Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 34 of 93
Found at i:13430743 original size:2 final size:2
Alignment explanation
Indices: 13430738--13430777 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
13430728 ATCTCTTTTT
13430738 TA TA TA TA TA TA TA TA -A 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 TA TA TA TA TA TA T
13430778 TATTACATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13435409 original size:17 final size:17
Alignment explanation
Indices: 13435384--13435417 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13435374 AGATTTCTGA
*
13435384 AAAGGGAAAATGTGTTT
1 AAAGCGAAAATGTGTTT
13435401 AAAGCGAAAATGTGTTT
1 AAAGCGAAAATGTGTTT
13435418 TTATCAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.29
Consensus pattern (17 bp):
AAAGCGAAAATGTGTTT
Found at i:13440377 original size:4 final size:4
Alignment explanation
Indices: 13440368--13440392 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13440358 TTCATTTCAT
13440368 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
13440393 GTGATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:13450016 original size:26 final size:26
Alignment explanation
Indices: 13449987--13450065 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
13449977 TTACAGCATT
* *
13449987 CATCCACTTCTGGTGATAACATTATC
1 CATCCACTTCTGGTGACAAAATTATC
* * *
13450013 CATCTACTTTTGGTGGCAAAATTATC
1 CATCCACTTCTGGTGACAAAATTATC
13450039 CATCCACTTCTGGT-AGCAAAATTATC
1 CATCCACTTCTGGTGA-CAAAATTATC
13450065 C
1 C
13450066 TTAGATTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (26 bp):
CATCCACTTCTGGTGACAAAATTATC
Found at i:13450227 original size:14 final size:14
Alignment explanation
Indices: 13450208--13450235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13450198 CTTCAAAGAT
13450208 AGATAGATTCATGA
1 AGATAGATTCATGA
13450222 AGATAGATTCATGA
1 AGATAGATTCATGA
13450236 CCATGACCAT
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:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
AGATAGATTCATGA
Found at i:13456339 original size:15 final size:15
Alignment explanation
Indices: 13456319--13456351 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13456309 AATTGTGGGA
13456319 TTTATTATTATTATT
1 TTTATTATTATTATT
13456334 TTTATTATTATTATT
1 TTTATTATTATTATT
13456349 TTT
1 TTT
13456352 TGATGGCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:13459371 original size:17 final size:18
Alignment explanation
Indices: 13459349--13459389 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13459339 CAAGAATTTT
* *
13459349 TTAAAATACT-ATCATAA
1 TTAAAATAATAATAATAA
13459366 TTAAAATAATAATAATAA
1 TTAAAATAATAATAATAA
13459384 TTAAAA
1 TTAAAA
13459390 AAATTAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAATAATAATAATAA
Found at i:13460181 original size:9 final size:8
Alignment explanation
Indices: 13460131--13460179 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 8
13460121 GAAAAAACAG
13460131 TTAATTTT
1 TTAATTTT
13460139 ATTAATTATT
1 -TTAATT-TT
*
13460149 TTTATTTT
1 TTAATTTT
13460157 TTAATTTT
1 TTAATTTT
13460165 TTATATATTT
1 TTA-AT-TTT
13460175 TTAAT
1 TTAAT
13460180 ATAATAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 12 0.34
9 15 0.43
10 8 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTAATTTT
Found at i:13462163 original size:2 final size:2
Alignment explanation
Indices: 13462071--13462155 Score: 143
Period size: 2 Copynumber: 42.5 Consensus size: 2
13462061 ATGAATTCAC
*
13462071 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13462113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13462155 T
1 T
13462156 GCATATATGT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13463459 original size:99 final size:99
Alignment explanation
Indices: 13463287--13463473 Score: 230
Period size: 99 Copynumber: 1.9 Consensus size: 99
13463277 AACTTAGTCT
* ** * * *
13463287 TAAAAAGCTAGTGTAAGGCTTATGGTTGATCTTAAAAAAAGTCATTGTATGGGCTTGTGGTTAAG
1 TAAAAAGCTAGTGTAAGACTTATGGTTGATCCCAAAAAAAGCCATTGTATGAGCTTGTCGTTAAG
13463352 CCCATTAAAAACCATAGGTTATCGCTTAATATCA
66 CCCATTAAAAACCATAGGTTATCGCTTAATATCA
* * * * * *
13463386 TAAAAAGTTGGTGTAAGATTTATGGTTGATCCCCAAAAAAGCCATTGTATGAGTTTGTCGTTGAG
1 TAAAAAGCTAGTGTAAGACTTATGGTTGATCCCAAAAAAAGCCATTGTATGAGCTTGTCGTTAAG
*** *
13463451 CTTGTTAAAAACCATGGGTTATC
66 CCCATTAAAAACCATAGGTTATC
13463474 ACTTGATCTA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
99 72 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (99 bp):
TAAAAAGCTAGTGTAAGACTTATGGTTGATCCCAAAAAAAGCCATTGTATGAGCTTGTCGTTAAG
CCCATTAAAAACCATAGGTTATCGCTTAATATCA
Found at i:13463639 original size:18 final size:20
Alignment explanation
Indices: 13463616--13463653 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13463606 CTATATAATC
13463616 TTTATG-TCT-TGATTTACT
1 TTTATGCTCTGTGATTTACT
*
13463634 TTTATGCTTTGTGATTTACT
1 TTTATGCTCTGTGATTTACT
13463654 ATTGAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.61
Consensus pattern (20 bp):
TTTATGCTCTGTGATTTACT
Found at i:13465075 original size:40 final size:40
Alignment explanation
Indices: 13465031--13465108 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
13465021 TGTGAAAGAT
* *
13465031 ACCAATAGTGGCAATGTTGAAAACCCCACTAAGGTGAATC
1 ACCAATAGTAGCAAGGTTGAAAACCCCACTAAGGTGAATC
**
13465071 ACCAATTTTAGCAAGGTTGAAAACCCCACTAAGGTGAA
1 ACCAATAGTAGCAAGGTTGAAAACCCCACTAAGGTGAA
13465109 AATAATATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
ACCAATAGTAGCAAGGTTGAAAACCCCACTAAGGTGAATC
Found at i:13467506 original size:15 final size:16
Alignment explanation
Indices: 13467475--13467513 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13467465 AATAAACTCC
*
13467475 AAAATAAACTAAAATT
1 AAAAAAAACTAAAATT
13467491 AAAAAAAACT-AAATT
1 AAAAAAAACTAAAATT
13467506 AAATAAAA
1 AAA-AAAA
13467514 TACAATCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAAACTAAAATT
Found at i:13468381 original size:52 final size:54
Alignment explanation
Indices: 13468225--13468474 Score: 226
Period size: 55 Copynumber: 4.6 Consensus size: 54
13468215 TTTTATATTG
* * *
13468225 AAATCTTTTTTTGAGTTTTCCCACCACTTTGGTGAAAACTAAGAAATTTGGTTTAG
1 AAATCTTTTCTTGAGTTTTCCCACCACTTTGGTGAAAACCAAGAAATTT--TTTAA
* * * * *
13468281 AAA-CTTTTCTTGAGTTTTCCCACCACTCTAG-CAAAA--AATAGAACTTTTTAA
1 AAATCTTTTCTTGAGTTTTCCCACCACTTTGGTGAAAACCAAGA-AATTTTTTAA
13468332 AAATCTTTTCTTGAGTTTTCCCACCACTTTGGTGAAAACCAAG-AATTTTTTCAA
1 AAATCTTTTCTTGAGTTTTCCCACCACTTTGGTGAAAACCAAGAAATTTTTT-AA
* * * * * *
13468386 AACAT-TTTACTGGAATTTTAATCCCAACACTTTGGTGAAAATCAAGAATATTTTTTAG
1 AA-ATCTTTTCTTG-AGTTT--TCCCACCACTTTGGTGAAAACCAAGAA-ATTTTTTAA
* *
13468444 AAA-CTTTTCTTGAGTTTTACCAACACTTTGG
1 AAATCTTTTCTTGAGTTTTCCCACCACTTTGG
13468475 CAAAATCAAT
Statistics
Matches: 159, Mismatches: 22, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
51 7 0.04
52 29 0.18
53 15 0.09
54 27 0.17
55 33 0.21
56 7 0.04
57 30 0.19
58 4 0.03
59 7 0.04
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (54 bp):
AAATCTTTTCTTGAGTTTTCCCACCACTTTGGTGAAAACCAAGAAATTTTTTAA
Found at i:13468547 original size:9 final size:9
Alignment explanation
Indices: 13468528--13468581 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
13468518 ACTAAAAATG
13468528 AAAATAGAAA
1 AAAATA-AAA
*
13468538 AAAAGAAAA
1 AAAATAAAA
*
13468547 AAATTAAAA
1 AAAATAAAA
13468556 AAACATAAAA
1 AAA-ATAAAA
*
13468566 AAAATCAAAT
1 AAAAT-AAAA
13468576 AAAATA
1 AAAATA
13468582 GTCCAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 16 0.43
10 21 0.57
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.13
Consensus pattern (9 bp):
AAAATAAAA
Found at i:13471503 original size:25 final size:25
Alignment explanation
Indices: 13471475--13471525 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13471465 TGTGAATTTT
* *
13471475 TGACACTTGAAGTTGTTAATACAAG
1 TGACACCTGAAGTTGTCAATACAAG
*
13471500 TGACACCTGAAGTTGTCAATATAAG
1 TGACACCTGAAGTTGTCAATACAAG
13471525 T
1 T
13471526 ACAAATGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (25 bp):
TGACACCTGAAGTTGTCAATACAAG
Found at i:13473239 original size:18 final size:18
Alignment explanation
Indices: 13473216--13473274 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
13473206 ATCTGCTCCA
13473216 AAAGAGCCCATTGCCCCT
1 AAAGAGCCCATTGCCCCT
* * *
13473234 AAAGAGGCACAAATTGCTCCA
1 AAAGA-GC-C-CATTGCCCCT
13473255 AAAGAGCCCATTGCCCCT
1 AAAGAGCCCATTGCCCCT
13473273 AA
1 AA
13473275 CGAGGCACGA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 14 0.44
19 3 0.09
20 3 0.09
21 12 0.38
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (18 bp):
AAAGAGCCCATTGCCCCT
Found at i:13473258 original size:21 final size:19
Alignment explanation
Indices: 13473209--13473299 Score: 60
Period size: 21 Copynumber: 4.7 Consensus size: 19
13473199 ATCACGAATC
*
13473209 TGCTCCAAAAGA-GCCCAT
1 TGCTCCAAAAGAGGCCAAT
* *
13473227 TGCCCCTAAAGAGGCACAAAT
1 TGCTCCAAAAGAGGC-C-AAT
*
13473248 TGCTCCAAAAGA-GCCCAT
1 TGCTCCAAAAGAGGCCAAT
* * *
13473266 TGCCCCTAACGAGGCACGAAT
1 TGCTCCAAAAGAGGC-C-AAT
*
13473287 TGCTCCAGAAGAG
1 TGCTCCAAAAGAG
13473300 CTTATTGCTC
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
18 21 0.40
19 5 0.09
20 4 0.08
21 23 0.43
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (19 bp):
TGCTCCAAAAGAGGCCAAT
Found at i:13473263 original size:39 final size:39
Alignment explanation
Indices: 13473209--13473324 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
13473199 ATCACGAATC
13473209 TGCTCCAAAAGAGCCCATTGCCCCTAAAGAGGCACAAAT
1 TGCTCCAAAAGAGCCCATTGCCCCTAAAGAGGCACAAAT
* *
13473248 TGCTCCAAAAGAGCCCATTGCCCCTAACGAGGCACGAAT
1 TGCTCCAAAAGAGCCCATTGCCCCTAAAGAGGCACAAAT
* ** * *
13473287 TGCTCCAGAAGAGCTTATTGCTCTTAAAGAGGCACAAA
1 TGCTCCAAAAGAGCCCATTGCCCCTAAAGAGGCACAAA
13473325 CCCATGAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (39 bp):
TGCTCCAAAAGAGCCCATTGCCCCTAAAGAGGCACAAAT
Found at i:13475667 original size:12 final size:12
Alignment explanation
Indices: 13475633--13475670 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
13475623 AAGCTTTTTT
*
13475633 TCTCAATTCTCC
1 TCTCAATTCTTC
*
13475645 TCTAAATTCTTC
1 TCTCAATTCTTC
13475657 TCTCAATTCTTC
1 TCTCAATTCTTC
13475669 TC
1 TC
13475671 GTACTATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.47
Consensus pattern (12 bp):
TCTCAATTCTTC
Found at i:13481522 original size:2 final size:2
Alignment explanation
Indices: 13481515--13481558 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
13481505 TATTCACTAC
* * * *
13481515 AT AT AT AT AT AT AT AT AT AT AT AT AC GT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13481557 AT
1 AT
13481559 TTTAGCGTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13483889 original size:63 final size:63
Alignment explanation
Indices: 13483784--13483909 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 63
13483774 GTGAGATTGG
13483784 TGCATTTTGATTGTTGTTATAAGAGTTTGTCTATTTTATGACAACATGCAACATT-TTAAACAT
1 TGCATTTTGATTGTTGTTATAAGAGTTTGTCTATTTTATGACAACATGCAAC-TTCTTAAACAT
** * * * *
13483847 TGCATTTTGATTGCTT-TTATTGGAGTTTGTCTGTTTTGTGACAATATGCGACTTCTTAAACAT
1 TGCATTTTGATTG-TTGTTATAAGAGTTTGTCTATTTTATGACAACATGCAACTTCTTAAACAT
13483910 ATAAGTCTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 2 0.04
63 51 0.93
64 2 0.04
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (63 bp):
TGCATTTTGATTGTTGTTATAAGAGTTTGTCTATTTTATGACAACATGCAACTTCTTAAACAT
Found at i:13485368 original size:196 final size:196
Alignment explanation
Indices: 13485011--13485379 Score: 546
Period size: 196 Copynumber: 1.9 Consensus size: 196
13485001 TAATCTGATT
* ** *
13485011 AAGCTTAATATTTTCTATTTCTCTTAAACGTTATTTGACTTAGCATAATTTTTCTTGATTCCTTT
1 AAGCTTAATATTTCCTATTTCTCTTAAACGTTATTTGACTTAGCATAATTTTTCTCAATTCCTTC
* *
13485076 TGATTTTTCGTGGATTTTATACTGATATTTTGTAATGTTAACTTTCTGCTCCAGCCTATGAATAC
66 TGATTTTTCATGGATTTTATACTGATATTTTGTAATGTTAACTTTCTGCTCCAGCCTATAAATAC
*
13485141 AGCCTCTCTACCTCAGTCACAATACACCAATAGTTTTCTCATCTCTTCTATATTGTTAATATGAC
131 AGCCTCTCTACCTCAGTCACAATACACCAATAGTTCTCTCATCTCTTCTATATTGTTAATATGAC
13485206 A
196 A
* *
13485207 AAGCTTGATATTTCCT-TATTCTTTTAAACGTTATTTGACTTAGCATAATTTTTCTCAATT-CTC
1 AAGCTTAATATTTCCTAT-TTCTCTTAAACGTTATTTGACTTAGCATAATTTTTCTCAATTCCT-
* * ***
13485270 TCTGATTTTTCATTGATTTTATACTTATATTTTGTAATGTTAACTTTCTG-TTTTGACCTATAAA
64 TCTGATTTTTCATGGATTTTATACTGATATTTTGTAATGTTAACTTTCTGCTCCAG-CCTATAAA
* *
13485334 TATAGCCTTTCTACCTCAGTCACAATACACCAATAGTTCTCTCATC
128 TACAGCCTCTCTACCTCAGTCACAATACACCAATAGTTCTCTCATC
13485380 GCCTTTAAAG
Statistics
Matches: 154, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
195 5 0.03
196 149 0.97
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (196 bp):
AAGCTTAATATTTCCTATTTCTCTTAAACGTTATTTGACTTAGCATAATTTTTCTCAATTCCTTC
TGATTTTTCATGGATTTTATACTGATATTTTGTAATGTTAACTTTCTGCTCCAGCCTATAAATAC
AGCCTCTCTACCTCAGTCACAATACACCAATAGTTCTCTCATCTCTTCTATATTGTTAATATGAC
A
Found at i:13488738 original size:164 final size:164
Alignment explanation
Indices: 13488467--13488795 Score: 534
Period size: 164 Copynumber: 2.0 Consensus size: 164
13488457 CCTGGGCACG
* * * *
13488467 AATATACATGTGGGCTAGGCCTAAGCATAATTTTGTACTTTGGCATATAATTTTATTTTTCCTCA
1 AATATACACGTGGGCTAGGCCCAAGCATAATTTTGTACTTTGACATATAATTTTATATTTCCTCA
* *
13488532 ACCTTTAGTAGTTAAAACAGTCTTAATGACTGAGTTTGTTAACCTTATCTGACTTAGTCTTATTT
66 ACCTTTAGTAGTTAAAACAATCTTAATGACTGAGTCTGTTAACCTTATCTGACTTAGTCTTATTT
*
13488597 TCTATATTTTATCGTTAATCTAACTAAT-CTTGAT
131 TCTAGATTTTATCGTTAATCTAACT-ATGCTTGAT
* *
13488631 AATATACACGTGGGCTAGGCCCAAGTATAATTTTGTACTTTGACATATACTTTTATATTTCCTCA
1 AATATACACGTGGGCTAGGCCCAAGCATAATTTTGTACTTTGACATATAATTTTATATTTCCTCA
*
13488696 ACCTTTAGTAGTTGAAACAATCTTAATGACTGAGTCTGTTAACCTTATCTGACTTAGTCTTATTT
66 ACCTTTAGTAGTTAAAACAATCTTAATGACTGAGTCTGTTAACCTTATCTGACTTAGTCTTATTT
* *
13488761 TTTAGATTTTATCGTTAGTCTAACTATGCTTGAT
131 TCTAGATTTTATCGTTAATCTAACTATGCTTGAT
13488795 A
1 A
13488796 TTTCCTTATT
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 2 0.01
164 150 0.99
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (164 bp):
AATATACACGTGGGCTAGGCCCAAGCATAATTTTGTACTTTGACATATAATTTTATATTTCCTCA
ACCTTTAGTAGTTAAAACAATCTTAATGACTGAGTCTGTTAACCTTATCTGACTTAGTCTTATTT
TCTAGATTTTATCGTTAATCTAACTATGCTTGAT
Found at i:13490024 original size:20 final size:20
Alignment explanation
Indices: 13489969--13490024 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
13489959 TGCTAGCAAA
*
13489969 AACATCATCAACACAATAAC
1 AACATCATAAACACAATAAC
*
13489989 AATA-C-TAAACATACAATAAC
1 AACATCATAAAC--ACAATAAC
*
13490009 AACATCATTAACACAA
1 AACATCATAAACACAA
13490025 CTAGGAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
18 4 0.14
19 1 0.04
20 18 0.64
21 1 0.04
22 4 0.14
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (20 bp):
AACATCATAAACACAATAAC
Found at i:13490496 original size:27 final size:28
Alignment explanation
Indices: 13490466--13490527 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
13490456 TTTTTAATAT
13490466 ATTTTTAATTA-AA-TATATATATTT-TTC
1 ATTTTT-ATTACAAGTATATAT-TTTATTC
*
13490493 ATTTCTTATTACAAGTATATATTTTATTT
1 ATTT-TTATTACAAGTATATATTTTATTC
13490522 ATTTTT
1 ATTTTT
13490528 TAATATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 8 0.27
28 9 0.30
29 13 0.43
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTTATTACAAGTATATATTTTATTC
Found at i:13494291 original size:72 final size:72
Alignment explanation
Indices: 13494174--13494337 Score: 256
Period size: 72 Copynumber: 2.3 Consensus size: 72
13494164 TGTTTTCATT
* * * * *
13494174 ATGTACAGAAACATGTGACATGCCATGTCAAGGAACATGTTACACGTCATGTACAAAAACATGTG
1 ATGTACAAAAACATGTGACACGCCATGTAAAGGAACATGTGACACGTCATATACAAAAACATGTG
*
13494239 ACACGTC
66 ACACGCC
*
13494246 ATGTACAAAAACATGTGACACGCCATGTAAAGGAACATGTGACACGTCATATACAGAAACATGTG
1 ATGTACAAAAACATGTGACACGCCATGTAAAGGAACATGTGACACGTCATATACAAAAACATGTG
13494311 ACACGCC
66 ACACGCC
*
13494318 ATGTACAAAAATATGTGACA
1 ATGTACAAAAACATGTGACA
13494338 AGTCATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (72 bp):
ATGTACAAAAACATGTGACACGCCATGTAAAGGAACATGTGACACGTCATATACAAAAACATGTG
ACACGCC
Found at i:13494344 original size:24 final size:24
Alignment explanation
Indices: 13494174--13494344 Score: 202
Period size: 24 Copynumber: 7.1 Consensus size: 24
13494164 TGTTTTCATT
* * *
13494174 ATGTACAGAAACATGTGACATGCC
1 ATGTACAAAAACATGTGACACGTC
* *
13494198 ATGT-CAAGGAACATGTTACACGTC
1 ATGTACAA-AAACATGTGACACGTC
13494222 ATGTACAAAAACATGTGACACGTC
1 ATGTACAAAAACATGTGACACGTC
*
13494246 ATGTACAAAAACATGTGACACGCC
1 ATGTACAAAAACATGTGACACGTC
*
13494270 ATGTA-AAGGAACATGTGACACGTC
1 ATGTACAA-AAACATGTGACACGTC
* * *
13494294 ATATACAGAAACATGTGACACGCC
1 ATGTACAAAAACATGTGACACGTC
* *
13494318 ATGTACAAAAATATGTGACAAGTC
1 ATGTACAAAAACATGTGACACGTC
13494342 ATG
1 ATG
13494345 ATTAGGTTGT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
23 4 0.03
24 116 0.94
25 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (24 bp):
ATGTACAAAAACATGTGACACGTC
Found at i:13494438 original size:26 final size:25
Alignment explanation
Indices: 13494381--13494456 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
13494371 AAAAAATACT
*
13494381 GTTATTACACGCCATGTATAAAAACA
1 GTTATTACACGCCATGT-TAAAAAAA
*
13494407 --TGTTACACGCCATAGTTAAAAAAA
1 GTTATTACACGCCAT-GTTAAAAAAA
*
13494431 GTTATTACACGCAATGTTGAAAAAAA
1 GTTATTACACGCCATGTT-AAAAAAA
13494457 AATATTGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 19 0.45
25 5 0.12
26 18 0.43
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (25 bp):
GTTATTACACGCCATGTTAAAAAAA
Found at i:13494462 original size:26 final size:25
Alignment explanation
Indices: 13494383--13494462 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 25
13494373 AAAATACTGT
* *
13494383 TATTACACGCCATG-TATAAAAACA
1 TATTACACGCCATGTTAAAAAAAAA
* **
13494407 TGTTACACGCCATAGTTAAAAAAAGT
1 TATTACACGCCAT-GTTAAAAAAAAA
*
13494433 TATTACACGCAATGTTGAAAAAAAAA
1 TATTACACGCCATGTT-AAAAAAAAA
13494459 TATT
1 TATT
13494463 GTTGTTACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 12 0.27
25 4 0.09
26 29 0.64
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (25 bp):
TATTACACGCCATGTTAAAAAAAAA
Found at i:13494480 original size:32 final size:29
Alignment explanation
Indices: 13494407--13494529 Score: 100
Period size: 29 Copynumber: 4.3 Consensus size: 29
13494397 TATAAAAACA
*
13494407 TGTTACACGCCATAGTT-AAAAAA-A--GT
1 TGTTACACGCAAT-GTTGAAAAAATATTGT
*
13494433 TATTACACGCAATGTTGAAAAAAAAATATTGT
1 TGTTACACGCAATGTTG---AAAAAATATTGT
* *
13494465 TGTTACATGCCATGTTGAAAAAATATTGT
1 TGTTACACGCAATGTTGAAAAAATATTGT
13494494 TGTTACACGACATAT-TT--AAAAATATT-T
1 TGTTACACG-CA-ATGTTGAAAAAATATTGT
13494521 TGTTACACG
1 TGTTACACG
13494530 TTAATGCTAG
Statistics
Matches: 81, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
25 3 0.04
26 11 0.14
27 10 0.12
28 9 0.11
29 26 0.32
30 4 0.05
31 2 0.02
32 16 0.20
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (29 bp):
TGTTACACGCAATGTTGAAAAAATATTGT
Found at i:13494523 original size:27 final size:29
Alignment explanation
Indices: 13494453--13494529 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
13494443 AATGTTGAAA
* * *
13494453 AAAAAATATTGTTGTTACATGCCATGTTG
1 AAAAAATATTGTTGTTACACGACATATTG
13494482 AAAAAATATTGTTGTTACACGACATATT-
1 AAAAAATATTGTTGTTACACGACATATTG
*
13494510 TAAAAATATT-TTGTTACACG
1 AAAAAATATTGTTGTTACACG
13494530 TTAATGCTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.23
28 9 0.20
29 25 0.57
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (29 bp):
AAAAAATATTGTTGTTACACGACATATTG
Found at i:13494634 original size:17 final size:17
Alignment explanation
Indices: 13494612--13494644 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13494602 CTTTCAGCAT
13494612 TTCTAATTGGATAGAAG
1 TTCTAATTGGATAGAAG
13494629 TTCTAATTGGATAGAA
1 TTCTAATTGGATAGAA
13494645 CTTGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
TTCTAATTGGATAGAAG
Found at i:13503614 original size:117 final size:117
Alignment explanation
Indices: 13503408--13503646 Score: 415
Period size: 117 Copynumber: 2.0 Consensus size: 117
13503398 TAGCTTTATT
* *
13503408 CATGTCTAGAATGATTCCTCCATGTAAATCCTCGACCCCAGTAAGTAATTCAACTTGTTGAACTT
1 CATGTCTAGAATGATTCCCCCATGTAAATCCTCGACCCCAGTAAGTAATTCAACCTGTTGAACTT
*
13503473 CATTTTCTGCTACCATCTGCTTTTCAATTGCTACTGCACTTGTTGAAGTCGA
66 CATTTTCAGCTACCATCTGCTTTTCAATTGCTACTGCACTTGTTGAAGTCGA
* * *
13503525 CATGTCTAGAATGATTCCCCCATGTAATTCCTCGGCCCCAGTATGTAATTCAACCTGTTGAACTT
1 CATGTCTAGAATGATTCCCCCATGTAAATCCTCGACCCCAGTAAGTAATTCAACCTGTTGAACTT
*
13503590 CATTTTCAGGTACCATCTGCTTTTCAATTGCTACTGCACTTGTTGAAGTCGA
66 CATTTTCAGCTACCATCTGCTTTTCAATTGCTACTGCACTTGTTGAAGTCGA
13503642 CATGT
1 CATGT
13503647 ATCTGACAGA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (117 bp):
CATGTCTAGAATGATTCCCCCATGTAAATCCTCGACCCCAGTAAGTAATTCAACCTGTTGAACTT
CATTTTCAGCTACCATCTGCTTTTCAATTGCTACTGCACTTGTTGAAGTCGA
Found at i:13504983 original size:23 final size:23
Alignment explanation
Indices: 13504927--13505145 Score: 250
Period size: 23 Copynumber: 9.7 Consensus size: 23
13504917 ATGTGTTAGC
13504927 ACATGGCGTGTAACATTTTTATTGA
1 ACATGGCGTGTAACA-TTTT-TTGA
* *
13504952 ACATGGCGTGTAACATGTTGTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
13504975 ACATAGCGTGTAACA-ATTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
13504997 AC-TTGCGTGTCACA-TTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
13505018 ACATGGCGTGTAACATTTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
13505041 AC-TTGCATGTAACA-TTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
13505062 ACATGGCGTGCAACATTTTTTAA
1 ACATGGCGTGTAACATTTTTTGA
* * *
13505085 ACATGACGTGTAACTTTTTTTAA
1 ACATGGCGTGTAACATTTTTTGA
*
13505108 ACATAGCGTGTAACATTTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
*
13505131 AAATGGCGTGTAACA
1 ACATGGCGTGTAACA
13505146 ACATGACTGA
Statistics
Matches: 165, Mismatches: 25, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
21 27 0.16
22 36 0.22
23 84 0.51
24 3 0.02
25 15 0.09
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (23 bp):
ACATGGCGTGTAACATTTTTTGA
Found at i:13505040 original size:44 final size:44
Alignment explanation
Indices: 13504927--13505145 Score: 242
Period size: 44 Copynumber: 4.8 Consensus size: 44
13504917 ATGTGTTAGC
* *
13504927 ACATGGCGTGTAACATTTTTATTGAACATGGCGTGTAACATGTTGTGA
1 ACATGGCGTGTAACA-TTTT-TTGAAC-TTGCGTGTAACAT-TTTTGA
* * *
13504975 ACATAGCGTGTAACA-ATTTTGAACTTGCGTGTCACATTTTTGA
1 ACATGGCGTGTAACATTTTTTGAACTTGCGTGTAACATTTTTGA
*
13505018 ACATGGCGTGTAACATTTTTTGAACTTGCATGTAACATTTTTGA
1 ACATGGCGTGTAACATTTTTTGAACTTGCGTGTAACATTTTTGA
* * * * *
13505062 ACATGGCGTGCAACATTTTTTAAACATGACGTGTAACTTTTTTTAA
1 ACATGGCGTGTAACATTTTTTGAACTTG-CGTGTAAC-ATTTTTGA
* * *
13505108 ACATAGCGTGTAACATTTTTTGAAAATGGCGTGTAACA
1 ACATGGCGTGTAACATTTTTTG-AACTTGCGTGTAACA
13505146 ACATGACTGA
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
43 19 0.13
44 61 0.42
45 13 0.09
46 35 0.24
47 3 0.02
48 14 0.10
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (44 bp):
ACATGGCGTGTAACATTTTTTGAACTTGCGTGTAACATTTTTGA
Found at i:13511355 original size:21 final size:21
Alignment explanation
Indices: 13511325--13511370 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13511315 ATGAAGTTGG
* *
13511325 AGATGGAGAACGTTTCAATAA
1 AGATGAAGAACGTTTAAATAA
* *
13511346 AGATGAAGAAGGTTTAAATGA
1 AGATGAAGAACGTTTAAATAA
13511367 AGAT
1 AGAT
13511371 TATTTTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.24
Consensus pattern (21 bp):
AGATGAAGAACGTTTAAATAA
Found at i:13511643 original size:42 final size:42
Alignment explanation
Indices: 13511584--13511682 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
13511574 CTAAAGCTGC
* *
13511584 TGGAGGCCCATTGAAAGTTGTTGGCGGCCCATCTGAAGTTGT
1 TGGAGGCCAATTTAAAGTTGTTGGCGGCCCATCTGAAGTTGT
*
13511626 TGGAGGCCAATTTAAAGTTGTTGGTGGCCCATCTGAAGTTGT
1 TGGAGGCCAATTTAAAGTTGTTGGCGGCCCATCTGAAGTTGT
13511668 TGGAGGCCAATTTAA
1 TGGAGGCCAATTTAA
13511683 TGCTGCTAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (42 bp):
TGGAGGCCAATTTAAAGTTGTTGGCGGCCCATCTGAAGTTGT
Found at i:13511695 original size:42 final size:42
Alignment explanation
Indices: 13511609--13511733 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 42
13511599 AGTTGTTGGC
* * *
13511609 GGCCCATCTGAAGTTGTTGGAGGCCAATTTAAAGTTGTTGGT
1 GGCCCATCTGAAGTTGTTGGAGGCCAATTTAAAGCTGCTAGT
*
13511651 GGCCCATCTGAAGTTGTTGGAGGCCAATTTAATGCTGCTAGT
1 GGCCCATCTGAAGTTGTTGGAGGCCAATTTAAAGCTGCTAGT
** * * * *
13511693 GGCCTTTGTGAAGTTGTTGGAGGCCCATCTGAAGCTGCTAG
1 GGCCCATCTGAAGTTGTTGGAGGCCAATTTAAAGCTGCTAG
13511734 AAATGATGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (42 bp):
GGCCCATCTGAAGTTGTTGGAGGCCAATTTAAAGCTGCTAGT
Found at i:13511725 original size:21 final size:21
Alignment explanation
Indices: 13511584--13511726 Score: 128
Period size: 21 Copynumber: 6.8 Consensus size: 21
13511574 CTAAAGCTGC
13511584 TGGAGGCCCAT-TGAAAGTTGT
1 TGGAGGCCCATCTG-AAGTTGT
*
13511605 TGGCGGCCCATCTGAAGTTGT
1 TGGAGGCCCATCTGAAGTTGT
* * *
13511626 TGGAGGCCAATTTAAAGTTGT
1 TGGAGGCCCATCTGAAGTTGT
*
13511647 TGGTGGCCCATCTGAAGTTGT
1 TGGAGGCCCATCTGAAGTTGT
* * * *
13511668 TGGAGGCCAAT-TTAATGCTGC
1 TGGAGGCCCATCTGAA-GTTGT
* * ** *
13511689 TAGTGGCCTTTGTGAAGTTGT
1 TGGAGGCCCATCTGAAGTTGT
13511710 TGGAGGCCCATCTGAAG
1 TGGAGGCCCATCTGAAG
13511727 CTGCTAGAAA
Statistics
Matches: 93, Mismatches: 26, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
20 3 0.03
21 85 0.91
22 5 0.05
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (21 bp):
TGGAGGCCCATCTGAAGTTGT
Found at i:13514929 original size:107 final size:107
Alignment explanation
Indices: 13514739--13515017 Score: 346
Period size: 107 Copynumber: 2.6 Consensus size: 107
13514729 CACATGCTAT
* * * * *
13514739 AATTGTTAGATGTGGATGACATCTTATGGTGACACGTTGAGTGGAAGCAGATTTATAGGGTGACA
1 AATTGTTAGATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAGCAGATTTATAGGGTAACA
* * ** * *
13514804 CGCTAACTTGTTGTAGTATTGTGGGGTGACACACCATACCCC
66 CACTAACTTATTACAGTATTGTGGGATGACACACCACACCCC
* * * *
13514846 AATTGTTAGATGTTGATGACATTTTGTGGTGACACGCTAAATGGTAGCAGATTTAT-GGCGTAAC
1 AATTGTTAGATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAGCAGATTTATAGG-GTAAC
** *
13514910 ACACTAACTTATTACAGTATTGTGGGATGACACGTCACGCCCC
65 ACACTAACTTATTACAGTATTGTGGGATGACACACCACACCCC
* * *
13514953 AATTGTCA-ATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAACAGATTTATAGGGTGACA
1 AATTGTTAGATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAGCAGATTTATAGGGTAACA
13515017 C
66 C
13515018 GCTGAGTGAC
Statistics
Matches: 146, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
106 50 0.34
107 96 0.66
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (107 bp):
AATTGTTAGATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAGCAGATTTATAGGGTAACA
CACTAACTTATTACAGTATTGTGGGATGACACACCACACCCC
Found at i:13515014 original size:31 final size:31
Alignment explanation
Indices: 13514979--13515053 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
13514969 GACATCTTAT
**
13514979 GGTGACACGCTAAGTGGTAACAGATTTATAG
1 GGTGACACGCTAAGTGACAACAGATTTATAG
* **
13515010 GGTGACACGCTGAGTGACAGTAGATTTATAG
1 GGTGACACGCTAAGTGACAACAGATTTATAG
*
13515041 CGTGACACGCTAA
1 GGTGACACGCTAA
13515054 CTTGTTGGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (31 bp):
GGTGACACGCTAAGTGACAACAGATTTATAG
Found at i:13515160 original size:138 final size:138
Alignment explanation
Indices: 13514894--13515298 Score: 546
Period size: 138 Copynumber: 2.9 Consensus size: 138
13514884 AAATGGTAGC
* * * ** * * *
13514894 AGATTTATGGCGTAACACACTAACTTATTACAGTATTGTGGGATGACACGTCACGCCCCAATTGT
1 AGATTTATGGCGTGACACGCTAACTTGTTGGAGTATTATGGGGTGACACGCCACGCCCCAATTGT
* * *
13514959 CA-ATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAACAGATTTATAGGGTGACACGCTGA
66 CAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGTAGCAGATTTATAGGGTGACACGCTGA
13515023 GTGACAGT
131 GTGACAGT
*
13515031 AGATTTATAGCGTGACACGCTAACTTGTTGGAGTATTATGGGGTGACACGCCACGCCCCAATTGT
1 AGATTTATGGCGTGACACGCTAACTTGTTGGAGTATTATGGGGTGACACGCCACGCCCCAATTGT
* * * * *
13515096 CAGATGTCAATGACATCTTGTGGTGACACACTGAGTGGTAGTAGATTTATCA-TGTGACATGCTG
66 CAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGTAGCAGATTTAT-AGGGTGACACGCTG
**
13515160 AGTGGTAGT
130 AGTGACAGT
* *
13515169 AGATTTATGGCGTGACACGCTGACTTGTTGGAGTATTGA-GGGGTGACATGCCACGCCCCAATTG
1 AGATTTATGGCGTGACACGCTAACTTGTTGGAGTATT-ATGGGGTGACACGCCACGCCCCAATTG
* * * *
13515233 TTAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGAAGCAGATTTATAGAGTGACACCCTG
65 TCAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGTAGCAGATTTATAGGGTGACACGCTG
13515298 A
130 A
13515299 CTTGTTGCAA
Statistics
Matches: 234, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
137 59 0.25
138 173 0.74
139 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (138 bp):
AGATTTATGGCGTGACACGCTAACTTGTTGGAGTATTATGGGGTGACACGCCACGCCCCAATTGT
CAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGTAGCAGATTTATAGGGTGACACGCTGA
GTGACAGT
Found at i:13515184 original size:31 final size:31
Alignment explanation
Indices: 13515118--13515191 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
13515108 ACATCTTGTG
* *
13515118 GTGACACACTGAGTGGTAGTAGATTTATCAT
1 GTGACACGCTGAGTGGTAGTAGATTTATCAC
* **
13515149 GTGACATGCTGAGTGGTAGTAGATTTATGGC
1 GTGACACGCTGAGTGGTAGTAGATTTATCAC
13515180 GTGACACGCTGA
1 GTGACACGCTGA
13515192 CTTGTTGGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (31 bp):
GTGACACGCTGAGTGGTAGTAGATTTATCAC
Found at i:13515322 original size:138 final size:137
Alignment explanation
Indices: 13514874--13515326 Score: 495
Period size: 138 Copynumber: 3.3 Consensus size: 137
13514864 ACATTTTGTG
* * * * * * * ** * *
13514874 GTGACACGCTAAATGGTAGCAGATTTATGGCGTAACACACTAACTTATTACAGTATTGTGGGATG
1 GTGACACGCT-GATTGTAGTAGATTTAAGGCGTGACACGCTAACTTGTTGGAGTATTGAGGGGTG
* * *
13514939 ACACGTCACGCCCCAATTGTCA-ATGTCGATGACATCTTATGGTGACACGCTAAGTGGTAA-CAG
65 ACACGCCACGCCCCAATTGTCAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGG-AAGCAG
*
13515002 ATTTATAGG
129 ATTTATAGA
* *
13515011 GTGACACGCTGAGTGACAGTAGATTTATA-GCGTGACACGCTAACTTGTTGGAGTATT-ATGGGG
1 GTGACACGCTGATTG-TAGTAGATTTA-AGGCGTGACACGCTAACTTGTTGGAGTATTGA-GGGG
* * * *
13515074 TGACACGCCACGCCCCAATTGTCAGATGTCAATGACATCTTGTGGTGACACACTGAGTGGTAGTA
63 TGACACGCCACGCCCCAATTGTCAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGAAGCA
*
13515139 GATTTATCA-T
128 GATTTAT-AGA
* * * *
13515149 GTGACATGCTGAGTGGTAGTAGATTTATGGCGTGACACGCTGACTTGTTGGAGTATTGAGGGGTG
1 GTGACACGCTGA-TTGTAGTAGATTTAAGGCGTGACACGCTAACTTGTTGGAGTATTGAGGGGTG
* *
13515214 ACATGCCACGCCCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGAAGCAGA
65 ACACGCCACGCCCCAATTGTCAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGAAGCAGA
13515279 TTTATAGA
130 TTTATAGA
* * * *
13515287 GTGACACCCTGACTTGTTGCA-ATATTAAGGGGTGACACGC
1 GTGACACGCTGA-TTGTAGTAGAT-TTAAGGCGTGACACGC
13515327 CATGCCCCAA
Statistics
Matches: 263, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
136 2 0.01
137 72 0.27
138 186 0.71
139 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (137 bp):
GTGACACGCTGATTGTAGTAGATTTAAGGCGTGACACGCTAACTTGTTGGAGTATTGAGGGGTGA
CACGCCACGCCCCAATTGTCAGATGTCGATGACATCTTGTGGTGACACGCTGAGTGGAAGCAGAT
TTATAGA
Found at i:13518087 original size:8 final size:8
Alignment explanation
Indices: 13518062--13518121 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
13518052 CAAAAAAATA
13518062 AATAATTTT
1 AATAA-TTT
13518071 AATTAATTT
1 AA-TAATTT
13518080 AATAATTT
1 AATAATTT
*
13518088 TATATATTT
1 AATA-ATTT
* *
13518097 AATTATAT
1 AATAATTT
13518105 AAT-A-TT
1 AATAATTT
13518111 AATAATTT
1 AATAATTT
13518119 AAT
1 AAT
13518122 TATCAATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 20 0.48
9 13 0.31
10 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATAATTT
Found at i:13518098 original size:22 final size:22
Alignment explanation
Indices: 13518073--13518134 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 22
13518063 ATAATTTTAA
*
13518073 TTAATTTAATAAT-TTTATATAT
1 TTAATTTAATAATATTAATA-AT
13518095 TTAA-TTATATAATATTAATAAT
1 TTAATTTA-ATAATATTAATAAT
13518117 TTAATTATCAATAATATT
1 TTAATT-T-AATAATATT
13518135 GTTTATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 3 0.09
22 15 0.44
23 6 0.18
24 9 0.26
25 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTTAATAATATTAATAAT
Found at i:13518116 original size:17 final size:17
Alignment explanation
Indices: 13518074--13518117 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
13518064 TAATTTTAAT
*
13518074 TAAT-TTAATAATTTTA
1 TAATATTAATAATTATA
13518090 T-ATATT--TAATTATA
1 TAATATTAATAATTATA
13518104 TAATATTAATAATT
1 TAATATTAATAATT
13518118 TAATTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 8 0.35
15 7 0.30
16 3 0.13
17 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATATTAATAATTATA
Found at i:13518252 original size:24 final size:25
Alignment explanation
Indices: 13518181--13518261 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 25
13518171 TTAGCAAATT
*
13518181 AATAATTTTAATTTATAAATTAAATCATAA
1 AATAATTTT-A-TTATAAA-AAAAT-A-AA
**
13518211 AATAATTTTATTATAAAATTATAAA
1 AATAATTTTATTATAAAAAAATAAA
13518236 AATAATTTT-TT-TGAAAAAAATAAA
1 AATAATTTTATTAT-AAAAAAATAAA
13518260 AA
1 AA
13518262 AAGGGCTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
23 1 0.02
24 13 0.29
25 11 0.24
26 1 0.02
27 2 0.04
28 7 0.16
29 1 0.02
30 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
AATAATTTTATTATAAAAAAATAAA
Found at i:13518253 original size:25 final size:24
Alignment explanation
Indices: 13518181--13518261 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 24
13518171 TTAGCAAATT
13518181 AATAATTTTAATTTATAAATTAAATCATAA
1 AATAATTTT-A-TTATAAA--AAAT-A-AA
*
13518211 AATAATTTTATTATAAAATTATAAA
1 AATAATTTTATTATAAAA-AATAAA
*
13518236 AATAATTTTTTTGA-AAAAAATAAA
1 AATAATTTTATT-ATAAAAAATAAA
13518260 AA
1 AA
13518262 AAGGGCTAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 7 0.15
25 17 0.37
26 3 0.07
27 2 0.04
28 7 0.15
29 1 0.02
30 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
AATAATTTTATTATAAAAAATAAA
Found at i:13518605 original size:31 final size:31
Alignment explanation
Indices: 13518567--13518794 Score: 348
Period size: 31 Copynumber: 7.4 Consensus size: 31
13518557 AAAGAAATAT
**
13518567 ATGTTGTTACACACCATGCATATCAAGTAAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
* *
13518598 ATGTTGTTACACGCCATGCATACCAAGTAAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
13518629 ATGTTGTTACACGTCATGCATATCAAGTAAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
* * *
13518660 ATGTTGTTACACGCCATGCATACCAAGCAAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
* *
13518691 ATTTTGTTACACGTCATGCATATCAAGTCAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
* *
13518722 ATGTTGTTACACATCATGCATATCAAGTCAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
*
13518753 ATGTTGTTACACGTCATGCATATCAAGTCAA
1 ATGTTGTTACACGTCATGCATATCAAGTAAA
13518784 ATGTTGTTACA
1 ATGTTGTTACA
13518795 ATCCAACGCT
Statistics
Matches: 182, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 182 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (31 bp):
ATGTTGTTACACGTCATGCATATCAAGTAAA
Found at i:13519532 original size:23 final size:23
Alignment explanation
Indices: 13519506--13519554 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
13519496 ATGGCATGTG
13519506 ACATATGCAAGCCATGACGTGTC
1 ACATATGCAAGCCATGACGTGTC
* * *
13519529 ACATGTTCAAGCCATGTCGTGTC
1 ACATATGCAAGCCATGACGTGTC
13519552 ACA
1 ACA
13519555 CATTCTCACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (23 bp):
ACATATGCAAGCCATGACGTGTC
Found at i:13533995 original size:16 final size:18
Alignment explanation
Indices: 13533960--13534004 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
13533950 AAAATTAAAA
13533960 TAAATTAATAAAAACAAAC
1 TAAATT-ATAAAAACAAAC
*
13533979 T-AATTATAAAAA-TAAC
1 TAAATTATAAAAACAAAC
13533995 TAAATTATAA
1 TAAATTATAA
13534005 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 4 0.17
19 1 0.04
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATTATAAAAACAAAC
Found at i:13537636 original size:23 final size:23
Alignment explanation
Indices: 13537604--13537654 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
13537594 GAGTTTCTCT
*
13537604 TTCTAGAATTGTTTGTC-CATTTC
1 TTCTAGAATT-TTTCTCTCATTTC
*
13537627 TTCTATAATTTTTCTCTTCATTTC
1 TTCTAGAATTTTTCTC-TCATTTC
13537651 TTCT
1 TTCT
13537655 TCTGTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.16, C:0.20, G:0.06, T:0.59
Consensus pattern (23 bp):
TTCTAGAATTTTTCTCTCATTTC
Found at i:13537787 original size:22 final size:22
Alignment explanation
Indices: 13537762--13537804 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13537752 TGCATGTAAN
13537762 TTTTCTCT-TCATTTCTTCTTCA
1 TTTTCTCTGT-ATTTCTTCTTCA
*
13537784 TTTTCTCTGTTTTTCTTCTTC
1 TTTTCTCTGTATTTCTTCTTC
13537805 TGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTCTCTGTATTTCTTCTTCA
Found at i:13537836 original size:147 final size:149
Alignment explanation
Indices: 13537621--13537907 Score: 510
Period size: 147 Copynumber: 1.9 Consensus size: 149
13537611 ATTGTTTGTC
13537621 CATTTCTTCTATAATTTTTCTCTTCATTTCTTCTTCTGTTTTTTTTTTTATTTTCTCAACTTATT
1 CATTTCTTCTATAATTTTTCTCTTCATTTCTTCTTCTGTTTTTTTTTTTATTTTCTCAACTTATT
13537686 TATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATTTTTGTTTTCATTTTAAACTTTT
66 TATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATTTTTGTTTTCATTTTAAACTTTT
13537751 TTGCATGTAANTTTTCTCTT
131 TTGCATGTAA-TTTTCTCTT
* *
13537771 CATTTCTTCT-TCA-TTTTCTCTGT-TTTTCTTCTTCTG-TTTTTTTTTTATTTTCTCAACTTAT
1 CATTTCTTCTATAATTTTTCTCT-TCATTTCTTCTTCTGTTTTTTTTTTTATTTTCTCAACTTAT
13537832 TTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATTTTTGTTTTCATTTTAAACTTT
65 TTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATTTTTGTTTTCATTTTAAACTTT
13537897 TTTGCATGTAA
130 TTTGCATGTAA
13537908 CTAATTTATA
Statistics
Matches: 134, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
147 101 0.75
148 20 0.15
149 3 0.02
150 10 0.07
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (149 bp):
CATTTCTTCTATAATTTTTCTCTTCATTTCTTCTTCTGTTTTTTTTTTTATTTTCTCAACTTATT
TATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATTTTTGTTTTCATTTTAAACTTTT
TTGCATGTAATTTTCTCTT
Found at i:13537962 original size:147 final size:146
Alignment explanation
Indices: 13537664--13537962 Score: 383
Period size: 147 Copynumber: 2.0 Consensus size: 146
13537654 TTCTGTTTTT
13537664 TTTTTTATTTTCTCAACTTATTTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATT
1 TTTTTTATTTTCTCAACTTATTTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATT
* * * * * * * **
13537729 TTTGTTTTCATTTTAAACTTTTTTGCATGTAANTTTTCTCTTCATTTCTTCTTCATTTTCTCTGT
66 TTTGTTTTCATTTTAAACTTTTTTGCATGTAACTTTTATATTCATGTATTATTCATATTCTCAAT
* ** *
13537794 TTTTCTTCTTCTGTTTT
131 TCTTCAACTTC-GTTTG
13537811 TTTTTTATTTTCTCAACTTATTTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATT
1 TTTTTTATTTTCTCAACTTATTTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATT
13537876 TTTGTTTTCATTTTAAACTTTTTTGCATGTAACTAATTTATATAT-ATGTATATATAT-ATATT-
66 TTTGTTTTCATTTTAAACTTTTTTGCATGTAACT--TTTATAT-TCATGTAT-TAT-TCATATTC
13537938 T-AATTCTTCAACTTAC-TTTG
126 TCAATTCTTCAACTT-CGTTTG
13537958 TTTTT
1 TTTTT
13537963 AAAAGAAAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
147 106 0.80
148 8 0.06
149 11 0.08
150 7 0.05
151 1 0.01
ACGTcount: A:0.22, C:0.11, G:0.05, T:0.61
Consensus pattern (146 bp):
TTTTTTATTTTCTCAACTTATTTATTTTTTGAATCAAATGTCTAATTTTTACTATATTTGTTATT
TTTGTTTTCATTTTAAACTTTTTTGCATGTAACTTTTATATTCATGTATTATTCATATTCTCAAT
TCTTCAACTTCGTTTG
Found at i:13538586 original size:3 final size:3
Alignment explanation
Indices: 13538580--13538604 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13538570 AATAATAATA
13538580 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
13538605 AGCAGCCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13551376 original size:21 final size:21
Alignment explanation
Indices: 13551350--13551391 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13551340 CATTTTATTC
13551350 CAAAAAT-ATAAACATCATTAA
1 CAAAAATAATAAA-ATCATTAA
*
13551371 CAAAAATAATAAAATGATTAA
1 CAAAAATAATAAAATCATTAA
13551392 AATACCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (21 bp):
CAAAAATAATAAAATCATTAA
Found at i:13551454 original size:23 final size:23
Alignment explanation
Indices: 13551428--13551488 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
13551418 TTTTTCTTTT
13551428 CTCAAACAATGTAATTTTTTTCA
1 CTCAAACAATGTAATTTTTTTCA
13551451 CTCAAACAATGTAATTTTTTTCA
1 CTCAAACAATGTAATTTTTTTCA
13551474 CTCAAACAATGTAAT
1 CTCAAACAATGTAAT
13551489 CGACCACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (23 bp):
CTCAAACAATGTAATTTTTTTCA
Found at i:13552447 original size:17 final size:17
Alignment explanation
Indices: 13552403--13552458 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
13552393 ATTGTTAGTC
13552403 AAATTATTAATTATATGT
1 AAATTATTAA-TATATGT
*
13552421 AAA-TAATAATACTAT-T
1 AAATTATTAATA-TATGT
*
13552437 AAATTATTAATTATATTT
1 AAATTATTAA-TATATGT
13552455 AAAT
1 AAAT
13552459 AATATTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 6 0.19
17 16 0.50
18 10 0.31
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATTATTAATATATGT
Found at i:13553640 original size:24 final size:24
Alignment explanation
Indices: 13553613--13553661 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13553603 GCATAAAAGT
*
13553613 CCTTTTCCTCTATGGGTAAACAAC
1 CCTTCTCCTCTATGGGTAAACAAC
* *
13553637 CCTTCTCCTTTATGGGTTAACAAC
1 CCTTCTCCTCTATGGGTAAACAAC
13553661 C
1 C
13553662 AATGCAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (24 bp):
CCTTCTCCTCTATGGGTAAACAAC
Found at i:13556059 original size:2 final size:2
Alignment explanation
Indices: 13556052--13556118 Score: 100
Period size: 2 Copynumber: 33.0 Consensus size: 2
13556042 AGTACCACAT
*
13556052 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTNA -A CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA TA TA
13556095 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
13556119 CTTCACAGTT
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
1 1 0.02
2 58 0.95
3 1 0.02
4 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:13568488 original size:18 final size:18
Alignment explanation
Indices: 13568435--13568492 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
13568425 GTATACACGT
*
13568435 TTAAACACGATAATACGA
1 TTAAACACGATAATATGA
13568453 TTAAACACGATAATATGA
1 TTAAACACGATAATATGA
* *
13568471 TTAAACAAGATAACATGA
1 TTAAACACGATAATATGA
13568489 TTAA
1 TTAA
13568493 GTAAATGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (18 bp):
TTAAACACGATAATATGA
Found at i:13572046 original size:82 final size:82
Alignment explanation
Indices: 13571908--13572065 Score: 237
Period size: 82 Copynumber: 1.9 Consensus size: 82
13571898 GCTTTTTTGG
*
13571908 AAGAAGTAGTAATCTTTGAAACAAAATCATTAATGACAACCAAATAATAATATAAGTTATATATA
1 AAGAAGAAGTAATCTTTGAAACAAAATCATTAATGACAACCAAATAATAATATAAGTTATATATA
13571973 TGATGTACATTTTGTGA
66 TGATGTACATTTTGTGA
* * * * * *
13571990 AAGAAGAAGTAAT-TGTTTAAAGAAAATCATTAATGACGACCAAATAATAATTTAAGTTCTATGT
1 AAGAAGAAGTAATCT-TTGAAACAAAATCATTAATGACAACCAAATAATAATATAAGTTATATAT
13572054 ATGATGTACATT
65 ATGATGTACATT
13572066 GCTCTCCCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 1 0.01
82 67 0.99
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (82 bp):
AAGAAGAAGTAATCTTTGAAACAAAATCATTAATGACAACCAAATAATAATATAAGTTATATATA
TGATGTACATTTTGTGA
Found at i:13580778 original size:20 final size:20
Alignment explanation
Indices: 13580755--13580795 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13580745 TTTTAAAATA
* *
13580755 TTAAAATATTTATAATTTAT
1 TTAAAAAATTAATAATTTAT
13580775 TTAAAAAATTAATAATTTAT
1 TTAAAAAATTAATAATTTAT
13580795 T
1 T
13580796 AATTGANTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAAAAATTAATAATTTAT
Found at i:13580778 original size:28 final size:27
Alignment explanation
Indices: 13580742--13580799 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
13580732 TTTTCTTTTC
*
13580742 ATTTTTTAAAATATTAAAATATTTA-TA
1 ATTTTTTAAAAAATTAAAA-ATTTATTA
*
13580769 ATTTATTTAAAAAATTAATAATTTATTA
1 ATTT-TTTAAAAAATTAAAAATTTATTA
13580797 ATT
1 ATT
13580800 GANTGGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTTTTAAAAAATTAAAAATTTATTA
Found at i:13588244 original size:79 final size:79
Alignment explanation
Indices: 13588029--13588263 Score: 246
Period size: 82 Copynumber: 2.9 Consensus size: 79
13588019 TGAAGCTTCC
* * * *
13588029 AAATCTGAAATACTTTAACAACCGGTTTTTTTGGAAGAAGTAGTAATCTTTGAAACAAAATCATT
1 AAATCTGAAATATTTTAGCAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTTAAACAAAATCATT
13588094 AATGACAACCAAAT
66 AATGACAACCAAAT
* * * * * * * *
13588108 AATAACAT-AAGTTATATATATG--A-TGTACATTTCTTGGAAGAAGTAGTAATCGTTTAAAGAA
1 AA-ATC-TGAA-ATAT-TTTA-GCAACCG-GC-TTTTTTGGAAGAAGTAGTAATCTTTTAAACAA
13588169 AATCATTAATGACAACCAAAT
59 AATCATTAATGACAACCAAAT
*
13588190 AAATCTGAAATATTTTAGCAACCGGCTTTTTTGGAAGAAGTAGTCATCTTTTAAACAACAA-CAT
1 AAATCTGAAATATTTTAGCAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTTAAACAA-AATCAT
13588254 TAATGACAAC
65 TAATGACAAC
13588264 AAAGAATGAT
Statistics
Matches: 123, Mismatches: 21, Indels: 24
0.73 0.12 0.14
Matches are distributed among these distances:
78 1 0.01
79 46 0.37
80 13 0.11
81 9 0.07
82 54 0.44
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (79 bp):
AAATCTGAAATATTTTAGCAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTTAAACAAAATCATT
AATGACAACCAAAT
Found at i:13588333 original size:160 final size:161
Alignment explanation
Indices: 13588029--13588351 Score: 506
Period size: 160 Copynumber: 2.0 Consensus size: 161
13588019 TGAAGCTTCC
*
13588029 AAATCTGAAATACTTTAACAACCGGTTTTTTTGGAAGAAGTAGTAATCTTTGAAACAAAATCATT
1 AAATCTGAAATACTTTAACAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTGAAACAAAATCATT
*
13588094 AATGACAACCAAATAATAACATAAGTTATATATATGATGTACATTTCTTGGAAGAAGTAGTAATC
66 AATGACAACCAAAGAATAACATAAGTTATATATATGATGTACATTTCTTGGAAGAAGTAGTAATC
* *
13588159 GTTTAAAGAAAATCATTAATGACAACCAAAT
131 GTTTAAAAAAAATCATCAATGACAACCAAAT
* * * *
13588190 AAATCTGAAATATTTTAGCAACCGGCTTTTTTGGAAGAAGTAGTCATCTTTTAAACAACAA-CAT
1 AAATCTGAAATACTTTAACAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTGAAACAA-AATCAT
* * *
13588254 TAATGACAA-CAAAGAATGATATAAGTTATATGTATGATGTACATTTCTTGGAAGAAGTAGTAAT
65 TAATGACAACCAAAGAATAACATAAGTTATATATATGATGTACATTTCTTGGAAGAAGTAGTAAT
* *
13588318 CTTTTAAAAAAAATCATCAATGACGACCAAAT
130 CGTTTAAAAAAAATCATCAATGACAACCAAAT
13588350 AA
1 AA
13588352 TAATTTAAGT
Statistics
Matches: 148, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
160 81 0.55
161 65 0.44
162 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (161 bp):
AAATCTGAAATACTTTAACAACCGGCTTTTTTGGAAGAAGTAGTAATCTTTGAAACAAAATCATT
AATGACAACCAAAGAATAACATAAGTTATATATATGATGTACATTTCTTGGAAGAAGTAGTAATC
GTTTAAAAAAAATCATCAATGACAACCAAAT
Found at i:13590498 original size:3 final size:3
Alignment explanation
Indices: 13590471--13590540 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
13590461 AGAAAAAAGA
* * * * *
13590471 AAT AAA AAT AAT GAAC AAA AAT AAT AAT AAT GAT AATT AAG AA- AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
13590517 AAT AAT AAAT AAT AAT AAC AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AA
13590541 AAATGATATA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.81
4 8 0.15
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:13593834 original size:29 final size:27
Alignment explanation
Indices: 13593776--13593844 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
13593766 GACTTATATT
13593776 TTTTAATTTTTTAATTAATCCATCGATA
1 TTTTAATTTTTTAATTAATCCA-CGATA
*
13593804 TTTTAATTTTGTTCAATCTAATCC-CTATA
1 TTTTAATTTT-TT-AAT-TAATCCACGATA
*
13593833 TTATATATTTTT
1 TTTTA-ATTTTT
13593845 ATTCAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 10 0.29
29 11 0.31
30 8 0.23
31 6 0.17
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTTAATTTTTTAATTAATCCACGATA
Found at i:13594732 original size:14 final size:14
Alignment explanation
Indices: 13594696--13594723 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13594686 AATCAAAATT
13594696 ATAACTTATAAAAA
1 ATAACTTATAAAAA
13594710 ATAACTTATAAAAA
1 ATAACTTATAAAAA
13594724 GAAATTTATC
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:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAACTTATAAAAA
Found at i:13594889 original size:12 final size:13
Alignment explanation
Indices: 13594866--13594890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13594856 CTTAACGAAA
13594866 TTTTAAATTTTTT
1 TTTTAAATTTTTT
13594879 TTTTAAATTTTT
1 TTTTAAATTTTT
13594891 ATAAAAATAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAAATTTTTT
Found at i:13598188 original size:78 final size:77
Alignment explanation
Indices: 13598064--13598210 Score: 267
Period size: 78 Copynumber: 1.9 Consensus size: 77
13598054 ACAATATTGA
13598064 ATATATATATATATATTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATACAAGC
1 ATATATATATATATATTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATACAAGC
13598129 TGCTATATATAT
66 TGCTATATATAT
* *
13598141 ATATATATATATTTTTTTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATACAAG
1 ATATATATATA-TATATTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATACAAG
13598206 CTGCT
65 CTGCT
13598211 CATGCAGACT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 11 0.16
78 56 0.84
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (77 bp):
ATATATATATATATATTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATACAAGC
TGCTATATATAT
Found at i:13598474 original size:197 final size:197
Alignment explanation
Indices: 13598138--13598524 Score: 704
Period size: 197 Copynumber: 2.0 Consensus size: 197
13598128 CTGCTATATA
*
13598138 TATATATATATATATTTTTTTTCAATGTTGTGACATGCAGCAGAAAAAATGGTTTTCCTGTATAC
1 TATATATATATATATTTTTTTTCAATGTTGTGAAATGCAGCAGAAAAAATGGTTTTCCTGTATAC
13598203 AAGCTGCTCATGCAGACTAAAAAGGTGGCTCTTACAGCGTAAGAGCTTCCAAAAGAAAGCATTAA
66 AAGCTGCTCATGCAGACTAAAAAGGTGGCTCTTACAGCGTAAGAGCTTCCAAAAGAAAGCATTAA
*
13598268 TTATCTACACCATGACCATGCCCGTTAGCAATGATCCAGAAGACTGGAGCTGTATGAGAANATAT
131 TTATCTACACCACGACCATGCCCGTTAGCAATGATCCAGAAGACTGGAGCTGTATGAGAA-ATAT
13598333 AAG
195 AAG
* *
13598336 TATATATATATATTTTTTTTTTCAATGTTGTGAAATGCAGCAG-AAAAATGGTTTTGCTGTATAC
1 TATATATATATATATTTTTTTTCAATGTTGTGAAATGCAGCAGAAAAAATGGTTTTCCTGTATAC
*
13598400 AAGCTGCTCATGCAGACTAAAGAGGTGGCTCTTACAGCGTAAGAGCTTCCAAAAGAAAGCATTAA
66 AAGCTGCTCATGCAGACTAAAAAGGTGGCTCTTACAGCGTAAGAGCTTCCAAAAGAAAGCATTAA
*
13598465 TTATCTACACCACGGCCATGCCCGTTAGCAATGATCCAGAAGACTGGAGCTGTATGAGAA
131 TTATCTACACCACGACCATGCCCGTTAGCAATGATCCAGAAGACTGGAGCTGTATGAGAA
13598525 GCTATGATAG
Statistics
Matches: 183, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
197 142 0.78
198 41 0.22
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (197 bp):
TATATATATATATATTTTTTTTCAATGTTGTGAAATGCAGCAGAAAAAATGGTTTTCCTGTATAC
AAGCTGCTCATGCAGACTAAAAAGGTGGCTCTTACAGCGTAAGAGCTTCCAAAAGAAAGCATTAA
TTATCTACACCACGACCATGCCCGTTAGCAATGATCCAGAAGACTGGAGCTGTATGAGAAATATA
AG
Found at i:13606441 original size:23 final size:23
Alignment explanation
Indices: 13606410--13606467 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
13606400 TAGAGTTTAA
* *
13606410 CATTGCGTGAC-TGGTTGATATGT
1 CATTGCGTGACAT-ATTGATAGGT
*
13606433 GATTGCGTGACATATTGATAGGT
1 CATTGCGTGACATATTGATAGGT
13606456 CATTGCGTGACA
1 CATTGCGTGACA
13606468 GCATGACTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.34
Consensus pattern (23 bp):
CATTGCGTGACATATTGATAGGT
Found at i:13606507 original size:113 final size:114
Alignment explanation
Indices: 13606361--13606589 Score: 309
Period size: 113 Copynumber: 2.0 Consensus size: 114
13606351 ACGTGATTGG
* *
13606361 ATTTTGGCATGGGGTCACTTAGGGTTTGCGTGATTGCATTAGA-GTTTAACATTGCGTGACTGGT
1 ATTTTGGCATGGGG---CTTAGGGTGTGCGTGATTACATTA-ATGTTTAACATTGCGTGACTGGT
* * ** *
13606425 TGATATGTGATTGCGTGACATATTGATAGGTCATTGCGTGACAGCATGACTGA
62 TGATAGGTCATTGCGTGACATATTGATAAATCATTGCGCGACAGCATGACTGA
13606478 ATTTTGGCATGGGG-TTAGGGTGTGCGTGATTACATTAATGTTTAACATTGCGTGACTGGTTGAT
1 ATTTTGGCATGGGGCTTAGGGTGTGCGTGATTACATTAATGTTTAACATTGCGTGACTGGTTGAT
* * * *
13606542 AGGTCATTGTGTTACCTATTGATAAATCATTGTGCGACAGCATGACTG
66 AGGTCATTGCGTGACATATTGATAAATCATTGCGCGACAGCATGACTG
13606590 GATTGAGCAT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
112 1 0.01
113 85 0.85
117 14 0.14
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.36
Consensus pattern (114 bp):
ATTTTGGCATGGGGCTTAGGGTGTGCGTGATTACATTAATGTTTAACATTGCGTGACTGGTTGAT
AGGTCATTGCGTGACATATTGATAAATCATTGCGCGACAGCATGACTGA
Found at i:13608758 original size:24 final size:24
Alignment explanation
Indices: 13608729--13608774 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13608719 GCAGATGCAT
*
13608729 GCAATGCAGTTGGAGATCTAGCAG
1 GCAATGCAGTTGAAGATCTAGCAG
13608753 GCAATGCAGTTGAAGATCTAGC
1 GCAATGCAGTTGAAGATCTAGC
13608775 GGGCGATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (24 bp):
GCAATGCAGTTGAAGATCTAGCAG
Found at i:13609660 original size:38 final size:38
Alignment explanation
Indices: 13609609--13609681 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
13609599 ATGTCGACTA
13609609 AGTTGTTGGATAGCTAACACATTAACAACTCTACAAGT
1 AGTTGTTGGATAGCTAACACATTAACAACTCTACAAGT
13609647 AGTTGTTGGATAGCTAACACATTAACAACTCTACA
1 AGTTGTTGGATAGCTAACACATTAACAACTCTACA
13609682 CATTAACACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (38 bp):
AGTTGTTGGATAGCTAACACATTAACAACTCTACAAGT
Found at i:13610559 original size:26 final size:26
Alignment explanation
Indices: 13610501--13610561 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
13610491 CATTATTATG
* * *
13610501 TATCATGTCCATATTATTCTTTGTTG
1 TATCATTTACATATTATTCTTTGTTA
*
13610527 TATCATTTACATATTTTTCCTTT-TTA
1 TATCATTTACATATTATT-CTTTGTTA
13610553 TATCATTTA
1 TATCATTTA
13610562 ACAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (26 bp):
TATCATTTACATATTATTCTTTGTTA
Found at i:13611174 original size:23 final size:23
Alignment explanation
Indices: 13611148--13611310 Score: 100
Period size: 23 Copynumber: 7.0 Consensus size: 23
13611138 AAATATGGCT
*
13611148 TCGCGTGACTGGTTATTATGGAA
1 TCGCGTGACTAGTTATTATGGAA
* * * *
13611171 TCGCATTACTAGTTGA-TATTGAG
1 TCGCGTGACTAGTT-ATTATGGAA
*
13611194 TCGCGTGAGTAG-TATATATGGAA
1 TCGCGTGACTAGTTAT-TATGGAA
*
13611217 T-GACGTTACTAGTTATTATGGAA
1 TCG-CGTGACTAGTTATTATGGAA
* * *
13611240 TCGTGTGACTGGTTCATTAT-AAA
1 TCGCGTGACTAGTT-ATTATGGAA
* * ** * **
13611263 GTCACGTGAGTAGCAAATATGGCT
1 -TCGCGTGACTAGTTATTATGGAA
13611287 TCGCGTGACTAGTTATTATGGAA
1 TCGCGTGACTAGTTATTATGGAA
13611310 T
1 T
13611311 TAGGTTACTA
Statistics
Matches: 98, Mismatches: 33, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 77 0.79
24 18 0.18
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (23 bp):
TCGCGTGACTAGTTATTATGGAA
Found at i:13611198 original size:46 final size:46
Alignment explanation
Indices: 13611148--13611259 Score: 113
Period size: 46 Copynumber: 2.4 Consensus size: 46
13611138 AAATATGGCT
* *
13611148 TCGCGTGACTGGTTATTATGGAATCG-CATTACTAGTTGA-TATTGAG
1 TCGCGTGACTGGTTATTATGGAAT-GACATTACTAGTT-ATTATGGAA
* * *
13611194 TCGCGTGAGTAG-TATATATGGAATGACGTTACTAGTTATTATGGAA
1 TCGCGTGACTGGTTAT-TATGGAATGACATTACTAGTTATTATGGAA
*
13611240 TCGTGTGACTGGTTCATTAT
1 TCGCGTGACTGGTT-ATTAT
13611260 AAAGTCACGT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
45 5 0.09
46 42 0.79
47 4 0.08
48 2 0.04
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.38
Consensus pattern (46 bp):
TCGCGTGACTGGTTATTATGGAATGACATTACTAGTTATTATGGAA
Found at i:13611388 original size:139 final size:139
Alignment explanation
Indices: 13611020--13611388 Score: 523
Period size: 139 Copynumber: 2.7 Consensus size: 139
13611010 CTGGCGTTAG
* * *
13611020 TAGTTATTATGTAATCA-CATGACTAGTTGATATTGAGTCGCGTGAGTAGTA-ATATGGAGTGGT
1 TAGTTATTATGGAAT-AGCATTACTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGC
* *
13611083 GTTACTAGTTATT-TGAAATCACGTGAATGGTTCATTATAAAGTCACGTGAGTAGCAAATATGGC
65 GTTACTAGTTATTATGAAATCGCGTGACTGGTTCATTATAAAGTCACGTGAGTAGCAAATATGGC
13611147 TTCGCGTGAC
130 TTCGCGTGAC
* * * *
13611157 TGGTTATTATGGAATCGCATTACTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAATGACG
1 TAGTTATTATGGAATAGCATTACTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCG
* *
13611222 TTACTAGTTATTATGGAATCGTGTGACTGGTTCATTATAAAGTCACGTGAGTAGCAAATATGGCT
66 TTACTAGTTATTATGAAATCGCGTGACTGGTTCATTATAAAGTCACGTGAGTAGCAAATATGGCT
13611287 TCGCGTGAC
131 TCGCGTGAC
* * *
13611296 TAGTTATTATGGAATTAG-GTTACTAGTTGATATTAAGTCACGTGAGTAGTATATATGGAGTGGC
1 TAGTTATTATGGAA-TAGCATTACTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGC
* * *
13611360 GTTACCACTT-TTAATGAAATCGCATGACT
65 GTTACTAGTTATT-ATGAAATCGCGTGACT
13611389 AGTTGATATG
Statistics
Matches: 204, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
137 46 0.23
138 24 0.12
139 132 0.65
140 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (139 bp):
TAGTTATTATGGAATAGCATTACTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCG
TTACTAGTTATTATGAAATCGCGTGACTGGTTCATTATAAAGTCACGTGAGTAGCAAATATGGCT
TCGCGTGAC
Found at i:13611390 original size:69 final size:69
Alignment explanation
Indices: 13610977--13611397 Score: 346
Period size: 69 Copynumber: 6.1 Consensus size: 69
13610967 GCAAGAGTAT
* * * * * * * *
13610977 TTGATATTGACTCACTTGAGTAGTAAATATGAACTGGCGTTAGTAGTTATTATGTAATCACATGA
1 TTGATATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATGAAATCGCATGA
13611042 CTAG
66 CTAG
* * * * *
13611046 TTGATATTGAGTCGCGTGAGTAGT-AATATGGAGTGGTGTTACTAGTTATT-TGAAATCACGTGA
1 TTGATATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATGAAATCGCATGA
* *
13611109 ATGG
66 CTAG
* * * ** * * * * *
13611113 TTCATTATAAAGTCACGTGAGTAGCAAATATGGCTTCGCGTGACTGGTTATTATGGAATCGCATT
1 TTGA-TATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATGAAATCGCATG
13611178 ACTAG
65 ACTAG
* * * * * * **
13611183 TTGATATTGAGTCGCGTGAGTAGTATATATGGAATGACGTTACTAGTTATTATGGAATCGTGTGA
1 TTGATATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATGAAATCGCATGA
*
13611248 CTGG
66 CTAG
* * * ** * * * * *
13611252 TTCATTATAAAGTCACGTGAGTAGCAAATATGGCTTCGCGTGACTAGTTATTATGGAATTAG-GT
1 TTGA-TATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTAT-GAAATCGCAT
*
13611316 TACTAG
64 GACTAG
* * *
13611322 TTGATATTAAGTCACGTGAGTAGTATATATGGAGTGGCGTTACCACTT-TTAATGAAATCGCATG
1 TTGATATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATT-ATGAAATCGCATG
13611386 ACTAG
65 ACTAG
13611391 TTGATAT
1 TTGATAT
13611398 GGAATCGCGT
Statistics
Matches: 271, Mismatches: 74, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
67 16 0.06
68 45 0.17
69 144 0.53
70 62 0.23
71 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (69 bp):
TTGATATTAAGTCACGTGAGTAGTAAATATGGAGTGGCGTTACTAGTTATTATGAAATCGCATGA
CTAG
Found at i:13611410 original size:23 final size:22
Alignment explanation
Indices: 13611148--13611411 Score: 95
Period size: 23 Copynumber: 11.5 Consensus size: 22
13611138 AAATATGGCT
*
13611148 TCGCGTGACTGGTTATTATGGAA
1 TCGCGTGACTAGTTA-TATGGAA
* * * *
13611171 TCGCATTACTAGTTGATATTGAG
1 TCGCGTGACTAGTT-ATATGGAA
*
13611194 TCGCGTGAGTAGTATATATGGAA
1 TCGCGTGACTAGT-TATATGGAA
*
13611217 T-GACGTTACTAGTTATTATGGAA
1 TCG-CGTGACTAGTTA-TATGGAA
* * *
13611240 TCGTGTGACTGGTTCATTAT-AAA
1 TCGCGTGACTAGTT-A-TATGGAA
* * ** **
13611263 GTCACGTGAGTAGCAAATATGGCT
1 -TCGCGTGACTAG-TTATATGGAA
13611287 TCGCGTGACTAGTTATTATGGAA
1 TCGCGTGACTAGTTA-TATGGAA
* * *
13611310 TTAG-GTTACTAGTTGATAT-TAA
1 -TCGCGTGACTAGTT-ATATGGAA
* * *
13611332 GTCACGTGAGTAGTATATATGGAG
1 -TCGCGTGACTAGT-TATATGGAA
* * * * * *
13611356 TGGCGTTACCACTTTTAATGAAA
1 TCGCGTGACTAGTTAT-ATGGAA
*
13611379 TCGCATGACTAGTTGATATGGAA
1 TCGCGTGACTAGTT-ATATGGAA
13611402 TCGCGTGACT
1 TCGCGTGACT
13611412 CACTTAATGT
Statistics
Matches: 166, Mismatches: 58, Indels: 34
0.64 0.22 0.13
Matches are distributed among these distances:
22 9 0.05
23 134 0.81
24 23 0.14
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (22 bp):
TCGCGTGACTAGTTATATGGAA
Found at i:13614834 original size:15 final size:15
Alignment explanation
Indices: 13614812--13614848 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
13614802 TCGCATTAAG
13614812 AACAAGTACCATAAA
1 AACAAGTACCATAAA
*
13614827 AGCAAGTACCATAAA
1 AACAAGTACCATAAA
13614842 AACAAGT
1 AACAAGT
13614849 TCAGAGCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.14
Consensus pattern (15 bp):
AACAAGTACCATAAA
Found at i:13617810 original size:42 final size:42
Alignment explanation
Indices: 13617755--13617871 Score: 171
Period size: 42 Copynumber: 2.8 Consensus size: 42
13617745 GGTCGACACC
* **
13617755 CTCAACATTTTCTAATTCAACAGTTGTGGCATGGTTGTCGAA
1 CTCAACATCTTCTAACACAACAGTTGTGGCATGGTTGTCGAA
* *
13617797 CTCAACCTCTTCTAACACAACAGTTGTGGCATGGTTGTTGAA
1 CTCAACATCTTCTAACACAACAGTTGTGGCATGGTTGTCGAA
* *
13617839 CTTAACTTCTTCTAACACAACAGTTGTGGCATG
1 CTCAACATCTTCTAACACAACAGTTGTGGCATG
13617872 ACTTGTACTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (42 bp):
CTCAACATCTTCTAACACAACAGTTGTGGCATGGTTGTCGAA
Found at i:13619190 original size:207 final size:206
Alignment explanation
Indices: 13618810--13620057 Score: 1349
Period size: 207 Copynumber: 6.1 Consensus size: 206
13618800 ACACATTCAT
* *
13618810 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACATAG-GGTGAATTGCATAAGTCA-T---
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACA-AGAGATGAATTGCACAAGTCAGTCAC
* * *** * *
13618870 GCACCACCAGTCTCGTAATACCTAATAATAAGTCACTCAATATGTAATATCTACTCACATTATGC
65 GCACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAATACCCACTCACATTATGC
* * * * * * *
13618935 CTACATAACCAGTCATGTAATGGCCGAATGTGATGTAATACATAACAACAGGTCACACAATACAT
130 CAACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACAT
*
13619000 AAAAATCAGTCAT
195 AAAAA-CAGTCAC
* * * * * *
13619013 GTAATGCTTAAAAACTAGTTAACAAAAGCCTCAAAACAAAAAATGAATTGCACAAGTCAGTCATG
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
* * * * *
13619078 CACCGCCAATCTCACAATACCTAAGAATAAGTCACTTAATGCCT-TTGACCCACTCACATTATGC
66 CACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAAT-ACCCACTCACATTATGC
* * * *
13619142 CAACATAACCAGTCACATACTAGTCCAATGTCACGCAATACGTAACAACAGGTCACACAATACAT
130 CAACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACAT
*
13619207 AAAAACCAATCAC
195 AAAAA-CAGTCAC
* * * * *
13619220 GCAATGCTTAAAAATTAGTGAACAAAAACATCAAAATAAGAGATGAATTGCACAAGTCAGTCACG
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
* * * * *
13619285 CACCGTCAGTCTCGCAATACCTAAGAATAAGTCACTCAATGCCTTATACCCACTCATATTATTCC
66 CACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAATACCCACTCACATTATGCC
* * * * * *
13619350 AACATAACCAATCATGTACTGGCCCAATGCCATGCAATACATAACAATAGGTCACGCAATACATA
131 AACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACATA
13619415 AAAACTAGTCAC
196 AAAAC-AGTCAC
* * *
13619427 GTAATGCCTAAAAATTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTACACAAGTCAGTCACG
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
* * ** *
13619492 CACCGTCAGTCTCGCAATACCTAACAATAAGTCACAAAATGCCTTATACCCACTCACATTATGCC
66 CACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAATACCCACTCACATTATGCC
* * * * **
13619557 AACATAACCAGTCATGTTCTGGCTCAATGTCACGTAATACAT---AACAGGTCACGTAATACATA
131 AACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACATA
13619619 AAAATCAGTCAC
196 AAAA-CAGTCAC
*
13619631 GCAATGCCTAAAAACTAATGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCA-T---G
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
*** * * *
13619692 CACCATTAGTCTCGCAATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACGTTATGCC
66 CACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAATACCCACTCACATTATGCC
* * * * * *
13619757 AACATAACCAGTTACGTACTGGCCCAACGTCATGCAATACATAATAACAGGTCACATAATATATA
131 AACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACATA
13619822 AAAACAAGTCAC
196 AAAAC-AGTCAC
* * * * * * * * * * * * *
13619834 GTAGTGCTTACAAACTAGTTAACAAAAACTTCAAAATAAGAGATAAATTGTATAAGTTAGTCACA
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
* * * * *
13619899 CACCGCCATTCTCG-ATATACTTAATAATACTAATAAGTCACTCGATGCCTAATATCCACTCACG
66 CACCGCCAGTCTCGCA-ATAC---CT-A-A-TAATAAGTCACTCAATGCCTAATACCCACTCACA
* * *
13619963 TTATGCCAACATAACCAGTCACATACTGGCCCAACGTCACGTAATACATAACAACAGGTCAC-CA
124 TTATGCCAACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACA
*
13620027 TATACATACAAACTAGTCAC
189 -ATACATAAAAAC-AGTCAC
*
13620047 -CAATGTCTAAA
1 GCAATGCCTAAA
13620058 CAGAATATAT
Statistics
Matches: 886, Mismatches: 134, Indels: 41
0.84 0.13 0.04
Matches are distributed among these distances:
200 92 0.10
202 2 0.00
203 125 0.14
204 85 0.10
205 1 0.00
206 3 0.00
207 460 0.52
208 1 0.00
210 1 0.00
211 1 0.00
212 8 0.01
213 107 0.12
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (206 bp):
GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCAGTCACG
CACCGCCAGTCTCGCAATACCTAATAATAAGTCACTCAATGCCTAATACCCACTCACATTATGCC
AACATAACCAGTCACGTACTGGCCCAATGTCACGCAATACATAACAACAGGTCACACAATACATA
AAAACAGTCAC
Found at i:13619425 original size:22 final size:21
Alignment explanation
Indices: 13619383--13619441 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
13619373 CCAATGCCAT
*
13619383 GCAATACATAACAATAGGTCAC
1 GCAATACATAAAAATA-GTCAC
13619405 GCAATACATAAAAACTAGTCAC
1 GCAATACATAAAAA-TAGTCAC
* * *
13619427 GTAATGCCTAAAAAT
1 GCAATACATAAAAAT
13619442 TAGTGAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
GCAATACATAAAAATAGTCAC
Found at i:13619817 original size:22 final size:22
Alignment explanation
Indices: 13619792--13619833 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13619782 AACGTCATGC
* *
13619792 AATACATAATAACAGGTCACAT
1 AATACATAAAAACAAGTCACAT
*
13619814 AATATATAAAAACAAGTCAC
1 AATACATAAAAACAAGTCAC
13619834 GTAGTGCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (22 bp):
AATACATAAAAACAAGTCACAT
Found at i:13621103 original size:12 final size:11
Alignment explanation
Indices: 13621079--13621117 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13621069 CATTCAGGTA
13621079 TTATTTTTTTT
1 TTATTTTTTTT
*
13621090 TTGTTTTGTTTT
1 TTATTTT-TTTT
13621102 TTATTTTATTTT
1 TTATTTT-TTTT
13621114 TTAT
1 TTAT
13621118 CATTCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:13626672 original size:22 final size:22
Alignment explanation
Indices: 13626647--13626710 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
13626637 TAGATAAAGT
*
13626647 CACGCAATGCCTACAAATAAGA
1 CACGCAATGCCAACAAATAAGA
* * *
13626669 CACGTAATGCCAACAAACAAGT
1 CACGCAATGCCAACAAATAAGA
*
13626691 CACACAATGCTCAACAAATA
1 CACGCAATGC-CAACAAATA
13626711 TTCAGTCACG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.47, C:0.28, G:0.11, T:0.14
Consensus pattern (22 bp):
CACGCAATGCCAACAAATAAGA
Found at i:13627180 original size:18 final size:18
Alignment explanation
Indices: 13627157--13627196 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
13627147 ACACGTTTAC
13627157 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
13627175 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
13627193 TTAA
1 TTAA
13627197 ACATGTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (18 bp):
TTAATCGTGTTATCGTGT
Found at i:13627183 original size:10 final size:9
Alignment explanation
Indices: 13627157--13627193 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
13627147 ACACGTTTAC
13627157 TTAATCGTG
1 TTAATCGTG
13627166 TT-ATCGTG
1 TTAATCGTG
13627174 TTTAATCGTG
1 -TTAATCGTG
13627184 TT-ATCGTG
1 TTAATCGTG
13627192 TT
1 TT
13627194 TAAACATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 14 0.54
9 6 0.23
10 6 0.23
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (9 bp):
TTAATCGTG
Found at i:13628420 original size:25 final size:25
Alignment explanation
Indices: 13628392--13628455 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
13628382 ATTTATATTT
13628392 AAATTTT-ATTTATTAATAAAATATA
1 AAATTTTAATTTATTAA-AAAATATA
*
13628417 AAATATTTAAATTTATTTAAAAATATA
1 AAAT-TTT-AATTTATTAAAAAATATA
13628444 ATAATTTATAAT
1 A-AATTT-TAAT
13628456 AAAACTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 4 0.12
26 3 0.09
27 14 0.42
28 12 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTTTAATTTATTAAAAAATATA
Found at i:13636475 original size:81 final size:82
Alignment explanation
Indices: 13636376--13636536 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 82
13636366 ACTGGCTTTT
* * *
13636376 TTGGAAGAAGTAGTAATCTTTTAAATAACAAT-ATTAATGAC-AACAAAGATTGATATAAGTTAT
1 TTGGAAGAAGTAGTAATCTTTTAAAGAA-AATCATTAATGACGAACAAAGAATAATATAAGTTAT
13636439 ATGTATGATGAACATTTC
65 ATGTATGATGAACATTTC
* * * *
13636457 TTGGAAGAAGTAGTAATCTTTTAAAGAAAATCATTAATGACGACCAAATAATAATTTAAGTTCTA
1 TTGGAAGAAGTAGTAATCTTTTAAAGAAAATCATTAATGACGAACAAAGAATAATATAAGTTATA
*
13636522 TGTATGATGTACATT
66 TGTATGATGAACATT
13636537 GCTCTCCCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 3 0.04
81 36 0.51
82 31 0.44
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (82 bp):
TTGGAAGAAGTAGTAATCTTTTAAAGAAAATCATTAATGACGAACAAAGAATAATATAAGTTATA
TGTATGATGAACATTTC
Found at i:13653244 original size:24 final size:24
Alignment explanation
Indices: 13653166--13653248 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
13653156 TATTAAAATT
13653166 TTTAAATATTAATAATTAATTATTT-A
1 TTTAAATATTAAT-ATT--TTATTTAA
* **
13653192 TTTAAAATATTAATA--ATAGATAA
1 TTT-AAATATTAATATTTTATTTAA
13653215 TTTAAATATTAATATTTTATTTAA
1 TTTAAATATTAATATTTTATTTAA
13653239 TTTAAATATT
1 TTTAAATATT
13653249 GTTATGATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
22 14 0.30
23 4 0.09
24 15 0.32
26 4 0.09
27 10 0.21
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TTTAAATATTAATATTTTATTTAA
Found at i:13653287 original size:118 final size:114
Alignment explanation
Indices: 13653164--13653467 Score: 359
Period size: 118 Copynumber: 2.6 Consensus size: 114
13653154 TTTATTAAAA
* *
13653164 TTTTTAAATATTAATAATTAATTATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATA
1 TTTTTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATA
* * *
13653229 TTTTATTTAATTTAAAT-ATTGTTATGATTAATTTTTATTTTATTTTATTTTAT
66 TTTTATTTAATTTAAATGA-TATTAT-ATTAATTTAT-TTTTAATTT-TTTT-T
* * * *
13653282 TTTTTAAATATTAATAACTAGTAATTTATTTAAAATATTAATAATTGATTATTTAATTATTAATA
1 TTTTTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATA
* *
13653347 TTGTTTATATAATTTAAATGATATTATATTTATTTATTTTTAATTTTTTTT
66 -T-TTTATTTAATTTAAATGATATTATATTAATTTATTTTTAATTTTTTTT
* ** *
13653398 GTTTTAAATAGGAATAAATT-ATAATTTATTT----TATTAATAGTTGATAATTTAAATATTAAT
1 TTTTTAAATATTAAT-AATTAATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAAT
13653458 ATTTTATTTA
65 ATTTTATTTA
13653468 TAATTTAATA
Statistics
Matches: 162, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
110 7 0.04
111 1 0.01
112 27 0.17
116 23 0.14
117 7 0.04
118 67 0.41
119 9 0.06
120 20 0.12
121 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (114 bp):
TTTTTAAATATTAATAATTAATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAATA
TTTTATTTAATTTAAATGATATTATATTAATTTATTTTTAATTTTTTTT
Found at i:13653335 original size:27 final size:25
Alignment explanation
Indices: 13653166--13653336 Score: 107
Period size: 27 Copynumber: 7.0 Consensus size: 25
13653156 TATTAAAATT
13653166 TTTAAATATTAATAATTAATTATTTA
1 TTTAAATATTAATAATT-ATTATTTA
* *
13653192 TTTAAAATATTAATAA-TA-GA-TAA
1 TTT-AAATATTAATAATTATTATTTA
13653215 TTTAAATATTAAT-ATT-TTATTTAA
1 TTTAAATATTAATAATTATTATTT-A
* *
13653239 TTTAAATATTGTTATGATTAATT-TTTA
1 TTTAAATA-T-TAATAATT-ATTATTTA
*
13653266 TTT---TATT--TTATT-TTATTT-
1 TTTAAATATTAATAATTATTATTTA
* *
13653284 TTTAAATATTAATAACTAGTAATTTA
1 TTTAAATATTAATAATTA-TTATTTA
13653310 TTTAAAATATTAATAATTGATTATTTA
1 TTT-AAATATTAATAATT-ATTATTTA
13653337 ATTATTAATA
Statistics
Matches: 113, Mismatches: 11, Indels: 41
0.68 0.07 0.25
Matches are distributed among these distances:
18 5 0.04
19 3 0.03
20 4 0.04
21 5 0.04
22 13 0.12
23 10 0.09
24 12 0.11
25 7 0.06
26 10 0.09
27 38 0.34
28 4 0.04
29 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTTAAATATTAATAATTATTATTTA
Found at i:13653354 original size:21 final size:22
Alignment explanation
Indices: 13653306--13653360 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
13653296 TAACTAGTAA
*
13653306 TTTATTTAAAATATTAATAATTG
1 TTTATTT-AATTATTAATAATTG
*
13653329 ATTATTTAATTATTAAT-ATTG
1 TTTATTTAATTATTAATAATTG
*
13653350 TTTATATAATT
1 TTTATTTAATT
13653361 TAAATGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.46
22 9 0.32
23 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTATTTAATTATTAATAATTG
Found at i:13653448 original size:112 final size:116
Alignment explanation
Indices: 13653198--13653480 Score: 314
Period size: 112 Copynumber: 2.5 Consensus size: 116
13653188 TTTATTTAAA
* * *
13653198 ATATTAATAATAGATAATTTAAATATTAATA-TTTTATTTAATTTAAATATTGTTATGATTAATT
1 ATATTAATAATTGATAATTTAAATATTAATATTTTTATATAATTTAAATATTATTATGATTAATT
* * * **
13653262 TTTATTTTATTTTATTTTATTTTTTAAATATTAATAACTAGTAATTTATTT
66 TATATTTTAATTTATTTTATGTTTTAAATAGGAATAACTAGTAATTTATTT
* *
13653313 AAAATATTAATAATTGATTATTTAATTATTAATATTGTTTATATAATTTAAATGA-TATTAT-AT
1 ---ATATTAATAATTGATAATTTAAATATTAATATT-TTTATATAATTTAAAT-ATTATTATGAT
* *
13653376 TTATTTAT-TTTTAATTT-TTTT-TGTTTTAAATAGGAATAAATTA-TAATTTATTT
61 TAATTTATATTTTAATTTATTTTATGTTTTAAATAGGAAT-AACTAGTAATTTATTT
* *
13653429 -TATTAATAGTTGATAATTTAAATATTAATATTTTATTTATAATTT-AATATTA
1 ATATTAATAATTGATAATTTAAATATTAATATTTT-TATATAATTTAAATATTA
13653481 ATATTTTATT
Statistics
Matches: 143, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
110 1 0.01
111 7 0.05
112 38 0.27
116 23 0.16
117 8 0.06
118 36 0.25
119 9 0.06
120 20 0.14
121 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (116 bp):
ATATTAATAATTGATAATTTAAATATTAATATTTTTATATAATTTAAATATTATTATGATTAATT
TATATTTTAATTTATTTTATGTTTTAAATAGGAATAACTAGTAATTTATTT
Found at i:13653482 original size:25 final size:26
Alignment explanation
Indices: 13653441--13653490 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
13653431 TTAATAGTTG
13653441 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
13653467 ATAATTT-AATATTAATATTTTATT
1 ATAATTTAAATATTAATATTTTATT
13653491 AAAAGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:13656383 original size:18 final size:17
Alignment explanation
Indices: 13656343--13656396 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
13656333 TAAGGAGCAG
**
13656343 CACCAAAACCACCACCA
1 CACCAAAACCACCATAA
13656360 CTACCAAAACCACCATAA
1 C-ACCAAAACCACCATAA
*
13656378 TCACCAAATCCACCATAA
1 -CACCAAAACCACCATAA
13656396 C
1 C
13656397 CATCATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.09
Consensus pattern (17 bp):
CACCAAAACCACCATAA
Found at i:13660695 original size:30 final size:30
Alignment explanation
Indices: 13660655--13660715 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
13660645 ATCATTAGTC
*
13660655 ATAAGTGTTTATTTGACTCAAAATAAAAGT
1 ATAAGAGTTTATTTGACTCAAAATAAAAGT
**
13660685 ATAAGAGTTTATTTGGTTCAAAATAAAAGT
1 ATAAGAGTTTATTTGACTCAAAATAAAAGT
13660715 A
1 A
13660716 AAATAGCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (30 bp):
ATAAGAGTTTATTTGACTCAAAATAAAAGT
Found at i:13676920 original size:34 final size:36
Alignment explanation
Indices: 13676877--13676999 Score: 105
Period size: 34 Copynumber: 3.5 Consensus size: 36
13676867 AATCATTACC
*
13676877 CACCGGCGGCTAACACT-CC-AGCTACTACTCCTCT
1 CACCGGCGGCAAACACTCCCAAGCTACTACTCCTCT
* **
13676911 CACCGGCGGCAAACCCTCCCAAGCTGTTACTCCTCT
1 CACCGGCGGCAAACACTCCCAAGCTACTACTCCTCT
* * * *
13676947 CTCCGGCAGCAAAC-CT-CCAAGCT-TTCACTCTTC-
1 CACCGGCGGCAAACACTCCCAAGCTACT-ACTCCTCT
*
13676980 CTACCGGCAGCAAACACTCC
1 C-ACCGGCGGCAAACACTCC
13677000 AGATTTCAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
33 3 0.04
34 40 0.53
35 6 0.08
36 26 0.35
ACGTcount: A:0.22, C:0.44, G:0.15, T:0.20
Consensus pattern (36 bp):
CACCGGCGGCAAACACTCCCAAGCTACTACTCCTCT
Found at i:13676993 original size:70 final size:69
Alignment explanation
Indices: 13676878--13677138 Score: 214
Period size: 70 Copynumber: 3.8 Consensus size: 69
13676868 ATCATTACCC
* * * *
13676878 ACCGGCGGCTAACACTCC-AGC-TACTACTCCT-CTCACCGGCGGCAAACCCTCCCAAGCTGTTA
1 ACCGGCGGCAAAC-CTCCAAGCTTTC-ACTCCTCCT-ACCGGCAGCAAACACT-CCAAGCTGTTA
13676940 CTCCTCTCT
62 CTCCTC-CT
* * * *
13676949 -CCGGCAGCAAACCTCCAAGCTTTCACTCTTCCTACCGGCAGCAAACACTCC-AGAT-TTCAGTC
1 ACCGGCGGCAAACCTCCAAGCTTTCACTCCTCCTACCGGCAGCAAACACTCCAAGCTGTT-ACTC
*
13677011 TTCCT
65 CTCCT
* * * * *
13677016 ACCGGCGGCCAACCTCCAAGCTGTT-GCTCCTCTCTAAACGGCGGCAAAC-CTCCAAGCTGTTGC
1 ACCGGCGGCAAACCTCCAAGCT-TTCACTCCTC-CT-ACCGGCAGCAAACACTCCAAGCTGTTAC
13677079 TCCTCCT
63 TCCTCCT
* * * *
13677086 ACCGGCGGCAAACCAGCCCAGATTTCTCTCCTCCTACCGGCAGCAAACACTCC
1 ACCGGCGGCAAACC-TCCAAGCTTTCACTCCTCCTACCGGCAGCAAACACTCC
13677139 TCCCCTCTTT
Statistics
Matches: 151, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
67 4 0.03
68 32 0.21
69 25 0.17
70 73 0.48
71 17 0.11
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.21
Consensus pattern (69 bp):
ACCGGCGGCAAACCTCCAAGCTTTCACTCCTCCTACCGGCAGCAAACACTCCAAGCTGTTACTCC
TCCT
Found at i:13677007 original size:34 final size:34
Alignment explanation
Indices: 13676903--13677138 Score: 178
Period size: 34 Copynumber: 6.8 Consensus size: 34
13676893 TCCAGCTACT
*
13676903 ACTCCT-CTCACCGGCGGCAAACCCTCCCAAGCTGTT-
1 ACTCCTCCT-ACCGGCAGCAAA-CCT-CCAAGCT-TTC
13676939 ACTCCTCTCT-CCGGCAGCAAACCTCCAAGCTTTC
1 ACTCCTC-CTACCGGCAGCAAACCTCCAAGCTTTC
* *
13676973 ACTCTTCCTACCGGCAGCAAACACTCC-AGATTTC
1 ACTCCTCCTACCGGCAGCAAAC-CTCCAAGCTTTC
* * * *
13677007 AGTCTTCCTACCGGCGGCCAACCTCCAAGCTGTT-
1 ACTCCTCCTACCGGCAGCAAACCTCCAAGCT-TTC
* * *
13677041 GCTCCTCTCTAAACGGCGGCAAACCTCCAAGCTGTT-
1 ACTCCTC-CT-ACCGGCAGCAAACCTCCAAGCT-TTC
* * * * *
13677077 GCTCCTCCTACCGGCGGCAAACCAGCCCAGATTTC
1 ACTCCTCCTACCGGCAGCAAACC-TCCAAGCTTTC
*
13677112 TCTCCTCCTACCGGCAGCAAACACTCC
1 ACTCCTCCTACCGGCAGCAAAC-CTCC
13677139 TCCCCTCTTT
Statistics
Matches: 169, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
33 8 0.05
34 72 0.43
35 40 0.24
36 47 0.28
38 2 0.01
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (34 bp):
ACTCCTCCTACCGGCAGCAAACCTCCAAGCTTTC
Found at i:13677063 original size:104 final size:105
Alignment explanation
Indices: 13676903--13677138 Score: 277
Period size: 104 Copynumber: 2.3 Consensus size: 105
13676893 TCCAGCTACT
*
13676903 ACTCCT-CTCACCGGCGGCAAACCCTCCCAAGCTGTTACTCCTCTCTCCGGCAGCAAACCTCCAA
1 ACTCCTCCT-ACCGGCGGCAAACCCTCCCAAGCTGTTACTCCTCTCTACGGCAGCAAACCTCCAA
*
13676967 GCT-TTCACTCTTCCTACCGGCAGCAAA-CA-CTCCAGATTTC
65 GCTGTT-ACTCCTCCTACCGGCAGCAAACCAGC-CCAGATTTC
* * * * *
13677007 AGTCTTCCTACCGGCGGCCAA-CCT-CCAAGCTGTTGCTCCTCTCTAAACGGCGGCAAACCTCCA
1 ACTCCTCCTACCGGCGGCAAACCCTCCCAAGCTGTTACTCCTCTCT--ACGGCAGCAAACCTCCA
* *
13677070 AGCTGTTGCTCCTCCTACCGGCGGCAAACCAGCCCAGATTTC
64 AGCTGTTACTCCTCCTACCGGCAGCAAACCAGCCCAGATTTC
* * *
13677112 TCTCCTCCTACCGGCAGCAAACACTCC
1 ACTCCTCCTACCGGCGGCAAACCCTCC
13677139 TCCCCTCTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
102 19 0.17
103 3 0.03
104 52 0.48
105 31 0.28
106 3 0.03
107 1 0.01
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (105 bp):
ACTCCTCCTACCGGCGGCAAACCCTCCCAAGCTGTTACTCCTCTCTACGGCAGCAAACCTCCAAG
CTGTTACTCCTCCTACCGGCAGCAAACCAGCCCAGATTTC
Found at i:13679846 original size:81 final size:80
Alignment explanation
Indices: 13679709--13679932 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 80
13679699 GAAGGCATGC
* * *
13679709 GTGACTAGTTGATAGGGCATGCATGATTGGTTTTAGGCATTGAGTTTAGGGATTTTAGGCATTAC
1 GTGACTAGTTGATAGGGCATGCATGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCATTA-
*
13679774 GTAACTTAAAATTTGA
65 GTAACTTAAAATTTCA
* * *
13679790 GTGACTGGTTGATAGGGCATGCTTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGTATTAG
1 GTGACTAGTTGATAGGGCATGCATGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCATTAG
* ** *
13679855 TGACTTAAGGTTTCC
66 TAACTTAAAATTTCA
* ** *
13679870 GTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGATATTGGGTTTAGGGGTTTTAAGCATT
1 GTGACTAGTTGATAGGGCATGCATGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCATT
13679933 GCATGACTTA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 68 0.54
81 58 0.46
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (80 bp):
GTGACTAGTTGATAGGGCATGCATGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCATTAG
TAACTTAAAATTTCA
Found at i:13679897 original size:80 final size:80
Alignment explanation
Indices: 13679706--13679985 Score: 330
Period size: 81 Copynumber: 3.5 Consensus size: 80
13679696 TGAGAAGGCA
* * * *
13679706 TGCGTGACTAGTTGATAGGGCATGCATGATTGGTTTTAGGCATTGAGTTTAGGGATTTTAGGCAT
1 TGCGTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCAT
* **
13679771 TACGTAACTTAAAATT
66 TA-GTGACTTAAGGTT
* * * *
13679787 TGAGTGACTGGTTGATAGGGCATGCTTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGTAT
1 TGCGTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCAT
13679852 TAGTGACTTAAGGTT
66 TAGTGACTTAAGGTT
* ** *
13679867 TCCGTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGATATTGGGTTTAGGGGTTTTAAGCAT
1 TGCGTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCAT
*
13679932 T-GCATGACTTAGGGTT
66 TAG--TGACTTAAGGTT
* * *
13679948 TGTGTAACTAGTTGATAGAGG-ATTGCGTGACTTGTTTT
1 TGCGTGACTAGTTGATAG-GGCA-TGCGTGACTGGTTTT
13679986 TAAGCATTAC
Statistics
Matches: 172, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.40
81 87 0.51
82 16 0.09
ACGTcount: A:0.21, C:0.09, G:0.31, T:0.38
Consensus pattern (80 bp):
TGCGTGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGGCATTGGGTTTAGGGGTTTTAGGCAT
TAGTGACTTAAGGTT
Found at i:13680045 original size:22 final size:23
Alignment explanation
Indices: 13680011--13680155 Score: 91
Period size: 22 Copynumber: 6.5 Consensus size: 23
13680001 TGGTTAATAG
**
13680011 GGCATTGTGTGACT-GGTTTTTA
1 GGCATTGCATGACTAGGTTTTTA
* *
13680033 GTCATTGCATGACTAGTTTTTTA
1 GGCATTGCATGACTAGGTTTTTA
* * * **
13680056 GGCATTGCGTGGCT-GATTGATA
1 GGCATTGCATGACTAGGTTTTTA
* * * ** *
13680078 AGCATTGCTTGACTAGCTGATTG
1 GGCATTGCATGACTAGGTTTTTA
*
13680101 GGTATTGCATGACTA-GTTTTTA
1 GGCATTGCATGACTAGGTTTTTA
* **
13680123 GGCATTGCGTGACT-GGTTGATA
1 GGCATTGCATGACTAGGTTTTTA
13680145 GGCATTGCATG
1 GGCATTGCATG
13680156 TAGAGGCGTT
Statistics
Matches: 90, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
22 57 0.63
23 33 0.37
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.39
Consensus pattern (23 bp):
GGCATTGCATGACTAGGTTTTTA
Found at i:13681007 original size:22 final size:22
Alignment explanation
Indices: 13680982--13681041 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 22
13680972 ATTACATGAT
*
13680982 TGGTTTTTAGTCATTGCGTGAC
1 TGGTTTTTAGACATTGCGTGAC
* *
13681004 TGGTTTGTAAGACATTGTGTGAC
1 TGGTTT-TTAGACATTGCGTGAC
* *
13681027 TGATTTTTAGGCATT
1 TGGTTTTTAGACATT
13681042 CATTGATTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.18, C:0.10, G:0.27, T:0.45
Consensus pattern (22 bp):
TGGTTTTTAGACATTGCGTGAC
Found at i:13681114 original size:22 final size:22
Alignment explanation
Indices: 13680993--13681114 Score: 68
Period size: 22 Copynumber: 5.5 Consensus size: 22
13680983 GGTTTTTAGT
* * *
13680993 CATTGCGTGACTGGTTTGTAAGA
1 CATTGTGTGACTGATTT-TAAGG
*
13681016 CATTGTGTGACTGATTTTTAGG
1 CATTGTGTGACTGATTTTAAGG
* * * * *
13681038 CATTCAT-TGATTGGTTGATAGGG
1 CATT-GTGTGACTGATT-TTAAGG
* *
13681061 GATTGTGTGA-TCAATTTTAAGG
1 CATTGTGTGACT-GATTTTAAGG
** *
13681083 CATTACGTGACTGATTTTAAGT
1 CATTGTGTGACTGATTTTAAGG
13681105 CATTGTGTGA
1 CATTGTGTGA
13681115 TTGGTTGATA
Statistics
Matches: 71, Mismatches: 23, Indels: 11
0.68 0.22 0.10
Matches are distributed among these distances:
22 43 0.61
23 28 0.39
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (22 bp):
CATTGTGTGACTGATTTTAAGG
Found at i:13681188 original size:68 final size:69
Alignment explanation
Indices: 13681116--13681254 Score: 163
Period size: 68 Copynumber: 2.0 Consensus size: 69
13681106 ATTGTGTGAT
* * * *
13681116 TGGTTGATAAGGCATTACATGACTAGTTGATAGGGTATTACATCACTGGTTGATA-GGCATTGCA
1 TGGTTGATAAGGCATTACATGACTACTTGATAAGGCATTACATCACTAGTTGATAGGGCATTGCA
13681180 TGAC
66 TGAC
* * ** * * * *
13681184 TGGTTGATAGGGTATTATGTGACTACTTGATAAGGCATTGCATGACTAGTTTATAGGGCATTGCG
1 TGGTTGATAAGGCATTACATGACTACTTGATAAGGCATTACATCACTAGTTGATAGGGCATTGCA
13681249 TGAC
66 TGAC
13681253 TG
1 TG
13681255 TTTTCTAGGC
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
68 44 0.76
69 14 0.24
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (69 bp):
TGGTTGATAAGGCATTACATGACTACTTGATAAGGCATTACATCACTAGTTGATAGGGCATTGCA
TGAC
Found at i:13681252 original size:46 final size:46
Alignment explanation
Indices: 13681119--13681253 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 46
13681109 GTGTGATTGG
* * * **
13681119 TTGATAAGGCATTACATGACTAGTTGATAGGGTATTACATCACTGG
1 TTGATAAGGCATTGCATGACTAGTTGATAGGGTATTACGTGACTAC
* *
13681165 TTGAT-AGGCATTGCATGACTGGTTGATAGGGTATTATGTGACTAC
1 TTGATAAGGCATTGCATGACTAGTTGATAGGGTATTACGTGACTAC
* * *
13681210 TTGATAAGGCATTGCATGACTAGTTTATAGGGCATTGCGTGACT
1 TTGATAAGGCATTGCATGACTAGTTGATAGGGTATTACGTGACT
13681254 GTTTTCTAGG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
45 38 0.50
46 38 0.50
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (46 bp):
TTGATAAGGCATTGCATGACTAGTTGATAGGGTATTACGTGACTAC
Found at i:13681253 original size:23 final size:23
Alignment explanation
Indices: 13681118--13681245 Score: 132
Period size: 23 Copynumber: 5.6 Consensus size: 23
13681108 TGTGTGATTG
*
13681118 GTTGATAAGGCATTACATGACTA
1 GTTGATAGGGCATTACATGACTA
* * *
13681141 GTTGATAGGGTATTACATCACTG
1 GTTGATAGGGCATTACATGACTA
* *
13681164 GTTGATA-GGCATTGCATGACTG
1 GTTGATAGGGCATTACATGACTA
* **
13681186 GTTGATAGGGTATTATGTGACTA
1 GTTGATAGGGCATTACATGACTA
* * *
13681209 CTTGATAAGGCATTGCATGACTA
1 GTTGATAGGGCATTACATGACTA
*
13681232 GTTTATAGGGCATT
1 GTTGATAGGGCATT
13681246 GCGTGACTGT
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
22 19 0.23
23 64 0.77
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (23 bp):
GTTGATAGGGCATTACATGACTA
Found at i:13681263 original size:23 final size:22
Alignment explanation
Indices: 13681125--13681269 Score: 85
Period size: 23 Copynumber: 6.4 Consensus size: 22
13681115 TTGGTTGATA
* *
13681125 AGGCATTACATGACTAGTTGAT
1 AGGCATTGCATGACTAGTTTAT
* * * * *
13681147 AGGGTATTACATCACTGGTTGAT
1 A-GGCATTGCATGACTAGTTTAT
* *
13681170 AGGCATTGCATGACTGGTTGAT
1 AGGCATTGCATGACTAGTTTAT
* *** * *
13681192 AGGGTATTATGTGACTACTTGAT
1 A-GGCATTGCATGACTAGTTTAT
13681215 AAGGCATTGCATGACTAGTTTAT
1 -AGGCATTGCATGACTAGTTTAT
* *
13681238 AGGGCATTGCGTGACT-GTTTTCT
1 A-GGCATTGCATGACTAG-TTTAT
13681261 AGGCATTGC
1 AGGCATTGC
13681270 TTGGATATTA
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
22 30 0.31
23 67 0.68
24 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (22 bp):
AGGCATTGCATGACTAGTTTAT
Found at i:13686040 original size:22 final size:22
Alignment explanation
Indices: 13686015--13686057 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13686005 TTTTTTAAGT
13686015 ATTGCATGACTGGATT-TTATGC
1 ATTGCATGACTGG-TTGTTATGC
**
13686037 ATTGTGTGACTGGTTGTTATG
1 ATTGCATGACTGGTTGTTATG
13686058 TACTACGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (22 bp):
ATTGCATGACTGGTTGTTATGC
Found at i:13688733 original size:34 final size:34
Alignment explanation
Indices: 13688665--13688742 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
13688655 AAATTTAAAT
***
13688665 TTAAATAACAAAAACAAATATCTCAAATGCCAAC
1 TTAAATAACAAAAACAAATATCTCAAACAACAAC
*
13688699 TTAAATAACTAAAAACAAAT-TTTCAAACAACAAC
1 TTAAATAAC-AAAAACAAATATCTCAAACAACAAC
*
13688733 TTAAACAACA
1 TTAAATAACA
13688743 TTACAAGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 1 0.03
34 27 0.71
35 10 0.26
ACGTcount: A:0.58, C:0.19, G:0.01, T:0.22
Consensus pattern (34 bp):
TTAAATAACAAAAACAAATATCTCAAACAACAAC
Found at i:13691757 original size:38 final size:40
Alignment explanation
Indices: 13691715--13691815 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 40
13691705 AGTGCTCGTG
13691715 TGCACGATGTGGGGGGATGTACACGAT-G-G-C-ACTGATTA
1 TGCACGATGTGGGGGGATGTACACGATGGTGTCGACT-A-TA
* * * *
13691753 TGCACTATGTGGGGGGATGCACATGATGGTGTCGACTATG
1 TGCACGATGTGGGGGGATGTACACGATGGTGTCGACTATA
13691793 TGCACGATGTGGGGGGATGTACA
1 TGCACGATGTGGGGGGATGTACA
13691816 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
38 24 0.45
39 1 0.02
40 23 0.43
41 2 0.04
42 3 0.06
ACGTcount: A:0.22, C:0.15, G:0.39, T:0.25
Consensus pattern (40 bp):
TGCACGATGTGGGGGGATGTACACGATGGTGTCGACTATA
Done.