Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 100 of 276
Found at i:31555764 original size:39 final size:40
Alignment explanation
Indices: 31555719--31555859 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
31555709 CTACTTTCAA
*
31555719 TAGAATCATTAGGTATGGCTTGATAAAGCATAC-TTTTAG
1 TAGAATCAGTAGGTATGGCTTGATAAAGCATACATTTTAG
* * *
31555758 TAGAATCAGTAGGTAAGGCTCGATAGCA-CATACATTTTAG
1 TAGAATCAGTAGGTATGGCTTGATA-AAGCATACATTTTAG
* * *
31555798 TGGGATCGGTAGGTATGGCTTG--AAAGCACATACATTTTAG
1 TAGAATCAGTAGGTATGGCTTGATAAAG--CATACATTTTAG
* * * *
31555838 TAGATTCAATAGATATCGCTTG
1 TAGAATCAGTAGGTATGGCTTG
31555860 CTTGAGCACT
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 27 0.34
40 51 0.64
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (40 bp):
TAGAATCAGTAGGTATGGCTTGATAAAGCATACATTTTAG
Found at i:31555859 original size:40 final size:39
Alignment explanation
Indices: 31555723--31555842 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
31555713 TTTCAATAGA
*
31555723 ATCATTAGGTATGGCTTGATAA--AGCATAC-TTTTAGTAG
1 ATCAGTAGGTATGGCTTGA-AAGCA-CATACATTTTAGTAG
* * * *
31555761 AATCAGTAGGTAAGGCTCGATAGCACATACATTTTAGTGGG
1 -ATCAGTAGGTATGGCTTGAAAGCACATACATTTTAGT-AG
*
31555802 ATCGGTAGGTATGGCTTGAAAGCACATACATTTTAGTAG
1 ATCAGTAGGTATGGCTTGAAAGCACATACATTTTAGTAG
31555841 AT
1 AT
31555843 TCAATAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 24 0.36
40 41 0.61
41 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (39 bp):
ATCAGTAGGTATGGCTTGAAAGCACATACATTTTAGTAG
Found at i:31562131 original size:27 final size:27
Alignment explanation
Indices: 31562101--31563320 Score: 2040
Period size: 27 Copynumber: 45.2 Consensus size: 27
31562091 AAAGTACTCC
*
31562101 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562128 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31562155 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
31562182 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
31562209 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
31562236 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562263 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562290 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562317 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562344 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562371 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562398 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562425 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562452 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562479 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562506 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562533 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562560 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562587 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562614 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562641 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562668 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562695 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562722 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562749 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562776 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562803 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562830 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562857 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562884 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31562911 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31562938 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31562965 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31562992 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31563019 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31563046 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31563073 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31563100 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31563127 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31563154 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
31563181 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31563208 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
31563235 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTATAGAATTAC-CGTTTTACCCT
* * * *
31563262 C-AGTTTACAAAATTATCATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31563289 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
31563316 TGATT
1 CGATT
31563321 GTGAAATTAC
Statistics
Matches: 1138, Mismatches: 41, Indels: 28
0.94 0.03 0.02
Matches are distributed among these distances:
26 6 0.01
27 1125 0.99
28 7 0.01
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:31563355 original size:27 final size:27
Alignment explanation
Indices: 31563325--31563519 Score: 207
Period size: 27 Copynumber: 7.2 Consensus size: 27
31563315 TTGATTGTGA
31563325 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
31563352 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
31563379 AATTACTAAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
31563406 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
31563433 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
31563460 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
31563487 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
31563514 AATTAC
1 AATTAC
31563520 CATTTTGCCC
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:31563393 original size:54 final size:54
Alignment explanation
Indices: 31563325--31563517 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
31563315 TTGATTGTGA
* *
31563325 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTGTAGGGTAG
* * * * *
31563379 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTGTAGGGTAG
*
31563433 AATTA-TCGAAATACCCTTGTAGGGTAGAAATAT-CGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG-AATTTCCGAAATACCCCTGTAGGGTAG
* * *
31563487 AATTA-TCGAGATACCCTTGTGGGGTAAAATT
1 AATTACT-GAAATACCCTTGTAGGGTAGAATT
31563518 ACCATTTTGC
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.03
54 113 0.94
55 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTGTAGGGTAG
Found at i:31563757 original size:27 final size:26
Alignment explanation
Indices: 31563719--31563801 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
31563709 CGGAGGAAGC
*
31563719 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
31563746 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
31563772 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
31563799 GTT
1 GTT
31563802 GACCGATCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:31563921 original size:22 final size:22
Alignment explanation
Indices: 31563889--31563947 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31563879 CCCGTTATTA
*
31563889 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
31563911 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
31563933 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
31563948 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:31564312 original size:6 final size:6
Alignment explanation
Indices: 31564303--31564489 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
31564293 TTGCATTCAC
* *
31564303 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
31564352 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTATTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
31564400 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
31564449 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
31564490 CATTTTGGTT
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 11 0.07
6 123 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:31564444 original size:85 final size:85
Alignment explanation
Indices: 31564303--31564489 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
31564293 TTGCATTCAC
* *
31564303 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
*
31564368 TGATTCTGATTCTGTTATTG
66 TGATTCTGATTCTGTTACTG
*
31564388 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
31564453 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
31564473 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
31564490 CATTTTGGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:31564510 original size:30 final size:30
Alignment explanation
Indices: 31564303--31564489 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
31564293 TTGCATTCAC
*
31564303 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
31564334 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
31564364 ATTCTGATTCTGATTCTG-T--T-A-T-TG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
31564388 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
31564419 ATTCTGATTCTAATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
31564449 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
31564479 ATTCTGATTCT
1 ATTCTGATTCT
31564490 CATTTTGGTT
Statistics
Matches: 139, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
24 20 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 70 0.50
31 43 0.31
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:31573268 original size:14 final size:14
Alignment explanation
Indices: 31573246--31573288 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
31573236 TTTCATTTTG
31573246 TAACATAAAATTAT
1 TAACATAAAATTAT
*
31573260 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
31573273 TAACACAAAATAAT
1 TAACATAAAATTAT
31573287 TA
1 TA
31573289 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:31573282 original size:13 final size:13
Alignment explanation
Indices: 31573246--31573284 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
31573236 TTTCATTTTG
31573246 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
31573260 TAGCATAAAATAT
1 TAACATAAAATAT
*
31573273 TAACACAAAATA
1 TAACATAAAATA
31573285 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:31580739 original size:12 final size:11
Alignment explanation
Indices: 31580722--31580764 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
31580712 ATGCTATGAG
31580722 TTAAAAAAATA
1 TTAAAAAAATA
31580733 CTTAAAAAAATA
1 -TTAAAAAAATA
*
31580745 TTGAATAAAA-A
1 TT-AAAAAAATA
31580756 TTAAAAAAA
1 TTAAAAAAA
31580765 AAGGTGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.21
11 5 0.18
12 17 0.61
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:31585879 original size:56 final size:55
Alignment explanation
Indices: 31585803--31585926 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 55
31585793 AAGTATTAAC
* *
31585803 TATTTATAAAATTTAAATATAAATAAGATATT-ATTTGGATTATTTAAAATTTTTT
1 TATTTTTAAAATTTAAATATAAATAAGATATTAATTTGAATTATTT-AAATTTTTT
31585858 TATTTTTAAACATTTAAATATAAATAAGATATTAACACATTTGAATTATTTAAATTTTTT
1 TATTTTTAAA-ATTTAAATATAAATAAGATATT---A-ATTTGAATTATTTAAATTTTTT
31585918 TATTTTTAA
1 TATTTTTAA
31585927 TTAATGATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
55 9 0.15
56 22 0.36
60 18 0.30
61 12 0.20
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (55 bp):
TATTTTTAAAATTTAAATATAAATAAGATATTAATTTGAATTATTTAAATTTTTT
Found at i:31594437 original size:14 final size:13
Alignment explanation
Indices: 31594413--31594452 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
31594403 AAAATTAAAC
31594413 AAATGAAAAATTA
1 AAATGAAAAATTA
31594426 AAATGTAAAAATTA
1 AAATG-AAAAATTA
* *
31594440 AATTAAAAAATTA
1 AAATGAAAAATTA
31594453 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATGAAAAATTA
Found at i:31596240 original size:21 final size:21
Alignment explanation
Indices: 31596211--31596251 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31596201 TAAATTATAG
31596211 AAAAAGTATCAATACCTTTTC
1 AAAAAGTATCAATACCTTTTC
* *
31596232 AAAATGTATCAATATCTTTT
1 AAAAAGTATCAATACCTTTT
31596252 ACCAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAAGTATCAATACCTTTTC
Found at i:31598404 original size:40 final size:40
Alignment explanation
Indices: 31598349--31598551 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 40
31598339 CGGAATTTAA
* * ** *
31598349 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31598389 CCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31598429 CCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31598468 CCGG-AATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
** * *
31598508 CCGAATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31598548 CCGG
1 CCGG
31598552 ACATCATTCG
Statistics
Matches: 136, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 89 0.65
41 14 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31598479 original size:79 final size:80
Alignment explanation
Indices: 31598335--31598552 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 80
31598325 GAATCACGTA
* * * ** * * *
31598335 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
31598399 TAACTCACACAAATG
66 TAACTCACACAAATG
*
31598414 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
*
31598477 GTAACTCGCACAAATG
65 GTAACTCACACAAATG
* * * * *
31598493 CCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
31598553 CATCATTCGA
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.60
80 44 0.38
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCACACAAATG
Found at i:31601090 original size:30 final size:30
Alignment explanation
Indices: 31601056--31601116 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31601046 ATAGATAATT
31601056 TTACAGAATTAGTGATTAAGGTAAAAGGAC
1 TTACAGAATTAGTGATTAAGGTAAAAGGAC
31601086 TTACAGAATTAGTGATTAAGGTAAAAGGAC
1 TTACAGAATTAGTGATTAAGGTAAAAGGAC
31601116 T
1 T
31601117 AAATCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TTACAGAATTAGTGATTAAGGTAAAAGGAC
Found at i:31610894 original size:34 final size:35
Alignment explanation
Indices: 31610849--31610917 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
31610839 TCTCTTGGGC
**
31610849 TAGTTTCAATATTACTC-ACAAGTTACCTTGTGGT
1 TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
*
31610883 TAGTTTTAATATTACTCGACAAGCAACCTTGTGGT
1 TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
31610918 CTTTCTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (35 bp):
TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
Found at i:31618414 original size:53 final size:53
Alignment explanation
Indices: 31618346--31618552 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
31618336 TTCCTTTTTA
* *
31618346 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * ** *
31618399 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATTTTTGTCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * *
31618453 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
31618508 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
31618553 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 40 0.33
55 37 0.31
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:31629410 original size:114 final size:116
Alignment explanation
Indices: 31629208--31629424 Score: 341
Period size: 114 Copynumber: 1.9 Consensus size: 116
31629198 AATGAAATGC
31629208 TAATGTGTTATGATATATATATATGTGCATGATAATGGAGAATTATATCCGGGCTAAGTCCCAAA
1 TAATGTGTTATGA-ATATATATATGTGCATGATAATGGAGAATTATATCCGGGCTAAGTCCCAAA
31629273 GGCATTCGCGCTGGTGTTATATCCAGGCT-AAGTCCCGAAGGTATTCCTGCT
65 GGCATTCGCGCTGGTGTTATATCCAGGCTAAAGTCCCGAAGGTATTCCTGCT
* ** *
31629324 TAATGTGTTATG-ATATATATATGTGCATGATAATGGGGTGTTATATCCGGGCTAAG-CCCTGAA
1 TAATGTGTTATGAATATATATATGTGCATGATAATGGAGAATTATATCCGGGCTAAGTCCC-AAA
* *
31629387 GGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCG
65 GGCATTCGCGCTGGTGTTATATCCAGGCTAAAGTCCCG
31629425 TAGGCTTTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
113 3 0.03
114 70 0.75
115 8 0.09
116 12 0.13
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (116 bp):
TAATGTGTTATGAATATATATATGTGCATGATAATGGAGAATTATATCCGGGCTAAGTCCCAAAG
GCATTCGCGCTGGTGTTATATCCAGGCTAAAGTCCCGAAGGTATTCCTGCT
Found at i:31629414 original size:39 final size:39
Alignment explanation
Indices: 31629360--31629464 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
31629350 ATGATAATGG
31629360 GGTGTTATATCCGGGCT-AAG-CCCTGAAGGCATTCGTGCT
1 GGTGTTATATCCGGGCTAAAGTCCC-GAAGGC-TTCGTGCT
* *
31629399 GGTGTTATATCCGGGCTAAAGTCCCGTAGGCTTTGTGCT
1 GGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCT
*
31629438 GGTATTATATCCGGGCTTAAAGTCCCG
1 GGTGTTATATCCGGGC-TAAAGTCCCG
31629465 CATGCGTTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
39 39 0.65
40 18 0.30
41 3 0.05
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
GGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCT
Found at i:31629475 original size:40 final size:39
Alignment explanation
Indices: 31629364--31629480 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 39
31629354 TAATGGGGTG
* * *
31629364 TTATATCCGGGCT-AAG-CCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCC-GCAGGCGTT-GTGCTGGTA
* *
31629403 TTATATCCGGGCTAAAGTCCCGTAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCGTTGTGCTGGTA
* *
31629442 TTATATCCGGGCTTAAAGTCCCGCATGCGTTGTGGTGGT
1 TTATATCCGGGC-TAAAGTCCCGCAGGCGTTGTGCTGGT
31629481 GATTGGATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.49
40 32 0.47
41 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCGTTGTGCTGGTA
Found at i:31631285 original size:50 final size:51
Alignment explanation
Indices: 31631204--31631332 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
31631194 GACCATGACA
*
31631204 ACAAGAGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
31631255 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
31631305 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
31631333 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:31631346 original size:31 final size:31
Alignment explanation
Indices: 31631308--31631487 Score: 256
Period size: 31 Copynumber: 5.8 Consensus size: 31
31631298 ACAAATGACA
31631308 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
31631339 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
31631370 AGTGAAAAGTGGTAG-TTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
* *
31631401 AGTGAAAAGTGGTAGC-TCTGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTC-AGCTACCTGATC
* *
31631432 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
31631463 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
31631488 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.02
31 131 0.97
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:31631498 original size:7 final size:7
Alignment explanation
Indices: 31631486--31631514 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
31631476 AGCTTCAGCT
31631486 ACAAGTG
1 ACAAGTG
31631493 ACAAGTG
1 ACAAGTG
31631500 ACAAGTG
1 ACAAGTG
31631507 ACAAGTG
1 ACAAGTG
31631514 A
1 A
31631515 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:31631589 original size:47 final size:48
Alignment explanation
Indices: 31631520--31631683 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 48
31631510 AGTGATTTCC
* *
31631520 GTATAAGACCATATCTGGGATATGGCATCGGTGCGATATATGCTAC-T
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
31631567 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
31631615 G--TAAGACCATAGCTGGGCTATGGCATC-----GATATATGA-ATAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
31631655 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
31631684 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
40 3 0.03
41 8 0.08
42 26 0.25
46 24 0.23
47 41 0.39
48 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (48 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
Found at i:31631721 original size:42 final size:42
Alignment explanation
Indices: 31631614--31631710 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
31631604 ATGTGATTCA
*
31631614 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATG
*
31631656 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGATG
31631698 TGTAAGACCATAG
1 TGTAAGACCATAG
31631711 TTGAACTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATG
Found at i:31632891 original size:53 final size:55
Alignment explanation
Indices: 31632822--31632958 Score: 163
Period size: 53 Copynumber: 2.5 Consensus size: 55
31632812 TTCCTTTTTA
* * *
31632822 AACTTACCATTACCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
* * * *
31632875 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
* *
31632930 AGA-TTATCAATGCCATGTCTTGACATGGT
1 A-ACTTACCATTGCCATGTCTTGACATGGT
31632959 TGTACACGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 45 0.65
54 1 0.01
55 22 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
Found at i:31634541 original size:24 final size:24
Alignment explanation
Indices: 31634496--31634542 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31634486 TATATATACC
31634496 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31634520 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31634543 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31635211 original size:19 final size:20
Alignment explanation
Indices: 31635183--31635222 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31635173 GGTCTTTCTC
*
31635183 CTTTTCTTTCCTTTTTCTTT
1 CTTTTCTTTCCCTTTTCTTT
*
31635203 CTTTT-TTTCCCTTTTGTTT
1 CTTTTCTTTCCCTTTTCTTT
31635222 C
1 C
31635223 ATTTGTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (20 bp):
CTTTTCTTTCCCTTTTCTTT
Found at i:31635233 original size:31 final size:31
Alignment explanation
Indices: 31635177--31635237 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
31635167 AGCTTTGGTC
*
31635177 TTTCTCCTTTTCTTTCCTTTTTCTTTCTTTT
1 TTTCTCCTTTTCTTTCATTTTTCTTTCTTTT
*
31635208 TTTC-CCTTTTGTTTCATTTGTTCTTTCTTT
1 TTTCTCCTTTTCTTTCATTT-TTCTTTCTTT
31635238 ATTTGTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTCTCCTTTTCTTTCATTTTTCTTTCTTTT
Found at i:31636279 original size:42 final size:42
Alignment explanation
Indices: 31636210--31636292 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
31636200 CTAGGAGAAG
*
31636210 AAGTTTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
1 AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
* *
31636252 AAGTCTTGTTGAGCTGTGCAAACCTTGGCTCAATAACATCA
1 AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCA
31636293 GGAATTGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
Found at i:31639246 original size:47 final size:47
Alignment explanation
Indices: 31639081--31639258 Score: 198
Period size: 49 Copynumber: 3.7 Consensus size: 47
31639071 TAGAGGTGTC
*
31639081 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGGTATATGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-T-TG-ATA-GATGAGCT
* * ** *
31639131 TGTGTAAGACCATGTCTGAGACATGGTGTCGGCTTCGATTTAGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTT-GA--TAGATGAGCT
* *
31639180 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATAGATGAGCT
*
31639227 AGTGTAGGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
31639259 TATTACACCC
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
46 4 0.04
47 33 0.31
48 3 0.03
49 37 0.34
50 31 0.29
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATAGATGAGCT
Found at i:31642944 original size:17 final size:17
Alignment explanation
Indices: 31642922--31642955 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31642912 TTGCTCCATA
31642922 TAGAATGGCTCCAACGG
1 TAGAATGGCTCCAACGG
31642939 TAGAATGGCTCCAACGG
1 TAGAATGGCTCCAACGG
31642956 AGTTAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (17 bp):
TAGAATGGCTCCAACGG
Found at i:31647029 original size:46 final size:46
Alignment explanation
Indices: 31646853--31647148 Score: 160
Period size: 46 Copynumber: 6.3 Consensus size: 46
31646843 TTCTGTGCTT
* * * *
31646853 GTGTAAGACATGTCTTGGACTTGCATCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCCA
** * * *
31646899 GTGTAAGACCATGTCTGGGACATGACATCAAC-ATTGAGACGAGAGCTA
1 GTGTAAGA-CATGTCTGGGACATG-CATCGGCTA-CGAGATGAGAGCCA
* ** *
31646947 GTATAAGACATGTCTGGGACATGTTTCAGCCT-CGAGATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGATG-AGAGCCA
* *
31646993 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT--GTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
* * * * *
31647037 ATGTAACACCATGCCTGGGACATGGCATCGGC-ACG-TATAGAGGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGAT-GA-GAGCCA
* * * * *
31647085 GTGTATGTCCATGTCTGGGACATGGCATTGGC-ACGAATATGTGAGAGCTA
1 GTGTAAG-ACATGTCTGGGACAT-GCATCGGCTACG-AGA--TGAGAGCCA
31647135 GTGTAAGACCATGT
1 GTGTAAGA-CATGT
31647149 TGTAGACATG
Statistics
Matches: 192, Mismatches: 37, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
44 11 0.06
45 19 0.10
46 57 0.30
47 31 0.16
48 53 0.28
49 1 0.01
50 17 0.09
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
Found at i:31647647 original size:9 final size:9
Alignment explanation
Indices: 31647620--31647656 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
31647610 TGAGCTTTCA
31647620 AATTCGAAT
1 AATTCGAAT
* *
31647629 AACTCAAAT
1 AATTCGAAT
31647638 AATTCGAAT
1 AATTCGAAT
31647647 AATTCGAAT
1 AATTCGAAT
31647656 A
1 A
31647657 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:31648168 original size:19 final size:17
Alignment explanation
Indices: 31648145--31648225 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
31648135 TTATATCTAC
31648145 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
31648162 TAAATTTAACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
*
31648181 TATTTATATTATTTAAT
1 TATTTATATTATTAAAT
* *
31648198 TTTTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTAAAT
31648215 TATTTATATTA
1 TATTTATATTA
31648226 AAATTGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.14
17 19 0.39
18 7 0.14
19 11 0.22
20 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:31649634 original size:21 final size:20
Alignment explanation
Indices: 31649610--31649649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
31649600 ATGTTCAAGT
31649610 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
31649631 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
31649650 TGTTTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:31657929 original size:49 final size:49
Alignment explanation
Indices: 31657856--31658312 Score: 749
Period size: 49 Copynumber: 9.5 Consensus size: 49
31657846 GTGTGTATAC
31657856 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31657903 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31657952 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31658001 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31658050 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--T
31658101 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31658148 GTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31658195 GTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
31658242 GTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
31658289 GTGAAAGTGTATA-A-ATGTGATAAG
1 GTGAAAGTGTATATATATGTGATAAG
31658313 TCCCGAAGTG
Statistics
Matches: 389, Mismatches: 9, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 145 0.37
48 2 0.01
49 228 0.59
51 10 0.03
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:31658911 original size:37 final size:37
Alignment explanation
Indices: 31658855--31658933 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31658845 CCGAGCTCTA
* * *
31658855 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31658892 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31658929 AAGAC
1 AAGAC
31658934 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31667098 original size:3 final size:3
Alignment explanation
Indices: 31667090--31667121 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
31667080 GTTTATTTGT
31667090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31667122 TATTTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31667134 original size:7 final size:6
Alignment explanation
Indices: 31667089--31667156 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
31667079 AGTTTATTTG
* * * * *
31667089 TTTATT ATTATT ATTATT ATTATT ATTATT ATTTATT TTTACT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTTATT TTTATT
*
31667138 TTTAATT TTTAAT TTTATT
1 TTT-ATT TTTATT TTTATT
31667157 CTTCTTCCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
6 43 0.80
7 11 0.20
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:31667136 original size:19 final size:18
Alignment explanation
Indices: 31667089--31667156 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 18
31667079 AGTTTATTTG
31667089 TTTATTATTATTA-TTATT
1 TTTATT-TTATTATTTATT
*
31667107 ATTATTATTATTATTTATT
1 TTTATT-TTATTATTTATT
31667126 TTTACTTTTATT-TTTAATT
1 TTTA-TTTTATTATTT-ATT
31667145 TTTAATTTTATT
1 TTT-ATTTTATT
31667157 CTTCTTCCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 15 0.34
19 26 0.59
20 3 0.07
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTATTTATT
Found at i:31671691 original size:21 final size:20
Alignment explanation
Indices: 31671653--31671707 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
31671643 AGTTACACGG
31671653 CCTACTCACACGGCTGTGTC
1 CCTACTCACACGGCTGTGTC
31671673 CCTACTGCACACTGG-TGTGTGC
1 CCTACT-CACAC-GGCTGTGT-C
31671695 CTCTA-TCACACGG
1 C-CTACTCACACGG
31671708 TCATGTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 5 0.16
23 3 0.10
ACGTcount: A:0.16, C:0.36, G:0.22, T:0.25
Consensus pattern (20 bp):
CCTACTCACACGGCTGTGTC
Found at i:31672415 original size:89 final size:89
Alignment explanation
Indices: 31672316--31672627 Score: 448
Period size: 89 Copynumber: 3.5 Consensus size: 89
31672306 TACGTACCAC
* * * * * *
31672316 TATCTGATCTGGCAGTTTATACTGCACATCTATACCGCGGT-TTACCGCATTGCACAGTATAGCT
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTT-CCACATTGCACAGTACAACT
31672380 TATACGCTAGCCTTGCTGCGTAATA
65 TATACGCTAGCCTTGCTGCGTAATA
**
31672405 TATCTGATCTGAAAGTTCATACTGC-CTGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACT
1 TATCTGATCTGGCAGTTCATACTGCAC-GTCTGTACCGCGGTCTTCCACATTGCACAGTACAACT
* *
31672469 TATACGCTAGCCTTACTGCATAATA
65 TATACGCTAGCCTTGCTGCGTAATA
* * *
31672494 TATCTGATCTAGCAGTTCATACTGCATGTCTGTACCGTGGTCTTCCACATTGCACAGTACAACTT
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACTT
*
31672559 ATACGCTAGCCTTGCTGCGTAAAA
66 ATACGCTAGCCTTGCTGCGTAATA
* *
31672583 TATCTGATCTGGCAGTTCATACTACATGTCTGTACCGCGGTCTTC
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTC
31672628 TGCATGGCAC
Statistics
Matches: 199, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
88 1 0.01
89 196 0.98
90 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (89 bp):
TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACTT
ATACGCTAGCCTTGCTGCGTAATA
Found at i:31674692 original size:7 final size:7
Alignment explanation
Indices: 31674680--31674745 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 7
31674670 CTTATTTAGT
*
31674680 TTATTTG
1 TTATTTA
31674687 TTATTTA
1 TTATTTA
31674694 TTA-TTA
1 TTATTTA
31674700 TTA-TTA
1 TTATTTA
31674706 TTATTTA
1 TTATTTA
31674713 TT-TTTA
1 TTATTTA
*
31674719 CT-TTTA
1 TTATTTA
31674725 TT-TTTAA
1 TTATTT-A
31674732 TT-TTTA
1 TTATTTA
31674738 TT-TTTA
1 TTATTTA
31674744 TT
1 TT
31674746 CTTCTTCCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
6 34 0.63
7 20 0.37
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:31674718 original size:6 final size:6
Alignment explanation
Indices: 31674690--31674745 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
31674680 TTATTTGTTA
* * *
31674690 TTTATT ATTATT ATTATT ATTTATT TTTACT TTTATT TTTAATT TTTATT
1 TTTATT TTTATT TTTATT -TTTATT TTTATT TTTATT TTT-ATT TTTATT
31674740 TTTATT
1 TTTATT
31674746 CTTCTTCCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 33 0.75
7 11 0.25
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:31674724 original size:12 final size:12
Alignment explanation
Indices: 31674709--31674743 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
31674699 ATTATTATTA
31674709 TTTATTTTTACT
1 TTTATTTTTACT
*
31674721 TTTATTTTTAATT
1 TTTATTTTT-ACT
31674734 TTTATTTTTA
1 TTTATTTTTA
31674744 TTCTTCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTTTACT
Found at i:31674742 original size:19 final size:19
Alignment explanation
Indices: 31674687--31674745 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
31674677 AGTTTATTTG
* *
31674687 TTATTTATTATTATTATTA
1 TTATTTATTTTTATTTTTA
*
31674706 TTATTTATTTTTACTTTTA
1 TTATTTATTTTTATTTTTA
31674725 TT-TTTAATTTTTATTTTTA
1 TTATTT-ATTTTTATTTTTA
31674744 TT
1 TT
31674746 CTTCTTCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 3 0.09
19 32 0.91
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTATTTTTATTTTTA
Found at i:31676218 original size:89 final size:89
Alignment explanation
Indices: 31676119--31676423 Score: 405
Period size: 89 Copynumber: 3.4 Consensus size: 89
31676109 TACGTACCAT
* * * * * * * *
31676119 TATCTGATCTGGCAATTTATACTGCACGTCTGTACCCCGGT-TTACCGTATTGCACAGTACAGCT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGGTCTT-TCGCATTGTACAGTACAGCT
31676183 TATACGCTAGCCTTGCTGCGTAATA
65 TATACGCTAGCCTTGCTGCGTAATA
* * ** * *
31676208 TATCTGATCTGGTAGTTCATACTGCATTTCTATACCGCAATCTTTCGGATTGTACAGTATAGCTT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGGTCTTTCGCATTGTACAGTACAGCTT
31676273 ATACGCTAGCCTTGCTGCGTAATA
66 ATACGCTAGCCTTGCTGCGTAATA
* * *
31676297 TATCTGATCTGGCAGTTCATACTACATGTCTATACCGCGGTCTTTGGCATTGTACAGTACAACTT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGGTCTTTCGCATTGTACAGTACAGCTT
31676362 ATACGCTAGCCTTGCTGCGTAATA
66 ATACGCTAGCCTTGCTGCGTAATA
* * * *
31676386 TATCTGATCTAGCAGTTTATACTGGATGTCTGTACCGC
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGC
31676424 AATCTTCCAC
Statistics
Matches: 188, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
89 186 0.99
90 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (89 bp):
TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGGTCTTTCGCATTGTACAGTACAGCTT
ATACGCTAGCCTTGCTGCGTAATA
Found at i:31679558 original size:44 final size:45
Alignment explanation
Indices: 31679494--31679609 Score: 180
Period size: 44 Copynumber: 2.6 Consensus size: 45
31679484 ACCGGCATTC
31679494 AGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTAT
1 AGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTAT
** * * *
31679539 AGCCTGCTAGGCT-TGAGGCCCGAATAGTGTCTCACCGGCATTAT
1 AGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTAT
31679583 AGCCTGCTAGGCTCAAAGGCCCGAATA
1 AGCCTGCTAGGCTCAAAGGCCCGAATA
31679610 GTACTGTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
44 39 0.62
45 24 0.38
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (45 bp):
AGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTAT
Found at i:31706760 original size:27 final size:27
Alignment explanation
Indices: 31706729--31706906 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31706719 TAAATTGTAC
31706729 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31706756 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31706782 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31706810 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31706838 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31706865 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31706892 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31706907 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31706843 original size:82 final size:81
Alignment explanation
Indices: 31706730--31706885 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31706720 AAATTGTACA
* *
31706730 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31706794 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31706811 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31706876 TGCGAGTTGA
65 TGCGAATTGA
31706886 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31706897 original size:82 final size:81
Alignment explanation
Indices: 31706726--31706906 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31706716 GATTAAATTG
* *
31706726 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31706791 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31706807 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31706871 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31706889 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31706907 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31727930 original size:20 final size:19
Alignment explanation
Indices: 31727884--31727921 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31727874 CATCCAAACA
31727884 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
31727903 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
31727922 TTTAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:31729087 original size:22 final size:22
Alignment explanation
Indices: 31729062--31729104 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31729052 AAACATGTTT
31729062 AAAACAT-CAACCTTTCCACATC
1 AAAACATGCAA-CTTTCCACATC
* *
31729084 AAAATATGCAAGTTTCCACAT
1 AAAACATGCAACTTTCCACAT
31729105 TCACAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAACATGCAACTTTCCACATC
Found at i:31729831 original size:42 final size:42
Alignment explanation
Indices: 31729672--31729822 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
31729662 ATGCCAATGT
* * * *
31729672 CATATCCTAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * *
31729714 CAATACCCCAGCTATGGTCTTACACGAAATCTCACATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * *
31729757 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGT
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
31729799 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
31729823 ATAGTCTCAG
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 60 0.63
43 35 0.37
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:31735336 original size:10 final size:10
Alignment explanation
Indices: 31735316--31735351 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
31735306 CTATCCCTAT
31735316 AAAAT-ATTA
1 AAAATAATTA
31735325 AAAATAATTA
1 AAAATAATTA
31735335 AAAATAA-TA
1 AAAATAATTA
31735344 AAAATAAT
1 AAAATAAT
31735352 AGTATAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.56
10 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATAATTA
Found at i:31736078 original size:47 final size:46
Alignment explanation
Indices: 31736009--31736097 Score: 169
Period size: 47 Copynumber: 1.9 Consensus size: 46
31735999 TACGAATTCT
31736009 AAGCCTCAAGAACCCTTTTGTGGATTTTTTTTTTGACAACCTTCGTA
1 AAGCCTCAAGAACCCTTTTGTGGA-TTTTTTTTTGACAACCTTCGTA
31736056 AAGCCTCAAGAACCCTTTTGTGGATTTTTTTTTGACAACCTT
1 AAGCCTCAAGAACCCTTTTGTGGATTTTTTTTTGACAACCTT
31736098 TGGCTAGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 18 0.43
47 24 0.57
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (46 bp):
AAGCCTCAAGAACCCTTTTGTGGATTTTTTTTTGACAACCTTCGTA
Found at i:31737647 original size:47 final size:47
Alignment explanation
Indices: 31737578--31737674 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
31737568 GCCATCCCAA
*
31737578 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATATAACAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
31737625 ATTAATATAACAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAATATAACAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
31737672 ATT
1 ATT
31737675 TAAACAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (47 bp):
ATTAATATAACAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
Found at i:31737701 original size:47 final size:44
Alignment explanation
Indices: 31737578--31737701 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 44
31737568 GCCATCCCAA
* *
31737578 ATTAATATAGCAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAAAATAACAATGAGA--AAAA-TAATTTTAAAATTTATATTCAG
*
31737625 ATTAATATAACAATGAGATTAAAATTAATTTTAAAATTTATATTCAG
1 ATTAAAATAACAATGAGA--AAAA-TAATTTTAAAATTTATATTCAG
31737672 ATTTAAACAATAA-AGATGAGAAAAATAATT
1 A-TT-AA-AATAACA-ATGAGAAAAATAATT
31737702 CCCCAATAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
47 52 0.73
48 6 0.08
49 3 0.04
50 10 0.14
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (44 bp):
ATTAAAATAACAATGAGAAAAATAATTTTAAAATTTATATTCAG
Found at i:31738233 original size:20 final size:20
Alignment explanation
Indices: 31738191--31738247 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
31738181 AAATGCAGAA
* *
31738191 TTAAGTCTCGAGACTT-GACC
1 TTAAGTCTCAAGACTTAG-TC
* * *
31738211 TTAGGTGTCAATACTTAGTC
1 TTAAGTCTCAAGACTTAGTC
31738231 TTAAGTCTCAAGACTTA
1 TTAAGTCTCAAGACTTA
31738248 AGCCTAAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (20 bp):
TTAAGTCTCAAGACTTAGTC
Found at i:31741499 original size:21 final size:21
Alignment explanation
Indices: 31741475--31741545 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
31741465 CCACACGAGA
31741475 GTGTGCCTCAGTCACACTGGT
1 GTGTGCCTCAGTCACACTGGT
** * *
31741496 GTGTGCCTCTTTTCACACTAGC
1 GTGTGCCTC-AGTCACACTGGT
*
31741518 GTGTGCCTCAGCCACAC-GGCT
1 GTGTGCCTCAGTCACACTGG-T
31741539 GTGTGCC
1 GTGTGCC
31741546 CCTCTTCACA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 17 0.44
ACGTcount: A:0.13, C:0.32, G:0.27, T:0.28
Consensus pattern (21 bp):
GTGTGCCTCAGTCACACTGGT
Found at i:31741527 original size:43 final size:43
Alignment explanation
Indices: 31741466--31741557 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
31741456 GTCCCTGGTC
* * *
31741466 CACACGAGAGTGTGCCTCAGTCACACTGG-TGTGTGCCTCTTTT
1 CACACGAGAGTGTGCCTCAGCCACAC-GGCTGTGTGCCCCTCTT
* *
31741509 CACACTAGCGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
1 CACACGAGAGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
31741552 CACACG
1 CACACG
31741558 GGCGTTTGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.16, C:0.35, G:0.24, T:0.25
Consensus pattern (43 bp):
CACACGAGAGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
Found at i:31757267 original size:40 final size:40
Alignment explanation
Indices: 31757200--31757451 Score: 362
Period size: 40 Copynumber: 6.3 Consensus size: 40
31757190 GGACTAAGAT
* * * **
31757200 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
31757240 CCGAAGGCATTCGTGCGAGTTGTTAAATATCCGGGTTAAGGC
1 CCGAAGGCATTCGTGCGAGTTGTT-AA-ATCCGGGTTAAGTC
31757282 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
31757322 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
31757362 CCGAAGGCATTCGTGTGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
31757402 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
31757441 CCGAAGGCATT
1 CCGAAGGCATT
31757452 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.17
40 122 0.62
41 4 0.02
42 37 0.19
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:31757915 original size:74 final size:74
Alignment explanation
Indices: 31757794--31757943 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 74
31757784 TACTAAGCAT
31757794 AAATTGCTTACTCGTTACATTACTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTC
1 AAATTGCTTACTCGTTACATTACTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTC
31757859 GGGATCTTG
66 GGGATCTTG
*
31757868 AAATTGCTTACTCGTTACATTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTC
1 AAATTGCTTACTCGTTACATTACTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTC
31757933 GGGATCTTG
66 GGGATCTTG
31757942 AA
1 AA
31757944 GTCGAAGTCG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (74 bp):
AAATTGCTTACTCGTTACATTACTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTC
GGGATCTTG
Found at i:31762415 original size:19 final size:19
Alignment explanation
Indices: 31762393--31762451 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
31762383 TAGAATAGAA
31762393 TAACTTATTTATTATAAAG
1 TAACTTATTTATTATAAAG
* *
31762412 TAAC-T-CTGA--ATAGAA-
1 TAACTTATTTATTATA-AAG
31762427 TAACTTATTTATTATAAAG
1 TAACTTATTTATTATAAAG
31762446 TAACTT
1 TAACTT
31762452 TGACGAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
16 3 0.10
17 4 0.13
18 3 0.10
19 13 0.43
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (19 bp):
TAACTTATTTATTATAAAG
Found at i:31762423 original size:34 final size:34
Alignment explanation
Indices: 31762385--31762450 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
31762375 AACTAACTTA
31762385 GAATAGAATAACTTATTTATTATAAAGTAACTCT
1 GAATAGAATAACTTATTTATTATAAAGTAACTCT
31762419 GAATAGAATAACTTATTTATTATAAAGTAACT
1 GAATAGAATAACTTATTTATTATAAAGTAACT
31762451 TTGACGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (34 bp):
GAATAGAATAACTTATTTATTATAAAGTAACTCT
Found at i:31762461 original size:34 final size:34
Alignment explanation
Indices: 31762389--31762461 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
31762379 AACTTAGAAT
*
31762389 AGAATAACTTATTTATTATAAAGTAACTCTGAAT
1 AGAATAACTTATTTATTATAAAGTAACTCTGAAG
* *
31762423 AGAATAACTTATTTATTATAAAGTAACTTTGACG
1 AGAATAACTTATTTATTATAAAGTAACTCTGAAG
31762457 AGAAT
1 AGAAT
31762462 GACATTATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (34 bp):
AGAATAACTTATTTATTATAAAGTAACTCTGAAG
Found at i:31762738 original size:35 final size:35
Alignment explanation
Indices: 31762688--31763104 Score: 233
Period size: 35 Copynumber: 11.6 Consensus size: 35
31762678 AGGCTGGCCT
31762688 TTAAAAAATGTTGAGATAGACTCGTCTAAAGCAACC
1 TTAAAAAA-GTTGAGATAGACTCGTCTAAAGCAACC
*
31762724 TTAAAAAAGCTGAGATAGAC-CTGTCT-AAGACAACC
1 TTAAAAAAGTTGAGATAGACTC-GTCTAAAG-CAACC
* * * * * * * *
31762759 CTAAAAAGGTTGGGAAAAACCTTGTCTAAGGCATCC
1 TTAAAAAAGTTGAGATAGA-CTCGTCTAAAGCAACC
* * *
31762795 TTTAAAAAAGGTTG-GAATAAAATCGTCTAAAGCAACT
1 -TTAAAAAA-GTTGAG-ATAGACTCGTCTAAAGCAACC
* * *
31762832 TTAAAAAAGTTGGGATAGACCCGTCTAAGGCAACC
1 TTAAAAAAGTTGAGATAGACTCGTCTAAAGCAACC
* * * * *
31762867 TTAAAAAGGTT-AGAATAGTCCTTGTCTAAGGCAACAT
1 TTAAAAAAGTTGAG-ATAG-ACTCGTCTAAAGCAAC-C
* *
31762904 TTAAAAAACATTGGGATAGACTCGTCTAAAGCAACC
1 TTAAAAAA-GTTGAGATAGACTCGTCTAAAGCAACC
* * *
31762940 TTAAAAAGGTTG-GTATAGACCTTGTCTAAGGCAACC
1 TTAAAAAAGTTGAG-ATAGA-CTCGTCTAAAGCAACC
**
31762976 TTTAAAAAATGTTGAGATAGATCTTATCT-AAGACAACC
1 -TTAAAAAA-GTTGAGATAGA-CTCGTCTAAAG-CAACC
* * * *
31763014 TTTAAAAAGGTT-AGGATAAAAC-CATCTAAGGCAACCC
1 -TTAAAAAAGTTGA-GAT-AGACTCGTCTAAAGCAA-CC
* * * *
31763051 TT-AAAAGGTTGGGATAGATTCGTC-CAAGACAACC
1 TTAAAAAAGTTGAGATAGACTCGTCTAAAG-CAACC
* *
31763085 TTAAAAAGGTTAAGATAGAC
1 TTAAAAAAGTTGAGATAGAC
31763105 ACATCTAAGC
Statistics
Matches: 296, Mismatches: 57, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
34 14 0.05
35 106 0.36
36 70 0.24
37 60 0.20
38 44 0.15
39 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (35 bp):
TTAAAAAAGTTGAGATAGACTCGTCTAAAGCAACC
Found at i:31762849 original size:108 final size:108
Alignment explanation
Indices: 31762685--31763104 Score: 411
Period size: 108 Copynumber: 3.9 Consensus size: 108
31762675 TCAAGGCTGG
* * * * *
31762685 CCTTTAAAAAATGTT-GAGATAGACTCGTCTAAAGCAACCTTAAAAAAGCTGAGATAGACCTGTC
1 CCTTTAAAAAAGGTTGGA-ATAAAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTC
* * * *
31762749 TAAGACAACCCTAAAAAGGTTGGGAAAAACCTTGTCTAAGGCAT
65 TAAGACAACCTTAAAAAGGTTGAGAAAGACCTTGTCTAAGGCAA
* *
31762793 CCTTTAAAAAAGGTTGGAATAAAATCGTCTAAAGCAACTTTAAAAAAGTTGGGATAGACCCGTCT
1 CCTTTAAAAAAGGTTGGAATAAAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTCT
* *
31762858 AAGGCAACCTTAAAAAGGTT-AGAATAGTCCTTGTCTAAGGCAA
66 AAGACAACCTTAAAAAGGTTGAGAA-AGACCTTGTCTAAGGCAA
* ** * * * * *
31762901 CATTTAAAAAACATTGGGATAGACTCGTCTAAAGCAACCTTAAAAAGGTTGGTATAGACCTTGTC
1 CCTTTAAAAAAGGTTGGAATAAAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACC-TGTC
* * * * * *
31762966 TAAGGCAACCTTTAAAAAATGTTGAGATAGATCTTATCTAAGACAA
65 TAAGACAACC-TT-AAAAAGGTTGAGAAAGACCTTGTCTAAGGCAA
* * * * *
31763012 CCTTT-AAAAAGGTTAGG-ATAAAACCATCTAAGGCAACCCTT-AAAAGGTTGGGATAGA-TTCG
1 CCTTTAAAAAAGGTT-GGAATAAAATCGTCTAAAGCAA-CCTTAAAAAAGTTGGGATAGACCT-G
* * *
31763073 TCCAAGACAACCTTAAAAAGGTTAAGATAGAC
63 TCTAAGACAACCTTAAAAAGGTTGAGAAAGAC
31763105 ACATCTAAGC
Statistics
Matches: 259, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
107 18 0.07
108 142 0.55
109 26 0.10
110 38 0.15
111 32 0.12
112 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (108 bp):
CCTTTAAAAAAGGTTGGAATAAAATCGTCTAAAGCAACCTTAAAAAAGTTGGGATAGACCTGTCT
AAGACAACCTTAAAAAGGTTGAGAAAGACCTTGTCTAAGGCAA
Found at i:31762932 original size:73 final size:72
Alignment explanation
Indices: 31762686--31763104 Score: 345
Period size: 73 Copynumber: 5.8 Consensus size: 72
31762676 CAAGGCTGGC
* * * * *
31762686 CTTTAAAAAATGTTGAGATAGACTCGTCTAAAGCAACCTTAAAAAAGCT-GAGATAGACC-TGTC
1 CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTAGA-ATAGACCTTGTC
*
31762749 TAAGACAA
65 TAAGGCAA
** * * * * * ** *
31762757 CCCT-AAAAAGGTTGGGAAAAACCTTGTCTAAGGCATCCTTTAAAAAAGGTTGGAATA-AAATCG
1 CTTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC-TT-AAAAAGGTTAGAATAGACCTTG
*
31762820 TCTAAAGCAA
63 TCTAAGGCAA
* *
31762830 CTTTAAAAAA-GTTGGGATAGACCCGTCTAAGGCAACCTTAAAAAGGTTAGAATAGTCCTTGTCT
1 CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTAGAATAGACCTTGTCT
31762894 AAGGCAA
66 AAGGCAA
** * * *
31762901 CATTTAAAAAACATTGGGATAGACTCGTCTAAAGCAACCTTAAAAAGGTTGGTATAGACCTTGTC
1 C-TTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTAGAATAGACCTTGTC
31762966 TAAGGCAA
65 TAAGGCAA
* * ** * * *
31762974 CCTTTAAAAAATGTTGAGATAGATCTTATCTAAGACAACCTTTAAAAAGGTTAGGATAAAACC--
1 -CTTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACC-TTAAAAAGGTTAGAAT-AGACCTT
*
31763037 ATCTAAGGCAA
62 GTCTAAGGCAA
* * * *
31763048 CCCTT--AAAAGGTTGGGATAGATTCGTCCAAGACAACCTTAAAAAGGTTA-AGATAGAC
1 -CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTAGA-ATAGAC
31763105 ACATCTAAGC
Statistics
Matches: 279, Mismatches: 55, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
69 3 0.01
70 41 0.15
71 41 0.15
72 39 0.14
73 103 0.37
74 34 0.12
75 14 0.05
76 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (72 bp):
CTTTAAAAAAGGTTGGGATAGACTCGTCTAAGGCAACCTTAAAAAGGTTAGAATAGACCTTGTCT
AAGGCAA
Found at i:31763542 original size:15 final size:14
Alignment explanation
Indices: 31763522--31763558 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
31763512 TTTTGCTTCT
31763522 TCTTCCTTCACATCA
1 TCTTCCTTC-CATCA
31763537 TCTTCCTT-CATCA
1 TCTTCCTTCCATCA
31763550 TCTTCCTTC
1 TCTTCCTTC
31763559 TTCTTCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.62
15 8 0.38
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.46
Consensus pattern (14 bp):
TCTTCCTTCCATCA
Found at i:31767016 original size:32 final size:32
Alignment explanation
Indices: 31766967--31767031 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
31766957 CAAGATGATG
*
31766967 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
1 AGATAGATATAAAGGCCAAGGGCAAATATAAA
*
31766999 AGATAGATATAATGGCCAAGGGCAAATATAAA
1 AGATAGATATAAAGGCCAAGGGCAAATATAAA
31767031 A
1 A
31767032 CAAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (32 bp):
AGATAGATATAAAGGCCAAGGGCAAATATAAA
Found at i:31767539 original size:109 final size:109
Alignment explanation
Indices: 31767416--31767735 Score: 640
Period size: 109 Copynumber: 2.9 Consensus size: 109
31767406 GTGAAACAAT
31767416 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
1 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
31767481 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGTGTTCACA
66 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGTGTTCACA
31767525 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
1 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
31767590 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGTGTTCACA
66 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGTGTTCACA
31767634 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
1 TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
31767699 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGT
66 TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGT
31767736 TTACACTCAT
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 211 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (109 bp):
TATATATATATTTATTAGTACTTTATTATTTCATATCTTTGTTATGGAATATTATTTATAAAATA
TCTAAAAAGTAATGATTTTATTTCATGATTCAAAAGTGTTCACA
Found at i:31770721 original size:32 final size:32
Alignment explanation
Indices: 31770670--31770735 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
31770660 AAACGATTTC
*
31770670 CATGAATCTGAAGCTGATGTTTCTTTGGATGA
1 CATGAATCTGAAGCGGATGTTTCTTTGGATGA
*
31770702 CATGGATCTGAAGCGGATGTTTCTTTGGATGA
1 CATGAATCTGAAGCGGATGTTTCTTTGGATGA
31770734 CA
1 CA
31770736 CAACCGCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (32 bp):
CATGAATCTGAAGCGGATGTTTCTTTGGATGA
Found at i:31771539 original size:17 final size:17
Alignment explanation
Indices: 31771519--31771551 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31771509 ATTAAGAATG
31771519 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
31771536 TTATTAAATTATATTT
1 TTATTAAATTATATTT
31771552 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:31780636 original size:37 final size:37
Alignment explanation
Indices: 31780586--31780664 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31780576 TTATTACGAA
* * *
31780586 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31780623 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31780660 GTCTT
1 GTCTT
31780665 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31780861 original size:47 final size:47
Alignment explanation
Indices: 31780783--31781384 Score: 934
Period size: 47 Copynumber: 12.6 Consensus size: 47
31780773 CCCTTCGGGA
* * * * * *
31780783 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31780830 CCTGTCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31780877 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31780924 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31780973 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781020 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781069 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781116 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781212 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31781261 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31781308 CTTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
31781357 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACA--TATATACACTTTCACAT
31781385 ATGGGTTTAA
Statistics
Matches: 513, Mismatches: 30, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
47 272 0.53
49 239 0.47
51 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31780862 original size:25 final size:25
Alignment explanation
Indices: 31780834--31780911 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
31780824 CTCGGCCCTG
31780834 TCACATATGTACACTTTCACATTCA
1 TCACATATGTACACTTTCACATTCA
* ** *** *
31780859 TCACAT-CGGCCA-TTAGGCCTT-A
1 TCACATATGTACACTTTCACATTCA
*
31780881 TCACATATATACACTTTCACATTCA
1 TCACATATGTACACTTTCACATTCA
31780906 TCACAT
1 TCACAT
31780912 CGGCTATTAG
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 8 0.23
25 13 0.37
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATGTACACTTTCACATTCA
Found at i:31780980 original size:96 final size:96
Alignment explanation
Indices: 31780783--31781384 Score: 1073
Period size: 96 Copynumber: 6.3 Consensus size: 96
31780773 CCCTTCGGGA
* * * * * * * * *
31780783 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATG--TAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
*
31780846 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31780877 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
31780942 ACTTTCACATTCCTCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31780973 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
31781038 ACTTTCACATTCCTCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31781069 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
31781134 ACTTTCACATTCCTCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31781165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
31781230 ACTTTCACATTCCTCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31781261 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
*
31781326 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCCTCACATCGGCCATTAGGC
31781357 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACA--TATATACACTTTCACAT
31781385 ATGGGTTTAA
Statistics
Matches: 493, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
94 51 0.10
96 425 0.86
98 17 0.03
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATGTATAC
ACTTTCACATTCCTCACATCGGCCATTAGGC
Found at i:31784621 original size:141 final size:141
Alignment explanation
Indices: 31784350--31784641 Score: 394
Period size: 141 Copynumber: 2.1 Consensus size: 141
31784340 TTGGTCAAAG
* * * *
31784350 CACTTAGG-AAAGTGTCGGCCCAAAAGTGTCGGCATAGTATTGGACAAAACCGACTCTTATTTAA
1 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
* *
31784414 GCGTTGCCTTAGGCATGCATATCTCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTCGACAA
66 GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTAGACAA
31784479 GTCTATCCCAA
131 GTCTATCCCAA
* *** *
31784490 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTGTTAGACAAAGTTGACTCTTCTTTAA
1 CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
* * *
31784555 GTGTTGCCTTAGGTATGCATATCCCAACCCTTATACAAAGAGTTAG-TCAAAGTC-TATGTTAG-
66 GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCT-AAAG-CGTATG-TAGA
31784617 CAAGTCTATCCCAA
128 CAAGTCTATCCCAA
*
31784631 CACTTAAGAAA
1 CACTTAGGAAA
31784642 GTGTCGGTCT
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
140 9 0.07
141 121 0.91
142 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (141 bp):
CACTTAGGAAAAATGTCAGCCCAAAAGTGTCAGCATAGTATTAGACAAAACCGACTCTTATTTAA
GCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCTAAAGCGTATGTAGACAA
GTCTATCCCAA
Found at i:31790024 original size:31 final size:31
Alignment explanation
Indices: 31789989--31790048 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
31789979 ACCATTTTCA
31789989 GTTACAAACGTAACAGAGTTATCATTTTTTT
1 GTTACAAACGTAACAGAGTTATCATTTTTTT
* * * *
31790020 GTTACATACTTAACGGAGTTGTCATTTTT
1 GTTACAAACGTAACAGAGTTATCATTTTT
31790049 CATCCCCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (31 bp):
GTTACAAACGTAACAGAGTTATCATTTTTTT
Found at i:31790878 original size:11 final size:12
Alignment explanation
Indices: 31790854--31790880 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31790844 TTTATTTGAG
31790854 TTTAATTTATTT
1 TTTAATTTATTT
31790866 TTTAATTTATTT
1 TTTAATTTATTT
31790878 TTT
1 TTT
31790881 CTTTCCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTAATTTATTT
Found at i:31815915 original size:16 final size:16
Alignment explanation
Indices: 31815896--31815926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31815886 TATGAAAAAC
31815896 TTTGAGCTCGAGAAAG
1 TTTGAGCTCGAGAAAG
*
31815912 TTTGGGCTCGAGAAA
1 TTTGAGCTCGAGAAA
31815927 ATCCAAGCTC
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:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (16 bp):
TTTGAGCTCGAGAAAG
Found at i:31817334 original size:15 final size:15
Alignment explanation
Indices: 31817314--31817344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31817304 AAATATGAAA
31817314 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
31817329 GATATGTTTTGTATT
1 GATATGTTTTGGATT
31817344 G
1 G
31817345 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:31825140 original size:15 final size:15
Alignment explanation
Indices: 31825120--31825150 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31825110 AAATATGAAA
31825120 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
31825135 GATATGTTTTGTATT
1 GATATGTTTTGGATT
31825150 G
1 G
31825151 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:31826257 original size:41 final size:40
Alignment explanation
Indices: 31826155--31826276 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
31826145 AAAATCGAAT
* *
31826155 AGATTGAGTATTAGCGGCGTTTTTAAGAAAGCACAGCTAA
1 AGATTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
*
31826195 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
1 AGATTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
**
31826235 AGATTTGAGCATTAGCGGCGTTTTTAAGAAAGTGCCGCTAA
1 AGA-TTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
31826276 A
1 A
31826277 ATATTAAGCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 40 0.53
41 35 0.47
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (40 bp):
AGATTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
Found at i:31827119 original size:22 final size:22
Alignment explanation
Indices: 31827025--31827138 Score: 76
Period size: 22 Copynumber: 5.2 Consensus size: 22
31827015 TAAACACCAC
*
31827025 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAACCATAA
* * *
31827046 CCCCTTAAGA-CTAAAAACGATAA
1 ACCCTTAA-ATCT-CAAACCATAA
* *
31827069 A-CCTT-AATCCCAACACCTTAA
1 ACCCTTAAATCTCAA-ACCATAA
*
31827090 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAACCATAA
* *
31827111 ACCCTTAAAACTCCAACCTATAA
1 ACCCTTAAATCTCAAACC-ATAA
31827134 ACCCT
1 ACCCT
31827139 AACACACAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
20 3 0.04
21 21 0.30
22 28 0.41
23 17 0.25
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (22 bp):
ACCCTTAAATCTCAAACCATAA
Found at i:31827134 original size:65 final size:64
Alignment explanation
Indices: 31826955--31827136 Score: 181
Period size: 65 Copynumber: 2.8 Consensus size: 64
31826945 CCTTTAACCC
* * * *
31826955 CCAAACCCTAAATCTCTAATCATAAACCCTTAAAACTACAAACACTAATTAA--TTACTCTTTAA
1 CCAAACCCTAAATCTCAAATCATAAACCCTTAAAACT-CAAAC-CT-ATAAACCTTAATC-TCAA
31827018 ACA
62 ACA
* * * * * * *
31827021 CCACACCCTAAATCTCAAATCATAACCCCTTAAGACTAAAAACGATAAACCTTAATC-CCAACA
1 CCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACCTTAATCTCAAACA
*
31827084 CCTTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAACCTATAAACC
1 CC--AAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACC
31827137 CTAACACACA
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
63 10 0.11
64 1 0.01
65 50 0.53
66 33 0.35
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (64 bp):
CCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCTATAAACCTTAATCTCAAACA
Found at i:31827421 original size:9 final size:8
Alignment explanation
Indices: 31827408--31827483 Score: 84
Period size: 8 Copynumber: 9.1 Consensus size: 8
31827398 ATGTTAGTTT
31827408 AAAAATTA
1 AAAAATTA
31827416 TAAAAATCTTTA
1 -AAAAA--TT-A
31827428 AAATAATT-
1 AAA-AATTA
31827436 AAAAATTA
1 AAAAATTA
31827444 AAAAATTA
1 AAAAATTA
31827452 AAAAATTA
1 AAAAATTA
31827460 AAAAATT-
1 AAAAATTA
31827467 AAAAATTA
1 AAAAATTA
*
31827475 AAAATTTA
1 AAAAATTA
31827483 A
1 A
31827484 TATTTTAGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
7 11 0.18
8 34 0.57
9 5 0.08
10 2 0.03
11 5 0.08
12 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAATTA
Found at i:31827449 original size:8 final size:8
Alignment explanation
Indices: 31827425--31827483 Score: 86
Period size: 8 Copynumber: 7.5 Consensus size: 8
31827415 ATAAAAATCT
31827425 TTAAAATAA
1 TTAAAA-AA
31827434 TT-AAAAA
1 TTAAAAAA
31827441 TTAAAAAA
1 TTAAAAAA
31827449 TTAAAAAA
1 TTAAAAAA
31827457 TTAAAAAA
1 TTAAAAAA
31827465 TT-AAAAA
1 TTAAAAAA
*
31827472 TTAAAAAT
1 TTAAAAAA
31827480 TTAA
1 TTAA
31827484 TATTTTAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
7 11 0.23
8 34 0.72
9 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAA
Found at i:31827612 original size:17 final size:16
Alignment explanation
Indices: 31827578--31827625 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
31827568 TTTTGGAAGA
**
31827578 AAAAATAAAAAATGTT
1 AAAAATAAAAAAAATT
31827594 AAAAATGAAAAAAAATT
1 AAAAAT-AAAAAAAATT
*
31827611 AAAATTAAATAAAAA
1 AAAAATAAA-AAAAA
31827626 GTTTAGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (16 bp):
AAAAATAAAAAAAATT
Found at i:31831602 original size:28 final size:28
Alignment explanation
Indices: 31831539--31831636 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
31831529 ATATTAAGTC
*
31831539 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31831566 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
31831594 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
31831623 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31831637 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
29 20 0.32
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31841145 original size:44 final size:43
Alignment explanation
Indices: 31841079--31841165 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
31841069 GCCCAAGTTG
* *
31841079 AGTCCAATTCGGAAAAGGCTAATTTTGAGGGTTCTTCGGCATTC
1 AGTCCAATTCGGAAAAGACTAATTTTGAGGGCT-TTCGGCATTC
31841123 AGTCCAATTCGGAAAAGACTAATTTTGAGGGCTTTCGGCATTC
1 AGTCCAATTCGGAAAAGACTAATTTTGAGGGCTTTCGGCATTC
31841166 CAAAGCCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 10 0.24
44 31 0.76
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
AGTCCAATTCGGAAAAGACTAATTTTGAGGGCTTTCGGCATTC
Found at i:31845464 original size:18 final size:18
Alignment explanation
Indices: 31845441--31845511 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
31845431 AGGACGTGTC
31845441 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
*
31845459 ATTCATTATCATAAA-GTT
1 ATTCATTTTCA-AAACGTT
* * *
31845477 ATAC-TCTTTCATAATGTT
1 ATTCAT-TTTCAAAACGTT
*
31845495 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
31845512 CACTTATTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 3 0.07
18 34 0.83
19 4 0.10
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:31848914 original size:44 final size:44
Alignment explanation
Indices: 31848855--31848977 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
31848845 ACCCCAAACT
* * *
31848855 CCCAAACCTCTTTACTTTCCCCCCAAAATTTTACTCCTTCAACC
1 CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
* *
31848899 CCTC-AAACTTTTTACTTTCCCTCTAAAATTTTACTCCATCAACC
1 CC-CAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
*
31848943 CCCAAAACTTTTTATTTTCCCCCCAAAATTTTACT
1 CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACT
31848978 TCTCACCCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.97
45 1 0.01
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (44 bp):
CCCAAAACTTTTTACTTTCCCCCCAAAATTTTACTCCATCAACC
Found at i:31849421 original size:19 final size:19
Alignment explanation
Indices: 31849397--31849433 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31849387 AGTTAATATC
*
31849397 AAATTTGATTATGGTGGGA
1 AAATTTGATTACGGTGGGA
31849416 AAATTTGATTACGGTGGG
1 AAATTTGATTACGGTGGG
31849434 TGACAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (19 bp):
AAATTTGATTACGGTGGGA
Found at i:31852390 original size:46 final size:46
Alignment explanation
Indices: 31852264--31852517 Score: 205
Period size: 46 Copynumber: 5.4 Consensus size: 46
31852254 CGATTCTATA
* * * *
31852264 TCCCAGACACGGTCTTACACTGGCTCATATCTC-AAGTCGATGCCATG
1 TCCCAGACA-TGTCTTACACTGGCTTACATCTCGAAGCCGATG-CATG
* * * *
31852311 TCCCAGACACGGTCTTACATTGAC-TATCATCTCGTAGCCGATGCATG
1 TCCCAGACA-TGTCTTACACTGGCTTA-CATCTCGAAGCCGATGCATG
* * *
31852358 TCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATG
* * *
31852404 TCCTAGACATGTCTTACACTAGCTCT-CGTCTC-AATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCCGATG-CATG
* * ** *
31852451 TCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATG
1 TCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAAGCCGATGCATG
31852498 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
31852518 AGCTCACAAA
Statistics
Matches: 172, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 72 0.42
47 68 0.40
48 30 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATG
Found at i:31852499 original size:94 final size:92
Alignment explanation
Indices: 31852347--31852522 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 92
31852337 TCATCTCGTA
* * * ** *
31852347 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCTAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
31852412 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
*
31852439 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCCC
31852502 AGACATGTCTTACACTAGCTC
62 AGACATGTCTTACACTAGCTC
31852523 ACAAACAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 51 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:31855116 original size:19 final size:19
Alignment explanation
Indices: 31855092--31855141 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
31855082 GGTATAGAGC
31855092 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
31855111 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
31855130 ACACGCCCGTGT
1 ACACGCCCGTGT
31855142 CCCGAACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGG
Found at i:31856347 original size:21 final size:20
Alignment explanation
Indices: 31856323--31856361 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31856313 ATAATAAATC
31856323 ATAAACATTTTTGTAAAATTT
1 ATAAACATTTTT-TAAAATTT
**
31856344 ATAATGATTTTTTAAAAT
1 ATAAACATTTTTTAAAAT
31856362 CAAAGTAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAAACATTTTTTAAAATTT
Found at i:31857705 original size:46 final size:46
Alignment explanation
Indices: 31857629--31858033 Score: 512
Period size: 46 Copynumber: 8.8 Consensus size: 46
31857619 TGATGTCATA
* * * * * *
31857629 GTATCTTTCAACTATAGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* * *
31857675 GTATCTTTCAACCATGGTCTTATTCATTTTC-TCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCAT-ATCAGGTTGCCATG
* * * *
31857722 GTATCTTTCAACCATGGTCTTATTTATCTTC--GTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCAT-TTCATATCAGGTTGCCATG
*
31857767 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
31857813 GTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
31857859 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
31857905 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
31857951 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * * * *
31857997 TTATTTTTCAACCTTGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
31858034 AGAGCACACT
Statistics
Matches: 333, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
44 3 0.01
45 39 0.12
46 249 0.75
47 42 0.13
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:31861232 original size:28 final size:28
Alignment explanation
Indices: 31861195--31861254 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
31861185 TATTACAAAC
*
31861195 ACTAACACCTTATCTTACAACTTGGCAA
1 ACTAACACCTTATCTTACAACTTGGAAA
31861223 ACTAACACCTTATCTTACAACTTGGAAA
1 ACTAACACCTTATCTTACAACTTGGAAA
31861251 ACTA
1 ACTA
31861255 GCCCTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (28 bp):
ACTAACACCTTATCTTACAACTTGGAAA
Found at i:31870880 original size:25 final size:24
Alignment explanation
Indices: 31870794--31870857 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
31870784 AAGGCTATGC
** *
31870794 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACGT
31870818 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACGT
31870842 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
31870858 ATAAGTAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACGT
Found at i:31875977 original size:45 final size:47
Alignment explanation
Indices: 31875923--31876010 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 47
31875913 CACAGTTTGT
* * * *
31875923 CATTTGGCCTCA-AT-ATATATATACTTTCACGTTCATCACATTGGC
1 CATTCGGCCTCATATCATATATACACATTCACATTCATCACATTGGC
* *
31875968 CATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTCGGCCTCATATCATATATACACATTCACATTCATCACAT
31876011 AAAATTCTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 10 0.29
46 1 0.03
47 24 0.69
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.36
Consensus pattern (47 bp):
CATTCGGCCTCATATCATATATACACATTCACATTCATCACATTGGC
Found at i:31881362 original size:24 final size:24
Alignment explanation
Indices: 31881335--31881394 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
31881325 AAGGTTATGC
31881335 GGCACTATGTGTGCGAGAAAAAGT
1 GGCACTATGTGTGCGAGAAAAAGT
*
31881359 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAAAGT
31881383 GGCACTATGTGT
1 GGCACTATGTGT
31881395 ACAAATAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAAAGT
Found at i:31890180 original size:46 final size:46
Alignment explanation
Indices: 31890019--31890193 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
31890009 TGTAACTCGC
* * * * *
31890019 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
31890065 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
31890115 -C-TCA-CGAACTCGGACT-AACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
31890157 CCATAAGTGAACTCAGACTTAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31890194 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 10 0.10
46 66 0.63
47 11 0.10
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:31890184 original size:92 final size:93
Alignment explanation
Indices: 31890026--31890196 Score: 263
Period size: 92 Copynumber: 1.8 Consensus size: 93
31890016 CGCCCATAAG
* * * *
31890026 CGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
31890091 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
31890119 CGAACTCGGACT-AACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTTAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
31890183 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31890197 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 58 0.83
93 12 0.17
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31896717 original size:37 final size:37
Alignment explanation
Indices: 31896667--31896764 Score: 169
Period size: 37 Copynumber: 2.6 Consensus size: 37
31896657 GGAAATATAT
31896667 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31896704 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31896741 TCCGGGTAAGACTCGATAACTACG
1 TCCGGGTAAGACCCGATGACTACG
31896765 CGCGGGAACT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31902799 original size:39 final size:39
Alignment explanation
Indices: 31902744--31902856 Score: 199
Period size: 39 Copynumber: 2.9 Consensus size: 39
31902734 GAAATGTGTA
*
31902744 TGGAAATATATTTGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTCGTGC
31902783 TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTCGTGC
* *
31902822 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTC
1 TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTC
31902857 ACTTAGTGCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTCGTGC
Found at i:31904838 original size:39 final size:39
Alignment explanation
Indices: 31904782--31904945 Score: 256
Period size: 39 Copynumber: 4.2 Consensus size: 39
31904772 GAAATGTGTA
31904782 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
31904821 TGGAAATATATCTGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* * *
31904860 TGGAAATGTATCCGGGCTAAAGACCCGCAAGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
* * *
31904899 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
*
31904938 TGGTAATA
1 TGGAAATA
31904946 AAATTTTAGG
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
Found at i:31911323 original size:13 final size:13
Alignment explanation
Indices: 31911291--31911325 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31911281 GGAACACGAG
*
31911291 CGTGTGCCCTAGC
1 CGTGTGTCCTAGC
31911304 CGTGTGTCCTAGC
1 CGTGTGTCCTAGC
31911317 CGTGTGTCC
1 CGTGTGTCC
31911326 CAAAATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.34, G:0.31, T:0.29
Consensus pattern (13 bp):
CGTGTGTCCTAGC
Found at i:31916923 original size:27 final size:27
Alignment explanation
Indices: 31916868--31916928 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
31916858 CCCTGATTTA
* *
31916868 TAAAATGACTATTTTGCCCTTTTATGG
1 TAAAATGACTATTTTGCCCTTATACGG
* *
31916895 TAAAATGACTGTTTTGCCCTTATGCGG
1 TAAAATGACTATTTTGCCCTTATACGG
31916922 TAAAATG
1 TAAAATG
31916929 TAGAGCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATACGG
Found at i:31917140 original size:267 final size:267
Alignment explanation
Indices: 31916659--31917195 Score: 885
Period size: 267 Copynumber: 2.0 Consensus size: 267
31916649 CCACACGAAC
* * *
31916659 ATGTAGAGAATATTGGGCCAGGCTGTGTAATCCACATGGCCAAGGCCATATCTGGGCTTTGTGGG
1 ATGTAGAGAATATTGGGCCAGGCTGTGTAATCCACATAGCCAAGGCCATATATGGGATTTGTGGG
* **
31916724 CCACACGGGCGTGTGGGCCCACATGGGCCCGCATAATGGGCATTGGGTTCATTTTCTCTGTTTGA
66 CCACACGGGCGTGTGGGCCCACATGGGCCCACATAATGGGCATTGGGCCCATTTTCTCTGTTTGA
31916789 CTGTTTAGGTTGCACGGGTCGCCCGAGACGAATGTGGACCTACTGTTGGGTCGGTAAGTGTGTCT
131 CTGTTTAGGTTGCACGGGTCGCCCGAGACGAATGTGGACCTACTGTTGGGTCGGTAAGTGTGTCT
* * * * *
31916854 GGAGCCCTGATTTATAAAATGACTATTTTGCCCTTTTATGGTAAAATGACTGTTTTGCCCTTATG
196 GGACCCCTAATTGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATA
31916919 CGGTAAA
261 CGGTAAA
*
31916926 ATGTAGAGCATATTGGGCCAGGCTGTGTAATCCACATAGCCAAGGCCATATATGGGATTTGTGGG
1 ATGTAGAGAATATTGGGCCAGGCTGTGTAATCCACATAGCCAAGGCCATATATGGGATTTGTGGG
* * *
31916991 CCACACGGGCGTGTGGGCCCACATGGGCCCACATAATGGGCCTTTGGCCCATTTTTTCTGTTTGA
66 CCACACGGGCGTGTGGGCCCACATGGGCCCACATAATGGGCATTGGGCCCATTTTCTCTGTTTGA
* * *
31917056 CTGTTTAGGTTGCACGGGTCGCCCGAGACGACTGTGGACCTACTTTTGGGTCGGTAAGTGTGTTT
131 CTGTTTAGGTTGCACGGGTCGCCCGAGACGAATGTGGACCTACTGTTGGGTCGGTAAGTGTGTCT
* *
31917121 GGACCCCTAATTGATAAAATGACTATTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATA
196 GGACCCCTAATTGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATA
*
31917186 TGGTAAA
261 CGGTAAA
31917193 ATG
1 ATG
31917196 ATTCTTTTGC
Statistics
Matches: 249, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
267 249 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (267 bp):
ATGTAGAGAATATTGGGCCAGGCTGTGTAATCCACATAGCCAAGGCCATATATGGGATTTGTGGG
CCACACGGGCGTGTGGGCCCACATGGGCCCACATAATGGGCATTGGGCCCATTTTCTCTGTTTGA
CTGTTTAGGTTGCACGGGTCGCCCGAGACGAATGTGGACCTACTGTTGGGTCGGTAAGTGTGTCT
GGACCCCTAATTGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTGCCCTTATA
CGGTAAA
Found at i:31917165 original size:27 final size:27
Alignment explanation
Indices: 31917135--31917346 Score: 205
Period size: 27 Copynumber: 8.0 Consensus size: 27
31917125 CCCTAATTGA
*
31917135 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
31917162 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * *
31917189 TAAAATGATTCTTTTGCCCTTATATAG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
31917216 TAAAATGACTATTTTGCCCTTACGAGA
1 TAAAATGACTATTTTGCCCTTATGTGG
31917243 TAAAATGAC--TTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
***
31917268 TAAAATGACTATTTTG-CCTTATAAAG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * * *
31917294 AAAAATGATTGTTTTTCCCTTATGTAG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * *
31917321 TAAGATGAATGTTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
31917347 TTGTGTATAT
Statistics
Matches: 151, Mismatches: 31, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
25 22 0.15
26 19 0.13
27 110 0.73
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:31917322 original size:105 final size:107
Alignment explanation
Indices: 31917133--31917339 Score: 292
Period size: 105 Copynumber: 1.9 Consensus size: 107
31917123 ACCCCTAATT
* * ** *
31917133 GATAAAATGACTATTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGAT
1 GATAAAATGAC-ATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATAAAGAAAAATGAT
*
31917198 TCTTTTGCCCTTATATAGTAAAATGACTATTTTGCCCTTACGA
65 TCTTTTGCCCTTATATAGTAAAATGAATATTTTGCCCTTACGA
31917241 GATAAAATGAC-TTTTGCCCTTATGTGGTAAAATGACTATTTTG-CCTTATAAAGAAAAATGATT
1 GATAAAATGACATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATAAAGAAAAATGATT
* * * * *
31917304 GTTTTTCCCTTATGTAGTAAGATGAATGTTTTGCCC
66 CTTTTGCCCTTATATAGTAAAATGAATATTTTGCCC
31917340 CTATGTGTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 47 0.53
106 30 0.34
108 11 0.12
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (107 bp):
GATAAAATGACATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATAAAGAAAAATGATT
CTTTTGCCCTTATATAGTAAAATGAATATTTTGCCCTTACGA
Found at i:31920809 original size:40 final size:40
Alignment explanation
Indices: 31920418--31920795 Score: 566
Period size: 40 Copynumber: 9.5 Consensus size: 40
31920408 ATGTCCAGGC
* * * * **
31920418 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
* * *
31920458 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
31920498 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
31920537 TAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
31920577 TAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
31920617 TAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
31920657 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
31920697 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
31920737 TAAGTCCCGAAGGCATTTGTACGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
31920777 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
31920796 AACGAGTAGC
Statistics
Matches: 318, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
39 35 0.11
40 273 0.86
41 10 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Done.