316008 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
53316024 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53316048 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:53316047 original size:40 final size:40
Alignment explanation
Indices: 53315844--53316047 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
53315834 TCGAATTTAA
** *
53315844 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53315884 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53315924 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53315963 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
53316003 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53316043 CCGGA
1 CCGGA
53316048 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53324095 original size:79 final size:81
Alignment explanation
Indices: 53323986--53324168 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
53323976 TACTCGTTCA
* *
53323986 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
53324049 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
53324066 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
53324129 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
53324145 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53324169 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:53324168 original size:40 final size:40
Alignment explanation
Indices: 53323965--53324168 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
53323955 CGGAATTTAA
** *
53323965 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53324005 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53324045 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53324084 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
53324124 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53324164 CCGGA
1 CCGGA
53324169 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53331044 original size:27 final size:27
Alignment explanation
Indices: 53331008--53331203 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
53330998 GGCATAATCA
*
53331008 TCATTTTACCATACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* * * **
53331035 CCATTGTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACAG
53331062 TCATTTTACCCTACAGGGGTATTAC-G
1 TCATTTTACCCTACAGGGGTATTACAG
* *
53331088 TTCATTTTACCCTACAGGGGCATTACAA
1 -TCATTTTACCCTACAGGGGTATTACAG
* *
53331116 TCATTTTACCCTATA-GGGTATTA-GG
1 TCATTTTACCCTACAGGGGTATTACAG
*
53331141 TCATTCTACCCTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
*
53331168 TCATTTTACCCTATAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
53331195 TCATTTTAC
1 TCATTTTAC
53331204 TTATTTTGGG
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 13 0.09
26 16 0.11
27 115 0.80
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACAG
Found at i:53331172 original size:79 final size:81
Alignment explanation
Indices: 53331008--53331203 Score: 281
Period size: 79 Copynumber: 2.4 Consensus size: 81
53330998 GGCATAATCA
* * * *
53331008 TCATTTTACCATACAGGGGTATTACAGCCATTGTACCCTACAGGGGCATTATGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGCATTATGGTCATTCTACCC
53331073 TACAGGGGTATTACGT
66 TACAGGGGTATTACGT
* * * *
53331089 TCATTTTACCCTACAGGGGCATTACAATCATTTTACCCTATA-GGGTATTA-GGTCATTCTACCC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGCATTATGGTCATTCTACCC
53331152 TACAGGGGTATTACAG-
66 TACAGGGGTATTAC-GT
*
53331168 TCATTTTACCCTATAGGGGTATTACAGTCATTTTAC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTAC
53331204 TTATTTTGGG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
79 59 0.57
80 8 0.08
81 36 0.35
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGGCATTATGGTCATTCTACCC
TACAGGGGTATTACGT
Found at i:53333933 original size:29 final size:29
Alignment explanation
Indices: 53333894--53333972 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53333884 CTTAATAATC
*
53333894 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53333924 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53333953 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53333973 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53335110 original size:17 final size:18
Alignment explanation
Indices: 53335073--53335110 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53335063 CACTTTTTTT
53335073 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
53335092 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
53335109 TT
1 TT
53335111 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:53341705 original size:29 final size:29
Alignment explanation
Indices: 53341666--53341744 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53341656 CTTAATAATC
*
53341666 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53341696 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53341725 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53341745 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53342881 original size:17 final size:18
Alignment explanation
Indices: 53342844--53342881 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53342834 CACTTTTTTT
53342844 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
53342863 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
53342880 TT
1 TT
53342882 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:53345560 original size:33 final size:34
Alignment explanation
Indices: 53345510--53345577 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
53345500 CTAAGCCTAG
* *
53345510 ATCAGTAACAATCTGGGCCTGAGCCTTATTCAGT
1 ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
* *
53345544 ATCAGT-ACAGTCTGGGCCTTAGCCCTATACAGT
1 ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
53345577 A
1 A
53345578 ATAGTGTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (34 bp):
ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
Found at i:53345576 original size:27 final size:26
Alignment explanation
Indices: 53345546--53345604 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
53345536 TATTCAGTAT
* *
53345546 CAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGTACAGTCT-GGCCTAAGCCCAATA
* *
53345573 CAGTAATAGTGTGGCCTAAGCCCAATA
1 CAGT-ACAGTCTGGCCTAAGCCCAATA
53345600 CAGTA
1 CAGTA
53345605 TTAGTACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 21 0.78
28 5 0.19
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (26 bp):
CAGTACAGTCTGGCCTAAGCCCAATA
Found at i:53345609 original size:27 final size:27
Alignment explanation
Indices: 53345558--53345609 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
53345548 GTACAGTCTG
* *
53345558 GGCCTTAGCCCTATACAGTAATAGTGT
1 GGCCTAAGCCCAATACAGTAATAGTGT
*
53345585 GGCCTAAGCCCAATACAGTATTAGT
1 GGCCTAAGCCCAATACAGTAATAGT
53345610 ACAGTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (27 bp):
GGCCTAAGCCCAATACAGTAATAGTGT
Found at i:53346017 original size:27 final size:27
Alignment explanation
Indices: 53345954--53346120 Score: 100
Period size: 27 Copynumber: 5.9 Consensus size: 27
53345944 TTTACCAAAC
* * * *
53345954 AGGGGTATTACAGTCAGTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAT
* *
53345981 AAGGGCATTACGGCCATTTTACCCTAT
1 AGGGGCATTACGGTCATTTTACCCTAT
* * * *
53346008 AGGGGTATTATGGTCATTGTACCCCAT
1 AGGGGCATTACGGTCATTTTACCCTAT
*
53346035 AGGGGCATTACGATCATTACGGTCATTTTACCCTAC
1 A-GGG------G--CATTACGGTCATTTTACCCTAT
* * *
53346071 AGGAGTATTACGGTCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAT
* * *
53346098 AAGGGCATTAAGGTTATTTTACC
1 AGGGGCATTACGGTCATTTTACC
53346121 TATTTTAGGG
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
27 82 0.77
28 3 0.03
29 1 0.01
34 1 0.01
35 2 0.02
36 18 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
AGGGGCATTACGGTCATTTTACCCTAT
Found at i:53346081 original size:36 final size:36
Alignment explanation
Indices: 53346014--53346088 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
53346004 CTATAGGGGT
* * *
53346014 ATTATGGTCATTGTACCCCATAGGGGCATTACGATC
1 ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
* * * *
53346050 ATTACGGTCATTTTACCCTACAGGAGTATTACGGTC
1 ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
53346086 ATT
1 ATT
53346089 TTACCCTACA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (36 bp):
ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
Found at i:53346104 original size:63 final size:63
Alignment explanation
Indices: 53345986--53346107 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
53345976 CCTACAAGGG
* * * * *
53345986 CATTACGGCCATTTTACCCTATAGGGGTATTATGGTCATTGTACCCCATAGGGGCATTACGAT
1 CATTACGGCCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTACGAT
* * *
53346049 CATTACGGTCATTTTACCCTACAGGAGTATTACGGTCATTTTACCCTACAAGGGCATTA
1 CATTACGGCCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTA
53346108 AGGTTATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (63 bp):
CATTACGGCCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTACGAT
Found at i:53347010 original size:30 final size:30
Alignment explanation
Indices: 53346974--53347035 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
53346964 AAGGACCAAG
53346974 AACCAAATCAAGAACAAGAAATACTTACCC
1 AACCAAATCAAGAACAAGAAATACTTACCC
* *
53347004 AACCAAATCAAGAGCAAGAAGTACTTACCC
1 AACCAAATCAAGAACAAGAAATACTTACCC
53347034 AA
1 AA
53347036 ACTTAGCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.26, G:0.10, T:0.13
Consensus pattern (30 bp):
AACCAAATCAAGAACAAGAAATACTTACCC
Found at i:53354543 original size:40 final size:40
Alignment explanation
Indices: 53354494--53354660 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53354484 TCTTCGGAAT
* * *
53354494 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
53354533 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
53354573 TTAGCTCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
53354613 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
53354653 TTAGCCCG
1 TTAGCCCG
53354661 AGTATCATTC
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:53354621 original size:80 final size:79
Alignment explanation
Indices: 53354485--53354658 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 79
53354475 AACCGAATCT
* * * * **
53354485 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATA
*
53354550 ACTTGCACAAATGC
66 ACTAGCACAAATGC
* ** *
53354564 CTTCGGGTCTTAGCTCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGC-CGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
* *
53354628 TCACTAGCATAAATGC
64 TAACTAGCACAAATGC
53354644 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
53354659 CGAGTATCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
79 12 0.15
80 65 0.82
81 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATA
ACTAGCACAAATGC
Found at i:53370796 original size:40 final size:39
Alignment explanation
Indices: 53370747--53370914 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 39
53370737 TCTTCGGAAT
* *
53370747 TTAG-CCGGATATAGCCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAA-TGCCTTCGGGTC
* * * * *
53370786 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCAC-AATGCCTTCGGGTC
* *
53370826 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCAC-AATGCCTTCGGGTC
* * * *
53370866 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTCCGGGAC
1 TTAGCCCGGATAT-AGCAACTAGCA-CAATGCCTTCGGGTC
53370906 TTAGCCCGG
1 TTAGCCCGG
53370915 GTATCATTCA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATAGCAACTAGCACAATGCCTTCGGGTC
Found at i:53374877 original size:40 final size:40
Alignment explanation
Indices: 53374750--53374879 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
53374740 ATGCTGGAAA
* *
53374750 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
53374790 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
53374830 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
53374870 TTATATCCGG
1 TTATATCCGG
53374880 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:53382866 original size:40 final size:40
Alignment explanation
Indices: 53382744--53382867 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
53382734 TTGAATGATA
* * * * ***
53382744 CCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
* * *
53382784 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
53382824 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTTATAT
53382864 CCGG
1 CCGG
53382868 TTGTATTCCG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 4 0.06
40 65 0.94
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
Found at i:53392331 original size:39 final size:39
Alignment explanation
Indices: 53392277--53392420 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
53392267 GAATGTTCGA
53392277 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
53392316 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
53392355 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
53392394 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
53392421 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:53392367 original size:78 final size:79
Alignment explanation
Indices: 53392278--53392460 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
53392268 AATGTTCGAG
*
53392278 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCTGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
53392342 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
53392356 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
53392421 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
53392435 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53392461 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:53394577 original size:20 final size:21
Alignment explanation
Indices: 53394539--53394579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53394529 GTTTTTGGGG
* *
53394539 AATAAATAAAAATATAATTTA
1 AATAAAAAAAAACATAATTTA
53394560 AATAAAAAAAAACA-AATTTA
1 AATAAAAAAAAACATAATTTA
53394580 CAAAAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAAAAAAAACATAATTTA
Found at i:53397242 original size:11 final size:11
Alignment explanation
Indices: 53397226--53397255 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
53397216 TCTCCACTTG
53397226 TTTCTTTTATT
1 TTTCTTTTATT
53397237 TTTCTTTTATT
1 TTTCTTTTATT
*
53397248 TTCCTTTT
1 TTTCTTTT
53397256 CTAAACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTATT
Found at i:53399797 original size:12 final size:12
Alignment explanation
Indices: 53399780--53399804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53399770 TCTTAATGAG
53399780 TCTATTTTCATA
1 TCTATTTTCATA
53399792 TCTATTTTCATA
1 TCTATTTTCATA
53399804 T
1 T
53399805 AAAAGAAACA
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:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTATTTTCATA
Found at i:53400381 original size:15 final size:16
Alignment explanation
Indices: 53400363--53400392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53400353 ATGGAAACTA
53400363 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
53400378 TGATATAATGAAATA
1 TGATATAATGAAATA
53400393 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:53405414 original size:27 final size:27
Alignment explanation
Indices: 53405312--53405416 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
53405302 AATACTTTAG
* *
53405312 TTTACCAAATTATTGAAATACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
* ** * *
53405339 CTTGTAAAATTA-CCAAAGTACCC-CTAA
1 TTTACAAAATTATCGAAA-TACCCTC-GA
* ***
53405366 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
*
53405393 TTTACAAAATTATTGAAATACCCT
1 TTTACAAAATTATCGAAATACCCT
53405417 TGTAGGGTAG
Statistics
Matches: 54, Mismatches: 20, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTATCGAAATACCCTCGA
Found at i:53405430 original size:27 final size:27
Alignment explanation
Indices: 53405407--53405523 Score: 180
Period size: 27 Copynumber: 4.3 Consensus size: 27
53405397 CAAAATTATT
* *
53405407 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
53405434 GAAATACCCCAGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
53405461 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
53405488 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
53405515 GAGATACCC
1 GAAATACCC
53405524 TTATGGAGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:53405458 original size:54 final size:54
Alignment explanation
Indices: 53405407--53405525 Score: 202
Period size: 54 Copynumber: 2.2 Consensus size: 54
53405397 CAAAATTATT
* *
53405407 GAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCAGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCAGTAGGGTAGAATTACC
*
53405461 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCAGTAGGGTAGAATTACC
*
53405515 GAGATACCCTT
1 GAAATACCCTT
53405526 ATGGAGTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCAGTAGGGTAGAATTACC
Found at i:53405538 original size:27 final size:26
Alignment explanation
Indices: 53405398--53405541 Score: 105
Period size: 27 Copynumber: 5.3 Consensus size: 26
53405388 CTCGATTTAC
** *
53405398 AAAATTATTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTAT-GGGT
* * *
53405425 AGAATTACTGAAATACCC-CAGTAGGGT
1 AAAATTACCGAAATACCCTTA-T-GGGT
* *
53405452 AGAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTAT-GGGT
53405479 AGAAA-TACCGAAATACCCCTGTA-GGGT
1 A-AAATTACCGAAATA-CCCT-TATGGGT
* *
53405506 AGAATTACCGAGATACCCTTATGGAGT
1 AAAATTACCGAAATACCCTTATGG-GT
53405533 AAAATTACC
1 AAAATTACC
53405542 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
25 2 0.02
26 8 0.08
27 80 0.82
28 6 0.06
29 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (26 bp):
AAAATTACCGAAATACCCTTATGGGT
Found at i:53407068 original size:41 final size:41
Alignment explanation
Indices: 53407023--53407140 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
53407013 TGAAAGATAA
53407023 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
53407064 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53407094 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53407135 ATGTAG
1 ATGTAG
53407141 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:53407079 original size:71 final size:71
Alignment explanation
Indices: 53406991--53407154 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53406981 GAGATGTATC
53406991 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53407056 AGGACA
66 AGGACA
53407062 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53407127 AGGACA
66 AGGACA
53407133 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53407155 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53414649 original size:41 final size:41
Alignment explanation
Indices: 53414604--53414721 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
53414594 TGAAAGATAA
53414604 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
53414645 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53414675 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53414716 ATGTAG
1 ATGTAG
53414722 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:53414660 original size:71 final size:71
Alignment explanation
Indices: 53414572--53414735 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53414562 GAGATGTATC
53414572 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53414637 AGGACA
66 AGGACA
53414643 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53414708 AGGACA
66 AGGACA
53414714 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53414736 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53416164 original size:25 final size:25
Alignment explanation
Indices: 53416097--53416166 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
53416087 AGAAAGTGCT
* * *
53416097 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
53416122 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53416147 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53416167 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53416435 original size:31 final size:31
Alignment explanation
Indices: 53416386--53416468 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
53416376 CGCTTACAGT
53416386 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53416416 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53416447 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53416469 TCGAGACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:53418512 original size:46 final size:45
Alignment explanation
Indices: 53418462--53418637 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
53418452 TGGTTGAGCA
53418462 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
53418508 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
53418555 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
53418601 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53418638 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53418618 original size:93 final size:93
Alignment explanation
Indices: 53418459--53418629 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53418449 GGATGGTTGA
* *
53418459 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53418524 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
53418552 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53418617 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53418630 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:53421694 original size:54 final size:54
Alignment explanation
Indices: 53421636--53421761 Score: 182
Period size: 54 Copynumber: 2.3 Consensus size: 54
53421626 CGATTTACAA
* *
53421636 AATTATTGAAATACCCTTGTAGGATAGAATTA-CTGAAATACCCCAGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGATAGAAATATC-GAAATACCCCAGTAGGGTAG
* *
53421690 AATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGATAGAAATATCGAAATACCCCAGTAGGGTAG
* *
53421744 AATTACCGAGATACCCTT
1 AATTATCGAAATACCCTT
53421762 ATGGGGTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGATAGAAATATCGAAATACCCCAGTAGGGTAG
Found at i:53421768 original size:27 final size:27
Alignment explanation
Indices: 53421643--53421777 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
53421633 CAAAATTATT
* *
53421643 GAAATACCCTTGTAGGATAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
** *
53421670 GAAATACCCCAGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
53421697 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
53421724 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * * *
53421751 GAGATACCCTTATGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
53421778 ATTTTTCCCT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:53422018 original size:25 final size:25
Alignment explanation
Indices: 53421980--53422049 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
53421970 AGGAAGTGCT
* *
53421980 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
53422005 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53422030 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53422050 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53422062 original size:24 final size:24
Alignment explanation
Indices: 53421979--53422074 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
53421969 GAGGAAGTGC
*
53421979 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
53422004 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
53422028 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
53422052 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
53422075 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:53422073 original size:50 final size:50
Alignment explanation
Indices: 53421980--53422074 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
53421970 AGGAAGTGCT
**
53421980 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
53422030 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
53422075 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:53422318 original size:31 final size:31
Alignment explanation
Indices: 53422269--53422351 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
53422259 CACTTACAGT
53422269 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53422299 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53422330 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53422352 TCAAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:53424676 original size:20 final size:21
Alignment explanation
Indices: 53424637--53424676 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53424627 GTCGAGTTGG
53424637 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
53424658 CCACACG-GACGTG-TGCCCT
1 CCACACGAG-CGTGTTGCCCT
53424677 GTTTTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:53426231 original size:48 final size:47
Alignment explanation
Indices: 53426179--53426358 Score: 227
Period size: 48 Copynumber: 3.8 Consensus size: 47
53426169 GCACACTAAG
* * *
53426179 TGCTAATATCATGGTGC-GAAGCCAACTCAATGTATCTCGCACTCGAAA
1 TGCTAATATCATGG-CCTGAAGCCAAATCAATGTATCTCACAC-CGAAA
*
53426227 TGCTAATATCATGGCCTGAAGCCAAATCAATGTATCTCACACCCAAA
1 TGCTAATATCATGGCCTGAAGCCAAATCAATGTATCTCACACCGAAA
* *
53426274 GTGCTAATATCATGGCCTGAAGCCAAATCAATGAATCTCACACCCGAAG
1 -TGCTAATATCATGGCCTGAAGCCAAATCAATGTATCTCACA-CCGAAA
** * *
53426323 TGCCGATATCATGGCCCGAAGCTAAATCAATGTATC
1 TGCTAATATCATGGCCTGAAGCCAAATCAATGTATC
53426359 CCCTAATAAC
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
47 5 0.04
48 108 0.92
49 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (47 bp):
TGCTAATATCATGGCCTGAAGCCAAATCAATGTATCTCACACCGAAA
Found at i:53426344 original size:96 final size:96
Alignment explanation
Indices: 53426176--53426358 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
53426166 CTCGCACACT
* * * * * *
53426176 AAGTGCTAATATCATGGTGCGAAGCCAACTCAATGTATCTCGCACTCGAAATGCTAATATCATGG
1 AAGTGCTAATATCATGGTCCGAAGCCAAATCAATGAATCTCACACCCGAAATGCCAATATCATGG
*
53426241 CCTGAAGCCAAATCAATGTATCTCACACCCA
66 CCCGAAGCCAAATCAATGTATCTCACACCCA
* *
53426272 AAGTGCTAATATCATGG-CCTGAAGCCAAATCAATGAATCTCACACCCGAAGTGCCGATATCATG
1 AAGTGCTAATATCATGGTCC-GAAGCCAAATCAATGAATCTCACACCCGAAATGCCAATATCATG
*
53426336 GCCCGAAGCTAAATCAATGTATC
65 GCCCGAAGCCAAATCAATGTATC
53426359 CCCTAATAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 75 0.99
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (96 bp):
AAGTGCTAATATCATGGTCCGAAGCCAAATCAATGAATCTCACACCCGAAATGCCAATATCATGG
CCCGAAGCCAAATCAATGTATCTCACACCCA
Found at i:53426944 original size:21 final size:20
Alignment explanation
Indices: 53426916--53426954 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
53426906 CAAAACTTGT
*
53426916 ATAACTATCGTCAAACATTC
1 ATAACTATCATCAAACATTC
*
53426936 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
53426955 CAAAATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:53435161 original size:38 final size:38
Alignment explanation
Indices: 53435100--53435277 Score: 164
Period size: 38 Copynumber: 4.6 Consensus size: 38
53435090 ATTTGATGTG
*
53435100 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGAATTA
*
53435140 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
** * * *
53435178 TATCTAGGTTAAATCCCGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * *
53435216 TATCCGGGTTAAATCTCGTAGGCTT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGAATTA
* *
53435254 TATCCGAGTTTAAAGTCCCACAGG
1 TATCCG-GGTTAAA-TCCCGCAGG
53435278 TTTTGTGCTA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
37 2 0.02
38 87 0.75
39 13 0.11
40 14 0.12
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:53443133 original size:38 final size:38
Alignment explanation
Indices: 53443091--53443252 Score: 168
Period size: 38 Copynumber: 4.2 Consensus size: 38
53443081 AGCTTAAAGA
53443091 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAAT
* *
53443129 CCCGCAGGCTTCGTGCTGGTAA-TATATTCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGG-AATTATATCCGGGTTAAAT
* * * * *
53443167 CTCGCAGGCTTCGTGTTGGTATTATATCAGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
* *
53443205 CCCGCAGGCTT-AGTGCTGGTATTATATCCGAGCTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGAATTATATCCG-GGTTAAA-T
*
53443245 CCCACAGG
1 CCCGCAGG
53443253 TTTTGTGCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.02
38 87 0.83
39 8 0.08
40 8 0.08
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
Found at i:53445134 original size:48 final size:48
Alignment explanation
Indices: 53445079--53445273 Score: 165
Period size: 48 Copynumber: 3.8 Consensus size: 48
53445069 CTCTCACACT
* * *
53445079 AAGTGCTAATATCATGTCCCGAAGCCAACTCAATGTATCTCACACCTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCG
* *
53445127 AAGTGCTAATATCACGGCCAATATCATGGCCTGAAGCCAAATCAATGTATCTCGCACCCG
1 AAGTGC-----T-A------ATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCG
* * * *
53445187 AAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAAACTCACACCCA
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCG
** * *
53445235 AAGTGCCGATATCATGGCCTGAAGCTAAATCAATGTATC
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTATC
53445274 CCCTAATGAC
Statistics
Matches: 121, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
48 76 0.63
53 1 0.01
54 2 0.02
55 1 0.01
60 41 0.34
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCG
Found at i:53445179 original size:60 final size:60
Alignment explanation
Indices: 53445086--53445205 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
53445076 ACTAAGTGCT
* * *
53445086 AATATCATGTCCCGAAGCCAACTCAATGTATCTCACACCTGAAGTGCTAATATCACGGCC
1 AATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCGAAGTGCTAATATCACGGCC
* * *
53445146 AATATCATGGCCTGAAGCCAAATCAATGTATCTCGCACCCGAAGTGCTAATATCATGGCC
1 AATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCGAAGTGCTAATATCACGGCC
53445206 TGAAGCCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (60 bp):
AATATCATGGCCCGAAGCCAAATCAATGTATCTCACACCCGAAGTGCTAATATCACGGCC
Found at i:53448806 original size:40 final size:40
Alignment explanation
Indices: 53448751--53448888 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
53448741 CGGATGGTAA
*
53448751 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
53448791 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
53448831 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAGT-AGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
53448871 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53448889 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 14 0.16
40 73 0.83
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:53456998 original size:40 final size:40
Alignment explanation
Indices: 53456939--53457156 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
53456929 CGGATGGTAA
* * *
53456939 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
53456979 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53457019 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53457059 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53457099 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
53457139 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53457157 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53459803 original size:27 final size:27
Alignment explanation
Indices: 53459773--53459905 Score: 97
Period size: 27 Copynumber: 4.9 Consensus size: 27
53459763 TTTGTATTAC
* * *
53459773 GCCATAAAGGCTACT-CTTTCGTATTTT
1 GCCACAAAGGC-ACTCCTTTCATATTGT
*
53459800 GCCACAAAGGCATTCCTTTCATATTGT
1 GCCACAAAGGCACTCCTTTCATATTGT
*** * *
53459827 GCCACAAAGGTTGTCCTTTGATATTGC
1 GCCACAAAGGCACTCCTTTCATATTGT
* * **
53459854 GCCACAAAGGTATTCCTTTCATATTAC
1 GCCACAAAGGCACTCCTTTCATATTGT
* * * *
53459881 ACCACAAACGCATTCCTTTTATATT
1 GCCACAAAGGCACTCCTTTCATATT
53459906 TCAGTTAGTA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.02
27 86 0.98
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (27 bp):
GCCACAAAGGCACTCCTTTCATATTGT
Found at i:53459898 original size:54 final size:54
Alignment explanation
Indices: 53459800--53459905 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
53459790 TTCGTATTTT
*** **
53459800 GCCACAAAGGCATTCCTTTCATATTGTGCCACAAAGGTTGTCCTTTGATATTGC
1 GCCACAAAGGCATTCCTTTCATATTACACCACAAAGCATGTCCTTTGATATTGC
* *
53459854 GCCACAAAGGTATTCCTTTCATATTACACCACAAACGCAT-TCCTTTTATATT
1 GCCACAAAGGCATTCCTTTCATATTACACCACAAA-GCATGTCCTTTGATATT
53459906 TCAGTTAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (54 bp):
GCCACAAAGGCATTCCTTTCATATTACACCACAAAGCATGTCCTTTGATATTGC
Found at i:53462306 original size:22 final size:22
Alignment explanation
Indices: 53462276--53462321 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
53462266 AACAAAGGAT
*
53462276 AATATGAGTTGGAAAATAATTA
1 AATAAGAGTTGGAAAATAATTA
53462298 AATAAGAGTTGGAAAATAATTA
1 AATAAGAGTTGGAAAATAATTA
53462320 AA
1 AA
53462322 GTGTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.28
Consensus pattern (22 bp):
AATAAGAGTTGGAAAATAATTA
Found at i:53466066 original size:15 final size:15
Alignment explanation
Indices: 53466041--53466078 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
53466031 GATCAATCAG
*
53466041 TAAAAAA-AGAAAAT
1 TAAAAAATAGAAAAC
53466055 TAAAAAATAGAAAAC
1 TAAAAAATAGAAAAC
*
53466070 CAAAAAATA
1 TAAAAAATA
53466079 AATAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (15 bp):
TAAAAAATAGAAAAC
Found at i:53468773 original size:27 final size:26
Alignment explanation
Indices: 53468743--53468795 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
53468733 CAAATATTAT
53468743 ATAAA-CTTATTAAAATACAAAAAAGAC
1 ATAAATCTTA-TAAAATA-AAAAAAGAC
* *
53468770 ATAAATGTTATAAAATAAAAAGAGAC
1 ATAAATCTTATAAAATAAAAAAAGAC
53468796 GGAGAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.35
27 12 0.52
28 3 0.13
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (26 bp):
ATAAATCTTATAAAATAAAAAAAGAC
Found at i:53475035 original size:20 final size:21
Alignment explanation
Indices: 53475000--53475041 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
53474990 GATATGAGAA
53475000 TTAAAAGTTAAAAAAAACCAT
1 TTAAAAGTTAAAAAAAACCAT
*
53475021 TTAAACGTTAAAAAAAACCAT
1 TTAAAAGTTAAAAAAAACCAT
53475042 GGAAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (21 bp):
TTAAAAGTTAAAAAAAACCAT
Found at i:53475054 original size:20 final size:20
Alignment explanation
Indices: 53475003--53475055 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
53474993 ATGAGAATTA
**
53475003 AAAGTTAAAAAAAACCATTT
1 AAAGTTAAAAAAAACCATGG
53475023 AAACGTTAAAAAAAACCATGG
1 AAA-GTTAAAAAAAACCATGG
*
53475044 AAAGTTTAAAAA
1 AAAGTTAAAAAA
53475056 GTTTTTATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAGTTAAAAAAAACCATGG
Found at i:53479333 original size:95 final size:95
Alignment explanation
Indices: 53479154--53479350 Score: 313
Period size: 95 Copynumber: 2.1 Consensus size: 95
53479144 AGTCATTCAC
*
53479154 TCTATGTGATGCAAACGAACAACAGAAATTGGATAACGATCAAATTAAATTTAAAGAAGGCTTAC
1 TCTATGCGATGCAAACGAACAACAGAAATTGGATAACGATCAAATTAAATTTAAAGAAGGCTTAC
**
53479219 GACAGAGCAAGTTGGGATTTCATTAGTGCT
66 GACAGAGCAAGTTCAGATTTCATTAGTGCT
* *
53479249 TCTATGCGCTGCAAACGAACAACAGAAATTGGATAACGATCAAATTAGATTTAAAGAAGGCTTAC
1 TCTATGCGATGCAAACGAACAACAGAAATTGGATAACGATCAAATTAAATTTAAAGAAGGCTTAC
* ** *
53479314 GATAGAGTGAGTTCAGATTTTATTAGTGCT
66 GACAGAGCAAGTTCAGATTTCATTAGTGCT
53479344 TCTATGC
1 TCTATGC
53479351 AGGCTATTGA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (95 bp):
TCTATGCGATGCAAACGAACAACAGAAATTGGATAACGATCAAATTAAATTTAAAGAAGGCTTAC
GACAGAGCAAGTTCAGATTTCATTAGTGCT
Found at i:53483595 original size:40 final size:39
Alignment explanation
Indices: 53483546--53483753 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 39
53483536 TCTTCGGAAT
* *
53483546 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
53483585 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
53483625 TTAGCCCGGATATAACAACTCA-CACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCAC-AATGCCTTCGGGTC
*
53483665 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
53483705 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
53483745 TTAGCCCGG
1 TTAGCCCGG
53483754 GTATCATTCA
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 138 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:53483673 original size:80 final size:80
Alignment explanation
Indices: 53483546--53483753 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 80
53483536 TCTTCGGAAT
* * * * * *** *
53483546 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
53483610 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
53483625 TTAGCCCGGATATAA-CAACTCA-CACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGC
1 TTAGCCCGGATATAATC-ACT-AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGC
*
53483688 ACGAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
* *
53483705 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
53483754 GTATCATTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
79 6 0.05
80 103 0.93
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:53487581 original size:49 final size:50
Alignment explanation
Indices: 53487341--53487586 Score: 264
Period size: 49 Copynumber: 4.9 Consensus size: 50
53487331 ATCTATTGTG
* * *
53487341 AGGTCACGTGTGTAGTTCTAAGTGTAGGCTACTACGTGTACCCGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
53487391 -GGTCACATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCA-ATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT
* * * * * **
53487441 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
53487491 AGGTCACGTGTGTAGTACTAAGTGTAAGCTACTACATGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
53487541 -GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
53487587 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
49 78 0.48
50 49 0.30
51 36 0.22
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:53497588 original size:99 final size:99
Alignment explanation
Indices: 53497417--53497598 Score: 292
Period size: 99 Copynumber: 1.8 Consensus size: 99
53497407 ATCTATTGTG
* * * * *
53497417 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGT
*
53497482 ACTAAGTGCAGGCTACTACATGTATCAAATGGTT
66 ACTAAGTGCAAGCTACTACATGTATCAAATGGTT
* *
53497516 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCATATGTGTGGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGT
53497581 ACTAAGTGCAAGCTACTA
66 ACTAAGTGCAAGCTACTA
53497599 TGTGTACCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 75 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGT
ACTAAGTGCAAGCTACTACATGTATCAAATGGTT
Found at i:53497606 original size:49 final size:49
Alignment explanation
Indices: 53497418--53497598 Score: 218
Period size: 49 Copynumber: 3.7 Consensus size: 49
53497408 TCTATTGTGA
* * * * *
53497418 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* * ** **
53497467 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
*
53497516 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* * *
53497566 GGTCATATGTGTGGTACTAAGTGCAAGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
53497599 TGTGTACCAA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
49 68 0.62
50 42 0.38
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
Found at i:53503542 original size:37 final size:37
Alignment explanation
Indices: 53503483--53503628 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
53503473 AGCTCAGATG
* *
53503483 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
53503520 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53503557 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
53503594 TAATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
53503629 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:53503901 original size:48 final size:48
Alignment explanation
Indices: 53503774--53504113 Score: 529
Period size: 48 Copynumber: 7.0 Consensus size: 48
53503764 ACACATCGCC
*
53503774 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
53503824 TATATATTTCACATT-GACCATTTGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
53503872 TACATATTTCACATTATCCATTCGACTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
53503924 TATATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
53503972 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
53504020 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
53504068 TACATATTTCACATTAGCCATTCGGCTTTACCACGTATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
53504114 TATGCATCAA
Statistics
Matches: 268, Mismatches: 16, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
48 182 0.68
49 1 0.00
50 41 0.15
52 44 0.16
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:53504026 original size:148 final size:145
Alignment explanation
Indices: 53503774--53504113 Score: 531
Period size: 148 Copynumber: 2.3 Consensus size: 145
53503764 ACACATCGCC
* *
53503774 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
* * *
53503839 GACCATTTGGCTTTACCACATATGCATATCTCATACATATTTCACATTATCCATTCGACTTTACC
65 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACC
53503904 ACATATACATATCTCATATA
130 ACATATACATATCTC----A
* *
53503924 TATATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
53503987 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 A-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACC
53504052 ACATATACATATCTCA
130 ACATATACATATCTCA
*
53504068 TACATATTTCACATTAGCCATTCGGCTTTACCACGTATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
53504114 TATGCATCAA
Statistics
Matches: 178, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
144 44 0.25
147 1 0.01
148 89 0.50
150 44 0.25
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (145 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCA
CATATACATATCTCA
Found at i:53506785 original size:51 final size:49
Alignment explanation
Indices: 53506664--53506837 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 49
53506654 TATTGTGAGG
* * * *
53506664 TCACGTGTGTAGTACTAAATGCAAGCTACTACGTGTACCAAATTATTGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAAATAATTGA
* * * *
53506713 TCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTAATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAAATAA-TT-GA
* * * ** *
53506764 TCACGTGTGTAGTACTAAGTGC-AGACTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAAG-CTACTACGCGTACCAAATAATT-GA
*
53506814 TCACGTGTGTAGTACTTAGTGCAA
1 TCACGTGTGTAGTACTAAGTGCAA
53506838 TGTGACAACC
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
49 38 0.38
50 28 0.28
51 35 0.35
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAAATAATTGA
Found at i:53508756 original size:40 final size:40
Alignment explanation
Indices: 53508555--53508742 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
53508545 TATTCGGATG
* *
53508555 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53508595 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
53508634 ATAACCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
53508674 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
53508714 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
53508743 AGCAAGTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 34 0.25
40 103 0.75
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53508756 original size:80 final size:79
Alignment explanation
Indices: 53508555--53508765 Score: 304
Period size: 80 Copynumber: 2.7 Consensus size: 79
53508545 TATTCGGATG
*
53508555 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGCCCGAAGGC
53508618 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
53508634 ATAACCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAG-CCCGAAGGC
53508698 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
53508714 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAA
53508766 ATTCTGAAGG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
79 53 0.45
80 65 0.55
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:53513727 original size:28 final size:27
Alignment explanation
Indices: 53513681--53513734 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
53513671 CCTCATTGCA
*
53513681 ATCTGGTGGCCTCGCCACATATATCTGT
1 ATCTGGTGACCTCGCCACA-ATATCTGT
* *
53513709 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTCGCCACAATATCTG
53513735 GCTCCTTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (27 bp):
ATCTGGTGACCTCGCCACAATATCTGT
Done.