Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 104 of 135
Found at i:31989963 original size:12 final size:12
Alignment explanation
Indices: 31989946--31990002 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
31989936 AATTTCATTT
31989946 ATTCATTTACTC
1 ATTCATTTACTC
*
31989958 ATTCATTCACTC
1 ATTCATTTACTC
* *
31989970 ATTCATTCATTC
1 ATTCATTTACTC
* *
31989982 ACTCATTTGCTC
1 ATTCATTTACTC
*
31989994 ATTTATTTA
1 ATTCATTTA
31990003 TTTAGAAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.49
Consensus pattern (12 bp):
ATTCATTTACTC
Found at i:31998049 original size:10 final size:10
Alignment explanation
Indices: 31998032--31998075 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
31998022 TTTTAAATCA
31998032 AGAAAAAAAT
1 AGAAAAAAAT
*
31998042 ACAAAAAAA-
1 AGAAAAAAAT
*
31998051 AGAAGAAAAT
1 AGAAAAAAAT
31998061 AGAAAAAAAT
1 AGAAAAAAAT
31998071 AGAAA
1 AGAAA
31998076 GAGAGAGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:31998059 original size:19 final size:19
Alignment explanation
Indices: 31998031--31998075 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
31998021 ATTTTAAATC
31998031 AAGAAAAAAATACAAAAAA
1 AAGAAAAAAATACAAAAAA
* *
31998050 AAGAAGAAAATAGAAAAAA
1 AAGAAAAAAATACAAAAAA
31998069 ATAGAAA
1 A-AGAAA
31998076 GAGAGAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (19 bp):
AAGAAAAAAATACAAAAAA
Found at i:31998536 original size:41 final size:42
Alignment explanation
Indices: 31998479--31998728 Score: 326
Period size: 42 Copynumber: 6.0 Consensus size: 42
31998469 AAGGAAAGCA
*
31998479 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTAC-T
1 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
31998520 TTCATCGTATTCAGAGGCCTAGGTGTGGAGGCCCATTTACTT
1 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
31998562 TTCATTC-AATTTAGAGGTCCAGGTGTGGAGGTCCATTTAC-T
1 TTCA-TCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
31998603 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTTCATTTACTT
1 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
31998645 TTCATCGCATTTAGAGGCCCAAGTTTAGAGGTCCATTTACTT
1 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
31998687 TTCATCGCATTCAGAGGCCCAGGTGTGGGGGCCCATTTACTT
1 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
31998729 GCTTCTTCTC
Statistics
Matches: 178, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 69 0.39
42 106 0.60
43 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (42 bp):
TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:31998627 original size:83 final size:82
Alignment explanation
Indices: 31998479--31998728 Score: 347
Period size: 83 Copynumber: 3.0 Consensus size: 82
31998469 AAGGAAAGCA
* *
31998479 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTCATCGTATTCAGAGGCCTAGGT
1 TTCATT-CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTCATCGCATTCAGAGGCCCAGGT
31998544 GTGGAGGCCCATTTACTT
65 GTGGAGGCCCATTTACTT
* * * *
31998562 TTCATTCAATTTAGAGGTCCAGGTGTGGAGGTCCATTTACTTTCATTGCATTTAGAGACCCAGGT
1 TTCATTC-ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTCATCGCATTCAGAGGCCCAGGT
**
31998627 GTGGAGGTTCATTTACTT
65 GTGGAGGCCCATTTACTT
* * * *
31998645 TTCATCGCATTTAGAGGCCCAAGTTTAGAGGTCCATTTACTTTTCATCGCATTCAGAGGCCCAGG
1 TTCAT-TCATTTAGAGGCCCAGGTGTGGAGGTCCATTTAC-TTTCATCGCATTCAGAGGCCCAGG
*
31998710 TGTGGGGGCCCATTTACTT
64 TGTGGAGGCCCATTTACTT
31998729 GCTTCTTCTC
Statistics
Matches: 145, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
82 1 0.01
83 106 0.73
84 38 0.26
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (82 bp):
TTCATTCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTCATCGCATTCAGAGGCCCAGGTG
TGGAGGCCCATTTACTT
Found at i:31999200 original size:150 final size:151
Alignment explanation
Indices: 31999034--31999570 Score: 893
Period size: 151 Copynumber: 3.6 Consensus size: 151
31999024 GTTTTTTTAG
* * *
31999034 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTTAACAATTTCGAAATAAAAGTTTAAATT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTTAACTATTTCGAAATAAAAGTTTGAATT
* * *
31999099 TTTAA-AAAAGTAGTTATTTTCATTAAAAAAGGAA-AAAGTTTATATTTTTAAAAATAAAAATCT
65 TTTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATCT
*
31999162 ATTTTTTAGTTATTTTTAAAGA
130 GTTTTTTAGTTATTTTTAAAGA
* *
31999184 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTATTAACTATTTCGAAATAAAAGTTTGGATTT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTT
31999249 TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
66 TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
31999314 TTTTTTAGTTATTTTTAAAGA
131 TTTTTTAGTTATTTTTAAAGA
*
31999335 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAGATAAAAGTTTGAATTT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTT
*
31999400 TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATATG
66 TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
31999465 TTTTTTAGTTATTTTTAAA-A
131 TTTTTTAGTTATTTTTAAAGA
*
31999485 AAAAATTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTTG-AT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTTTTAACTATTTCGAAATAAAAG-TTTGAAT
* *
31999549 TTTGAAGTAAAATAGTGATTTT
64 TTTTAAGTAAAGTAGTGATTTT
31999571 GTTTTAATCC
Statistics
Matches: 366, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
149 35 0.10
150 85 0.23
151 242 0.66
152 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (151 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGAATTT
TTAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTTTAAAAATAAAAATCTG
TTTTTTAGTTATTTTTAAAGA
Found at i:31999249 original size:51 final size:51
Alignment explanation
Indices: 31999034--31999544 Score: 245
Period size: 52 Copynumber: 10.2 Consensus size: 51
31999024 GTTTTTTTAG
* * *
31999034 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTTAACAATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTATTAACTATTTCGAAAT
* *** *
31999086 AAAAGTTTAAATTTTTAAA-AAAGTAGTT-ATTTTCATTAA--A-AAAG-GA-
1 AAAAGTTTAAATTTTTAAATAAAGT-TTTGATTTT-ATTAACTATTTCGAAAT
* ** * ** ** *
31999132 AAAAGTTTATATTTTTAAAAATAAAAATCT-ATTTT-TTAGTTATTTTTAAAGA
1 AAAAGTTTAAATTTTT--AAATAAAGTTTTGATTTTATTAACTATTTCGAAA-T
31999184 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTATTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTATTAACTATTTCGAAAT
** * ** ***
31999235 AAAAGTTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAA--A-AAAGAAA-
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-ATTAACTATTTCGAAAT
* * ** * ** ** *
31999283 GAAAGTTTATATTTTTAAAAATAAAAATCTG-TTTT-TTAGTTATTTTTAAAGA
1 AAAAGTTTAAATTTTT--AAATAAAGTTTTGATTTTATTAACTATTTCGAAA-T
* *
31999335 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAGAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTATTAACTATTTCGAAAT
* * ** ***
31999386 AAAAGTTTGAATTTTTAAGTAAAGTAGTGATTTTCATTAA--A-AAAGAAA-
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-ATTAACTATTTCGAAAT
* * ** * ** ** *
31999434 GAAAGTTTATATTTTTAAAAATAAAAATATG-TTTT-TTAGTTATTTTTAAAA
1 AAAAGTTTAAATTTTT--AAATAAAGTTTTGATTTTATTAACTATTTCGAAAT
* *
31999485 AAAAATTTAAATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTTGA-TTTTATTAACTATTTCGAAAT
31999537 AAAAGTTT
1 AAAAGTTT
31999545 TGATTTTGAA
Statistics
Matches: 333, Mismatches: 93, Indels: 66
0.68 0.19 0.13
Matches are distributed among these distances:
46 18 0.05
47 7 0.02
48 37 0.11
49 31 0.09
50 48 0.14
51 94 0.28
52 98 0.29
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (51 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTATTAACTATTTCGAAAT
Found at i:32006635 original size:240 final size:235
Alignment explanation
Indices: 32006202--32006673 Score: 685
Period size: 240 Copynumber: 2.0 Consensus size: 235
32006192 ATCATAATAT
* * *
32006202 TGATAAAAAATTGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTTTTA
1 TGATAAAAAATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAATAACTTTTA
32006267 GGGTTTTTTAGGATTCTAAAATAAAATTAATTTTAAGAATTAAAGGTATTACCAGAATTATTTAA
66 GGGTTTTTTAGGATTCTAAAATAAAATTAATTTTAAGAATTAAAGGTATTACCAGAATTATTTAA
** * *
32006332 GTATCTTTTAGGATTCTCGTTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAAGTTTG
131 GTATCAATTAGGATTCTCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATAAGTTTG
* *
32006397 ATGAACACATATTAGTCAAGTTGCAATTAAATCGGAGTAA
196 ATGAACACATATTAGTCAAGTTACAAGTAAATCGGAGTAA
* *
32006437 TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAATAATTTTTT
1 TGATAAAAAATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAATAA--CTTT
* * *
32006502 TAGGTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAA-GTATTTTACTAGAATT
64 TAGG-GTTTTTTAGGATTCTAAAATAAAATTAATTTTAAGAATT-AAAGGTA--TTACCAGAATT
* * * *
32006566 ATTTAGGTATCAATTAGGGTTCTTATTAGGAGTAAAAATATCTAATTTAAGTTTTAAATTAGATA
125 ATTTAAGTATCAATTAGGATTCTCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATA
* * * *
32006631 AGTTTGGTGAACACATCTTAGTTAAGTTACAAGTAAATTGGAG
190 AGTTTGATGAACACATATTAGTCAAGTTACAAGTAAATCGGAG
32006674 GCATTTTTTA
Statistics
Matches: 209, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
235 55 0.26
237 7 0.03
238 40 0.19
239 3 0.01
240 104 0.50
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (235 bp):
TGATAAAAAATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAATAACTTTTA
GGGTTTTTTAGGATTCTAAAATAAAATTAATTTTAAGAATTAAAGGTATTACCAGAATTATTTAA
GTATCAATTAGGATTCTCATTAGAAGTAAAAATATCTAATTTAAGTTTTAAATTAGATAAGTTTG
ATGAACACATATTAGTCAAGTTACAAGTAAATCGGAGTAA
Found at i:32009492 original size:16 final size:16
Alignment explanation
Indices: 32009473--32009503 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32009463 TAGGATTTTA
*
32009473 TTTACTTTTTTATATG
1 TTTAATTTTTTATATG
32009489 TTTAATTTTTTATAT
1 TTTAATTTTTTATAT
32009504 ATAAACATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTAATTTTTTATATG
Found at i:32017111 original size:22 final size:21
Alignment explanation
Indices: 32017069--32017111 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32017059 GGCATCCTGA
* * *
32017069 AATTTAAATTAAACGTCAATC
1 AATTTAAATAAAACCTAAATC
32017090 AATTTAAATCAAAACCTAAATC
1 AATTTAAAT-AAAACCTAAATC
32017112 CTACGTCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.30
Consensus pattern (21 bp):
AATTTAAATAAAACCTAAATC
Found at i:32017176 original size:18 final size:17
Alignment explanation
Indices: 32017137--32017178 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
32017127 CAGTTCAAAA
*
32017137 TAAAA-AAATATGAACT
1 TAAAATAAATATGAACC
*
32017153 TTAAATAAATAATGAACC
1 TAAAATAAAT-ATGAACC
32017171 TAAAATAA
1 TAAAATAA
32017179 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 4 0.19
18 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAATAAATATGAACC
Found at i:32032193 original size:6 final size:6
Alignment explanation
Indices: 32032182--32032222 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
32032172 GAGATGAGAT
*
32032182 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG AAAGGG GAAGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGG
32032223 AAGAGCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:32032898 original size:25 final size:25
Alignment explanation
Indices: 32032870--32032950 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
32032860 AATAATCAAT
32032870 AATAAAATATATGTAATTTAATTGA
1 AATAAAATATATGTAATTTAATTGA
* * *
32032895 AAT-AAATAAGATATAATTATATTTTAGA
1 AATAAAAT-ATATGTAATT-TA-ATT-GA
**
32032923 AATAAAATATATGTAATAAAATTGA
1 AATAAAATATATGTAATTTAATTGA
32032948 AAT
1 AAT
32032951 CCATTAGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
24 4 0.09
25 16 0.37
26 4 0.09
27 3 0.07
28 12 0.28
29 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (25 bp):
AATAAAATATATGTAATTTAATTGA
Found at i:32036523 original size:24 final size:24
Alignment explanation
Indices: 32036499--32036545 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32036489 AAACTGCTTT
32036499 GCTAATAAATATAATAATAGGTTTG
1 GCTAATAAA-ATAATAATAGGTTTG
* *
32036524 GCTACTAGAATAATAATAGGTT
1 GCTAATAAAATAATAATAGGTT
32036546 CAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (24 bp):
GCTAATAAAATAATAATAGGTTTG
Found at i:32038858 original size:16 final size:18
Alignment explanation
Indices: 32038819--32038852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32038809 TAAGTTTATA
32038819 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
32038836 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
32038853 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:32039200 original size:5 final size:5
Alignment explanation
Indices: 32039190--32039214 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32039180 TAATGTAAAC
32039190 ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA
32039215 GAATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:32047632 original size:3 final size:3
Alignment explanation
Indices: 32047624--32047656 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32047614 TGAATTTATA
32047624 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32047657 TGAGTTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32053123 original size:104 final size:104
Alignment explanation
Indices: 32052943--32053138 Score: 340
Period size: 104 Copynumber: 1.9 Consensus size: 104
32052933 TTTTCACTTC
*
32052943 ATTCATATACTCACGATGACACATAGCCATCGAACCTCATAATCCGTAAGGGATTCATATACTCA
1 ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCGTAAGGGATTCATATACTCA
*
32053008 CGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
66 CGATGACACAGAGTCATCAGACCTCTTAATCCGTAAAGG
* *
32053047 ATTCATATACTCACGATGACACTTAGCCACC-AGACCTCATAATTCGTAAGGGATTCATATACTC
1 ATTCATATACTCACGATGACACATAGCCACCGA-ACCTCATAATCCGTAAGGGATTCATATACTC
32053111 ACGATGACACAGAGTCATCAGACCTCTT
65 ACGATGACACAGAGTCATCAGACCTCTT
32053139 CGTTTACGGC
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 1 0.01
104 86 0.99
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (104 bp):
ATTCATATACTCACGATGACACATAGCCACCGAACCTCATAATCCGTAAGGGATTCATATACTCA
CGATGACACAGAGTCATCAGACCTCTTAATCCGTAAAGG
Found at i:32053133 original size:52 final size:52
Alignment explanation
Indices: 32052943--32053136 Score: 282
Period size: 52 Copynumber: 3.7 Consensus size: 52
32052933 TTTTCACTTC
*
32052943 ATTCATATACTCACGATGACACATAGCCATC-GAACCTCATAATCCGTAAGGG
1 ATTCATATACTCACGATGACACAGAGCCATCAG-ACCTCATAATCCGTAAGGG
* * * *
32052995 ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACAGAGCCATCAGACCTCATAATCCGTAAGGG
** * *
32053047 ATTCATATACTCACGATGACACTTAGCCACCAGACCTCATAATTCGTAAGGG
1 ATTCATATACTCACGATGACACAGAGCCATCAGACCTCATAATCCGTAAGGG
*
32053099 ATTCATATACTCACGATGACACAGAGTCATCAGACCTC
1 ATTCATATACTCACGATGACACAGAGCCATCAGACCTC
32053137 TTCGTTTACG
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
52 124 0.99
53 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACAGAGCCATCAGACCTCATAATCCGTAAGGG
Found at i:32054003 original size:24 final size:20
Alignment explanation
Indices: 32053951--32053992 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
32053941 GCTTTTATAA
32053951 TTAACC-TAATTAATCCACT
1 TTAACCTTAATTAATCCACT
32053970 TTAACCTTAATTAATCTCACT
1 TTAACCTTAATTAATC-CACT
32053991 TT
1 TT
32053993 TAAGCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAACCTTAATTAATCCACT
Found at i:32060529 original size:103 final size:101
Alignment explanation
Indices: 32060387--32060795 Score: 324
Period size: 103 Copynumber: 4.0 Consensus size: 101
32060377 AATAAAAATA
*
32060387 AAAATTTTAAAAATTCATTT-AATTTTCAATAAAATTATAAAATA-T-AAAAATTTCAAAAAAAA
1 AAAATTTTAAAAATTCATTTAAAATTT-AATAAAATTATAAAATACTCAAAAATTTCAAAAAAAA
*
32060449 TTTGTGTTATTTGCTTCTTCAATGGTAAAATGTCTATCT
65 --TGTGTTATTTACTTCTTCAATGGTAAAATGTCTATCT
* *** **
32060488 AAAATTTTAGGAAATTCATTTAAAATTTAATTAAAATTAT-AAA-ACTCCAATTTTTTTTTTAAA
1 AAAATTTTA-AAAATTCATTTAAAATTTAA-TAAAATTATAAAATACT-CAA--AAATTTCAAAA
* *
32060551 AAAA-GTGTTATTTGCTTCTTCAATGGTAAAATGTGTTAT-T
61 AAAATGTGTTATTTACTTCTTCAATGGTAAAATGT-CTATCT
*** * * * *
32060591 -TGTTTCTTAAAAATTCA-ATAAAA-TT-ATAAAAATATAAAAAAACTCAAAAA-CTC-AAAAAA
1 AAAATT-TTAAAAATTCATTTAAAATTTAATAAAATTAT-AAAATACTCAAAAATTTCAAAAAAA
* *
32060650 ATGTGTTATATACTTCTTGAATGGTAAAATGTCTATCT
64 ATGTGTTATTTACTTCTTCAATGGTAAAATGTCTATCT
* * * **
32060688 AAAACTTTAAGAAATTCATTTAAAAATTCAATAAAATTATAAAA-AGTTCCGAAATTTCAAAAAA
1 AAAATTTTAA-AAATTCATTT-AAAATTTAATAAAATTATAAAATA-CTCAAAAATTTC--AAAA
* * * *
32060752 AAAAAGTGTTAATTACTTCTTGAATGGTAAAATGTCTACCT
61 AAAATGTGTTATTTACTTCTTCAATGGTAAAATGTCTATCT
32060793 AAA
1 AAA
32060796 GTTTGAATGG
Statistics
Matches: 244, Mismatches: 38, Indels: 48
0.74 0.12 0.15
Matches are distributed among these distances:
96 10 0.04
97 33 0.14
98 16 0.07
99 2 0.01
100 13 0.05
101 28 0.11
102 36 0.15
103 48 0.20
104 5 0.02
105 43 0.18
106 10 0.04
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (101 bp):
AAAATTTTAAAAATTCATTTAAAATTTAATAAAATTATAAAATACTCAAAAATTTCAAAAAAAAT
GTGTTATTTACTTCTTCAATGGTAAAATGTCTATCT
Found at i:32065438 original size:3 final size:3
Alignment explanation
Indices: 32065385--32065419 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32065375 TTTGGTTGCT
32065385 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
32065420 CTAGGAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32065548 original size:2 final size:2
Alignment explanation
Indices: 32065541--32065566 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32065531 ATATTTCTAA
32065541 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32065567 GATGTGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32073981 original size:14 final size:13
Alignment explanation
Indices: 32073954--32073996 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 13
32073944 CTTCAAAATG
32073954 AATAATATAATTA
1 AATAATATAATTA
32073967 AATAATATAAATTA
1 AATAATAT-AATTA
32073981 AAT--TA-AATTA
1 AATAATATAATTA
32073991 AATAAT
1 AATAAT
32073997 TTAAGTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.30
12 3 0.11
13 8 0.30
14 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAATATAATTA
Found at i:32074192 original size:13 final size:15
Alignment explanation
Indices: 32074168--32074202 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
32074158 TGTTTGACTG
32074168 AAAATGATTTTC-GA
1 AAAATGATTTTCTGA
32074182 AAAATGA-TTTCTGA
1 AAAATGATTTTCTGA
32074196 AAAATGA
1 AAAATGA
32074203 CTTACTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAATGATTTTCTGA
Found at i:32074452 original size:88 final size:89
Alignment explanation
Indices: 32074296--32074458 Score: 267
Period size: 89 Copynumber: 1.8 Consensus size: 89
32074286 AAAATATGTC
32074296 AAAAAAACTATTTTAAACGAAACAAACATACATTTAAATTTTTTCTTGTCTTCTAATTGTTTAGC
1 AAAAAAACTATTTTAAACGAAACAAACATACATTTAAATTTTTTCTTGTCTTCTAATTGTTTAGC
32074361 TAAATTCACTTTCCTGGAAATTTT
66 TAAATTCACTTTCCTGGAAATTTT
* * * *
32074385 AAAAAAGCTATTTTAAATGAAACAAACATATATTTGAA-TTTTTCTTGTCATT-TAATTGTTTAG
1 AAAAAAACTATTTTAAACGAAACAAACATACATTTAAATTTTTTCTTGTC-TTCTAATTGTTTAG
32074448 CTAAATTCACT
65 CTAAATTCACT
32074459 AAACACAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
88 33 0.48
89 36 0.52
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (89 bp):
AAAAAAACTATTTTAAACGAAACAAACATACATTTAAATTTTTTCTTGTCTTCTAATTGTTTAGC
TAAATTCACTTTCCTGGAAATTTT
Found at i:32078637 original size:21 final size:22
Alignment explanation
Indices: 32078608--32078659 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
32078598 TAGGAATATA
*
32078608 TTTTAATATATATTA-GAATTT
1 TTTTTATATATATTATGAATTT
* *
32078629 TTTTTATATATTTTATTAATTT
1 TTTTTATATATATTATGAATTT
*
32078651 TTTATATAT
1 TTTTTATAT
32078660 TTACTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTATATATATTATGAATTT
Found at i:32078658 original size:22 final size:21
Alignment explanation
Indices: 32078608--32078659 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
32078598 TAGGAATATA
32078608 TTTTA-ATATATATTAGAATT
1 TTTTATATATATATTAGAATT
* * *
32078628 TTTTTTATATATTTTATTAATT
1 TTTTATATATATATTA-GAATT
32078650 TTTTATATAT
1 TTTTATATAT
32078660 TTACTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 4 0.15
21 9 0.35
22 13 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATATATATATTAGAATT
Found at i:32082048 original size:36 final size:36
Alignment explanation
Indices: 32082018--32082117 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
32082008 TGTGAAAGTG
*
32082018 AATATGTGGGTATGTTATTTATGCCATGTGACAGAA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
*
32082054 AATATGTGAGTATGTTATTCATGCCATGTGACAGAA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
* *
32082090 AATATATGGGTATGTTATTCATGTCATG
1 AATATGTGGGTATGTTATTCATGCCATG
32082118 AGACTGATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (36 bp):
AATATGTGGGTATGTTATTCATGCCATGTGACAGAA
Found at i:32082510 original size:2 final size:2
Alignment explanation
Indices: 32082505--32082544 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
32082495 TATATATATA
*
32082505 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
32082545 ACTGAATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:32109382 original size:24 final size:25
Alignment explanation
Indices: 32109355--32109413 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
32109345 TTACTCACTG
*
32109355 CGCACCGTTTCACTA-AACCTCAAA
1 CGCACCGTTTCACTAGAACCCCAAA
*
32109379 CGCACCGTTTCACTAGAGCCCCAAA
1 CGCACCGTTTCACTAGAACCCCAAA
*
32109404 CACACCGTTT
1 CGCACCGTTT
32109414 TGATCACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.29, C:0.39, G:0.12, T:0.20
Consensus pattern (25 bp):
CGCACCGTTTCACTAGAACCCCAAA
Found at i:32126269 original size:20 final size:20
Alignment explanation
Indices: 32126246--32126285 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32126236 TATCTAATGA
*
32126246 CTTACCAATATTGGTAAATC
1 CTTACAAATATTGGTAAATC
*
32126266 CTTAGAAATATTGGTAAATC
1 CTTACAAATATTGGTAAATC
32126286 ATTAGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
CTTACAAATATTGGTAAATC
Found at i:32126290 original size:20 final size:20
Alignment explanation
Indices: 32126252--32126303 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
32126242 ATGACTTACC
*
32126252 AATATTGGTAAATCCTTAGA
1 AATATTGGTAAATCATTAGA
32126272 AATATTGGTAAATCATTAGA
1 AATATTGGTAAATCATTAGA
* *
32126292 TATTTTGGTAAA
1 AATATTGGTAAA
32126304 AACTTTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
AATATTGGTAAATCATTAGA
Found at i:32131670 original size:31 final size:31
Alignment explanation
Indices: 32131634--32131692 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
32131624 TTTTCTATTC
*
32131634 AATTTGATA-CTCAAACTTGATACTTTTTCCT
1 AATTTGATACCT-AAACTTGACACTTTTTCCT
*
32131665 AATTTGGTACCTAAACTTGACACTTTTT
1 AATTTGATACCTAAACTTGACACTTTTT
32131693 TTTTGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (31 bp):
AATTTGATACCTAAACTTGACACTTTTTCCT
Found at i:32131981 original size:31 final size:30
Alignment explanation
Indices: 32131940--32132041 Score: 84
Period size: 31 Copynumber: 3.4 Consensus size: 30
32131930 AAAAAAGCTT
*
32131940 AGGTATCAAATTAGAAAAAAATGCCAAGTTC
1 AGGTACCAAATTAGAAAAAAATG-CAAGTTC
* ** *
32131971 AGGTACCAAATTGGGTCAAAAA---AAGTTT
1 AGGTACCAAATT-AGAAAAAAATGCAAGTTC
* *
32131999 AGGTACCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGAAAAAAATG-CAAGTTC
*
32132030 AGGTACAAAATT
1 AGGTACCAAATT
32132042 GGGTCAAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
27 5 0.09
28 17 0.31
31 27 0.49
32 6 0.11
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (30 bp):
AGGTACCAAATTAGAAAAAAATGCAAGTTC
Found at i:32132004 original size:28 final size:28
Alignment explanation
Indices: 32131965--32132053 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
32131955 AAAAAATGCC
32131965 AAGTTCAGGTACCAAATTGGGTCAAAAA
1 AAGTTCAGGTACCAAATTGGGTCAAAAA
* *
32131993 AAGTTTAGGTACCAAATTAGG--AAAAA
1 AAGTTCAGGTACCAAATTGGGTCAAAAA
*
32132019 GTGTCAAGTTCAGGTACAAAATTGGGTCAAAAA
1 -----AAGTTCAGGTACCAAATTGGGTCAAAAA
32132052 AA
1 AA
32132054 AGTTTAGGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
26 5 0.10
28 21 0.43
31 18 0.37
33 5 0.10
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (28 bp):
AAGTTCAGGTACCAAATTGGGTCAAAAA
Found at i:32132009 original size:59 final size:59
Alignment explanation
Indices: 32131914--32132100 Score: 248
Period size: 59 Copynumber: 3.2 Consensus size: 59
32131904 ATAAATTTAA
** * * * * *
32131914 GTACCAAATTGAATCTAAAAAAGCTTAGGTATCAAATTAGAAAAAAATGCCAAGTTCAG
1 GTACCAAATTGGGTCAAAAAAAGTTTAGGTAACAAATTAGAAAAAAGTGTCAAGTTCAG
* *
32131973 GTACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAG
1 GTACCAAATTGGGTCAAAAAAAGTTTAGGTAACAAATTAGAAAAAAGTGTCAAGTTCAG
* * *
32132032 GTACAAAATTGGGTCAAAAAAAAGTTTAGGCAACAAATTAGAAAAAAGTGTCAAGTTCAA
1 GTACCAAATTGGGTC-AAAAAAAGTTTAGGTAACAAATTAGAAAAAAGTGTCAAGTTCAG
*
32132092 ATACCAAAT
1 GTACCAAAT
32132101 GTTATATTAA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
59 65 0.58
60 47 0.42
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (59 bp):
GTACCAAATTGGGTCAAAAAAAGTTTAGGTAACAAATTAGAAAAAAGTGTCAAGTTCAG
Found at i:32138381 original size:3 final size:3
Alignment explanation
Indices: 32138373--32138409 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
32138363 TTATATTTAG
32138373 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32138410 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32138414 original size:3 final size:3
Alignment explanation
Indices: 32138408--32138494 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
32138398 AATAATAATA
32138408 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32138456 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32138495 CAAATCACAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32138565 original size:15 final size:17
Alignment explanation
Indices: 32138545--32138581 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32138535 TGTAACTTAA
32138545 TATTTTA-TC-AGTTTT
1 TATTTTATTCAAGTTTT
*
32138560 TATTTTATTCAATTTTT
1 TATTTTATTCAAGTTTT
32138577 TATTT
1 TATTT
32138582 AGTTTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (17 bp):
TATTTTATTCAAGTTTT
Found at i:32138609 original size:17 final size:19
Alignment explanation
Indices: 32138587--32138624 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32138577 TATTTAGTTT
32138587 TAGTATA-ATAA-TAAAAA
1 TAGTATATATAATTAAAAA
*
32138604 TAGTATATTTAATTAAAAA
1 TAGTATATATAATTAAAAA
32138623 TA
1 TA
32138625 ATTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TAGTATATATAATTAAAAA
Found at i:32139282 original size:17 final size:18
Alignment explanation
Indices: 32139260--32139294 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32139250 AAAATAAATA
32139260 TAAAAAATTAATT-TTAT
1 TAAAAAATTAATTATTAT
*
32139277 TAAAAACTTAATTATTAT
1 TAAAAAATTAATTATTAT
32139295 AATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATTAATTATTAT
Found at i:32140182 original size:9 final size:9
Alignment explanation
Indices: 32140168--32140217 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
32140158 TTCAATACTT
32140168 TAATTCGGG
1 TAATTCGGG
*
32140177 TAATTCGGT
1 TAATTCGGG
* *
32140186 TTATTCGAG
1 TAATTCGGG
* *
32140195 TAATTCAGT
1 TAATTCGGG
32140204 TAATTCGGG
1 TAATTCGGG
32140213 TAATT
1 TAATT
32140218 TTTTATATTA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
TAATTCGGG
Found at i:32140197 original size:18 final size:18
Alignment explanation
Indices: 32140167--32140217 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
32140157 ATTCAATACT
*
32140167 TTAATTCGGGTAATTCGG
1 TTAATTCGGGTAATTCAG
* *
32140185 TTTATTCGAGTAATTCAG
1 TTAATTCGGGTAATTCAG
32140203 TTAATTCGGGTAATT
1 TTAATTCGGGTAATT
32140218 TTTTATATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (18 bp):
TTAATTCGGGTAATTCAG
Found at i:32141976 original size:26 final size:26
Alignment explanation
Indices: 32141940--32141996 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
32141930 TCTCATCCTT
*
32141940 ATTTTACCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*
32141966 ATTTTACCCCTAATAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
32141992 ATTTT
1 ATTTT
32141997 GTTCTTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:32146270 original size:25 final size:25
Alignment explanation
Indices: 32146199--32146271 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
32146189 AATAAACAAG
* * *
32146199 GATTTATCTGGAAAGCCTTTGTGGC
1 GATTTCTCTGAAAAACCTTTGTGGC
* * *
32146224 GATCTCTATGAAAAGACC-TTGTGGT
1 GATTTCTCTGAAAA-ACCTTTGTGGC
*
32146249 GATTTCTCTGTAAAACCTTTGTG
1 GATTTCTCTGAAAAACCTTTGTG
32146272 ACAAATCCTC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (25 bp):
GATTTCTCTGAAAAACCTTTGTGGC
Found at i:32148146 original size:5 final size:5
Alignment explanation
Indices: 32148136--32148160 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32148126 AAAGACTTGG
32148136 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
32148161 AAATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:32148212 original size:30 final size:27
Alignment explanation
Indices: 32148142--32148216 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 27
32148132 TTGGTTTTAT
*
32148142 TTTATTT-TATTTTATTTTAAAATATA
1 TTTATTTGTATTTAATTTTAAAATATA
*
32148168 TTT-TTCTAGGATTTAATATTTAAAGATATTA
1 TTTATT-T-GTATTTAAT-TTTAAA-ATA-TA
32148199 TTTATTTGTATTTAATTT
1 TTTATTTGTATTTAATTT
32148217 ATGTTGATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 2 0.05
26 4 0.10
28 6 0.15
29 8 0.21
30 11 0.28
31 6 0.15
32 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTATTTGTATTTAATTTTAAAATATA
Found at i:32149035 original size:20 final size:21
Alignment explanation
Indices: 32149002--32149055 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
32148992 ACTTCCCTGT
*
32149002 TTTCTATT-TTTTTAATTCTA
1 TTTCTTTTATTTTTAATTCTA
* *
32149022 TTT-TTTTATTTTTAATTTTG
1 TTTCTTTTATTTTTAATTCTA
32149042 TTTCTTTTATTTTT
1 TTTCTTTTATTTTT
32149056 TCTCAAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 10 0.34
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTCTTTTATTTTTAATTCTA
Found at i:32149040 original size:15 final size:14
Alignment explanation
Indices: 32149003--32149029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32148993 CTTCCCTGTT
32149003 TTCTATTTTTTTAA
1 TTCTATTTTTTTAA
32149017 TTCTATTTTTTTA
1 TTCTATTTTTTTA
32149030 TTTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTATTTTTTTAA
Found at i:32150609 original size:21 final size:21
Alignment explanation
Indices: 32150585--32150640 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
32150575 TGTTCTTGAA
* *
32150585 TTTCAATAGCAATCTATAGAT
1 TTTCAAAAGCAAACTATAGAT
* *
32150606 TTTCAAAAGCAAACTGTGGAT
1 TTTCAAAAGCAAACTATAGAT
*
32150627 TTTCAAAAGAAAAC
1 TTTCAAAAGCAAAC
32150641 CGAGGCATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (21 bp):
TTTCAAAAGCAAACTATAGAT
Found at i:32152775 original size:101 final size:98
Alignment explanation
Indices: 32152611--32152795 Score: 214
Period size: 101 Copynumber: 1.9 Consensus size: 98
32152601 TGCGTTAGAT
* * * *
32152611 TGAGTAACTGGAGTGGAGTACTTGGTTGTCATTTCATTTCGCGTCAAAATGGCTAACACATTCTA
1 TGAGTAACGGGAGTGGAGTACTTGGTTGTCATTTCATTTCGCGTAAAAAAGGCCAACACATTCT-
32152676 CTAAAAGAAGAA-AAAAAAATTGGAAGCATGTTGGGC
65 -TAAAA-AA-AAGAAAAAAATTGGAAGCATGTTGGGC
* * ***
32152712 TGAGTAACCGGGA-TGGAGTGCTTGAG-TGTCATTTCATTTCGCGTAAAAAAGTCCAATGTATTC
1 TGAGTAA-CGGGAGTGGAGTACTTG-GTTGTCATTTCATTTCGCGTAAAAAAGGCCAACACATTC
32152775 TTAAAAAAAAGAAAAAAATTG
64 TTAAAAAAAAGAAAAAAATTG
32152796 ACAAAATAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
97 2 0.03
98 12 0.17
99 5 0.07
101 48 0.67
102 5 0.07
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (98 bp):
TGAGTAACGGGAGTGGAGTACTTGGTTGTCATTTCATTTCGCGTAAAAAAGGCCAACACATTCTT
AAAAAAAAGAAAAAAATTGGAAGCATGTTGGGC
Found at i:32153825 original size:21 final size:22
Alignment explanation
Indices: 32153788--32153835 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
32153778 TGTTTTCTAT
*
32153788 TTTTTAATTCTATTTTCTTTTA
1 TTTTTAATTCTAGTTTCTTTTA
32153810 TTTTTAATTCT-GTTTCTTTTA
1 TTTTTAATTCTAGTTTCTTTTA
32153831 TTTTT
1 TTTTT
32153836 CCTCAGATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTAATTCTAGTTTCTTTTA
Found at i:32154813 original size:20 final size:21
Alignment explanation
Indices: 32154784--32154823 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32154774 TTATATTTAA
*
32154784 AGACTAAAACTC-TAAACTCT
1 AGACTAAAACCCTTAAACTCT
*
32154804 AGACTTAAACCCTTAAACTC
1 AGACTAAAACCCTTAAACTC
32154824 AATATCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (21 bp):
AGACTAAAACCCTTAAACTCT
Found at i:32155210 original size:13 final size:14
Alignment explanation
Indices: 32155178--32155211 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
32155168 ATTTGTTTCA
32155178 CTGAAAATAACTTT
1 CTGAAAATAACTTT
*
32155192 CGGAAAATAA-TTT
1 CTGAAAATAACTTT
32155205 CTGAAAA
1 CTGAAAA
32155212 ATGACTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (14 bp):
CTGAAAATAACTTT
Found at i:32156200 original size:16 final size:17
Alignment explanation
Indices: 32156181--32156221 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
32156171 TTTCACGTTG
*
32156181 GAAAAAAAA-AACAAGC
1 GAAAAAAAAGAAAAAGC
32156197 GAAAAGAAAAGAAAAAGC
1 GAAAA-AAAAGAAAAAGC
32156215 -AAAAAAA
1 GAAAAAAA
32156222 TTCCAATGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAGAAAAAGC
Found at i:32164300 original size:3 final size:3
Alignment explanation
Indices: 32164286--32164369 Score: 159
Period size: 3 Copynumber: 28.0 Consensus size: 3
32164276 TTGACTTTTT
*
32164286 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32164334 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32164370 CATGGACACC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32165867 original size:124 final size:125
Alignment explanation
Indices: 32165646--32165895 Score: 448
Period size: 124 Copynumber: 2.0 Consensus size: 125
32165636 AGGAGTTGCT
*
32165646 TCGTTCACAAGTGAGTGTCAATTTGCCATCTAAAGAAAGCAATTTTTTCTTATACAATTGAAAAA
1 TCGTTCACAAGTGAGTGCCAATTTGCCATCTAAAGAAAGCAATTTTTTCTTATACAATTGAAAAA
32165711 CACATGGATAAGTATCCTTTTCCTTATTATTGCCTATTACAATTGTATATGTATTGTTAC
66 CACATGGATAAGTATCCTTTTCCTTATTATTGCCTATTACAATTGTATATGTATTGTTAC
*
32165771 TCGTTCACAAGTGAGTGCCAATTTGCCATCTAAAG-ATGCAATTTTTTCTTATACAATTGAAAAA
1 TCGTTCACAAGTGAGTGCCAATTTGCCATCTAAAGAAAGCAATTTTTTCTTATACAATTGAAAAA
* * *
32165835 CACATGGATAAGTATCCTTTTTCTTATTATTGCCTATTACAATTGTATCTGTGTTGTTAC
66 CACATGGATAAGTATCCTTTTCCTTATTATTGCCTATTACAATTGTATATGTATTGTTAC
32165895 T
1 T
32165896 GGCAACAACT
Statistics
Matches: 120, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
124 86 0.72
125 34 0.28
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (125 bp):
TCGTTCACAAGTGAGTGCCAATTTGCCATCTAAAGAAAGCAATTTTTTCTTATACAATTGAAAAA
CACATGGATAAGTATCCTTTTCCTTATTATTGCCTATTACAATTGTATATGTATTGTTAC
Found at i:32169282 original size:185 final size:185
Alignment explanation
Indices: 32168731--32169282 Score: 1005
Period size: 185 Copynumber: 3.0 Consensus size: 185
32168721 TTACACTACG
*
32168731 CTTTGTGTTTCACTAGATTTTTCATTGTGCTACTATATTGAATCTGGTTCAGTAGTTAGAAAACA
1 CTTTGTGTTTCACTAGATTTTTCATTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
* *
32168796 TTTAACTTTTTCAAAACCATAGAAAAGAAACAAAATTCCTGTTGCTTTTGACCAGGGAACTATGG
66 TTTAACTGTTTCAAAACCATAGAAAAGAAACAAAATTCCTGTTTCTTTTGACCAGGGAACTATGG
*
32168861 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCGATA
131 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCTATA
* **
32168916 CTTTGTGTTTCACCAGATTTTTTGTTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
1 CTTTGTGTTTCACTAGATTTTTCATTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
*
32168981 TTTAACTGTTTCAAAACCATAGAAAAGAAACAGAATTCCTGTTTCTTTTGACCAGGGAACTATGG
66 TTTAACTGTTTCAAAACCATAGAAAAGAAACAAAATTCCTGTTTCTTTTGACCAGGGAACTATGG
*
32169046 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACATTTATCTATA
131 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCTATA
*
32169101 CTTTGTGTTTCACTAGAATTTTCATTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
1 CTTTGTGTTTCACTAGATTTTTCATTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
*
32169166 TTTAACTGTTTCAAAACCATAGAAAAGAAACAAAACTCCTGTTTCTTTTGACCAGGGAACTATGG
66 TTTAACTGTTTCAAAACCATAGAAAAGAAACAAAATTCCTGTTTCTTTTGACCAGGGAACTATGG
32169231 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCT
131 ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCT
32169283 GAAGAAAGTA
Statistics
Matches: 351, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 351 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (185 bp):
CTTTGTGTTTCACTAGATTTTTCATTGTGCTACTATATTGAATCTGGTTCACTAGTTAGAAAACA
TTTAACTGTTTCAAAACCATAGAAAAGAAACAAAATTCCTGTTTCTTTTGACCAGGGAACTATGG
ATCTTATATCAATTTAGCTTGTAGTCATTGCACTCTTTACTTACCTTTATCTATA
Found at i:32184930 original size:18 final size:18
Alignment explanation
Indices: 32184909--32184947 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32184899 GTTTTCTAGA
32184909 ACAGTAG-TCTCACCTTGT
1 ACAGTAGCT-TCACCTTGT
*
32184927 ACAGTAGCTTCCCCTTGT
1 ACAGTAGCTTCACCTTGT
32184945 ACA
1 ACA
32184948 ATGGTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (18 bp):
ACAGTAGCTTCACCTTGT
Found at i:32192608 original size:2 final size:2
Alignment explanation
Indices: 32192563--32192595 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32192553 ATATATATAA
32192563 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32192596 AGTGAAGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32193631 original size:2 final size:2
Alignment explanation
Indices: 32193624--32193649 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32193614 AGTGATCTTC
32193624 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32193650 TTGTTTGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32202353 original size:15 final size:15
Alignment explanation
Indices: 32202333--32202361 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32202323 CGCATCCCCG
32202333 AATAAGACTTTGGGC
1 AATAAGACTTTGGGC
32202348 AATAAGACTTTGGG
1 AATAAGACTTTGGG
32202362 AGGTTCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (15 bp):
AATAAGACTTTGGGC
Found at i:32204576 original size:21 final size:20
Alignment explanation
Indices: 32204540--32204592 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
32204530 GGGAACAATT
*
32204540 TTTCAATCGATTTAAAAATG
1 TTTCAATCGATTTAAAAAAG
*
32204560 TTTCAATTGAGTTTAAAAAAG
1 TTTCAATCGA-TTTAAAAAAG
*
32204581 TTTAAATC-ATTT
1 TTTCAATCGATTT
32204593 TTGAATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 15 0.54
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTCAATCGATTTAAAAAAG
Found at i:32209830 original size:21 final size:20
Alignment explanation
Indices: 32209779--32209830 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
32209769 ACTACATATT
*
32209779 TGAATAACTACAAAATAAAA
1 TGAATAAATACAAAATAAAA
* *
32209799 TCAAATTAATACAAAATACAAA
1 T-GAATAAATACAAAATA-AAA
32209821 TGAATAAATA
1 TGAATAAATA
32209831 ATTGAAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (20 bp):
TGAATAAATACAAAATAAAA
Found at i:32210190 original size:42 final size:42
Alignment explanation
Indices: 32210143--32210234 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 42
32210133 TGACAATTGT
32210143 CTATAATAGTAAATT-TTAGGACCTCAGTTTTTACTAACCATG
1 CTATAATA-TAAATTATTAGGACCTCAGTTTTTACTAACCATG
***
32210185 CTATAATATTTTTTACTTAGGACCTCAGTTTTTACTAACCATG
1 CTATAATATAAATTA-TTAGGACCTCAGTTTTTACTAACCATG
32210228 CTATAAT
1 CTATAAT
32210235 GTTGTTTACG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 3 0.07
42 8 0.18
43 34 0.76
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (42 bp):
CTATAATATAAATTATTAGGACCTCAGTTTTTACTAACCATG
Found at i:32210208 original size:43 final size:43
Alignment explanation
Indices: 32210158--32210243 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
32210148 ATAGTAAATT
*
32210158 TTAGGACCTCAGTTTTTACTAACCATGCTATAATATTTTTTAC
1 TTAGGACCTCAGTTTTTACTAACCATGCTATAATATTGTTTAC
*
32210201 TTAGGACCTCAGTTTTTACTAACCATGCTATAATGTTGTTTAC
1 TTAGGACCTCAGTTTTTACTAACCATGCTATAATATTGTTTAC
32210244 GTCTTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (43 bp):
TTAGGACCTCAGTTTTTACTAACCATGCTATAATATTGTTTAC
Found at i:32211502 original size:17 final size:16
Alignment explanation
Indices: 32211480--32211518 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
32211470 TTAATTGAGG
*
32211480 TTTAAATTGATTTTAAA
1 TTTAAATTGAATTT-AA
*
32211497 TTTAAATTTAATTTAA
1 TTTAAATTGAATTTAA
32211513 TTTAAA
1 TTTAAA
32211519 ATAGTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTAAATTGAATTTAA
Found at i:32218980 original size:5 final size:5
Alignment explanation
Indices: 32218928--32218979 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
32218918 TTCAATGAAT
*
32218928 AAAAG AAAAG AAAAAG AAGAAG AAAA- ACAAAA AAAAG AAAAG AAAAG
1 AAAAG AAAAG -AAAAG AA-AAG AAAAG A-AAAG AAAAG AAAAG AAAAG
*
32218975 GAAAG
1 AAAAG
32218980 GTCGAGGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 1 0.02
5 29 0.71
6 11 0.27
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:32220051 original size:49 final size:49
Alignment explanation
Indices: 32219943--32220056 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
32219933 TCAGCACTAT
* * *
32219943 AAGACATGAAGGGAAAGATCTAAGCCGCGTCGGCGGATCCAGTATCACG
1 AAGACATGAAGGGAAAAATCTAAGCCGCGACGGCGGATCCAGTACCACG
* * *
32219992 AAGACATGAAGAGAAAAATCTAAGCCGTGACGG-GGAATCCCGTACCACG
1 AAGACATGAAGGGAAAAATCTAAGCCGCGACGGCGG-ATCCAGTACCACG
**
32220041 AAGATTTGAAGGGAAA
1 AAGACATGAAGGGAAA
32220057 GGATTAAGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 2 0.04
49 53 0.96
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (49 bp):
AAGACATGAAGGGAAAAATCTAAGCCGCGACGGCGGATCCAGTACCACG
Found at i:32221046 original size:205 final size:205
Alignment explanation
Indices: 32220497--32221089 Score: 945
Period size: 207 Copynumber: 2.9 Consensus size: 205
32220487 TATACCAACT
* *
32220497 CAAATCTTCGAACCTAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAGC
1 CAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAGC
* *
32220562 TTCCTGATGAGACATTGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGATCTAGAGAAGCGAATT
66 TTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATT
*
32220627 AAAACAAGTGATGCGGTCATCTTCTTGATGAGACACTGAGAAGAAGACCAAATCAAACCCACGCT
131 AAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCACGCT
32220692 CAAATACGAG
196 CAAATACGAG
*
32220702 CAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAACAGGTCGAAGCAATAAAATGGTTA
1 CAAATCTTCGAA-CCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAATGGTTA
* * * *
32220767 GCTTCCTGATGAGACACTAAGAAGTGGACCAAATTCGTCTTCCTAAAGAGATCCAGAGAAGCGAA
64 GCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAA
* **
32220832 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAAAAGAAGACCAAATCAAACCCGGG
129 TTAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCACG
*
32220897 CTC-AATGCGAG
194 CTCAAATACGAG
* *
32220908 CAAATCTTCAAATCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
1 CAAATCTTCGAA-CCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAG
* *
32220973 CTTCCTGATAAGACACTGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCTAGAGAAGCGAAT
65 CTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAAT
* * * * *
32221038 TAAAACAAGTGACGCGGTCGTTTTCCTGATGAAATACTGAGAAGAAGACCAA
130 TAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAA
32221090 GCCAATAGAA
Statistics
Matches: 356, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
205 127 0.36
206 97 0.27
207 132 0.37
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (205 bp):
CAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATGGTTAGC
TTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATT
AAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCACGCT
CAAATACGAG
Found at i:32221434 original size:6 final size:6
Alignment explanation
Indices: 32221423--32221467 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
32221413 TTAAATTGAT
* *
32221423 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32221468 ATAGTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 2 0.06
5 8 0.24
6 23 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:32221434 original size:17 final size:17
Alignment explanation
Indices: 32221412--32221467 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
32221402 TTAATTGAGG
*
32221412 TTTAAATTGATTTTAAA
1 TTTAAATTTATTTTAAA
*
32221429 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
32221446 TTTAAATTTA-ATTAAA
1 TTTAAATTTATTTTAAA
32221462 TTTAAA
1 TTTAAA
32221468 ATAGTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
16 10 0.29
17 25 0.71
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:32221438 original size:23 final size:22
Alignment explanation
Indices: 32221412--32221463 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 22
32221402 TTAATTGAGG
* *
32221412 TTTAAATTGATTTTAAATTTAAA
1 TTTAAATTAAGTTTAAATTT-AA
**
32221435 TTTATTTTAAGTTTAAATTTAA
1 TTTAAATTAAGTTTAAATTTAA
32221457 -TTAAATT
1 TTTAAATT
32221464 TAAAATAGTA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 5 0.22
22 2 0.09
23 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTAAATTAAGTTTAAATTTAA
Found at i:32228582 original size:18 final size:18
Alignment explanation
Indices: 32228556--32228591 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32228546 CCTCTTATCG
*
32228556 TTGTAGACAGCCTCACCA
1 TTGTAGACAACCTCACCA
*
32228574 TTGTCGACAACCTCACCA
1 TTGTAGACAACCTCACCA
32228592 ATAACCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (18 bp):
TTGTAGACAACCTCACCA
Found at i:32232650 original size:23 final size:23
Alignment explanation
Indices: 32232623--32232668 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32232613 GCCGTTGGAG
*
32232623 GTGTGTTTCTGTCTGTACTACAT
1 GTGTGTTTCTATCTGTACTACAT
*
32232646 GTGTGTTTCTATCTGTGCTACAT
1 GTGTGTTTCTATCTGTACTACAT
32232669 ATTTGTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (23 bp):
GTGTGTTTCTATCTGTACTACAT
Found at i:32232675 original size:23 final size:23
Alignment explanation
Indices: 32232624--32232675 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
32232614 CCGTTGGAGG
* *
32232624 TGTGTTTCTGTCTGTACTACATG
1 TGTGTTTCTATCTGTACTACATA
*
32232647 TGTGTTTCTATCTGTGCTACATA
1 TGTGTTTCTATCTGTACTACATA
*
32232670 TTTGTT
1 TGTGTT
32232676 GTGTGTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.19, T:0.52
Consensus pattern (23 bp):
TGTGTTTCTATCTGTACTACATA
Found at i:32234760 original size:82 final size:82
Alignment explanation
Indices: 32234611--32234765 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 82
32234601 AACCAGTATA
* * * * *
32234611 CGATGCTGCTCACACAAGCTGATGAGAGTCTGTAACATATGCGAAGACTCAGCCATCGATATGAT
1 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATCGAGATAAT
32234676 CCAGAATTTCTCACTCT
66 CCAGAATTTCTCACTCT
* *
32234693 CGATGCTGCTCACACAAGTTGATGAGAATCCGCAACATATGCGAAGACTTAGCCATCGGAGA-AA
1 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATC-GAGATAA
*
32234757 TCCATAATT
65 TCCAGAATT
32234766 CATTATTCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 61 0.95
83 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (82 bp):
CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATCGAGATAAT
CCAGAATTTCTCACTCT
Found at i:32246552 original size:22 final size:22
Alignment explanation
Indices: 32246507--32246567 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
32246497 CGATCTGAGG
32246507 AAAA-ATAAAAGAAACAT-AATT
1 AAAAGATAAAAGAAA-ATAAATT
32246528 -AAAGATAAAAGAAAATAGAATT
1 AAAAGATAAAAGAAAATA-AATT
*
32246550 AAAAGA-AATAGAAAATAA
1 AAAAGATAAAAGAAAATAA
32246568 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 14 0.40
23 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAAGATAAAAGAAAATAAATT
Found at i:32246560 original size:15 final size:16
Alignment explanation
Indices: 32246533--32246562 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32246523 TAATTAAAGA
32246533 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
32246549 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
32246563 AATAAGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:32249013 original size:28 final size:24
Alignment explanation
Indices: 32248949--32249006 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
32248939 CTTGCAACTT
*
32248949 CTACCGATACATCAGTACCAAAAA
1 CTACTGATACATCAGTACCAAAAA
32248973 CTACTGATACATCAGTACCAAAAA
1 CTACTGATACATCAGTACCAAAAA
*
32248997 CTATTGATAC
1 CTACTGATAC
32249007 TTACATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (24 bp):
CTACTGATACATCAGTACCAAAAA
Found at i:32249650 original size:24 final size:24
Alignment explanation
Indices: 32249618--32249697 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
32249608 AACCAACACG
*
32249618 AGCCCAGAATGATTAGCTCGTACA
1 AGCCCAGAATGATTAGCTCTTACA
* *
32249642 AGCCTAGAATGATTAGCTCTTAAA
1 AGCCCAGAATGATTAGCTCTTACA
* *
32249666 AGCCCAGGATGATTAGCTCTTACG
1 AGCCCAGAATGATTAGCTCTTACA
32249690 AGCCCAGA
1 AGCCCAGA
32249698 CAGAGTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (24 bp):
AGCCCAGAATGATTAGCTCTTACA
Found at i:32251707 original size:17 final size:17
Alignment explanation
Indices: 32251685--32251777 Score: 123
Period size: 17 Copynumber: 5.5 Consensus size: 17
32251675 AACCCACTTT
32251685 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
32251702 TTTAAATTTGTTTCAAA
1 TTTAAATTTATTTTAAA
* *
32251719 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
32251736 TTCAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
32251753 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
32251770 TTTAAATT
1 TTTAAATT
32251778 AATAAAAGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 63 1.00
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:32251757 original size:23 final size:25
Alignment explanation
Indices: 32251688--32251757 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 25
32251678 CCACTTTTTT
32251688 AAATTTATTTTAAATTTAAATTTGTTTC
1 AAATTTATTTTAAATTT-AA--TGTTTC
*
32251716 AAATTTAAATTT-AATTTAA-G-TTC
1 AAATTT-ATTTTAAATTTAATGTTTC
32251739 AAATTTATTTTAAATTTAA
1 AAATTTATTTTAAATTTAA
32251758 AATTATTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 4 0.11
23 16 0.42
24 1 0.03
27 2 0.05
28 11 0.29
29 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (25 bp):
AAATTTATTTTAAATTTAATGTTTC
Found at i:32253679 original size:29 final size:29
Alignment explanation
Indices: 32253526--32253846 Score: 151
Period size: 30 Copynumber: 10.9 Consensus size: 29
32253516 AAGGTCCTTG
* * * *
32253526 AACTTTCTAGAAATTATATTTTGACCCCCA
1 AACTTTC-AAAAATTACATTTTTACCCTCA
* * * *
32253556 AACTTTTCCAAAATCATATTTTGA-CCTCCA
1 AAC-TTTCAAAAATTACATTTTTACCCT-CA
* * * *
32253586 AACTTCACAAAAATTATATTTTTACCTTCG
1 AACTT-TCAAAAATTACATTTTTACCCTCA
* *
32253616 AAC-TTCATAAAAATTACATATTT-CCCCCA
1 AACTTTC--AAAAATTACATTTTTACCCTCA
*
32253645 AACTTTCAAAAATTACATTTTTTCCCTCA
1 AACTTTCAAAAATTACATTTTTACCCTCA
* * **
32253674 AACTTTCCAAAATTACCA-TTTTAACCTTG
1 AACTTTCAAAAATTA-CATTTTTACCCTCA
*
32253703 AA-TTTCCAAAAATTCCATTTTTGACCCT-A
1 AACTTT-CAAAAATTACATTTTT-ACCCTCA
* *
32253732 AACTTTCCAAAAATTACCA-TTTTACTCTTA
1 AACTTT-CAAAAATTA-CATTTTTACCCTCA
* * **
32253762 AA-TTTCCAAAAATTCCATTTCTGA-CCTTG
1 AACTTT-CAAAAATTACATTT-TTACCCTCA
* *
32253791 AACTTTTCACAAATTAC-TATTTTACCCTCG
1 AAC-TTTCAAAAATTACAT-TTTTACCCTCA
* *
32253821 AA-TGTCCAAAAATAACATTTTTACCC
1 AACT-TTCAAAAATTACATTTTTACCC
32253847 CCTAGTGTCC
Statistics
Matches: 228, Mismatches: 40, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
28 23 0.10
29 95 0.42
30 99 0.43
31 11 0.05
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AACTTTCAAAAATTACATTTTTACCCTCA
Found at i:32253694 original size:30 final size:31
Alignment explanation
Indices: 32253584--32253875 Score: 176
Period size: 29 Copynumber: 10.0 Consensus size: 31
32253574 TTTTGACCTC
* *
32253584 CAAAC-TTCACAAAAATTA-TATTTTTACCTT
1 CAAACTTTC-CAAAAATTACCATTTTTACCCT
* * * *
32253614 CGAAC-TTCATAAAAATTA-CATATTT-CCCC
1 CAAACTTTC-CAAAAATTACCATTTTTACCCT
*
32253643 CAAACTTT-CAAAAATTA-CATTTTTTCCCT
1 CAAACTTTCCAAAAATTACCATTTTTACCCT
*
32253672 CAAACTTTCC-AAAATTACCA-TTTTAACCT
1 CAAACTTTCCAAAAATTACCATTTTTACCCT
**
32253701 TGAA-TTTCCAAAAATT-CCATTTTTGACCCT
1 CAAACTTTCCAAAAATTACCATTTTT-ACCCT
*
32253731 -AAACTTTCCAAAAATTACCA-TTTTACTCT
1 CAAACTTTCCAAAAATTACCATTTTTACCCT
* *
32253760 TAAA-TTTCCAAAAATT-CCATTTCTGA-CCT
1 CAAACTTTCCAAAAATTACCATTT-TTACCCT
** * * *
32253789 TGAACTTTTCACAAATTACTA-TTTTACCCT
1 CAAACTTTCCAAAAATTACCATTTTTACCCT
* * *
32253819 CGAA-TGTCCAAAAA-TAACATTTTTACCC-
1 CAAACTTTCCAAAAATTACCATTTTTACCCT
** * *
32253847 CCTAGTGTCCAAAAATTACCA-TTTTACCC
1 CAAACTTTCCAAAAATTACCATTTTTACCC
32253876 CCAGGCATCC
Statistics
Matches: 211, Mismatches: 33, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
28 30 0.14
29 103 0.49
30 73 0.35
31 5 0.02
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (31 bp):
CAAACTTTCCAAAAATTACCATTTTTACCCT
Found at i:32253774 original size:59 final size:57
Alignment explanation
Indices: 32253651--32253874 Score: 225
Period size: 59 Copynumber: 3.8 Consensus size: 57
32253641 CCCAAACTTT
*
32253651 CAAAAATTACATTTTTTCCCTCAAACTTTCC-AAAATTACCATTTTAACCTTGAATTTC
1 CAAAAATTACATTTTTACCCT-AAACTTTCCAAAAATTACCATTTT-ACCTTGAATTTC
* *
32253709 CAAAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACTCTTAAATTTC
1 CAAAAATTACATTTTT-ACCCTAAACTTTCCAAAAATTACCATTTTAC-CTTGAATTTC
* * * * * * * * *
32253768 CAAAAATTCCATTTCTGACCTTGAACTTTTCACAAATTACTATTTTACCCTCGAATGTC
1 CAAAAATTACATTT-TTACCCTAAACTTTCCAAAAATTACCATTTTA-CCTTGAATTTC
* *** * *
32253827 CAAAAATAACATTTTTACCCCCTAGTGTCCAAAAATTACCATTTTACC
1 CAAAAATTACATTTTTACCCTAAACTTTCCAAAAATTACCATTTTACC
32253875 CCCAGGCATC
Statistics
Matches: 137, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 48 0.35
59 85 0.62
60 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (57 bp):
CAAAAATTACATTTTTACCCTAAACTTTCCAAAAATTACCATTTTACCTTGAATTTC
Found at i:32253843 original size:88 final size:88
Alignment explanation
Indices: 32253651--32253872 Score: 197
Period size: 88 Copynumber: 2.5 Consensus size: 88
32253641 CCCAAACTTT
* *
32253651 CAAAAATTACATTTTTTCCCTCAAACTTTCCAAAATTACCATTTTAACCTTGAATTTCCAAAAAT
1 CAAAAATAACATTTTTACCCTCAAACTTTCCAAAATTACCATTTTAACCTTGAATTTCCAAAAAT
*
32253716 TCCATTTTTGACCCTAAACTTTC
66 TCCATTTTTGACCCTAAACTGTC
* * * * * *
32253739 CAAAAATTACCA-TTTTACTCTTAAA-TTTCCAAAAATT-CCATTTCTGACCTTGAACTTTTCAC
1 CAAAAA-TAACATTTTTACCCTCAAACTTTCC-AAAATTACCATTT-TAACCTTGAA-TTTCCAA
* *
32253801 AAATTAC-TATTTT-ACCCTCGAA-TGTC
62 AAATTCCAT-TTTTGACCCT-AAACTGTC
** * *
32253827 CAAAAATAACATTTTTACCC-CCTAGTGTCCAAAAATTACCATTTTA
1 CAAAAATAACATTTTTACCCTCAAACTTTCC-AAAATTACCATTTTA
32253873 CCCCCAGGCA
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
87 16 0.15
88 65 0.61
89 26 0.24
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (88 bp):
CAAAAATAACATTTTTACCCTCAAACTTTCCAAAATTACCATTTTAACCTTGAATTTCCAAAAAT
TCCATTTTTGACCCTAAACTGTC
Found at i:32258985 original size:25 final size:25
Alignment explanation
Indices: 32258951--32259045 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
32258941 AGACGATGAA
* * *
32258951 GATATTTTGTCTGGCTCGTGAGAGC
1 GATATTCTGTCTGGCTCGTAAGAAC
* *
32258976 GATATTTTGTCTAGCTCGTAAGAAC
1 GATATTCTGTCTGGCTCGTAAGAAC
*
32259001 GTTATTCTGTCTGGCTCGTAAGAAC
1 GATATTCTGTCTGGCTCGTAAGAAC
*
32259026 GTTATTCTGTCTGGGCTCGT
1 GATATTCTGTCT-GGCTCGT
32259046 TAGAGGTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 56 0.89
26 7 0.11
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (25 bp):
GATATTCTGTCTGGCTCGTAAGAAC
Found at i:32267006 original size:30 final size:30
Alignment explanation
Indices: 32266986--32267144 Score: 114
Period size: 29 Copynumber: 5.4 Consensus size: 30
32266976 AGACTTCTCT
32266986 AAAATTACATTTTCGACCTCAAAACTTCCA
1 AAAATTACATTTTCGACCTCAAAACTTCCA
* ** *
32267016 AAAATTCCATTTTTAACCTCGAAACTTCCA
1 AAAATTACATTTTCGACCTCAAAACTTCCA
** *
32267046 AAAATTATGTTTT--ACCCTCAAAA-TTCTA
1 AAAATTACATTTTCGA-CCTCAAAACTTCCA
* *
32267074 AAAAATCCATTTT-GATCC-CAAAACTTCCA
1 AAAATTACATTTTCGA-CCTCAAAACTTCCA
** * * * *
32267103 AAAACAACATTTT-TACCCCCAAACTTCTA
1 AAAATTACATTTTCGACCTCAAAACTTCCA
*
32267132 AAAATTCCATTTT
1 AAAATTACATTTT
32267145 TTACCCCCAA
Statistics
Matches: 101, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
28 21 0.21
29 44 0.44
30 36 0.36
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATTACATTTTCGACCTCAAAACTTCCA
Found at i:32267117 original size:58 final size:58
Alignment explanation
Indices: 32267002--32267144 Score: 164
Period size: 58 Copynumber: 2.4 Consensus size: 58
32266992 ACATTTTCGA
* * * **
32267002 CCTCAAAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATTATGTTTTAC
1 CCTCAAAA-TTCTAAAAATTCCATTTTGAACCTCAAAACTTCCAAAAAACATGTTTTAC
* *
32267061 CCTCAAAATTCTAAAAAATCCATTTTGATCC-CAAAACTTCCAAAAACAACAT-TTTTAC
1 CCTCAAAATTCTAAAAATTCCATTTTGAACCTCAAAACTTCC-AAAA-AACATGTTTTAC
* *
32267119 CCCCAAACTTCTAAAAATTCCATTTT
1 CCTCAAAATTCTAAAAATTCCATTTT
32267145 TTACCCCCAA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 9 0.12
58 52 0.72
59 11 0.15
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (58 bp):
CCTCAAAATTCTAAAAATTCCATTTTGAACCTCAAAACTTCCAAAAAACATGTTTTAC
Found at i:32267146 original size:30 final size:30
Alignment explanation
Indices: 32267007--32267174 Score: 139
Period size: 29 Copynumber: 5.7 Consensus size: 30
32266997 TTCGACCTCA
* * *
32267007 AAACTTCCAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTTACCCCC
* *
32267037 AAACTTCCAAAAATT--ATGTTTTACCCTC
1 AAACTTCCAAAAATTCCATTTTTTACCCCC
* * * * * *
32267065 AAAATTCTAAAAAATCCA-TTTTGATCCCA
1 AAACTTCCAAAAATTCCATTTTTTACCCCC
***
32267094 AAACTTCCAAAAACAACA-TTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTTACCCCC
*
32267123 AAACTTCTAAAAATTCCATTTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTTACCCCC
* *
32267153 AAAATT-CAAAAATCACCATTTT
1 AAACTTCCAAAAAT-TCCATTTT
32267175 ACCCTCGAAT
Statistics
Matches: 106, Mismatches: 28, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
28 20 0.19
29 47 0.44
30 39 0.37
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTTACCCCC
Found at i:32267163 original size:58 final size:58
Alignment explanation
Indices: 32267007--32267178 Score: 154
Period size: 58 Copynumber: 3.0 Consensus size: 58
32266997 TTCGACCTCA
* * * * * ** *
32267007 AAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAA-ATTATGTTTTACCCTC
1 AAACTTCTAAAAATTCCATTTTTAACCCCCAAAATTCAAAAACAACAT-TTTTACCCCC
* * * *
32267065 AAAATTCTAAAAAATCCA-TTTTGA-TCCCAAAACTTCCAAAAACAACATTTTTACCCCC
1 AAACTTCTAAAAATTCCATTTTTAACCCCCAAAA-TT-CAAAAACAACATTTTTACCCCC
* *
32267123 AAACTTCTAAAAATTCCATTTTTTACCCCCAAAATTCAAAAATCACCA-TTTTACCC
1 AAACTTCTAAAAATTCCATTTTTAACCCCCAAAATTCAAAAA-CAACATTTTTACCC
32267179 TCGAATATCC
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
56 4 0.04
57 7 0.08
58 59 0.65
59 14 0.15
60 7 0.08
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (58 bp):
AAACTTCTAAAAATTCCATTTTTAACCCCCAAAATTCAAAAACAACATTTTTACCCCC
Found at i:32267165 original size:29 final size:30
Alignment explanation
Indices: 32267005--32267174 Score: 127
Period size: 30 Copynumber: 5.8 Consensus size: 30
32266995 TTTTCGACCT
* *
32267005 CAAAACTTCCAAAAATTCCATTTTTAACCTC
1 CAAAA-TTCCAAAAATTCCATTTTTTACCCC
* * * *
32267036 GAAACTTCCAAAAATT--ATGTTTTACCCT
1 CAAAATTCCAAAAATTCCATTTTTTACCCC
* * * *
32267064 CAAAATTCTAAAAAATCCA-TTTTGA-TCC
1 CAAAATTCCAAAAATTCCATTTTTTACCCC
***
32267092 CAAAACTTCCAAAAACAACA-TTTTTACCCC
1 CAAAA-TTCCAAAAATTCCATTTTTTACCCC
* *
32267122 CAAACTTCTAAAAATTCCATTTTTTACCCC
1 CAAAATTCCAAAAATTCCATTTTTTACCCC
*
32267152 CAAAATT-CAAAAATCACCATTTT
1 CAAAATTCCAAAAAT-TCCATTTT
32267175 ACCCTCGAAT
Statistics
Matches: 105, Mismatches: 28, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
28 26 0.25
29 35 0.33
30 41 0.39
31 3 0.03
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (30 bp):
CAAAATTCCAAAAATTCCATTTTTTACCCC
Found at i:32267231 original size:57 final size:58
Alignment explanation
Indices: 32267161--32267294 Score: 146
Period size: 57 Copynumber: 2.3 Consensus size: 58
32267151 CCAAAATTCA
* ** * * * *
32267161 AAAATCACCATTTTACCCTCGAATATCCAAAAATCTCGTTTTTGA-TCCAATTTTTAT-
1 AAAATTACCATTTTACCCTAAAATAT-CAAAAATCTCATTTTTAACCCCAAATTTTATC
* * *
32267218 AAAATTACCATTTTACCCTAAAATATCTAAAATGTCATTTTTAACCCCAAATTTTCTC
1 AAAATTACCATTTTACCCTAAAATATCAAAAATCTCATTTTTAACCCCAAATTTTATC
*
32267276 AAAATTACCATTTTGCCCT
1 AAAATTACCATTTTACCCT
32267295 TGAGAGTCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 14 0.22
57 32 0.50
58 18 0.28
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTAAAATATCAAAAATCTCATTTTTAACCCCAAATTTTATC
Found at i:32267248 original size:28 final size:27
Alignment explanation
Indices: 32267217--32267348 Score: 90
Period size: 28 Copynumber: 4.7 Consensus size: 27
32267207 CCAATTTTTA
32267217 TAAAATTACCATTTTACCCTAAAATATC
1 TAAAATTACCATTTTACCCTAAAA-ATC
* **
32267245 TAAAATGT--CATTTTTAACCCCAAATTTTC
1 TAAAAT-TACCA-TTTT-ACCCTAAA-AATC
* * * *
32267274 TCAAAATTACCATTTTGCCCTTGAGAGTC
1 T-AAAATTACCATTTTACCC-TAAAAATC
*
32267303 CAAAATTACCATTTTACCCCT-AAAATC
1 TAAAATTACCATTTTA-CCCTAAAAATC
*
32267330 TAAAATTAACATTTTACCC
1 TAAAATTACCATTTTACCC
32267349 CCGAGTATCC
Statistics
Matches: 80, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
26 3 0.04
27 20 0.25
28 25 0.31
29 20 0.25
30 10 0.12
31 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (27 bp):
TAAAATTACCATTTTACCCTAAAAATC
Found at i:32277742 original size:15 final size:16
Alignment explanation
Indices: 32277717--32277747 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32277707 CAATCAATGG
32277717 ACAATAAAAAATAAAA
1 ACAATAAAAAATAAAA
32277733 ACAA-AAAAAATAAAA
1 ACAATAAAAAATAAAA
32277748 TAAGTTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (16 bp):
ACAATAAAAAATAAAA
Found at i:32283195 original size:7 final size:7
Alignment explanation
Indices: 32283183--32283207 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32283173 TCTACAAGAA
32283183 TTATTAT
1 TTATTAT
32283190 TTATTAT
1 TTATTAT
32283197 TTATTAT
1 TTATTAT
32283204 TTAT
1 TTAT
32283208 CTCTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTAT
Found at i:32285909 original size:28 final size:28
Alignment explanation
Indices: 32285812--32285910 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 28
32285802 ACTAGGGGGC
* * **
32285812 AAAATGGTAATTTTGGACTCTCGAGGCC
1 AAAATGGTAATTTTGGACACTTGAGGGT
* *
32285840 AAAATGGTAATTTTGGGAAAATTTG-GGGTT
1 AAAATGGTAATTTT-GG-ACACTTGAGGG-T
*
32285870 AAAAT-G-ACATTTTAGACACTTGAGGGT
1 AAAATGGTA-ATTTTGGACACTTGAGGGT
32285897 AAAATGGTAATTTT
1 AAAATGGTAATTTT
32285911 TAAAAAAATC
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
27 11 0.20
28 25 0.45
29 11 0.20
30 8 0.15
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTGGACACTTGAGGGT
Found at i:32286059 original size:30 final size:30
Alignment explanation
Indices: 32286015--32286360 Score: 216
Period size: 29 Copynumber: 11.7 Consensus size: 30
32286005 ATCTAAGGGT
*
32286015 AAAATGATAATTTTTGCAAGTTTTGGGGTCA
1 AAAATG-TAATTTTTGGAAGTTTTGGGGTCA
* **
32286046 AAAATGGAATTTTTAAAAG-TTTGAGGGT-A
1 AAAATGTAATTTTTGGAAGTTTTG-GGGTCA
* ***
32286075 GAAATGTAATTTTTGGAAGTTTCAAGGTC-
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* * *
32286104 AAAATGTAATTTTTGAAAG-TTCGGGG-GA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* * * * *
32286132 AAAATATAATTTTTGAAAATTTCGAGG-CA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
** *
32286161 AAAATGTAATTTTTTGGAAGTTTT-AAGTTA
1 AAAATGTAA-TTTTTGGAAGTTTTGGGGTCA
* * *
32286191 AAAATGTAATTTTTAGAAGTTTTAGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* ** *
32286221 AAAATGGAATTTTT-GAAAATTCGAGGG-CA
1 AAAATGTAATTTTTGGAAGTTTTG-GGGTCA
* * **
32286250 AAAATGTATTTTTTGGAAATTCAGGGG-CA
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* *
32286279 AAAATGTAATTTTTGGAAGTTTTAGGGT-T
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
* *
32286308 AAAATG-ATATTTTGGTGAAGTTTAGGGGTCA
1 AAAATGTA-ATTTTTG-GAAGTTTTGGGGTCA
32286339 AAACA--TAATTTTTGGACAGTTT
1 AAA-ATGTAATTTTTGGA-AGTTT
32286361 AGGGATCTCT
Statistics
Matches: 248, Mismatches: 50, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
28 23 0.09
29 129 0.52
30 85 0.34
31 10 0.04
32 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTCA
Found at i:32286059 original size:59 final size:59
Alignment explanation
Indices: 32285925--32286341 Score: 195
Period size: 59 Copynumber: 7.1 Consensus size: 59
32285915 AAAATCAAGA
* ** * * * * *
32285925 TCAAAAATAGAATTTTCGGACATCTAGGGGTAAAACGATAAATTTTGAAAATTTCGGGG
1 TCAAAAATGGAATTTTTAGAAATCTAAGGGTAAAATGATAATTTTTGAAAGTTTCGGGG
* * * * *
32285984 TTAAAAATGGAGTTTTTAGATATCTAAGGGTAAAATGATAATTTTTGCAAGTTTTGGGG
1 TCAAAAATGGAATTTTTAGAAATCTAAGGGTAAAATGATAATTTTTGAAAGTTTCGGGG
* * * **
32286043 TCAAAAATGGAATTTTTA-AAAGTTTGAGGGTAGAAATG-TAATTTTTGGAAGTTTCAAGG
1 TCAAAAATGGAATTTTTAGAAA-TCTAAGGGTA-AAATGATAATTTTTGAAAGTTTCGGGG
* ** * * *
32286102 TC-AAAATGTAATTTTT-GAAAGT-TCGGGGGAAAAAT-ATAATTTTTGAAAATTTCGAGG
1 TCAAAAATGGAATTTTTAGAAA-TCT-AAGGGTAAAATGATAATTTTTGAAAGTTTCGGGG
* * * * * **
32286159 -CAAAAATGTAATTTTTTGGAAGTTTTAA-GTTAAAAATG-TAATTTTT-AGAAGTTTTAGGG
1 TCAAAAATGGAA-TTTTTAGAA-ATCTAAGGGT-AAAATGATAATTTTTGA-AAGTTTCGGGG
* * * *
32286218 TTAAAAATGGAATTTTT-GAAAAT-TCGAGGGCAAAAATG-TATTTTTTGGAAA--TTCAGGGG
1 TCAAAAATGGAATTTTTAG-AAATCT-AAGGG-TAAAATGATAATTTTT-GAAAGTTTC-GGGG
* * * * * *
32286277 -CAAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAATGAT-ATTTTGGTG-AAGTTTAGGGG
1 TCAAAAATGGAATTTTTAGAAATCTAAGGG-TAAAATGATAATTTT--TGAAAGTTTCGGGG
32286336 TCAAAA
1 TCAAAA
32286342 CATAATTTTT
Statistics
Matches: 276, Mismatches: 53, Indels: 57
0.72 0.14 0.15
Matches are distributed among these distances:
56 1 0.00
57 33 0.12
58 70 0.25
59 146 0.53
60 25 0.09
61 1 0.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.36
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTAGAAATCTAAGGGTAAAATGATAATTTTTGAAAGTTTCGGGG
Found at i:32286088 original size:88 final size:87
Alignment explanation
Indices: 32286015--32286311 Score: 325
Period size: 88 Copynumber: 3.4 Consensus size: 87
32286005 ATCTAAGGGT
* * * *
32286015 AAAATGATAATTTTTGCAAGTTTTGGGGTCAAAAATGGAATTTTT-AAAAGTTTGAGGGTAGAAA
1 AAAATG-TAATTTTTG-AAGTTTTAGGGTTAAAAATGGAATTTTTGAAAA-TTTGAGGGCAAAAA
*
32286079 TGTAATTTTTGGAAGTTTCAAGGTC
63 TGTAATTTTTGGAAGTTTCAAGGTA
* ** **
32286104 AAAATGTAATTTTTGAAAG--TTCGGGGGAAAAATATAATTTTTGAAAATTTCGA-GGCAAAAAT
1 AAAATGTAATTTTTG-AAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTT-GAGGGCAAAAAT
* *
32286166 GTAATTTTTTGGAAGTTTTAAGTTA
64 GTAA-TTTTTGGAAGTTTCAAGGTA
*
32286191 AAAATGTAATTTTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTCGAGGGCAAAAATG
1 AAAATGTAATTTTT-GAAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTTGAGGGCAAAAATG
* * * *
32286256 TATTTTTTGGAA-ATTCAGGGGCA
65 TAATTTTTGGAAGTTTCA-AGGTA
32286279 AAAATGTAATTTTTGGAAGTTTTAGGGTTAAAA
1 AAAATGTAATTTTT-GAAGTTTTAGGGTTAAAA
32286312 TGATATTTTG
Statistics
Matches: 176, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
86 32 0.18
87 43 0.24
88 58 0.33
89 43 0.24
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (87 bp):
AAAATGTAATTTTTGAAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTTGAGGGCAAAAATGT
AATTTTTGGAAGTTTCAAGGTA
Found at i:32286149 original size:175 final size:174
Alignment explanation
Indices: 32285962--32286299 Score: 400
Period size: 175 Copynumber: 1.9 Consensus size: 174
32285952 GGGTAAAACG
* * *
32285962 ATAAATTTTGAAAATTTCGGGGTTAAAAATG-GAGTTTTTAGATA-TCTAAGGGT-AAAATGATA
1 ATAAATTTTGAAAATTTCGAGG-CAAAAATGTAAGTTTTTAGA-AGTCTAA-GGTAAAAATG-TA
* * * *
32286024 ATTTTT-GCAAGTTTTGGGGTCAAAAATGGAATTTTT-AAAAGTTTGAGGGTAGAAATGTAATTT
62 ATTTTTAG-AAGTTTTAGGGTCAAAAATGGAATTTTTGAAAA-TTCGAGGGCAAAAATGTAATTT
* *
32286087 TTGGAAGTTTCAAGGTC-AAAATGTAATTTTTGAAAGTTCGGGGGAAAAAT
125 TTGGAA-ATTCAAGGGCAAAAATGTAATTTTTGAAAGTTCGGGGGAAAAAT
* * * * *
32286137 ATAATTTTTGAAAATTTCGAGGCAAAAATGTAATTTTTTGGAAGTTTTAAGTTAAAAATGTAATT
1 ATAAATTTTGAAAATTTCGAGGCAAAAATGTAAGTTTTTAGAAG-TCTAAGGTAAAAATGTAATT
* *
32286202 TTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTCGAGGGCAAAAATGTATTTTTTGGA
65 TTTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGAAAATTCGAGGGCAAAAATGTAATTTTTGGA
* *
32286267 AATTCAGGGGCAAAAATGTAATTTTTGGAAGTT
130 AATTCAAGGGCAAAAATGTAATTTTTGAAAGTT
32286300 TTAGGGTTAA
Statistics
Matches: 138, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
174 15 0.11
175 108 0.78
176 15 0.11
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (174 bp):
ATAAATTTTGAAAATTTCGAGGCAAAAATGTAAGTTTTTAGAAGTCTAAGGTAAAAATGTAATTT
TTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGAAAATTCGAGGGCAAAAATGTAATTTTTGGAA
ATTCAAGGGCAAAAATGTAATTTTTGAAAGTTCGGGGGAAAAAT
Found at i:32286290 original size:58 final size:59
Alignment explanation
Indices: 32286010--32286293 Score: 215
Period size: 59 Copynumber: 4.9 Consensus size: 59
32286000 TAGATATCTA
* ** * *
32286010 AGGGT-AAAATGATAATTTTTGCAAG-TTTTGGGGTCAAAAATGGAATTTTT-AAAAGTTTG
1 AGGGTAAAAATG-TAATTTTTGGAAGATTCAGGGG-CAAAAATGTAATTTTTGAAAA-TTCG
* * * * *
32286069 AGGGTAGAAATGTAATTTTTGGAAGTTTCAAGGTC-AAAATGTAATTTTTGAAAGTTCG
1 AGGGTAAAAATGTAATTTTTGGAAGATTCAGGGGCAAAAATGTAATTTTTGAAAATTCG
* * * * * * **
32286127 -GGGGAAAAATATAATTTTT-GAAAATTTC-GAGGCAAAAATGTAATTTTTTGGAAGTTTT
1 AGGGTAAAAATGTAATTTTTGGAAGA-TTCAGGGGCAAAAATGTAA-TTTTTGAAAATTCG
* * * * * ** *
32286185 AAGTTAAAAATGTAATTTTTAGAAGTTTTAGGGTTAAAAATGGAATTTTTGAAAATTCG
1 AGGGTAAAAATGTAATTTTTGGAAGATTCAGGGGCAAAAATGTAATTTTTGAAAATTCG
* *
32286244 AGGGCAAAAATGTATTTTTTGGAA-ATTCAGGGGCAAAAATGTAATTTTTG
1 AGGGTAAAAATGTAATTTTTGGAAGATTCAGGGGCAAAAATGTAATTTTTG
32286294 GAAGTTTTAG
Statistics
Matches: 171, Mismatches: 45, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
56 5 0.03
57 28 0.16
58 48 0.28
59 67 0.39
60 23 0.13
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (59 bp):
AGGGTAAAAATGTAATTTTTGGAAGATTCAGGGGCAAAAATGTAATTTTTGAAAATTCG
Found at i:32287376 original size:2 final size:2
Alignment explanation
Indices: 32287369--32287429 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
32287359 TTAACAAGTA
32287369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32287411 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
32287430 AAATAATAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32288175 original size:17 final size:17
Alignment explanation
Indices: 32288153--32288188 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32288143 CATTCTTATT
32288153 ATTTAATTTAAAAATAA
1 ATTTAATTTAAAAATAA
* *
32288170 ATTTAATTTTAAGATAA
1 ATTTAATTTAAAAATAA
32288187 AT
1 AT
32288189 CCAAACTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTTAATTTAAAAATAA
Found at i:32289401 original size:411 final size:400
Alignment explanation
Indices: 32288586--32289580 Score: 1361
Period size: 411 Copynumber: 2.5 Consensus size: 400
32288576 GTTTCATTGG
* * * * * * * * *
32288586 TTTGGCCTTCTTCTCAATATCTGATCAGGAAGACGACCGCATCACTTGTTTTTATCCACTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCACATCACTTATTTTAATTCGCTTCTCT
* ** * * * **
32288651 GTG-TTTCAACAAGAAGACGGATTTGGT-TCACTTCTCTGTGTCTCATCAGGAAGCTAACCACTT
66 G-GATCTCCTCAGGAAGACGAATTTGGTCT-ACTTCTCAGTGTCTCATCAGGAAGCTAACCTTTT
* *
32288714 ATTACTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
129 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
* * *
32288779 GCCTGGGTTTGATTTGGTCTTCTTCTCGATGTCTCATGATCGCATCACTTGTTTCAATTCGCTTC
194 GCCTGAGTTTGATTTGGTCTTCTTCTCGATGTCTCATGATCACATCACTTCTTTCAATTCGCTTC
* * *
32288844 TGTGTCTGATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTAACCATTTT
259 TCTGTCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTT
* * *
32288909 ATTGCTTCGACCTGCCTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
324 ATTGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
32288974 GCCTGGATTTGA
389 GCCTGGATTTGA
* * * * *
32288986 TTTGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGACTACATCATTTATTTTAATTCGTTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCACATCACTTATTTTAATTCGCTTCTCT
32289051 GGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGCTAACCGTTTTA
66 GGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGCTAACC-TTTTA
*
32289116 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGATTCGAAGATTTGCTCGCATTGAG
130 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
* *
32289180 CCTGAGTTTGATTTGGTCTTCTTCTC-AGTGTCTCATCAGGAAGATGACCACATCATTTCTTTTA
195 CCTGAGTTTGATTTGGTCTTCTTCTCGA-TGTCTCAT------GAT---CACATCACTTCTTTCA
* *
32289244 ATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAG
250 ATTCGCTTCTCT-G-TCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAG
* *
32289309 CTAACCGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTT
313 CTAACCATTTTATTGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTT
*
32289374 GCTCGCATTGAGCCTGGGTTTGA
378 GCTCGCATTGAGCCTGGATTTGA
* *
32289397 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCACATCACTTATTTTAATTCGCTTCTCT
* * * *
32289462 GGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATTAGGAAGCTAACCATTTTA
66 GGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGCTAACC-TTTTA
* *
32289527 TTGCTTTGACCTGCTTCTTAAG-GTCTCATCAGGAAGCTGGGGTTCGAAGATTTG
130 TTGCTTCGACCTGCTTC-TCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTG
32289581 ATCGTATTTG
Statistics
Matches: 523, Mismatches: 55, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
399 2 0.00
400 159 0.30
401 40 0.08
406 3 0.01
409 23 0.04
410 1 0.00
411 278 0.53
412 17 0.03
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (400 bp):
TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCACATCACTTATTTTAATTCGCTTCTCT
GGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGCTAACCTTTTAT
TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGC
CTGAGTTTGATTTGGTCTTCTTCTCGATGTCTCATGATCACATCACTTCTTTCAATTCGCTTCTC
TGTCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTAT
TGCTTCGACCTGCCTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGC
CTGGATTTGA
Found at i:32289471 original size:206 final size:206
Alignment explanation
Indices: 32288586--32289580 Score: 1408
Period size: 206 Copynumber: 4.9 Consensus size: 206
32288576 GTTTCATTGG
* * * * * * *
32288586 TTTGGCCTTCTTCTCAATATCTGATCAGGAAGACGACCGCATCACTTGTTTTTATCCACTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
* ** * * * *
32288651 GTG-TTTCAACAAGAAGACGGATTTGGTTCACTTCTCTGTGTCTCATCAGGAAGCTAACCA-CTT
66 G-GATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTT
* *
32288714 ATTACTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
130 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGA
32288779 GCCTGGGTTTGA
195 GCCTGGGTTTGA
* * *
32288791 TTTGGTCTTCTTCTCGATGTCTCAT------GAT---CGCATCACTTGTTTCAATTCGCTTCTGT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
** * *
32288847 -G-TCTGATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTAACCATTTTA
66 GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTA
* *
32288910 TTGCTTCGACCTGCCTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
131 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
*
32288975 CCTGGATTTGA
196 CCTGGGTTTGA
* * ** * * *
32288986 TTTGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGACTACATCATTTATTTTAATTCGTTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
* * *
32289051 GGATCTCCTCAGGAAGACGAATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGCTAACCGTTTTA
66 GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTA
*
32289116 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGATTCGAAGATTTGCTCGCATTGAG
131 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
*
32289180 CCTGAGTTTGA
196 CCTGGGTTTGA
* * * *
32289191 TTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCACATCATTTCTTTTAATTCGCTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
*
32289256 GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCGTTTTA
66 GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTA
* *
32289321 TTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
131 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
32289386 CCTGGGTTTGA
196 CCTGGGTTTGA
32289397 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
1 TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
* * * *
32289462 GGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATTAGGAAGCTAACCATTTTA
66 GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTA
* *
32289527 TTGCTTTGACCTGCTTCTTAAG-GTCTCATCAGGAAGCTGGGGTTCGAAGATTTG
131 TTGCTTCGACCTGCTTC-TCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTG
32289581 ATCGTATTTG
Statistics
Matches: 707, Mismatches: 69, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
194 50 0.07
195 96 0.14
196 23 0.03
199 2 0.00
201 3 0.00
204 21 0.03
205 216 0.31
206 293 0.41
207 3 0.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (206 bp):
TTTGGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
GGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTTA
TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAG
CCTGGGTTTGA
Found at i:32293064 original size:59 final size:58
Alignment explanation
Indices: 32292929--32293092 Score: 147
Period size: 59 Copynumber: 2.8 Consensus size: 58
32292919 GTAATTTTGG
* *
32292929 GAAAATTTGGGGTTAAAAATGACATTTTAGACACTTGAGGGTAAAACGACAATTTTTA
1 GAAAATTCGGGGTTAAAAATGACATTTTAGACACTTGAGGGTAAAACGACAAATTTTA
* * * * * *
32292987 GAAAAATCGAGATCAAAAATAGA-ATTTTCGA-ACATCTGAGGGTAAAACGATAAATTTT-
1 GAAAATTCGGGGTTAAAAAT-GACATTTTAGACAC-T-TGAGGGTAAAACGACAAATTTTA
** *
32293045 GAAAAGTTCGGGGTTAAAAATGGAGTTTTTAGACATCTAG-GGGTAAAA
1 GAAAA-TTCGGGGTTAAAAAT-GACATTTTAGACA-CTTGAGGGTAAAA
32293093 TGGTAATTTT
Statistics
Matches: 83, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
57 2 0.02
58 28 0.34
59 43 0.52
60 7 0.08
61 2 0.02
62 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (58 bp):
GAAAATTCGGGGTTAAAAATGACATTTTAGACACTTGAGGGTAAAACGACAAATTTTA
Found at i:32293117 original size:59 final size:57
Alignment explanation
Indices: 32293054--32293279 Score: 244
Period size: 59 Copynumber: 3.9 Consensus size: 57
32293044 TGAAAAGTTC
* *
32293054 GGGGTTAAAAATGGAGTTTTTAGACA-TCTAGGGGTAAAATGGTAATTTTTACAAGTTTT
1 GGGGTTAAAAATGGAATTTTTAGA-AGTTTAGGGGTAAAAT-GTAATTTTTA-AAGTTTT
* *
32293113 GGGGTTAAAAATGGAAATTTTGGAAGTTTAGGGGTAAAATGTAATTTTTGAAAGTTTT
1 GGGGTTAAAAATGGAATTTTTAGAAGTTTAGGGGTAAAATGTAATTTTT-AAAGTTTT
* * *
32293171 GAGG-TCAAAATGTAATTTTTTAGAAGTTTCA-GGGTAAAAATGTAATTTTTAGAAGTTTT
1 GGGGTTAAAAATGGAA-TTTTTAGAAGTTT-AGGGGT-AAAATGTAATTTTTA-AAGTTTT
* * *
32293230 GGGGTTAAAAATGGAATTTTT-GAAAATTCAGGAGTAAAAATGTAATTTTT
1 GGGGTTAAAAATGGAATTTTTAG-AAGTTTAGGGGT-AAAATGTAATTTTT
32293280 GGAAATTTGG
Statistics
Matches: 143, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 9 0.06
58 38 0.27
59 87 0.61
60 9 0.06
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (57 bp):
GGGGTTAAAAATGGAATTTTTAGAAGTTTAGGGGTAAAATGTAATTTTTAAAGTTTT
Found at i:32293140 original size:30 final size:29
Alignment explanation
Indices: 32293084--32293399 Score: 235
Period size: 29 Copynumber: 10.8 Consensus size: 29
32293074 TAGACATCTA
**
32293084 GGGGT-AAAATGGTAATTTTTACAAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGGAAGTTTT
* * *
32293113 GGGGTTAAAAATGGAAATTTTGGAAGTTTA
1 GGGG-TAAAAATGTAATTTTTGGAAGTTTT
*
32293143 GGGGT-AAAATGTAATTTTTGAAAGTTTT
1 GGGGTAAAAATGTAATTTTTGGAAGTTTT
* * * *
32293171 GAGGTCAAAATGTAATTTTTTAGAAGTTTC
1 GGGGTAAAAATGTAA-TTTTTGGAAGTTTT
* *
32293201 AGGGTAAAAATGTAATTTTTAGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGGAAGTTTT
* * * **
32293230 GGGGTTAAAAATGGAATTTTTGAAAATTCA
1 GGGG-TAAAAATGTAATTTTTGGAAGTTTT
* *
32293260 GGAGTAAAAATGTAATTTTTGGAA-ATTT
1 GGGGTAAAAATGTAATTTTTGGAAGTTTT
* * * * *
32293288 GGAGGCAATAATTTAATTTTTGAAAGTTTC
1 GG-GGTAAAAATGTAATTTTTGGAAGTTTT
* * * *
32293318 GAGGTCAAAAAATATAATTTTAGAAAG-TTT
1 GGGGT--AAAAATGTAATTTTTGGAAGTTTT
* *
32293348 GGAGGTAAAAATGTAATTTTTGGAAATTTC
1 GG-GGTAAAAATGTAATTTTTGGAAGTTTT
* * *
32293378 GAGGTCAAAATGAAATTTTTGG
1 GGGGTAAAAATGTAATTTTTGG
32293400 TAAAATTTGA
Statistics
Matches: 224, Mismatches: 52, Indels: 22
0.75 0.17 0.07
Matches are distributed among these distances:
28 26 0.12
29 101 0.45
30 72 0.32
31 25 0.11
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTT
Found at i:32293349 original size:60 final size:60
Alignment explanation
Indices: 32293148--32293387 Score: 185
Period size: 60 Copynumber: 4.0 Consensus size: 60
32293138 GTTTAGGGGT
* * * *
32293148 AAAATGTAATTTTT-GAAAGTTTTGAGGTC-AAAATGTAATTTTTTAGAAGTTTC-AGGGT--A
1 AAAATATAATTTTTAGAAA-TTTGGAGG-CAAAAATGTAA-TTTTTGGAAATTTCGA-GGTCAA
* * * * * ***
32293207 AAAATGTAATTTTTAGAAGTTTTGG-GGTTAAAAATGGAATTTTT-GAAAATTC-AGGAGTA
1 AAAATATAATTTTTAGAA-ATTTGGAGG-CAAAAATGTAATTTTTGGAAATTTCGAGGTCAA
* * * *
32293266 AAAATGTAATTTTTGGAAATTTGGAGGCAATAATTTAATTTTT-GAAAGTTTCGAGGTCAA
1 AAAATATAATTTTTAGAAATTTGGAGGCAAAAATGTAATTTTTGGAAA-TTTCGAGGTCAA
*
32293326 AAAATATAA-TTTTAGAAAGTTTGGAGGTAAAAATGTAATTTTTGGAAATTTCGAGGTCAA
1 AAAATATAATTTTTAGAAA-TTTGGAGGCAAAAATGTAATTTTTGGAAATTTCGAGGTCAA
32293386 AA
1 AA
32293388 TGAAATTTTT
Statistics
Matches: 149, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
57 2 0.01
58 28 0.19
59 53 0.36
60 62 0.42
61 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (60 bp):
AAAATATAATTTTTAGAAATTTGGAGGCAAAAATGTAATTTTTGGAAATTTCGAGGTCAA
Found at i:32293388 original size:118 final size:117
Alignment explanation
Indices: 32293096--32293418 Score: 342
Period size: 118 Copynumber: 2.7 Consensus size: 117
32293086 GGTAAAATGG
* * * * *
32293096 TAATTTTTACAAGTTTTGGGGTTAAAAATGGAAATTTTGGAAGTTTAGGGGTAAAATGTAATTTT
1 TAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAATTTCGAGGTAAAATGTAATTTT
* * *
32293161 T-GAAAGTTTTGAGGTCAAAATGTAATTTTTTAGAAGTTTCAGGGTAAAAATG
66 TGGAAA-TTTGGAGGTCAAAATGTAATTTTTGAGAAGTTTCAGGGTAAAAATA
*
32293213 TAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTT-GAAAATTC-AGGAGTAAAAATGTAAT
1 TAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAATTTCGA-G-GT-AAAATGTAAT
*
32293276 TTTTGGAAATTTGGAGG-CAATAATTTAATTTTTGA-AAGTTTC-GAGGTCAAAAAATA
63 TTTTGGAAATTTGGAGGTCAA-AATGTAATTTTTGAGAAGTTTCAG-GGT--AAAAATA
* *
32293332 TAA-TTTTAGAAAG-TTTGGAGG-TAAAAATGTAATTTTTGGAAATTTCGAGGTCAAAATGAAAT
1 TAATTTTTAG-AAGTTTTGG-GGTTAAAAATGGAATTTTTGGAAATTTCGAGGT-AAAATGTAAT
32293394 TTTTGGTAAAATTT-GAGGGTCAAAA
63 TTTTGG--AAATTTGGA-GGTCAAAA
32293419 CATAATTTCT
Statistics
Matches: 176, Mismatches: 14, Indels: 29
0.80 0.06 0.13
Matches are distributed among these distances:
116 7 0.04
117 51 0.29
118 76 0.43
119 28 0.16
120 11 0.06
121 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (117 bp):
TAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAATTTCGAGGTAAAATGTAATTTT
TGGAAATTTGGAGGTCAAAATGTAATTTTTGAGAAGTTTCAGGGTAAAAATA
Found at i:32293424 original size:89 final size:86
Alignment explanation
Indices: 32293154--32293426 Score: 250
Period size: 89 Copynumber: 3.1 Consensus size: 86
32293144 GGGTAAAATG
* * * * *
32293154 TAATTTTTGAAAGTTTTGAGGTCAAAATGTAATTTTTTAGAAGTTTC-AGGGTAAAAATGTAATT
1 TAATTTTTGAAAGTTTGGAGGTAAAAATGTAA-TTTTTGGAAATTTCGA-GGTCAAAATGTAATT
** *
32293218 TTTAGAAGTTTTG-GGGTTAAAAA
64 TTT-GAAAATTTGAGGGTCAAAAA
* * * *
32293241 TGGAATTTTTGAAAATTCAGGA-GTAAAAATGTAATTTTTGGAAATTTGGAGG-CAATAATTTAA
1 T--AATTTTTGAAAGTT-TGGAGGTAAAAATGTAATTTTTGGAAATTTCGAGGTCAA-AATGTAA
*
32293304 TTTTTGAAAGTTTCGA-GGTCAAAAAATA
62 TTTTTGAAAATTT-GAGGGTC--AAAA-A
* *
32293332 TAATTTTAGAAAGTTTGGAGGTAAAAATGTAATTTTTGGAAATTTCGAGGTCAAAATGAAATTTT
1 TAATTTTTGAAAGTTTGGAGGTAAAAATGTAATTTTTGGAAATTTCGAGGTCAAAATGTAATTTT
32293397 TGGTAAAATTTGAGGGTCAAAACA
66 T-G-AAAATTTGAGGGTCAAAA-A
32293421 TAATTT
1 TAATTT
32293427 CTGGACAGTT
Statistics
Matches: 151, Mismatches: 20, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
87 9 0.06
88 31 0.21
89 87 0.58
90 12 0.08
91 12 0.08
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (86 bp):
TAATTTTTGAAAGTTTGGAGGTAAAAATGTAATTTTTGGAAATTTCGAGGTCAAAATGTAATTTT
TGAAAATTTGAGGGTCAAAAA
Found at i:32293426 original size:31 final size:30
Alignment explanation
Indices: 32293272--32293431 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 30
32293262 AGTAAAAATG
* *
32293272 TAATTTTTGGAAATTTGGAGG-CAATAAT-T
1 TAATTTTTGGAAATTTCGAGGTCAA-AATCA
32293301 TAATTTTT-GAAAGTTTCGAGGTCAAAAAAT-A
1 TAATTTTTGGAAA-TTTCGAGGTC--AAAATCA
* * * *
32293332 TAA-TTTTAGAAAGTTTGGAGGTAAAAAT-G
1 TAATTTTTGGAAA-TTTCGAGGTCAAAATCA
*
32293361 TAATTTTTGGAAATTTCGAGGTCAAAATGA
1 TAATTTTTGGAAATTTCGAGGTCAAAATCA
32293391 -AATTTTTGGTAAAATTT-GAGGGTCAAAA-CA
1 TAATTTTTGG--AAATTTCGA-GGTCAAAATCA
*
32293421 TAATTTCTGGA
1 TAATTTTTGGA
32293432 CAGTTCATGG
Statistics
Matches: 109, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
28 4 0.04
29 46 0.42
30 16 0.15
31 41 0.38
32 2 0.02
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (30 bp):
TAATTTTTGGAAATTTCGAGGTCAAAATCA
Found at i:32299270 original size:21 final size:21
Alignment explanation
Indices: 32299209--32299270 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
32299199 TTGGCTACTA
*
32299209 GTTTTCCAAGAAGGTGCTGCTG
1 GTTTTCCAAG-AGGTGTTGCTG
* * *
32299231 GTATTTCAAAAAGATGTTGCTG
1 GT-TTTCCAAGAGGTGTTGCTG
*
32299253 GTTTTCCAAGAGGGGTTG
1 GTTTTCCAAGAGGTGTTG
32299271 TTCGTTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 12 0.39
22 13 0.42
23 6 0.19
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.34
Consensus pattern (21 bp):
GTTTTCCAAGAGGTGTTGCTG
Found at i:32300231 original size:16 final size:16
Alignment explanation
Indices: 32300205--32300252 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
32300195 TTACATTAAA
32300205 ATCCTAAACCCAAAACT
1 ATCC-AAACCCAAAACT
*
32300222 ATCCAAACCCTAAACT
1 ATCCAAACCCAAAACT
*
32300238 ATCCATAACTCAAAA
1 ATCCA-AACCCAAAA
32300253 TACACAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (16 bp):
ATCCAAACCCAAAACT
Found at i:32304601 original size:20 final size:19
Alignment explanation
Indices: 32304555--32304601 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
32304545 TTATTAATAT
* *
32304555 AATATTTTATATTAATTTA
1 AATATTTTAGATAAATTTA
32304574 AATAATTTTAGATAAAATTTA
1 AAT-ATTTTAGAT-AAATTTA
32304595 AATATTT
1 AATATTT
32304602 CATTTTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.50
21 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATATTTTAGATAAATTTA
Found at i:32306148 original size:18 final size:17
Alignment explanation
Indices: 32306115--32306150 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32306105 TGTGTTGTTC
*
32306115 ATTAAAAATTATTTTTA
1 ATTAAAAATTACTTTTA
32306132 ATTAAAAATTGACTTTTA
1 ATTAAAAATT-ACTTTTA
32306150 A
1 A
32306151 AATTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTACTTTTA
Found at i:32307092 original size:39 final size:39
Alignment explanation
Indices: 32307021--32307095 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
32307011 CAATATTTTA
*
32307021 TTTAAAATATTAGTCTAACCAATATTTTATTTTTTATTT
1 TTTAAAATATTAGTATAACCAATATTTTATTTTTTATTT
* *
32307060 TTTAAAA-ATTATTATAATCAATATTTTAATTTTTTA
1 TTTAAAATATTAGTATAACCAATATTTT-ATTTTTTA
32307096 ATTATTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 17 0.53
39 15 0.47
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (39 bp):
TTTAAAATATTAGTATAACCAATATTTTATTTTTTATTT
Done.