Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 43
Found at i:4256177 original size:20 final size:20
Alignment explanation
Indices: 4256141--4256178 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4256131 CAATTTATTC
*
4256141 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATAGATGCATGG
*
4256161 ATTGGTGCATAGGTGCAT
1 ATTGGTGCATAGATGCAT
4256179 TCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATAGATGCATGG
Found at i:4257232 original size:16 final size:18
Alignment explanation
Indices: 4257201--4257234 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4257191 TCAGTGGAGG
4257201 AGGAGTACGAGAGGAGCT
1 AGGAGTACGAGAGGAGCT
4257219 AGGAGTA-G-GAGGAGCT
1 AGGAGTACGAGAGGAGCT
4257235 CGTGCGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.32, C:0.09, G:0.47, T:0.12
Consensus pattern (18 bp):
AGGAGTACGAGAGGAGCT
Found at i:4265144 original size:13 final size:13
Alignment explanation
Indices: 4265128--4265152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4265118 AGCAATGTGC
4265128 GTCATAAATGCGT
1 GTCATAAATGCGT
4265141 GTCATAAATGCG
1 GTCATAAATGCG
4265153 CATCATAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:4269102 original size:21 final size:21
Alignment explanation
Indices: 4269078--4269117 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4269068 TTATACAGAT
4269078 TTTATTGAAATTAA-TTATAAA
1 TTTATT-AAATTAACTTATAAA
*
4269099 TTTATTAAGTTAACTTATA
1 TTTATTAAATTAACTTATA
4269118 TTATTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTATTAAATTAACTTATAAA
Found at i:4273306 original size:11 final size:11
Alignment explanation
Indices: 4273290--4273315 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4273280 CCAAAATGAC
4273290 CAACAAAATCG
1 CAACAAAATCG
4273301 CAACAAAATCG
1 CAACAAAATCG
4273312 CAAC
1 CAAC
4273316 GCGATATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (11 bp):
CAACAAAATCG
Found at i:4273349 original size:20 final size:20
Alignment explanation
Indices: 4273305--4273626 Score: 222
Period size: 20 Copynumber: 15.8 Consensus size: 20
4273295 AAATCGCAAC
4273305 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
4273324 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
4273344 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
4273364 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
4273384 AAAATCGCAACGCGATCTTCA-
1 AAAATCGCAACGCGA--TTCAG
* *
4273405 AAGAATCGCAATGCGATCCA-
1 AA-AATCGCAACGCGATTCAG
*
4273425 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
4273446 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
4273467 AAGAATCGCAACGCGA-TCGAG
1 AA-AATCGCAACGCGATTC-AG
4273488 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
4273508 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
* *
4273528 AAAACCGCAATGCGATTCCAAG
1 AAAATCGCAACGCGATT-C-AG
4273550 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
4273570 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
4273590 AAAACCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
4273610 AGAATCGCAACGCGATT
1 AAAATCGCAACGCGATT
4273627 GAACGGCAAA
Statistics
Matches: 250, Mismatches: 27, Indels: 51
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.01
19 20 0.08
20 162 0.65
21 17 0.07
22 47 0.19
25 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:4273586 original size:62 final size:62
Alignment explanation
Indices: 4273305--4273626 Score: 296
Period size: 62 Copynumber: 5.3 Consensus size: 62
4273295 AAATCGCAAC
* **
4273305 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAAAATCGCAA--CG-TTGAAAAG
1 AAAATCGCAACGCGAT-TCCAATAATCGCAACGCGATTGAGAAAATCGCAACGCGATT-CCAAG
* * * *
4273364 AAAATCGCAACG-G--TCAAAAGAAAATCGCAACGCGATCTTCA-AAGAATCGCAATGCGA-TCC
1 AAAATCGCAACGCGATTC--CA-ATAATCGCAACGCGA--TTGAGAA-AATCGCAACGCGATTCC
4273424 AA-
60 AAG
* * * * ** *
4273426 AGAATCGCAATGCGATTCCAAGAATCGCAATGCGATCTTCGAAGAATCGCAACGCGA-T-CGAG
1 AAAATCGCAACGCGATTCCAATAATCGCAACGCGAT-TGAGAA-AATCGCAACGCGATTCCAAG
* *
4273488 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAACCGCAATGCGATTCCAAG
1 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAATCGCAACGCGATTCCAAG
*
4273550 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAACCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAATCGCAACGCGATTCCAAG
4273612 --AATCGCAACGCGATT
1 AAAATCGCAACGCGATT
4273627 GAACGGCAAA
Statistics
Matches: 221, Mismatches: 23, Indels: 37
0.79 0.08 0.13
Matches are distributed among these distances:
55 1 0.00
58 2 0.01
59 13 0.06
60 40 0.18
61 10 0.05
62 146 0.66
63 4 0.02
64 3 0.01
65 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (62 bp):
AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAGAAAATCGCAACGCGATTCCAAG
Found at i:4273813 original size:6 final size:6
Alignment explanation
Indices: 4273738--4273805 Score: 127
Period size: 6 Copynumber: 11.3 Consensus size: 6
4273728 GACACGTATT
4273738 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
4273786 ACCACG ACCACG ACGACG AC
1 ACCACG ACCACG ACCACG AC
4273806 GACCACGAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.34, C:0.49, G:0.18, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4274122 original size:6 final size:6
Alignment explanation
Indices: 4274111--4274155 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
4274101 TCTCGTCTCG
4274111 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
4274156 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4274291 original size:20 final size:20
Alignment explanation
Indices: 4274266--4274395 Score: 138
Period size: 20 Copynumber: 6.4 Consensus size: 20
4274256 TTTTGCCGTT
4274266 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
4274286 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
4274306 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
4274326 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
4274346 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
4274366 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
4274388 TTGCGATT
1 TTGCGATT
4274396 TTCTTTTGAC
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.03
20 70 0.78
21 4 0.04
22 13 0.14
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:4274313 original size:40 final size:40
Alignment explanation
Indices: 4274266--4274373 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
4274256 TTTTGCCGTT
4274266 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
4274306 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
4274346 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
4274374 CTTGGAAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:4274363 original size:60 final size:62
Alignment explanation
Indices: 4274279--4274399 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 62
4274269 CGATTCTTGG
4274279 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
* *
4274339 AATCGCGTTGCGATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATT-TTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCT
4274400 TTTGACCGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 35 0.62
61 3 0.05
62 18 0.32
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
Found at i:4274451 original size:20 final size:19
Alignment explanation
Indices: 4274279--4274457 Score: 121
Period size: 20 Copynumber: 8.9 Consensus size: 19
4274269 CGATTCTTGG
4274279 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
4274298 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
4274317 GGAATCGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
4274338 CAATCGCGTTGCGATTCTT-T
1 -AATCGCGTTGCGATT-TTCT
* **
4274358 GAATCGCATTGCGATTCTTGGA
1 -AATCGCGTTGCGATT-TT-CT
4274380 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
* *
4274400 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
4274420 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
4274440 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
4274458 TGTTTCGCAT
Statistics
Matches: 127, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 95 0.75
21 13 0.10
22 13 0.10
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:4276124 original size:20 final size:19
Alignment explanation
Indices: 4276099--4276142 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
4276089 AACGCTGCAA
* *
4276099 ATAAATTAACTAATCAAAAC
1 ATAAATGAACAAATC-AAAC
*
4276119 ATAAATGAACAAATCCAAC
1 ATAAATGAACAAATCAAAC
4276138 ATAAA
1 ATAAA
4276143 CTACACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (19 bp):
ATAAATGAACAAATCAAAC
Found at i:4276546 original size:2 final size:2
Alignment explanation
Indices: 4276539--4276594 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4276529 TACAAATCCA
4276539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4276581 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4276595 GGCAATATCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4279422 original size:30 final size:30
Alignment explanation
Indices: 4279359--4279424 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4279349 AAAACCGGTA
** *
4279359 GAACCGGCTAAAAACCGGTAAAACCGGGGT
1 GAACCGGCTAAAAACCGACAAAACAGGGGT
* **
4279389 GAACCGGCTGAAAACCGACAAAACAGGTTT
1 GAACCGGCTAAAAACCGACAAAACAGGGGT
4279419 GAACCG
1 GAACCG
4279425 CCAGTTTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.11
Consensus pattern (30 bp):
GAACCGGCTAAAAACCGACAAAACAGGGGT
Found at i:4280207 original size:10 final size:10
Alignment explanation
Indices: 4280187--4280221 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
4280177 AATCTGATTC
4280187 AACCACGGTTG
1 AACC-CGGTTG
4280198 AACCCGGTTG
1 AACCCGGTTG
4280208 AACCCGGTTG
1 AACCCGGTTG
4280218 AACC
1 AACC
4280222 TGTGAACCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (10 bp):
AACCCGGTTG
Found at i:4282167 original size:32 final size:32
Alignment explanation
Indices: 4282126--4282186 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
4282116 TCATGGTGCG
*
4282126 TTCAGATAATGCACAATACATTCAGGTTTCTA
1 TTCAGATAATGCACAATACAGTCAGGTTTCTA
* *
4282158 TTCAGATAATGCACATTACAGTCTGGTTT
1 TTCAGATAATGCACAATACAGTCAGGTTT
4282187 GAATGATTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (32 bp):
TTCAGATAATGCACAATACAGTCAGGTTTCTA
Found at i:4302900 original size:13 final size:13
Alignment explanation
Indices: 4302882--4302906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4302872 TTGTTATTGA
4302882 ATCGAACAATAAT
1 ATCGAACAATAAT
4302895 ATCGAACAATAA
1 ATCGAACAATAA
4302907 CATGAATCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (13 bp):
ATCGAACAATAAT
Found at i:4303425 original size:2 final size:2
Alignment explanation
Indices: 4303418--4303466 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4303408 TAAATTACGC
4303418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4303460 AT AT AT A
1 AT AT AT A
4303467 CACACACACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4307665 original size:62 final size:63
Alignment explanation
Indices: 4307507--4307635 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 63
4307497 TGATGAATGG
* * * *
4307507 TGAAGGCA-ATTGTAAA-CAACCATCTTCACTATAGATTTTTTTAAATAGTAAATATAAACAT
1 TGAAGGCAGATTATAAACCAGCCATCTACACTATAGATTTTTTTAAATAATAAATATAAACAT
* * *
4307568 TGAAGGCAGATTATAAACCCGCCATCTACATTATAG-TTTTTTTAAGTAATAAATATACAA-AT
1 TGAAGGCAGATTATAAACCAGCCATCTACACTATAGATTTTTTTAAATAATAAATATA-AACAT
4307630 TGAAGG
1 TGAAGG
4307636 TAGCTTGTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 8 0.14
62 34 0.59
63 16 0.28
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (63 bp):
TGAAGGCAGATTATAAACCAGCCATCTACACTATAGATTTTTTTAAATAATAAATATAAACAT
Found at i:4308389 original size:10 final size:10
Alignment explanation
Indices: 4308376--4308400 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4308366 CAGCTTAGGC
4308376 TAGCTTACTT
1 TAGCTTACTT
4308386 TAGCTTACTT
1 TAGCTTACTT
4308396 TAGCT
1 TAGCT
4308401 CAAGGACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (10 bp):
TAGCTTACTT
Found at i:4314482 original size:18 final size:17
Alignment explanation
Indices: 4314428--4314476 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4314418 TTGGACCCTT
* *
4314428 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
4314446 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
4314464 AGTGCATTCGATG
1 AGTGCA-TCGATG
4314477 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:4314581 original size:65 final size:65
Alignment explanation
Indices: 4314448--4314607 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
4314438 TGCACTAAGA
* * *
4314448 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCTAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCTG
*
4314512 GTGCATCGATGCATCAAATTCATTCGATGTTTTCATAAA-ATCCT-CAGTGCATCGATGCATGG-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATA-CCTACAGTGCATCGATGCATGGC
*
4314574 TAT
64 T-G
* *
4314577 GTGCATCGATGCATGAAATGCATTTGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
4314608 CAATTTATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 28 0.33
65 51 0.61
66 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCTG
Found at i:4315016 original size:16 final size:16
Alignment explanation
Indices: 4314995--4315050 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
4314985 CTCCCCCTTA
4314995 CTTTAACACTTCTCCC
1 CTTTAACACTTCTCCC
* * * *
4315011 CTTTAAAACATTTTAACA
1 CTTTAACAC-TTCT-CCC
4315029 CTTTAACACTTCTCCC
1 CTTTAACACTTCTCCC
4315045 CTTTAA
1 CTTTAA
4315051 AACATTTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 15 0.50
17 6 0.20
18 9 0.30
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
CTTTAACACTTCTCCC
Found at i:4315082 original size:34 final size:34
Alignment explanation
Indices: 4314994--4315078 Score: 163
Period size: 34 Copynumber: 2.5 Consensus size: 34
4314984 ACTCCCCCTT
4314994 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
4315028 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
4315062 AC-TTAACACTTCTCCCC
1 ACTTTAACACTTCTCCCC
4315079 CTTTTTGTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 15 0.29
34 36 0.71
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (34 bp):
ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
Found at i:4315784 original size:21 final size:21
Alignment explanation
Indices: 4315760--4315803 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4315750 GTGCCAGAGG
* *
4315760 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAACT
*
4315781 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
4315802 AG
1 AG
4315804 CTCCCGGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.39, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:4317391 original size:44 final size:44
Alignment explanation
Indices: 4317342--4317438 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
4317332 GGCCTTGTGC
* * *
4317342 ATCGATGCACATTC-AAGGCCTGCATCGGTGCACT-TTCATGGTGT
1 ATCGATGCACATTCAAAGGCATGCATCGATGCACTGTT-A-AGTGT
*
4317386 ATCGATGCACATTCAAAGGGATGCATCGATGCACTGTTAAGTGT
1 ATCGATGCACATTCAAAGGCATGCATCGATGCACTGTTAAGTGT
4317430 ATCGATGCA
1 ATCGATGCA
4317439 TGAAGCACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 27 0.57
45 18 0.38
46 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGCATGCATCGATGCACTGTTAAGTGT
Found at i:4317394 original size:21 final size:22
Alignment explanation
Indices: 4317339--4317419 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
4317329 CATGGCCTTG
4317339 TGCATCGATGCACATTCAAGGCC
1 TGCATCGATGCACATTCAAGG-C
* * *
4317362 TGCATCGGTGCACTTTCATGG-
1 TGCATCGATGCACATTCAAGGC
* *
4317383 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGC
4317407 TGCATCGATGCAC
1 TGCATCGATGCAC
4317420 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
21 14 0.30
22 1 0.02
23 20 0.43
24 12 0.26
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGC
Found at i:4322865 original size:18 final size:17
Alignment explanation
Indices: 4322815--4322859 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
4322805 ACCCTTAGTA
*
4322815 CATCGATGCACTAAGAGTG
1 CATCGATGCA-TCA-AGTG
4322834 CATCGATGCATCAAGTG
1 CATCGATGCATCAAGTG
4322851 CATTCGATG
1 CA-TCGATG
4322860 TTTCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGATGCATCAAGTG
Found at i:4322957 original size:57 final size:55
Alignment explanation
Indices: 4322840--4322948 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 55
4322830 AGTGCATCGA
* *
4322840 TGCATCAAGTGCATTCGATGTTTCAAAATAGTCAGACTACATCGATGCATGGCTGG
1 TGCATCAAATGCATTCGATGTTTCAAAATACTCAGA-TACATCGATGCATGGCTGG
* *
4322896 TGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAG-TGCATCGATGCATGG
1 TGCATCAAATGCATTCGATG-TTTC--AAAATACTCAGATACATCGATGCATGG
4322949 TATGTGCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 19 0.41
57 18 0.39
59 9 0.20
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (55 bp):
TGCATCAAATGCATTCGATGTTTCAAAATACTCAGATACATCGATGCATGGCTGG
Found at i:4326094 original size:14 final size:15
Alignment explanation
Indices: 4326075--4326108 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4326065 GTCTGTAATT
4326075 ATTTATTT-ATATAG
1 ATTTATTTAATATAG
*
4326089 ATTTATTTAATATAT
1 ATTTATTTAATATAG
4326104 ATTTA
1 ATTTA
4326109 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAG
Found at i:4326115 original size:3 final size:3
Alignment explanation
Indices: 4326107--4326162 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
4326097 AATATATATT
*
4326107 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4326155 TAA TAA TA
1 TAA TAA TA
4326163 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4327021 original size:113 final size:113
Alignment explanation
Indices: 4326298--4327282 Score: 1483
Period size: 113 Copynumber: 8.7 Consensus size: 113
4326288 ATTGAATAAA
* ** *
4326298 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* * * *
4326362 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AAATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* * * *
4326411 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
* * * * *
4326475 ATCCAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* *
4326527 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* * ** *
4326592 ATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* * *
4326641 TTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* ** *
4326706 ATTTGAT-GACTTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGGA-TTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4326755 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* * *
4326820 ATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-ATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4326869 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
4326934 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4326982 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
4327047 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4327095 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
4327160 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* **
4327208 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTGATCTTTCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
*
4327272 AATGATAGATT
66 AATGATGGATT
4327283 TGAATCTTTG
Statistics
Matches: 829, Mismatches: 34, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
112 34 0.04
113 353 0.43
114 334 0.40
115 1 0.00
116 84 0.10
117 21 0.03
118 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
Found at i:4327149 original size:226 final size:226
Alignment explanation
Indices: 4326298--4327277 Score: 1509
Period size: 228 Copynumber: 4.3 Consensus size: 226
4326288 ATTGAATAAA
* ** *
4326298 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* * * *
4326362 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * * *
4326427 AGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCCAATGATGAATTC
130 AGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTC
* * *
4326491 AAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
191 AGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* *
4326527 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* **
4326592 ATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
66 A-ATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * *
4326657 AGATGGGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGAT-GACTTCAG
130 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGA-TTCAG
** *
4326721 AAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
193 GTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4326755 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
*
4326820 ATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
66 A-ATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
4326885 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
130 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
4326950 AAAAGGTTGAACAAGTTCTTCTCATTATGAAC
195 AAAAGGTTGAACAAGTTCTTCTCATTATGAAC
*
4326982 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* *
4327047 AATGATGGATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
4327112 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
131 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
4327177 AAAGGTTGAACAAGTTCTTCTCATTATGAAC
196 AAAGGTTGAACAAGTTCTTCTCATTATGAAC
* **
4327208 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTGATCTTTCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
4327272 AATGAT
66 AATGAT
4327278 AGATTTGAAT
Statistics
Matches: 700, Mismatches: 45, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
225 28 0.04
226 199 0.28
227 140 0.20
228 213 0.30
229 23 0.03
230 97 0.14
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (226 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
AATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
AAAGGTTGAACAAGTTCTTCTCATTATGAAC
Found at i:4328063 original size:83 final size:83
Alignment explanation
Indices: 4327911--4328380 Score: 750
Period size: 83 Copynumber: 5.7 Consensus size: 83
4327901 CCTACTGAAT
* * **
4327911 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATTCAA
4327976 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
* *
4327994 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCTAAATTCA
*
4328058 CTGATTGGTTCTGCCAAAC
65 ATGATTGGTTCTGCCAAAC
* *
4328077 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATTCAA
4328142 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
* *
4328160 CAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATGAACACATTCATCTT-TCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCT-AAATTCA
4328224 ATGATTGGTTCTGCCAAAC
65 ATGATTGGTTCTGCCAAAC
* *
4328243 CAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATTG-GCAAATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCTAAATTCA
*
4328307 CTGATTGGTTCTGCCAAAC
65 ATGATTGGTTCTGCCAAAC
4328326 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTT
4328381 TCATTTAATT
Statistics
Matches: 363, Mismatches: 19, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
82 2 0.01
83 356 0.98
84 5 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCTAAATTCAA
TGATTGGTTCTGCCAAAC
Found at i:4328349 original size:249 final size:249
Alignment explanation
Indices: 4327911--4328380 Score: 861
Period size: 249 Copynumber: 1.9 Consensus size: 249
4327901 CCTACTGAAT
* *
4327911 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
4327976 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
66 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
4328041 TTCATCTTCTAAACTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
131 TTCATCTTCTAAACTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
*
4328106 GAAGATGCTA-TGAACACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
196 GAAGATGCTATTG-ACAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
* *
4328160 CAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATGAACACATTCATCTTTCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
*
4328225 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATTGGCAAA
66 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
*
4328290 TTCATCTTCTAAATTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
131 TTCATCTTCTAAACTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
4328355 GAAGATGCTATTGACAAATTCATCTT
196 GAAGATGCTATTGACAAATTCATCTT
4328381 TCATTTAATT
Statistics
Matches: 213, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
249 211 0.99
250 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (249 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
TTCATCTTCTAAACTCACTGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATTGACAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
Found at i:4329181 original size:16 final size:16
Alignment explanation
Indices: 4329160--4329199 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4329150 GAATTTCCAA
4329160 AAATAAATTG-ACTCTC
1 AAATAAATTGAACT-TC
*
4329176 AAATAAATTGAACTTG
1 AAATAAATTGAACTTC
4329192 AAATAAAT
1 AAATAAAT
4329200 AAAATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAACTTC
Found at i:4342372 original size:14 final size:15
Alignment explanation
Indices: 4342353--4342386 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4342343 GTCTGTAATT
4342353 ATTTATTT-ATATAG
1 ATTTATTTAATATAG
*
4342367 ATTTATTTAATATAT
1 ATTTATTTAATATAG
4342382 ATTTA
1 ATTTA
4342387 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAG
Found at i:4342393 original size:3 final size:3
Alignment explanation
Indices: 4342385--4342440 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
4342375 AATATATATT
*
4342385 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4342433 TAA TAA TA
1 TAA TAA TA
4342441 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4344471 original size:12 final size:15
Alignment explanation
Indices: 4344440--4344476 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
4344430 AATTTGAGTT
4344440 TATAATTTATTCATA
1 TATAATTTATTCATA
4344455 TATAATTT-TT-A-A
1 TATAATTTATTCATA
4344467 TATAATTTAT
1 TATAATTTAT
4344477 ATTAGTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
13 2 0.10
14 2 0.10
15 8 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAATTTATTCATA
Found at i:4345436 original size:2 final size:2
Alignment explanation
Indices: 4345429--4345478 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4345419 AAGTAACTTG
*
4345429 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4345471 AT AT AT AT
1 AT AT AT AT
4345479 TTTTTAACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4347856 original size:25 final size:25
Alignment explanation
Indices: 4347828--4347877 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4347818 ATAGCTTATC
*
4347828 ATTTATTTTAAATAATCTATCTTTA
1 ATTTATTTTAAATAATCTATATTTA
* * *
4347853 ATTTTTTTTAATTAATTTATATTTA
1 ATTTATTTTAAATAATCTATATTTA
4347878 TACGTTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTATTTTAAATAATCTATATTTA
Found at i:4357241 original size:14 final size:14
Alignment explanation
Indices: 4357222--4357249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4357212 TCGATTATAT
4357222 GTTCATTTATGTTC
1 GTTCATTTATGTTC
4357236 GTTCATTTATGTTC
1 GTTCATTTATGTTC
4357250 AAATAGAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:4359499 original size:31 final size:30
Alignment explanation
Indices: 4359464--4359562 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 30
4359454 TCGTTAAAAA
*
4359464 TAGGTGTTTAATGTTTTCTCCATTATACTTT
1 TAGGTGTATAA-GTTTTCTCCATTATACTTT
*
4359495 TAGGTGTATAGAGTTTTTTCC-TCTATACTTT
1 TAGGTGTATA-AGTTTTCTCCAT-TATACTTT
* * *
4359526 TAGGTGCATAGCGTTTTCTCTATTATA-TTT
1 TAGGTGTATA-AGTTTTCTCCATTATACTTT
4359556 TGAGGTG
1 T-AGGTG
4359563 CCTACGCATG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
30 5 0.09
31 51 0.88
32 2 0.03
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (30 bp):
TAGGTGTATAAGTTTTCTCCATTATACTTT
Found at i:4359563 original size:31 final size:31
Alignment explanation
Indices: 4359476--4359563 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
4359466 GGTGTTTAAT
* *
4359476 GTTTTCTCCATTATACTTTTAGGTGTATAGA
1 GTTTTCTCTATTATACTTTTAGGTGCATAGA
* * *
4359507 GTTTTTTCCT-CTATACTTTTAGGTGCATAGC
1 GTTTTCT-CTATTATACTTTTAGGTGCATAGA
4359538 GTTTTCTCTATTATA-TTTTGAGGTGC
1 GTTTTCTCTATTATACTTTT-AGGTGC
4359564 CTACGCATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 6 0.13
31 40 0.85
32 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (31 bp):
GTTTTCTCTATTATACTTTTAGGTGCATAGA
Found at i:4359783 original size:18 final size:19
Alignment explanation
Indices: 4359748--4359784 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4359738 CATCGAAATT
4359748 AAATTTTATATATTTTAAA
1 AAATTTTATATATTTTAAA
*
4359767 AAATTTTAT-TTTTTTAAA
1 AAATTTTATATATTTTAAA
4359785 TATTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATTTTATATATTTTAAA
Found at i:4361414 original size:105 final size:106
Alignment explanation
Indices: 4361232--4361443 Score: 408
Period size: 105 Copynumber: 2.0 Consensus size: 106
4361222 GTTCTCTGAC
4361232 TATAGGACGTTACTTTCTTAAGTCCTCGAATATTAAAAATTACAAAATGGTCAACCGACTATTCA
1 TATAGGACGTTACTTTCTTAAGTCCTCGAATATTAAAAATTACAAAATGGTCAACCGACTATTCA
4361297 TTGTGTTTCAAATTTATCCTTTTTCGTT-AAAATTATGGTA
66 TTGTGTTTCAAATTTATCCTTTTTCGTTAAAAATTATGGTA
4361337 TATAGGACGTTACTTTCTTAAGTCCTCGAATATTAAAAATTACAAAATGGTCAACCGACTATTCA
1 TATAGGACGTTACTTTCTTAAGTCCTCGAATATTAAAAATTACAAAATGGTCAACCGACTATTCA
4361402 TTGTGTTTCAAATTTATCCTTTTTCGTTAAAAAATTATGGTA
66 TTGTGTTTCAAATTTATCCTTTTTCGTT-AAAAATTATGGTA
4361444 GTTTGAGCTG
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
105 93 0.89
107 12 0.11
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (106 bp):
TATAGGACGTTACTTTCTTAAGTCCTCGAATATTAAAAATTACAAAATGGTCAACCGACTATTCA
TTGTGTTTCAAATTTATCCTTTTTCGTTAAAAATTATGGTA
Found at i:4365097 original size:22 final size:22
Alignment explanation
Indices: 4365072--4365116 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
4365062 AAAATGCTTG
*
4365072 AGGGGTACCGATACCCTGCTAC
1 AGGGGAACCGATACCCTGCTAC
4365094 A-GGGAACCGATACCCTGCTAC
1 AGGGGAACCGATACCCTGCTAC
4365115 AG
1 AG
4365117 TACTGCCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.16
Consensus pattern (22 bp):
AGGGGAACCGATACCCTGCTAC
Found at i:4365947 original size:31 final size:31
Alignment explanation
Indices: 4365919--4366020 Score: 186
Period size: 31 Copynumber: 3.3 Consensus size: 31
4365909 ACAAAGAATC
* *
4365919 TAGGTAATCAGTCCATATGTTCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
4365950 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
4365981 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
4366012 TAGGTAAAC
1 TAGGTAAAC
4366021 CCTCGACTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAGAACA
Found at i:4374190 original size:17 final size:18
Alignment explanation
Indices: 4374168--4374208 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4374158 TTCAGTGAAA
*
4374168 ATAATT-TAAAAGAAATT
1 ATAATTATAAAAAAAATT
4374185 ATAATTAATAAAAAAAATT
1 ATAATT-ATAAAAAAAATT
4374204 ATAAT
1 ATAAT
4374209 ATGAAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
19 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAATTATAAAAAAAATT
Found at i:4375813 original size:2 final size:2
Alignment explanation
Indices: 4375806--4375833 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4375796 AAGACCAAAT
4375806 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4375834 ACACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4376342 original size:2 final size:2
Alignment explanation
Indices: 4376335--4376363 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4376325 GAAAAAGCTA
4376335 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4376364 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4376368 original size:2 final size:2
Alignment explanation
Indices: 4376363--4376391 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4376353 TCTCTCTCTC
4376363 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4376392 GAATAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4386542 original size:7 final size:7
Alignment explanation
Indices: 4386530--4386554 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4386520 ATTAGAGAAA
4386530 AAAATCC
1 AAAATCC
4386537 AAAATCC
1 AAAATCC
4386544 AAAATCC
1 AAAATCC
4386551 AAAA
1 AAAA
4386555 ACAAAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATCC
Found at i:4386561 original size:14 final size:14
Alignment explanation
Indices: 4386529--4386562 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4386519 AATTAGAGAA
*
4386529 AAAAATCCAAAATC
1 AAAAATCCAAAAAC
*
4386543 CAAAATCCAAAAAC
1 AAAAATCCAAAAAC
4386557 AAAAAT
1 AAAAAT
4386563 AGAGAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATCCAAAAAC
Found at i:4387583 original size:29 final size:30
Alignment explanation
Indices: 4387537--4387594 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
4387527 ATGACTTTGG
4387537 TTCCAATTTAATGACTAACGTTT-ATTTTA
1 TTCCAATTTAATGACTAACGTTTCATTTTA
* * * *
4387566 TTCCAGTTTGATGCCTAAGGTTTCATTTT
1 TTCCAATTTAATGACTAACGTTTCATTTT
4387595 GTAACTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (30 bp):
TTCCAATTTAATGACTAACGTTTCATTTTA
Found at i:4388353 original size:41 final size:41
Alignment explanation
Indices: 4388296--4388377 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4388286 CCTATAAATT
4388296 TTCTTTCCTTCACTACACGGCTTATTAGAAATGCAAATGAG
1 TTCTTTCCTTCACTACACGGCTTATTAGAAATGCAAATGAG
4388337 TTCTTTCCTTCACTACACGGCTTATTAGAAATGCAAATGAG
1 TTCTTTCCTTCACTACACGGCTTATTAGAAATGCAAATGAG
4388378 AGCTTTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (41 bp):
TTCTTTCCTTCACTACACGGCTTATTAGAAATGCAAATGAG
Found at i:4388860 original size:19 final size:21
Alignment explanation
Indices: 4388838--4388876 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4388828 TTTTTCTTAA
4388838 AATTT-TATATTTTT-TATTT
1 AATTTATATATTTTTATATTT
4388857 AATTTATATATTTTTATATT
1 AATTTATATATTTTTATATT
4388877 GTTTATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
AATTTATATATTTTTATATTT
Found at i:4388945 original size:23 final size:23
Alignment explanation
Indices: 4388901--4388945 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4388891 TTTCGTCCCA
* *
4388901 AAATTTTTTAAGTTAATTTCTTT
1 AAATTTTATAAGTTAATCTCTTT
*
4388924 AAATTTTATAAGTTTATCTCTT
1 AAATTTTATAAGTTAATCTCTT
4388946 AATATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
AAATTTTATAAGTTAATCTCTTT
Found at i:4391436 original size:12 final size:12
Alignment explanation
Indices: 4391421--4391465 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
4391411 AAGTATTTAA
4391421 AATAATAATAAC
1 AATAATAATAAC
*
4391433 AATAACAATAAC
1 AATAATAATAAC
*
4391445 AATAATACTAA-
1 AATAATAATAAC
4391456 AATAAATAAT
1 AAT-AATAAT
4391466 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 3 0.11
12 25 0.89
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:4392746 original size:18 final size:17
Alignment explanation
Indices: 4392719--4392753 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4392709 AAAGAAAAAT
*
4392719 AATAATAATAAAATAATA
1 AATAAAAAT-AAATAATA
4392737 AATAAAAATAAATAATA
1 AATAAAAATAAATAATA
4392754 TTAATACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAAATAAATAATA
Found at i:4392752 original size:28 final size:28
Alignment explanation
Indices: 4392713--4392784 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
4392703 GAGAGAAAAG
*
4392713 AAAAAT-AATAATAATAAAATAATAAAT
1 AAAAATAAATAATAATAAAACAATAAAT
* * *
4392740 AAAAATAAATAATATTAATACAATATAT
1 AAAAATAAATAATAATAAAACAATAAAT
4392768 AAAAACTAAA-AATAATA
1 AAAAA-TAAATAATAATA
4392785 TGTTTTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 6 0.16
28 28 0.74
29 4 0.11
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATAAATAATAATAAAACAATAAAT
Found at i:4392785 original size:31 final size:30
Alignment explanation
Indices: 4392713--4392785 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
4392703 GAGAGAAAAG
*
4392713 AAAAATAATAATAATAAAATAATAAATAAA
1 AAAAATAATATTAATAAAATAATAAATAAA
* *
4392743 AATAAATAATATTAATACAATATATAAA-AACT
1 AA-AAATAATATTAATAAAATA-ATAAATAA-A
4392775 AAAAATAATAT
1 AAAAATAATAT
4392786 GTTTTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.05
31 28 0.76
32 7 0.19
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (30 bp):
AAAAATAATATTAATAAAATAATAAATAAA
Found at i:4392835 original size:38 final size:37
Alignment explanation
Indices: 4392782--4393117 Score: 262
Period size: 38 Copynumber: 8.9 Consensus size: 37
4392772 ACTAAAAATA
* * ** *
4392782 ATATGTTTTTGAAAAATCATTTTTAAAACTATATATT
1 ATATATTTTTCAAAAATTGTTTTCAAAACTATATATT
* * *
4392819 ATATATGCTTTCAAAAATTATTTTCAAAACTATATAAT
1 ATATAT-TTTTCAAAAATTGTTTTCAAAACTATATATT
*
4392857 ATATATGTTTTCAAAATTTGTTTTTCAAAACTATATAATAT
1 ATATAT-TTTTCAAAAATTG-TTTTCAAAACTATAT-AT-T
* *
4392898 ATATATTTTTCAAAAATTGTTTTCAAAAGTATATAAT
1 ATATATTTTTCAAAAATTGTTTTCAAAACTATATATT
*
4392935 ATATA-TTTTCAAAAATTGTTTTCGAAACTATATA--
1 ATATATTTTTCAAAAATTGTTTTCAAAACTATATATT
*
4392969 ATATATGTTTTCAAAAATTGGTTTTCAAAAC--CATATT
1 ATATAT-TTTTCAAAAATT-GTTTTCAAAACTATATATT
* *
4393006 ATATATATTTTCAAAAACCAATT-TTTTAAAAAAGTATATA-T
1 ATATAT-TTTTC--AAA--AATTGTTTT-CAAAACTATATATT
** *
4393047 A-ATATGTTTTCAAAAACCGTTTTCTAAAAATTATATATT
1 ATATAT-TTTTCAAAAATTGTTTTC--AAAACTATATATT
* *
4393086 GTAT-TTTTT-AAAAA-TATTTTCAAAAACTATAT
1 ATATATTTTTCAAAAATTGTTTTC-AAAACTATAT
4393118 TATATTATCA
Statistics
Matches: 248, Mismatches: 30, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
34 5 0.02
35 13 0.05
36 46 0.19
37 41 0.17
38 61 0.25
39 38 0.15
40 28 0.11
41 13 0.05
42 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (37 bp):
ATATATTTTTCAAAAATTGTTTTCAAAACTATATATT
Found at i:4392893 original size:39 final size:38
Alignment explanation
Indices: 4392769--4393022 Score: 290
Period size: 39 Copynumber: 6.8 Consensus size: 38
4392759 ACAATATATA
* * ** *
4392769 AAAACTA-AAAATA-ATATGTTTTTGAAAAATCATTTTT
1 AAAACTATATAATATATATG-TTTTCAAAAATTGTTTTC
* * *
4392806 AAAACTATATATTATATATGCTTTCAAAAATTATTTTC
1 AAAACTATATAATATATATGTTTTCAAAAATTGTTTTC
*
4392844 AAAACTATATAATATATATGTTTTCAAAATTTGTTTTTC
1 AAAACTATATAATATATATGTTTTCAAAAATTG-TTTTC
*
4392883 AAAACTATATAATATATATATTTTTCAAAAATTGTTTTC
1 AAAACTATATAATATATAT-GTTTTCAAAAATTGTTTTC
*
4392922 AAAAGTATATAATATATA--TTTTCAAAAATTGTTTTC
1 AAAACTATATAATATATATGTTTTCAAAAATTGTTTTC
*
4392958 GAAACTATAT-A-ATATATGTTTTCAAAAATTGGTTTTC
1 AAAACTATATAATATATATGTTTTCAAAAATT-GTTTTC
* *
4392995 AAAACCATAT--TATATATATTTTCAAAAA
1 AAAACTATATAATATATATGTTTTCAAAAA
4393023 CCAATTTTTT
Statistics
Matches: 191, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
34 5 0.03
35 1 0.01
36 38 0.20
37 37 0.19
38 47 0.25
39 51 0.27
40 12 0.06
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (38 bp):
AAAACTATATAATATATATGTTTTCAAAAATTGTTTTC
Found at i:4392898 original size:37 final size:37
Alignment explanation
Indices: 4392769--4393122 Score: 296
Period size: 36 Copynumber: 9.4 Consensus size: 37
4392759 ACAATATATA
* * * ** *
4392769 AAAACTAAAAATA-ATATGTTTTTGAAAAATCATTTTT
1 AAAACTATATATATATATG-TTTTCAAAAATTGTTTTC
* *
4392806 AAAACTATATATTATATATGCTTTCAAAAATTATTTTC
1 AAAACTATATA-TATATATGTTTTCAAAAATTGTTTTC
*
4392844 AAAACTATATAATATATATGTTTTCAAAATTTGTTTTTC
1 AAAACTATAT-ATATATATGTTTTCAAAAATTG-TTTTC
*
4392883 AAAACTATATAATATATATATTTTTCAAAAATTGTTTTC
1 AAAACTATAT-ATATATAT-GTTTTCAAAAATTGTTTTC
* *
4392922 AAAAGTATATA-ATATATATTTTCAAAAATTGTTTTC
1 AAAACTATATATATATATGTTTTCAAAAATTGTTTTC
*
4392958 GAAACTATATA-ATATATGTTTTCAAAAATTGGTTTTC
1 AAAACTATATATATATATGTTTTCAAAAATT-GTTTTC
* * *
4392995 AAAACCATAT-TATATATATTTTCAAAAACCAATT-TTTTAA
1 AAAACTATATATATATATGTTTTC--AAA--AATTGTTTT-C
* **
4393035 AAAAGTATATATA-ATATGTTTTCAAAAACCGTTTTC
1 AAAACTATATATATATATGTTTTCAAAAATTGTTTTC
* * * *
4393071 TAAAAAT-TATATATTGTAT-TTTTTAAAAA-TATTTTC
1 -AAAACTATATATA-TATATGTTTTCAAAAATTGTTTTC
4393107 AAAAACTATAT-TATAT
1 -AAAACTATATATATAT
4393123 TATCATATAT
Statistics
Matches: 265, Mismatches: 34, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
35 2 0.01
36 65 0.25
37 61 0.23
38 51 0.19
39 51 0.19
40 29 0.11
41 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (37 bp):
AAAACTATATATATATATGTTTTCAAAAATTGTTTTC
Found at i:4401038 original size:3 final size:3
Alignment explanation
Indices: 4401030--4401073 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
4401020 AAATATTTAA
*
4401030 AAT AAT AAT AAT AAT AAC AAT AAT AAT AA- AAT AA- AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
4401074 TTAAATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:4402347 original size:18 final size:18
Alignment explanation
Indices: 4402326--4402364 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4402316 ATCGGGAGAG
*
4402326 AAAAGAAAAAATAATAAT
1 AAAAGAAAAAATAAAAAT
* *
4402344 AAAATAACAAATAAAAAT
1 AAAAGAAAAAATAAAAAT
4402362 AAA
1 AAA
4402365 TAATATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAGAAAAAATAAAAAT
Found at i:4402375 original size:31 final size:35
Alignment explanation
Indices: 4402326--4402398 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 35
4402316 ATCGGGAGAG
* *
4402326 AAAAGAAAAAATAATAATA-AA-ATA-ACAAA-TA
1 AAAATAAAAAATAATAATATAATATATAAAAACTA
* *
4402357 AAAATAAATAATATTAATATAATATATAAAAACTA
1 AAAATAAAAAATAATAATATAATATATAAAAACTA
4402392 AAAATAA
1 AAAATAA
4402399 TTTGTTTTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 16 0.47
32 2 0.06
33 3 0.09
34 4 0.12
35 9 0.26
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (35 bp):
AAAATAAAAAATAATAATATAATATATAAAAACTA
Found at i:4402378 original size:28 final size:29
Alignment explanation
Indices: 4402334--4402399 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
4402324 AGAAAAGAAA
4402334 AAATAATAATAAAATAACAAATAAAAA-T
1 AAATAATAATAAAATAACAAATAAAAACT
* * * *
4402362 AAATAATATTAATATAATATATAAAAACT
1 AAATAATAATAAAATAACAAATAAAAACT
4402391 AAA-AATAAT
1 AAATAATAAT
4402400 TTGTTTTCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (29 bp):
AAATAATAATAAAATAACAAATAAAAACT
Found at i:4402459 original size:38 final size:36
Alignment explanation
Indices: 4402409--4402770 Score: 271
Period size: 36 Copynumber: 9.6 Consensus size: 36
4402399 TTTGTTTTCG
* * *
4402409 AAAAATTCATTTTTAAAACTATATATTATTTATGCTTTT
1 AAAAATT-GTTTTCAAAACTATATATTATATAT--TTTT
* *
4402448 AAAAATTATTTTCAAAACTATATAATATATATGTTTT
1 AAAAATTGTTTTCAAAACTATATATTATATAT-TTTT
4402485 CAAAAATTGTTTTTCAAAACTATATAATGTATATATTTTT
1 -AAAAATTG-TTTTCAAAACTATAT-AT-TATATATTTTT
* * *
4402525 AGAAATTGTTTTCAAAACTATA-ATATATATATATTC
1 AAAAATTGTTTTCAAAACTATATAT-TATATATTTTT
* * *
4402561 AAAAATTATTTTAAAAACTATATAATATATATTTTT
1 AAAAATTGTTTTCAAAACTATATATTATATATTTTT
* * * * *
4402597 TAAAATTGTTTTCGAAACTATATAATATATGTTTTC
1 AAAAATTGTTTTCAAAACTATATATTATATATTTTT
* *
4402633 AAAAATTGTTTTTCAAAACCATAT-TATATATATTTTCA
1 AAAAATTG-TTTTCAAAACTATATAT-TATATATTTT-T
* * * *
4402671 AAAACCGATT-TTTTAAAAAAGTATATATTATATGTTTTC
1 AAAA---ATTGTTTT-CAAAACTATATATTATATATTTTT
** * *
4402710 AAAAACCGTTTTCTAAAAACTATATATTGTATGTTTTT
1 AAAAATTGTTTTC--AAAACTATATATTATATATTTTT
* * *
4402748 CAAAAGTATTTTCAAAAACTATA
1 AAAAATTGTTTTC-AAAACTATA
4402771 CTATATTATC
Statistics
Matches: 264, Mismatches: 43, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
36 77 0.29
37 41 0.16
38 76 0.29
39 37 0.14
40 22 0.08
41 11 0.04
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (36 bp):
AAAAATTGTTTTCAAAACTATATATTATATATTTTT
Found at i:4402554 original size:36 final size:35
Alignment explanation
Indices: 4402409--4402776 Score: 256
Period size: 38 Copynumber: 9.8 Consensus size: 35
4402399 TTTGTTTTCG
* * *
4402409 AAAAATTCATTTTTAAAACTATATATTATTTATGCTTTT
1 AAAAATT-GTTTTCAAAACTATATA-TATATAT--TTTT
*
4402448 AAAAATTATTTTCAAAACTATATAATATATATGTTTT
1 AAAAATTGTTTTCAAAACTATAT-ATATATAT-TTTT
4402485 CAAAAATTGTTTTTCAAAACTATATAATGTATATATTTTT
1 -AAAAATTG-TTTTCAAAACTATAT-A--TATATATTTTT
* * *
4402525 AGAAATTGTTTTCAAAACTATAATATATATATATTC
1 AAAAATTGTTTTCAAAACTAT-ATATATATATTTTT
* *
4402561 AAAAATTATTTTAAAAACTATATAATATATATTTTT
1 AAAAATTGTTTTCAAAACTATAT-ATATATATTTTT
* *
4402597 TAAAATTGTTTTCGAAACTATATA-ATATATGTTTT
1 AAAAATTGTTTTCAAAACTATATATATATAT-TTTT
* *
4402632 CAAAAATTGTTTTTCAAAACCATATTATATATATTTTCA
1 -AAAAATTG-TTTTCAAAACTATA-TATATATATTTT-T
* *
4402671 AAAACCGATT-TTTTAAAAAAGTATATAT-TATATGTTTT
1 AAAA---ATTGTTTT-CAAAACTATATATATATAT-TTTT
** * *
4402709 CAAAAACCGTTTTCTAAAAACTATATATTGTATGTTTTT
1 -AAAAATTGTTTTC--AAAACTATATA-TATATATTTTT
* * *
4402748 CAAAAGTATTTTCAAAAACTATACTATAT
1 AAAAATTGTTTTC-AAAACTATA-TATAT
4402777 TATCATATAT
Statistics
Matches: 270, Mismatches: 34, Indels: 52
0.76 0.10 0.15
Matches are distributed among these distances:
34 6 0.02
35 7 0.03
36 64 0.24
37 32 0.12
38 77 0.29
39 59 0.22
40 15 0.06
41 10 0.04
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (35 bp):
AAAAATTGTTTTCAAAACTATATATATATATTTTT
Found at i:4403770 original size:5 final size:5
Alignment explanation
Indices: 4403760--4403785 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4403750 TATTATTATT
4403760 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
4403786 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:4404584 original size:31 final size:31
Alignment explanation
Indices: 4404533--4404599 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
4404523 TTAATGTATA
* *
4404533 TATTTTATTATGTTATAAATATTTTTA-TTT
1 TATTTTATTATGATATAAATATCTTTAGTTT
4404563 TATTTTATTAATGATATAAATATCTTTAGTTT
1 TATTTTATT-ATGATATAAATATCTTTAGTTT
4404595 TATTT
1 TATTT
4404600 CATCTCGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 9 0.27
31 16 0.48
32 8 0.24
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (31 bp):
TATTTTATTATGATATAAATATCTTTAGTTT
Found at i:4404674 original size:16 final size:16
Alignment explanation
Indices: 4404653--4404683 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4404643 TCAAATTCTG
*
4404653 TTAAACTCGATTTTTC
1 TTAAACTCAATTTTTC
4404669 TTAAACTCAATTTTT
1 TTAAACTCAATTTTT
4404684 TTCAAATTTA
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:0.16, G:0.03, T:0.52
Consensus pattern (16 bp):
TTAAACTCAATTTTTC
Found at i:4406021 original size:51 final size:50
Alignment explanation
Indices: 4405960--4406101 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 50
4405950 TTGTGTTGTA
* * *
4405960 TTTTAATTTATGCATCTTAGTCACTGTTTATTTCTGATTTGGCCACTATTC
1 TTTTAATTTATGCATTTTAGTCACT-ATTATTTCTGATTTGGCCACTATCC
* *
4406011 TTTTATTTTATGCATTTTAGTCACTATTATTTCTGATTTGGCTACTATCC
1 TTTTAATTTATGCATTTTAGTCACTATTATTTCTGATTTGGCCACTATCC
* * *
4406061 TTTCAATTTACGCATTTTGGTCACTACTTATTTCTGATTTG
1 TTTTAATTTATGCATTTTAGTCACTA-TTATTTCTGATTTG
4406102 ATCAACTATT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 44 0.54
51 37 0.46
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (50 bp):
TTTTAATTTATGCATTTTAGTCACTATTATTTCTGATTTGGCCACTATCC
Found at i:4412339 original size:11 final size:11
Alignment explanation
Indices: 4412323--4412356 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
4412313 ACTCAACATA
*
4412323 TAATTATAAAT
1 TAATTAAAAAT
4412334 TAATTAAAAAT
1 TAATTAAAAAT
4412345 TAATTAAAAAT
1 TAATTAAAAAT
4412356 T
1 T
4412357 TAAAGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATTAAAAAT
Found at i:4414938 original size:20 final size:20
Alignment explanation
Indices: 4414915--4414956 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4414905 GGACAGATCT
4414915 GAACCG-GCCTAACCCGACCC
1 GAACCGAGCC-AACCCGACCC
*
4414935 GAACCGAGTCAACCCGACCC
1 GAACCGAGCCAACCCGACCC
4414955 GA
1 GA
4414957 CCTGTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.29, C:0.45, G:0.21, T:0.05
Consensus pattern (20 bp):
GAACCGAGCCAACCCGACCC
Found at i:4418260 original size:19 final size:19
Alignment explanation
Indices: 4418200--4418288 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
4418190 AAATAGAGTT
* *
4418200 ATCAGAAATCAGAGCA-AA
1 ATCAGAGATCAGAACAGAA
*
4418218 GATCAGAGATCATAACAGAA
1 -ATCAGAGATCAGAACAGAA
* *
4418238 ATCAGAGATCAGAATAGAT
1 ATCAGAGATCAGAACAGAA
* * * *
4418257 ATCAAAGTTCAGGACATAA
1 ATCAGAGATCAGAACAGAA
* *
4418276 ATTAGAGGTCAGA
1 ATCAGAGATCAGA
4418289 CTGTTTTTTA
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
19 51 0.96
20 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.18
Consensus pattern (19 bp):
ATCAGAGATCAGAACAGAA
Found at i:4419733 original size:389 final size:389
Alignment explanation
Indices: 4419016--4419794 Score: 1488
Period size: 389 Copynumber: 2.0 Consensus size: 389
4419006 AGACTTATCC
4419016 AAGTTATCCGCTTAATTCAAGGTCATTGGAGTACTTAAATCAATTGGTATTCAAGTTTATCCCGG
1 AAGTTATCCGCTTAATTCAAGGTCATTGGAGTACTTAAATCAATTGGTATTCAAGTTTATCCCGG
*
4419081 TCACTTCGGAGTTTTCAGAGTAGTTGTATTGTTTTAATAATTCGAATACGTACAATACTTCCATT
66 TCACTTCGGAGTTTTCAGAGTAGCTGTATTGTTTTAATAATTCGAATACGTACAATACTTCCATT
4419146 CAGTTCAACTTTGTCATTTCGATCAATTCAGACATGTAAGATACTTTCGGTAATTTAGCCTCTGG
131 CAGTTCAACTTTGTCATTTCGATCAATTCAGACATGTAAGATACTTTCGGTAATTTAGCCTCTGG
*
4419211 GTGTTTGCTCAGGAATTAGAAATTTTAAGTCTTTTACCATCTCAAAGATCATGATCCATTAACAT
196 GTGTTTGCTCAGGAATTAGAAATTTTAAGTCTTTTACCATCTCAAAGACCATGATCCATTAACAT
4419276 GATTATTTTCACTTTCCAGGAAAATCCTTATCTTTTATATCATACCGGTATTTTCGTTGTTTATT
261 GATTATTTTCACTTTCCAGGAAAATCCTTATCTTTTATATCATACCGGTATTTTCGTTGTTTATT
4419341 ATCCGAGCATTTCCAACATTTAACCTTTAACGAGATTAATCAAAATTTACTAGTAACGTGATTG
326 ATCCGAGCATTTCCAACATTTAACCTTTAACGAGATTAATCAAAATTTACTAGTAACGTGATTG
4419405 AAGTTATCCGCTTAATTCAAGGTCATTGGAGTACTTAAATCAATTGGTATTCAAGTTTATCCCGG
1 AAGTTATCCGCTTAATTCAAGGTCATTGGAGTACTTAAATCAATTGGTATTCAAGTTTATCCCGG
4419470 TCACTTCGGAGTTTTCAGAGTAGCTGTATTGTTTTAATAATTCGAATACGTACAATACTTCCATT
66 TCACTTCGGAGTTTTCAGAGTAGCTGTATTGTTTTAATAATTCGAATACGTACAATACTTCCATT
4419535 CAGTTCAACTTTGTCATTTCGATCAATTCAGACATGTAAGATACTTTCGGTAATTTAGCCT-TCG
131 CAGTTCAACTTTGTCATTTCGATCAATTCAGACATGTAAGATACTTTCGGTAATTTAGCCTCT-G
*
4419599 GGTGTTTGCTCAGGAATTAGAAATTTTAAGTCTTTTACCATCTCAAAGACCATGATCGATTAACA
195 GGTGTTTGCTCAGGAATTAGAAATTTTAAGTCTTTTACCATCTCAAAGACCATGATCCATTAACA
*
4419664 TGATTATTTTCACTTTCCAGGAAAATCCTTATCTTTTATATCATATCGGTATTTTCGTTGTTTAT
260 TGATTATTTTCACTTTCCAGGAAAATCCTTATCTTTTATATCATACCGGTATTTTCGTTGTTTAT
* *
4419729 TATCCGAGCATTTCCAGCATTTAACCTTTAACGAGATTAATCAGAATTTACTAGTAACGTGATTG
325 TATCCGAGCATTTCCAACATTTAACCTTTAACGAGATTAATCAAAATTTACTAGTAACGTGATTG
4419794 A
1 A
4419795 TTGATTTACA
Statistics
Matches: 383, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
388 1 0.00
389 382 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (389 bp):
AAGTTATCCGCTTAATTCAAGGTCATTGGAGTACTTAAATCAATTGGTATTCAAGTTTATCCCGG
TCACTTCGGAGTTTTCAGAGTAGCTGTATTGTTTTAATAATTCGAATACGTACAATACTTCCATT
CAGTTCAACTTTGTCATTTCGATCAATTCAGACATGTAAGATACTTTCGGTAATTTAGCCTCTGG
GTGTTTGCTCAGGAATTAGAAATTTTAAGTCTTTTACCATCTCAAAGACCATGATCCATTAACAT
GATTATTTTCACTTTCCAGGAAAATCCTTATCTTTTATATCATACCGGTATTTTCGTTGTTTATT
ATCCGAGCATTTCCAACATTTAACCTTTAACGAGATTAATCAAAATTTACTAGTAACGTGATTG
Found at i:4428266 original size:16 final size:17
Alignment explanation
Indices: 4428231--4428316 Score: 56
Period size: 16 Copynumber: 5.2 Consensus size: 17
4428221 TGTTAGAGGG
*
4428231 AAAAAATGAATAAATGA
1 AAAAAATGAATAAATAA
*
4428248 AAAAAATGAA-GAATAA
1 AAAAAATGAATAAATAA
*
4428264 AAATAA-GTAA-AAATAA
1 AAAAAATG-AATAAATAA
**
4428280 ATAAAAAT-AA-AAGGAA
1 A-AAAAATGAATAAATAA
*
4428296 AAATAAATAAATAAATAA
1 AAA-AAATGAATAAATAA
4428314 AAA
1 AAA
4428317 TAAAAATATA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.06
16 28 0.52
17 16 0.30
18 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAAAATGAATAAATAA
Found at i:4428268 original size:26 final size:26
Alignment explanation
Indices: 4428239--4428324 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
4428229 GGAAAAAATG
* *
4428239 AATAAATGAAAA-AAATGAAGAATAAA
1 AATAAATAAAAATAAAT-AAAAATAAA
*
4428265 AATAAGTAAAAATAAATAAAAATAAA
1 AATAAATAAAAATAAATAAAAATAAA
*
4428291 AGGAAAAATAAATAAATAAATAAAAATAAA
1 A--ATAAAT-AA-AAATAAATAAAAATAAA
4428321 AATA
1 AATA
4428325 TATATATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
26 19 0.39
27 4 0.08
28 6 0.12
29 2 0.04
30 18 0.37
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (26 bp):
AATAAATAAAAATAAATAAAAATAAA
Found at i:4428276 original size:10 final size:10
Alignment explanation
Indices: 4428259--4428320 Score: 74
Period size: 10 Copynumber: 6.2 Consensus size: 10
4428249 AAAAATGAAG
4428259 AATAAAAATA
1 AATAAAAATA
*
4428269 AGTAAAAATA
1 AATAAAAATA
4428279 AATAAAAATAA
1 AATAAAAAT-A
*
4428290 AAGGAAAAATA
1 AA-TAAAAATA
4428301 AAT--AAATA
1 AATAAAAATA
4428309 AATAAAAATA
1 AATAAAAATA
4428319 AA
1 AA
4428321 AATATATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.18
10 24 0.55
11 6 0.14
12 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:4428280 original size:6 final size:6
Alignment explanation
Indices: 4428249--4428324 Score: 57
Period size: 6 Copynumber: 12.2 Consensus size: 6
4428239 AATAAATGAA
* **
4428249 AAAAAT GAAGAAT AAAAAT AAGTAAA- AATAAAT AAAAAT AAAAGG AAAAAT
1 AAAAAT -AAAAAT AAAAAT AA--AAAT AA-AAAT AAAAAT AAAAAT AAAAAT
*
4428300 AAATAA- ATAAAT AAAAAT AAAAAT A
1 AAA-AAT AAAAAT AAAAAT AAAAAT A
4428325 TATATATAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
5 2 0.04
6 40 0.71
7 11 0.20
8 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:4428419 original size:4 final size:4
Alignment explanation
Indices: 4428398--4428467 Score: 51
Period size: 4 Copynumber: 18.2 Consensus size: 4
4428388 AGTAATATGA
* * *
4428398 AAAT ATAT AAAT --AT AAAT AAAT AAAT AAAT AAA- ACCAG AAAT -AA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
*
4428442 AAAT AAAT AAAT ATAT AAAT CAAAT A
1 AAAT AAAT AAAT AAAT AAAT -AAAT A
4428468 TAAAAGTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.04
3 5 0.10
4 40 0.77
5 5 0.10
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:4428468 original size:13 final size:12
Alignment explanation
Indices: 4428408--4428469 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
4428398 AAATATATAA
4428408 ATATAAATAAAT
1 ATATAAATAAAT
*
4428420 AAATAAATAAA-
1 ATATAAATAAAT
* *
4428431 ACCAGAAATAAA-
1 A-TATAAATAAAT
4428443 A-ATAAATAAAT
1 ATATAAATAAAT
4428454 ATATAAATCAAAT
1 ATATAAAT-AAAT
4428467 ATA
1 ATA
4428470 AAAGTATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 8 0.19
11 2 0.05
12 25 0.60
13 7 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (12 bp):
ATATAAATAAAT
Found at i:4429223 original size:37 final size:37
Alignment explanation
Indices: 4429173--4429270 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
4429163 CTTATTGTGG
* * * * *
4429173 ATCCTATCTTTAGGGGTTTAAATTATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
* *
4429210 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
* *
4429247 ATCATATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTAAATC
4429271 CTAGTAGGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
Found at i:4430280 original size:106 final size:106
Alignment explanation
Indices: 4429962--4431435 Score: 2176
Period size: 106 Copynumber: 14.0 Consensus size: 106
4429952 ATGAAATTGG
* ** * * * *
4429962 ATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTATTTGTTGACAACCAGCC
1 ATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCG
* * * **
4430026 GCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCAAGTCCA
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
4430068 ATATCCTTCGCTGTGAAGTTAAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAATCAGCCG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
* * * *
4430127 -CCTCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTGG-GTTCA
66 TCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCA
* * *
4430168 AGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
* *
4430233 TCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTTGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
4430274 ATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
4430339 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
4430380 ATATCCTTCGTTGTGAAGTTGAAACTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
* *
4430445 TCCCTTCGTTGTGAAGTTGAAGTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
4430486 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
*
4430551 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
4430592 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
*
4430657 TCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
4430698 ATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
4430763 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
4430804 ATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
*
4430869 TCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
4430910 ATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
4430975 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
4431016 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAACCAGCGA
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
4431081 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
4431122 ATATCCTTCGCTGTGAAGTTGAATTTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
*
4431187 TCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
4431228 ATATCCTTTGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAACCAGCAG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
*
4431293 TCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * * *
4431334 ATATCCTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAACCAGCCG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
* * *
4431398 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGT
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
4431436 GGCAAGATAT
Statistics
Matches: 1251, Mismatches: 106, Indels: 23
0.91 0.08 0.02
Matches are distributed among these distances:
99 2 0.00
100 76 0.06
101 4 0.00
102 4 0.00
104 3 0.00
105 54 0.04
106 1105 0.88
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:4431513 original size:49 final size:46
Alignment explanation
Indices: 4431400--4431515 Score: 110
Period size: 49 Copynumber: 2.5 Consensus size: 46
4431390 ACCAGCCGTC
* *
4431400 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTGGCAAGATAT
1 CCTTCGTTGTGAAGTTGAAATTGTGATGTCTTGAGTGGCAAGATAT
* * * * *
4431446 CCTCCGTCGTGGATTTGAAATTGTGGATGT-TTG-GCTTCGAGCTAGATAT
1 CCTTCGTTGTGAAGTTGAAATTGT-GATGTCTTGAG--T-G-GCAAGATAT
4431495 CCTTCGTTGTGAAGTTGAAAT
1 CCTTCGTTGTGAAGTTGAAAT
4431516 CTACTCTCGA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
45 1 0.02
46 22 0.41
47 5 0.09
48 1 0.02
49 25 0.46
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (46 bp):
CCTTCGTTGTGAAGTTGAAATTGTGATGTCTTGAGTGGCAAGATAT
Found at i:4432282 original size:22 final size:22
Alignment explanation
Indices: 4432256--4432311 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
4432246 TTGTGTTTGG
4432256 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
4432278 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
4432300 TCAAAGGTTTGA
1 TCAAAGGTTTGA
4432312 TGGGGTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:4432957 original size:14 final size:13
Alignment explanation
Indices: 4432926--4432950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4432916 TTTCTTTCGA
4432926 TTTTTGTTCTTTC
1 TTTTTGTTCTTTC
4432939 TTTTTGTTCTTT
1 TTTTTGTTCTTT
4432951 TGTTTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTGTTCTTTC
Found at i:4432972 original size:21 final size:22
Alignment explanation
Indices: 4432926--4432973 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
4432916 TTTCTTTCGA
*
4432926 TTTTTGTTCTTTCTTTTTGTTC
1 TTTTTGTTCTTTCCTTTTGTTC
*
4432948 -TTTTGTTTTTTCCTTTT-TTC
1 TTTTTGTTCTTTCCTTTTGTTC
4432968 TTTTTG
1 TTTTTG
4432974 CCCTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.79
Consensus pattern (22 bp):
TTTTTGTTCTTTCCTTTTGTTC
Found at i:4434156 original size:8 final size:8
Alignment explanation
Indices: 4434143--4434178 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
4434133 GTAGATGAAG
4434143 ATGCAAAA
1 ATGCAAAA
4434151 ATGCAAAA
1 ATGCAAAA
4434159 ATGC-AAA
1 ATGCAAAA
*
4434166 ATGCAAGA
1 ATGCAAAA
4434174 ATGCA
1 ATGCA
4434179 TGAAATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:4434168 original size:15 final size:15
Alignment explanation
Indices: 4434143--4434178 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4434133 GTAGATGAAG
4434143 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
4434159 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
4434174 ATGCA
1 ATGCA
4434179 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:4437466 original size:18 final size:17
Alignment explanation
Indices: 4437443--4437502 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 17
4437433 AAAAATGAAG
4437443 AATAAAAATAAGTAAAAA
1 AATAAAAATAA-TAAAAA
4437461 AATAAAAATAA-AAGGAAA
1 AATAAAAATAATAA--AAA
4437479 AATAATAAATAAATAAATAA
1 AATAA-AAAT-AATAAA-AA
4437499 AATA
1 AATA
4437503 TTAAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.06
18 19 0.53
19 5 0.14
20 8 0.22
21 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAAATAATAAAAA
Found at i:4438372 original size:37 final size:37
Alignment explanation
Indices: 4438323--4438426 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
4438313 GTGCTTGTGG
* *
4438323 ATCATATCTTTAGGAGTTTAAATCATAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTAAATCCTAGTAAAACTCT
* * *
4438360 ATCCTATTTTTAGGAGTTTAAATCCTAATAAAATTCT
1 ATCATATTTTTAGGAGTTTAAATCCTAGTAAAACTCT
* * *
4438397 ATCATATTTTTAAGAATTTGAATCCTAGTA
1 ATCATATTTTTAGGAGTTTAAATCCTAGTA
4438427 GGACGAAAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTAAATCCTAGTAAAACTCT
Found at i:4440052 original size:32 final size:32
Alignment explanation
Indices: 4439950--4440061 Score: 100
Period size: 32 Copynumber: 3.5 Consensus size: 32
4439940 TAGGCCCATT
* * * * *
4439950 GGGCGTAAGAGCCAACCTAAGGGAATATCTTGG
1 GGGCCTAAGAGCCTACCCAAGGAAATACCTT-G
* * *
4439983 GGGCCTGAGAGCCTACCCAA-GACAGTACCTTA
1 GGGCCTAAGAGCCTACCCAAGGA-AATACCTTG
* *
4440015 AGGCCTAAGAGCCTACCCAAGGAAATGCCTTG
1 GGGCCTAAGAGCCTACCCAAGGAAATACCTTG
*
4440047 GGGCCTCAGAGCCTA
1 GGGCCTAAGAGCCTA
4440062 TCTAAGGTCA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
32 38 0.61
33 24 0.39
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (32 bp):
GGGCCTAAGAGCCTACCCAAGGAAATACCTTG
Found at i:4441194 original size:27 final size:28
Alignment explanation
Indices: 4441136--4441198 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
4441126 CCAGAGCTTG
* * *
4441136 GGGTATTTTAGGTTATTTCATACTTTAG
1 GGGTATTTTAGGTCATTTCATACTTCAA
* *
4441164 GGGTATTTT-GGTCATTTTATAGTTCAA
1 GGGTATTTTAGGTCATTTCATACTTCAA
4441191 GGGTATTT
1 GGGTATTT
4441199 CAATCCTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.49
Consensus pattern (28 bp):
GGGTATTTTAGGTCATTTCATACTTCAA
Found at i:4445320 original size:161 final size:163
Alignment explanation
Indices: 4445037--4445357 Score: 628
Period size: 162 Copynumber: 2.0 Consensus size: 163
4445027 AACATCTGGC
4445037 TTTTCATTCAACGACCTGTTCATTCGTTCCGCAACACCATTCTATTGTGGTGTCTTGCGCACTGT
1 TTTTCATTCAACGACCTGTTCATTCGTTCCGCAACACCATTCTATTGTGGTGTCTTGCGCACTGT
4445102 AAAATGCCTCTGAATCCCATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTAC
66 AAAATGCCTCTGAATCCCATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTAC
4445167 C-TTGTCAGACCGCAAACACTTGATTTTTCCTG
131 CATTGTCAGACCGCAAACACTTGATTTTTCCTG
4445199 TTTTCATTCAACGACCTGTTCATTCGTTCCGCAACACCATTCTATTGTGGTGTCTTGCGCA-TGT
1 TTTTCATTCAACGACCTGTTCATTCGTTCCGCAACACCATTCTATTGTGGTGTCTTGCGCACTGT
4445263 AAAATGCCTCTGAATCCCATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTAC
66 AAAATGCCTCTGAATCCCATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTAC
4445328 CATTGTCAGACCGCAAACACTTGATTTTTC
131 CATTGTCAGACCGCAAACACTTGATTTTTC
4445358 GTCCTGTTTG
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 69 0.44
162 89 0.56
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (163 bp):
TTTTCATTCAACGACCTGTTCATTCGTTCCGCAACACCATTCTATTGTGGTGTCTTGCGCACTGT
AAAATGCCTCTGAATCCCATGCTCCTTACAGAATTGTAGGAACTGTGAATCTGTGTACTCCGTAC
CATTGTCAGACCGCAAACACTTGATTTTTCCTG
Found at i:4453980 original size:19 final size:20
Alignment explanation
Indices: 4453936--4453984 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
4453926 TTGAAGAGAT
*
4453936 TATCGATACTACATGGTTGG
1 TATCGATACTACATGGTGGG
4453956 TA-CGATACT-CATAGG-GGG
1 TATCGATACTACAT-GGTGGG
4453974 TATCGATACTA
1 TATCGATACTA
4453985 GAAAACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGATACTACATGGTGGG
Found at i:4456451 original size:28 final size:30
Alignment explanation
Indices: 4456397--4456464 Score: 113
Period size: 28 Copynumber: 2.3 Consensus size: 30
4456387 TTTATGATCC
4456397 GATCTCAGGATGATGATGATGCAGCTAATGT
1 GATCTCAGGATGA-GATGATGCAGCTAATGT
4456428 GATCTCAGGA-G-GATGATGCAGCTAATGT
1 GATCTCAGGATGAGATGATGCAGCTAATGT
4456456 GATCTCAGG
1 GATCTCAGG
4456465 TACCCTTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
28 26 0.70
30 1 0.03
31 10 0.27
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (30 bp):
GATCTCAGGATGAGATGATGCAGCTAATGT
Found at i:4459838 original size:2 final size:2
Alignment explanation
Indices: 4459833--4459888 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
4459823 ACACACATGC
4459833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4459875 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4459889 TCTATTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4462017 original size:17 final size:18
Alignment explanation
Indices: 4461988--4462021 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4461978 GTAAAAAACA
4461988 ATTATATTAATAATAATT
1 ATTATATTAATAATAATT
4462006 ATTATA-TAATAATAAT
1 ATTATATTAATAATAAT
4462022 AATTTTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATATTAATAATAATT
Found at i:4477476 original size:6 final size:6
Alignment explanation
Indices: 4477465--4477489 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4477455 AAAAAAATTA
4477465 TAATAT TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT T
4477490 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:4478000 original size:18 final size:19
Alignment explanation
Indices: 4477979--4478016 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4477969 ATTTTTTATA
4477979 TTTTTATTA-ATAATTTGT
1 TTTTTATTATATAATTTGT
* *
4477997 TTTTTCTTATTTAATTTGT
1 TTTTTATTATATAATTTGT
4478016 T
1 T
4478017 CTCTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATATAATTTGT
Found at i:4482889 original size:2 final size:2
Alignment explanation
Indices: 4482882--4482937 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
4482872 GTTTATACTC
4482882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4482924 AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT A
4482938 CTAATTAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4483085 original size:168 final size:169
Alignment explanation
Indices: 4482786--4483100 Score: 516
Period size: 168 Copynumber: 1.9 Consensus size: 169
4482776 CTGCTTAGAC
4482786 TTGGGCTCCGTTTGGGCTGAAGTTGACAACTCTTTTGTAATTAGGGCTGTAAATAAAAAAACAAT
1 TTGGGCTCCGTTTGGGCTGAAGTTGACAACTCTTTTGTAATTAGGGCTGTAAATAAAAAAACAAT
*
4482851 TTAATTAGTATTTATTTATTAGTTTATACTCATATATATATATATATATATATATATATATATAT
66 TTAATTAGTATTTATTTATTAGTTTATACTCATATATATATATATACATATATATATATATATAT
4482916 ATA-T-ATATATATATATAATATACTAATTAAATTGTTTT
131 ATACTCATA-ATATATATAATATACTAATTAAATTGTTTT
4482954 TTGGGCTCCGTTTGGGCTGAAGTTGACAACTCTTTTGTAATTAGGGCTGTAAATAAAAAAACAAT
1 TTGGGCTCCGTTTGGGCTGAAGTTGACAACTCTTTTGTAATTAGGGCTGTAAATAAAAAAACAAT
* *
4483019 TTAATTAGTATTAGTATTTATTA-TATTATA-TCATATATATATATATAGCAT-TGTA-ATATTT
66 TTAATTAGTATT--TATTTATTAGT-TTATACTCATATATATATATATA-CATATATATATATAT
4483080 ATATATACTCATAATATATAT
127 ATATATACTCATAATATATAT
4483101 TCGCATGCAA
Statistics
Matches: 138, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
168 89 0.64
169 30 0.22
170 19 0.14
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (169 bp):
TTGGGCTCCGTTTGGGCTGAAGTTGACAACTCTTTTGTAATTAGGGCTGTAAATAAAAAAACAAT
TTAATTAGTATTTATTTATTAGTTTATACTCATATATATATATATACATATATATATATATATAT
ATACTCATAATATATATAATATACTAATTAAATTGTTTT
Found at i:4483532 original size:55 final size:55
Alignment explanation
Indices: 4483384--4483881 Score: 546
Period size: 55 Copynumber: 9.1 Consensus size: 55
4483374 AATTGAAAAG
* * *
4483384 AATCTTCTGCAAACGGGTTCGCTCCCAATTCCTTCAGGGAGTATA-AACTCAAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAAC
* *** * ** *
4483438 AATCCTCTGAAAATAAGTTTGCTCCCTATTGTTTCAGGGAGTATAGAACTCAAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAAC
* * *
4483493 AATATTATGAAAACGGGTTCGC-CCCTATTCCTTTTAGGGAGTATAGAACTCGAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCC-TTCAGGGAGTATAGAACTCGAAC
* * * *
4483548 AATCTTCTGCAAATGGGTTCGCTCCCTATTGCTTCAGGGAGTATAGAACTCAAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAAC
* * *
4483603 AATCTTCTGAAAATGGGTTCGC-CCTCTATTGCTTCAAGGAGTATAGAACTCGAAC
1 AATCTTCTGAAAACGGGTTCGCTCC-CTATTCCTTCAGGGAGTATAGAACTCGAAC
*
4483658 AATCTTCT-ACAAACGGGTTCGCTCCCTATTGCTTCAGAGG-GTATAGAACTCGAAC
1 AATCTTCTGA-AAACGGGTTCGCTCCCTATTCCTTCAG-GGAGTATAGAACTCGAAC
*
4483713 AATCTTCTGAAAACGGGTTCG-TCCCTATTCCTTTCA--GAGTATAGAACTTGAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCC-TTCAGGGAGTATAGAACTCGAAC
* * * *
4483766 AATCTTCTGCAAACGGGTTCGCTCCCTATTACTTTAGGGAGTATGGAACTCTG-AC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTC-GAAC
** ** * * ** * *
4483821 AATCTTCTGCCAACATGTTCGCTCCCTCTTGCTTCATAGAATATGGAACTCGAAC
1 AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAAC
4483876 AATCTT
1 AATCTT
4483882 GATTTGCTTC
Statistics
Matches: 381, Mismatches: 48, Indels: 29
0.83 0.10 0.06
Matches are distributed among these distances:
52 1 0.00
53 37 0.10
54 65 0.17
55 264 0.69
56 14 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (55 bp):
AATCTTCTGAAAACGGGTTCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAAC
Found at i:4487287 original size:59 final size:59
Alignment explanation
Indices: 4487220--4487444 Score: 260
Period size: 59 Copynumber: 3.8 Consensus size: 59
4487210 CTATATGTTT
* * *
4487220 TAAAATGATAAGGAAATCATACTGAGTGTATGAATTTCCATATAAAGTATTGAGTGTGC
1 TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAGCATTGAGTGTGC
* * * * *
4487279 GAAAATGATAAGGAAATCCTACTAAGTGTACTGG-TTTCCATATGAAGCATTGAGTGTGC
1 TAAAATGATAAGGAAATCATACTGAGTGTA-TGGATTTCCAGATAAAGCATTGAGTGTGC
* * ** *
4487338 TAAAATGATAAGGAAATCATATTGAAG-ATATGGATTTCCAGATAGGGCATT-ATATGTGC
1 TAAAATGATAAGGAAATCATACTG-AGTGTATGGATTTCCAGATAAAGCATTGA-GTGTGC
* *
4487397 TAAAATG-TAAGGGAATCATACTGAGTTTATGGATTTCCAGATAAAGCA
1 TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAGCA
4487445 CTAAGGGTTC
Statistics
Matches: 140, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
57 2 0.01
58 37 0.26
59 97 0.69
60 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (59 bp):
TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAGCATTGAGTGTGC
Found at i:4487530 original size:59 final size:59
Alignment explanation
Indices: 4487467--4487579 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
4487457 CAAGGATAAG
* *
4487467 AAAATAATACTAATGGTATGGATTTTC-ACATAGGGCA-TTTCATGTGCTAAAATGGTAAC
1 AAAATAATACTAATGGTACGGATATTCGA-ATAGGGCACTTT-ATGTGCTAAAATGGTAAC
** * *
4487526 AAAATCCTACTAATGGTACGGATATTCGAATAGGGTACTTTGTGTGCTAAAATG
1 AAAATAATACTAATGGTACGGATATTCGAATAGGGCACTTTATGTGCTAAAATG
4487580 AAAGAGGAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 42 0.91
60 4 0.09
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (59 bp):
AAAATAATACTAATGGTACGGATATTCGAATAGGGCACTTTATGTGCTAAAATGGTAAC
Found at i:4490369 original size:18 final size:18
Alignment explanation
Indices: 4490348--4490409 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
4490338 TATAAAATTT
*
4490348 TTATTTTATAATTATATA
1 TTATTTTATAATTATAAA
*
4490366 TTATTTAAATTAATTATAAA
1 TTATTT-TA-TAATTATAAA
* *
4490386 CTATTTTTTAATTATAAA
1 TTATTTTATAATTATAAA
*
4490404 ATATTT
1 TTATTT
4490410 AATTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 21 0.58
19 1 0.03
20 14 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTTATAATTATAAA
Found at i:4498172 original size:54 final size:54
Alignment explanation
Indices: 4498090--4498614 Score: 631
Period size: 54 Copynumber: 9.7 Consensus size: 54
4498080 ATTTCACAGG
* * * *
4498090 TCAACTTAAGATGAATTCCATGGGTTGCACAAATAGTGCCGAAACGGTTGTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * * * * *
4498144 TCAACATATGATGAATTCCATGGGTTGCATTA-ACACTGTCGAAATGGTTGTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCA-CACATAGTGCCGAAACGGTTGTTCA
* * * * *
4498198 TCAACATATGATGAATTCCGTGGGATGCACACATAGTGTCAAAACGATTTTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * * * * *** *
4498252 TCAATATATGATGAATTCC-TGAGATGCACACATAGTGTCAAAATAATTTTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* *
4498305 TCAATATATAATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* *
4498359 TCAACATATGATGAATTCCGTGGGTTGAACACATAGTGCCGAAACGGTTGTTTA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * * *
4498413 TCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCTGAAACAGTTTTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * *
4498467 TCAACATATGATGAACTCCGTGAGTTTCACACATAGTGCCGAAACGGTTGTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* ** * *
4498521 TCAACATATGATGAATTACGTGAATTGCACACTTAGTTCCGAAACGGTTGTTCA
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
* ** *
4498575 TCAATATATGATGAATTCCGTGAATTGCACACTTAGTGCC
1 TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCC
4498615 TATTTGGTAT
Statistics
Matches: 413, Mismatches: 55, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
53 50 0.12
54 362 0.88
55 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (54 bp):
TCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCA
Found at i:4498419 original size:27 final size:27
Alignment explanation
Indices: 4498335--4498420 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
4498325 TGGGTTGCAC
4498335 ACATAGTGCCGAAACGGTTGTTCATCA
1 ACATAGTGCCGAAACGGTTGTTCATCA
** * * * * *
4498362 ACATA-TGATGAATTCCGTGGGTTGAAC-
1 ACATAGTGCCGAA-ACGGT-TGTTCATCA
*
4498389 ACATAGTGCCGAAACGGTTGTTTATCA
1 ACATAGTGCCGAAACGGTTGTTCATCA
4498416 ACATA
1 ACATA
4498421 TGATGAATTT
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
26 10 0.24
27 21 0.51
28 10 0.24
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
ACATAGTGCCGAAACGGTTGTTCATCA
Found at i:4510109 original size:24 final size:23
Alignment explanation
Indices: 4510059--4510126 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
4510049 GCTTCAACTT
*
4510059 TTTGGATTGTTTGATTTTGTGAC
1 TTTGGATTGTTTGATTTTGTGAA
4510082 TTTGGATTTGTTTGGATTTT-TGAA
1 TTTGGA-TTGTTT-GATTTTGTGAA
*
4510106 TTTGTGGATTGATTGATTTTG
1 -TT-TGGATTGTTTGATTTTG
4510127 AATTTGTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 6 0.16
24 15 0.39
25 13 0.34
26 4 0.11
ACGTcount: A:0.15, C:0.01, G:0.26, T:0.57
Consensus pattern (23 bp):
TTTGGATTGTTTGATTTTGTGAA
Found at i:4513268 original size:54 final size:54
Alignment explanation
Indices: 4513115--4513268 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 54
4513105 CGTAGTGTCA
* * * ** ** *
4513115 ATACGGTAATTGACAAACTTATTAT-AATTTACGTGGGTTGCACACCCACTACCG
1 ATACGGAAATTCATAAACTTATTATGAA-TTACGTAAGTTGCACACAAACTACCC
* * * *
4513169 ATACGGAAATTCATAAACTAATTATGAATTAC-TTAGTTTTG-ACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTACGTAAG--TTGCACACAAACTACCC
4513223 ATACGGAAATTCATAAACTTATTATGAATTACGTAAGTTGCACACA
1 ATACGGAAATTCATAAACTTATTATGAATTACGTAAGTTGCACACA
4513269 TAATGTCAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
53 5 0.06
54 69 0.84
55 8 0.10
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (54 bp):
ATACGGAAATTCATAAACTTATTATGAATTACGTAAGTTGCACACAAACTACCC
Found at i:4513290 original size:54 final size:54
Alignment explanation
Indices: 4513232--4513752 Score: 585
Period size: 54 Copynumber: 9.8 Consensus size: 54
4513222 CATACGGAAA
* * * * ** * * *
4513232 TTCATAAACTTATTATGAATTACGTAAGTTGCACACATAATGTCAAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * *
4513286 TTCATTAACATATGATGAATTCCGTGAGTTGCACAC--A-T----AAACTGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * * *
4513333 TTCATCAACATATGATGAATTCCGTGGGTTACACACATAATGTCGAAACAGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* *
4513387 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCAAAAAGGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * *
4513441 TTCATCAATATATGATAAATTTCGTGGGTTGCACACATAGTGCCGAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * *
4513495 TTCATCAACATATGATGAATTCTGTGGGTTGTACACATAGTACCGAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* *
4513549 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCGAAACGTTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * * * *
4513603 TTCATCAACATGTGATGAATT-TGTTGAGTT--ACATATAGTGCCGAAATGGTTG
1 TTCATCAACATATGATGAATTCCG-TGGGTTGCACACATAGTGCCGAAACGGTTG
* ** * * *
4513655 TTCATCAACATATGATGAATTTCGTGAATTGTACACTTAGTGCCGAAACAGTTG
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
* * ** *
4513709 TTCATCAATATATGATGAATTCCATGAATTGCACACTTAGTGCC
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCC
4513753 TATTTGGTAA
Statistics
Matches: 407, Mismatches: 49, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
47 41 0.10
49 1 0.00
50 1 0.00
51 1 0.00
52 45 0.11
53 2 0.00
54 316 0.78
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTG
Found at i:4513424 original size:27 final size:26
Alignment explanation
Indices: 4513340--4513425 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
4513330 TTGTTCATCA
4513340 ACATATGATGAATTCCGTGGGTTACAC
1 ACATATGATGAATTCCGTGGGTT-CAC
* * *
4513367 ACATAATG-TCGAA-ACAGT-TGTTCATC
1 ACAT-ATGAT-GAATTCCGTGGGTTCA-C
4513393 AACATATGATGAATTCCGTGGGTTGCAC
1 -ACATATGATGAATTCCGTGGGTT-CAC
4513421 ACATA
1 ACATA
4513426 GTGCCAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
25 2 0.04
26 10 0.22
27 21 0.47
28 10 0.22
29 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (26 bp):
ACATATGATGAATTCCGTGGGTTCAC
Found at i:4518335 original size:213 final size:213
Alignment explanation
Indices: 4517968--4518392 Score: 823
Period size: 213 Copynumber: 2.0 Consensus size: 213
4517958 GCAATGAGTT
4517968 CAAATTCTACGAAGCATAATCTCTTCGGGTTTTATATATATATTTATCACAATTCACAGATTTTC
1 CAAATTCTACGAAGCATAATCTCTTCGGGTTTTATATATATATTTATCACAATTCACAGATTTTC
4518033 TTGAAAGAATAGGAACATCGCATAATAACATCAAATCACGACATAATTGACCTAATAAAATCACT
66 TTGAAAGAATAGGAACATCGCATAATAACATCAAATCACGACATAATTGACCTAATAAAATCACT
*
4518098 TTGAATTTGTGATAATCATAAATATTTATAAATGATAAACTATATAAATGATCGCTAATGTTTGA
131 TTGAATTTGTGATAATCATAAATATTTATAAATGATAAACTATATAAATGATCGCTAATATTTGA
*
4518163 GTGAATTTCGATTTTTTC
196 GTGAATTTCAATTTTTTC
4518181 CAAATTCTACGAAGCATAATCTCTTCGGGTTTTATATATATATTTATCACAATTCACAGATTTTC
1 CAAATTCTACGAAGCATAATCTCTTCGGGTTTTATATATATATTTATCACAATTCACAGATTTTC
4518246 TTGAAAGAATAGGAACATCGCATAATAACATCAAATCACGACATAATTGACCTAATAAAATCACT
66 TTGAAAGAATAGGAACATCGCATAATAACATCAAATCACGACATAATTGACCTAATAAAATCACT
4518311 TTGAATTTGTGATAATCATAAATATTTATAAATGATAAACTATATAAATGATCGCTAATATTTGA
131 TTGAATTTGTGATAATCATAAATATTTATAAATGATAAACTATATAAATGATCGCTAATATTTGA
*
4518376 GTGAGTTTCAATTTTTT
196 GTGAATTTCAATTTTTT
4518393 TCAATGATTA
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 209 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (213 bp):
CAAATTCTACGAAGCATAATCTCTTCGGGTTTTATATATATATTTATCACAATTCACAGATTTTC
TTGAAAGAATAGGAACATCGCATAATAACATCAAATCACGACATAATTGACCTAATAAAATCACT
TTGAATTTGTGATAATCATAAATATTTATAAATGATAAACTATATAAATGATCGCTAATATTTGA
GTGAATTTCAATTTTTTC
Found at i:4522314 original size:181 final size:181
Alignment explanation
Indices: 4522009--4522371 Score: 694
Period size: 181 Copynumber: 2.0 Consensus size: 181
4521999 AAATCCGATC
4522009 ATAATGTCGATTCCTTTGCTTCAGAAAAAGCAGATGAAATTTTGAAGAGCCTGGAGACATTTCCA
1 ATAATGTCGATTCCTTTGCTTCAGAAAAAGCAGATGAAATTTTGAAGAGCCTGGAGACATTTCCA
4522074 GATAACGTAAAGCGGATGGCAGAATATGGATTCTTGGAACCTCTTTTAAATCATCTAACCGAAGG
66 GATAACGTAAAGCGGATGGCAGAATATGGATTCTTGGAACCTCTTTTAAATCATCTAACCGAAGG
4522139 TAACACCCCGATATGAAAACTCCAAGAGATATATA-ACACACAACACATACAT
131 TAACACCCCGATATGAAAACTCCAAGA-ATATATATACACAC-ACACATACAT
4522191 ATAATGTCGATTCCTTTGCTTCAGAAAAAGCAGATGAAA-TTTGAAGAGCCTGGAGACATTTCCA
1 ATAATGTCGATTCCTTTGCTTCAGAAAAAGCAGATGAAATTTTGAAGAGCCTGGAGACATTTCCA
4522255 GATAACGTAAAGCGGATGGCAGAATATGGATTCTTGGAACCTCTTTTAAATCATCTAACCGAAGG
66 GATAACGTAAAGCGGATGGCAGAATATGGATTCTTGGAACCTCTTTTAAATCATCTAACCGAAGG
4522320 TAACACCCCGATATGAAAACTCCAAGAATATATATACACACACACATACAT
131 TAACACCCCGATATGAAAACTCCAAGAATATATATACACACACACATACAT
4522371 A
1 A
4522372 CATACATACA
Statistics
Matches: 180, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
180 18 0.10
181 123 0.68
182 39 0.22
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (181 bp):
ATAATGTCGATTCCTTTGCTTCAGAAAAAGCAGATGAAATTTTGAAGAGCCTGGAGACATTTCCA
GATAACGTAAAGCGGATGGCAGAATATGGATTCTTGGAACCTCTTTTAAATCATCTAACCGAAGG
TAACACCCCGATATGAAAACTCCAAGAATATATATACACACACACATACAT
Done.