Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012844.1 Corchorus capsularis cultivar CVL-1 contig12865, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25257
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Found at i:1377 original size:2 final size:2
Alignment explanation
Indices: 1372--1400 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1362 TTTGTGCAAA
1372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1401 CTAGTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1572 original size:22 final size:21
Alignment explanation
Indices: 1521--2037 Score: 153
Period size: 22 Copynumber: 23.7 Consensus size: 21
1511 ATGATCCCAT
*
1521 TATGAAATTTTGATAACCTCC
1 TATGAAATTTTGATAACCTAC
*
1542 TATGAAATTTTGATAACGGTAC
1 TATGAAATTTTGATAAC-CTAC
** * **
1564 TAT-AGAATTTCAAGAATCCTTT
1 TATGA-AATTTTGATAA-CCTAC
** *
1586 TAT-AAATTTTTTTTAACTTAC
1 TATGAAA-TTTTGATAACCTAC
* *
1607 TTATGAAATTTTGTTAACCTCCC
1 -TATGAAATTTTGATAACCT-AC
* * * *
1630 TAAGGAATTTTGA-AGATCTCAA
1 TATGAAATTTTGATA-ACCT-AC
*
1652 TATGAAATTTTGATAACCAACAC
1 TATGAAATTTTGATAACC--TAC
* * *
1675 TATGAGATGTTGATAACCTCC
1 TATGAAATTTTGATAACCTAC
* *
1696 ATATGATATATTGATAACC-AC
1 -TATGAAATTTTGATAACCTAC
* * * * *
1717 TTTATAAAAATTTAAAAACCTCC
1 --TATGAAATTTTGATAACCTAC
*
1740 ATATG-AATGGTTAGTAATAA-C-AC
1 -TATGAAAT--TT--TGATAACCTAC
* *
1763 TTTAAAATTTTGATAATCAC-AC
1 TATGAAATTTTGATAA-C-CTAC
* *
1785 TATGAAATTGTGATAACCTCGC
1 TATGAAATTTTGATAACCT-AC
*
1807 TATGAAATTTTGATAACTCTTTC
1 TATGAAATTTTGATAAC-C-TAC
* * * *
1830 AATAAAATTTTAATAAACCTCCC
1 TATGAAATTTTGAT-AACCT-AC
* * *
1853 TATAAAATTTTGATAACTTTC
1 TATGAAATTTTGATAACCTAC
*
1874 TTATGAAATCTTGATAA-CTAC
1 -TATGAAATTTTGATAACCTAC
* *
1895 ----AAATTTTGATAAGCTCC
1 TATGAAATTTTGATAACCTAC
** *
1912 TTATGATTTTTTGATAACCTCAT
1 -TATGAAATTTTGATAACCT-AC
* * *
1935 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCT-AC
* *
1957 TATGAAATTTTGATCTACATAC
1 TATGAAATTTTGAT-AACCTAC
*
1979 TATGAAATTTTGA-AAACTAAAC
1 TATGAAATTTTGATAACCT--AC
* *
2001 TATGAAAATTTGATAACCTTC
1 TATGAAATTTTGATAACCTAC
2022 ATATGAAATTTTGATA
1 -TATGAAATTTTGATA
2038 TCCTCCCTGA
Statistics
Matches: 360, Mismatches: 95, Indels: 81
0.67 0.18 0.15
Matches are distributed among these distances:
16 11 0.03
17 3 0.01
19 5 0.01
20 3 0.01
21 34 0.09
22 231 0.64
23 63 0.17
24 5 0.01
25 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (21 bp):
TATGAAATTTTGATAACCTAC
Found at i:1687 original size:23 final size:22
Alignment explanation
Indices: 1651--1715 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
1641 GAAGATCTCA
*
1651 ATATGAAATTTTGATAACCAAC
1 ATATGAAATATTGATAACCAAC
* * **
1673 ACTATGAGATGTTGATAACCTCC
1 A-TATGAAATATTGATAACCAAC
*
1696 ATATGATATATTGATAACCA
1 ATATGAAATATTGATAACCA
1716 CTTTATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (22 bp):
ATATGAAATATTGATAACCAAC
Found at i:2052 original size:19 final size:20
Alignment explanation
Indices: 2027--2075 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
2017 CCTTCATATG
2027 AAATTTTGATATCCTCCCT-
1 AAATTTTGATATCCTCCCTA
* *
2046 GAATTTTGGTATCCTCCCTA
1 AAATTTTGATATCCTCCCTA
2066 AAATTTTGAT
1 AAATTTTGAT
2076 TACTCCATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (20 bp):
AAATTTTGATATCCTCCCTA
Found at i:2309 original size:18 final size:19
Alignment explanation
Indices: 2271--2309 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
2261 CAACACTATG
2271 AAATTTTGATAATCTTCATAT
1 AAATTTTGATAA--TTCATAT
2292 AAATTTTGATAA-TCATAT
1 AAATTTTGATAATTCATAT
2310 CTTTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATTTTGATAATTCATAT
Found at i:2418 original size:22 final size:22
Alignment explanation
Indices: 2181--2499 Score: 101
Period size: 22 Copynumber: 14.3 Consensus size: 22
2171 AATCAGATTT
* **
2181 TGAAAATTTGATAACCTTTTTA
1 TGAAATTTTGATAACCTTCATA
2203 TGAAATTTTGATAACATCTT--TA
1 TGAAATTTTGATAAC--CTTCATA
* * * * *
2225 TAAAATTTCGTTGACCCCTC-TA
1 TGAAATTTTGAT-AACCTTCATA
**
2247 TGAAATTTTGATAA-CAACACTA
1 TGAAATTTTGATAACCTTCA-TA
*
2269 TGAAATTTTGATAATCTTCATA
1 TGAAATTTTGATAACCTTCATA
* *
2291 T-AAATTTTGATAATCATATCTTTA
1 TGAAATTTTGATAA-CCT-TC-ATA
**
2315 TGAAATTTCAATAATCAC-TC-TA
1 TGAAATTTTGATAA-C-CTTCATA
*
2337 TGAGA-TTTGATAACCTTC-TA
1 TGAAATTTTGATAACCTTCATA
* * *
2357 TCAAATTTTGGTACTCCTT-ATAAAA
1 TGAAATTTTGATA-ACCTTCAT---A
*
2382 TTGAGACTTTT-ATAACCTTCATA
1 -TGA-AATTTTGATAACCTTCATA
*
2405 TGAAATTTTGATAACC-ACACTA
1 TGAAATTTTGATAACCTTCA-TA
* * **
2427 TAAAATTTTGATAACCTCCCGA
1 TGAAATTTTGATAACCTTCATA
* *
2449 TGAAGTATT-AGTAACCTTC-TAA
1 TGAAATTTTGA-TAACCTTCAT-A
* *
2471 TGAAATTTTGTTAACC-ACACTA
1 TGAAATTTTGATAACCTTCA-TA
2493 TGAAATT
1 TGAAATT
2500 CGTATAACCT
Statistics
Matches: 221, Mismatches: 46, Indels: 60
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.00
20 10 0.05
21 36 0.16
22 128 0.58
23 10 0.05
24 8 0.04
25 17 0.08
26 6 0.03
27 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (22 bp):
TGAAATTTTGATAACCTTCATA
Found at i:2646 original size:22 final size:22
Alignment explanation
Indices: 2617--2694 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
2607 TAACTTGATC
*
2617 CTATGAAATTTTGGTAACCACT
1 CTATGAAATTTTGGTAACCACA
* *
2639 TTATGAAATTTTGGTAACTACA
1 CTATGAAATTTTGGTAACCACA
2661 CTATGAAATTTTGGTAACCACA
1 CTATGAAATTTTGGTAACCACA
2683 CTATGAAATTTT
1 CTATGAAATTTT
2695 AATAACCTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
CTATGAAATTTTGGTAACCACA
Found at i:2700 original size:22 final size:22
Alignment explanation
Indices: 2563--2701 Score: 111
Period size: 22 Copynumber: 6.2 Consensus size: 22
2553 TTGTGATAAT
* *
2563 TAACCACCCTATGAAATTTCAA
1 TAACCACACTATGAAATTTTAA
*
2585 TAACCA-ACCTAAGAAATTTTAA
1 TAACCACA-CTATGAAATTTTAA
* **
2607 TAACTTGATC-CTATGAAATTTTGG
1 TAAC--CA-CACTATGAAATTTTAA
** **
2631 TAACCACTTTATGAAATTTTGG
1 TAACCACACTATGAAATTTTAA
* **
2653 TAACTACACTATGAAATTTTGG
1 TAACCACACTATGAAATTTTAA
2675 TAACCACACTATGAAATTTTAA
1 TAACCACACTATGAAATTTTAA
2697 TAACC
1 TAACC
2702 TTCTCATGGA
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.01
22 79 0.82
24 16 0.17
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (22 bp):
TAACCACACTATGAAATTTTAA
Found at i:4301 original size:23 final size:23
Alignment explanation
Indices: 4270--4354 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
4260 GATAACCTCG
*
4270 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAATCTTC
* * *
4293 CTATAAAATTTTAATAAACCTCC
1 CTATAAAATTTTGATAAATCTTC
*
4316 CTATAAAATTTTGATAACT-TTC
1 CTATAAAATTTTGATAAATCTTC
* * *
4338 TTATGAAATCTTGATAA
1 CTATAAAATTTTGATAA
4355 CTACAAATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 16 0.31
23 35 0.69
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (23 bp):
CTATAAAATTTTGATAAATCTTC
Found at i:4410 original size:23 final size:22
Alignment explanation
Indices: 4087--4530 Score: 114
Period size: 22 Copynumber: 20.3 Consensus size: 22
4077 AACTTTGAAG
*
4087 ACCTCAATATGAAATTTTGATA
1 ACCTCATTATGAAATTTTGATA
* ***
4109 ACTTCCCAATGAAATTTTGATA
1 ACCTCATTATGAAATTTTGATA
* * ** *
4131 ACCAACACTATGGGATGTTGATA
1 ACC-TCATTATGAAATTTTGATA
* *
4154 ACCTCCA-TATGATATATTGATA
1 ACCT-CATTATGAAATTTTGATA
* * * * * *
4176 ACCACTTTATAAAAATTTAAAA
1 ACCTCATTATGAAATTTTGATA
* *
4198 ATCTCCA-TATG-AATTGTTAATA
1 ACCT-CATTATGAAATT-TTGATA
* * * *
4220 ATCACACTT-TAAAAATTTGATA
1 ACCTCA-TTATGAAATTTTGATA
* * * *
4242 ATCACACTATGAAATTGTGATA
1 ACCTCATTATGAAATTTTGATA
**
4264 ACCTCGCTATGAAATTTTGATAA
1 ACCTCATTATGAAATTTTGAT-A
* * * *
4287 ATCTTC-CTATAAAATTTTAATAA
1 A-CCTCATTATGAAATTTTGAT-A
** *
4310 ACCTCCCTATAAAATTTTGATA
1 ACCTCATTATGAAATTTTGATA
* *
4332 ACTTTC-TTATGAAATCTTGATA
1 AC-CTCATTATGAAATTTTGATA
*
4354 A---C--TA-CAAATTTTGATA
1 ACCTCATTATGAAATTTTGATA
* * **
4370 AGCTCCTTATGATTTTTTTGATA
1 ACCTCATTATGA-AATTTTGATA
*
4393 ACCTCATTATGAAATTTTGTTA
1 ACCTCATTATGAAATTTTGATA
* **
4415 ATCTCCCTATGAAATTTTGAT-
1 ACCTCATTATGAAATTTTGATA
*
4436 --CTACATGCTATAAAATTTTGATA
1 ACCT-CAT--TATGAAATTTTGATA
4459 ACCCTC-TTATGAAATTTTGA-A
1 A-CCTCATTATGAAATTTTGATA
* * * * *
4480 AGCTAAACTATGAAAATTAGATA
1 ACCT-CATTATGAAATTTTGATA
*
4503 ACCTTCA-TACGAAATTTTGATA
1 ACC-TCATTATGAAATTTTGATA
*
4525 TCCTCA
1 ACCTCA
4531 CTGAATTTTG
Statistics
Matches: 312, Mismatches: 79, Indels: 63
0.69 0.17 0.14
Matches are distributed among these distances:
16 11 0.04
17 2 0.01
18 1 0.00
19 3 0.01
20 3 0.01
21 14 0.04
22 191 0.61
23 79 0.25
24 5 0.02
25 1 0.00
26 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (22 bp):
ACCTCATTATGAAATTTTGATA
Found at i:4473 original size:22 final size:21
Alignment explanation
Indices: 4249--4478 Score: 121
Period size: 22 Copynumber: 10.6 Consensus size: 21
4239 ATAATCACAC
* *
4249 TATGAAATTGTGATAACCTCGC
1 TATGAAATTTTGATAACCTC-T
* *
4271 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AA-CCTCT
* * *
4294 TATAAAATTTTAATAAACCTCCC
1 TATGAAATTTTGAT-AACCT-CT
* *
4317 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAAC-CTCT
*
4339 TATGAAATCTTGATAA---C-
1 TATGAAATTTTGATAACCTCT
* *
4356 TA-CAAATTTTGATAAGCTCCT
1 TATGAAATTTTGATAACCT-CT
**
4377 TATGATTTTTTTGATAACCTCAT
1 TATGA-AATTTTGATAACCTC-T
* * *
4400 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCT-CT
* *
4422 TATGAAATTTTGATCTACATGC-
1 TATGAAATTTTGAT-AACCT-CT
*
4444 TATAAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAA-CCTCT
4466 TATGAAATTTTGA
1 TATGAAATTTTGA
4479 AAGCTAAACT
Statistics
Matches: 162, Mismatches: 30, Indels: 32
0.72 0.13 0.14
Matches are distributed among these distances:
16 11 0.07
17 2 0.01
18 1 0.01
20 1 0.01
21 4 0.02
22 85 0.52
23 55 0.34
24 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (21 bp):
TATGAAATTTTGATAACCTCT
Found at i:4568 original size:19 final size:20
Alignment explanation
Indices: 4513--4562 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
4503 ACCTTCATAC
*
4513 GAAATTTTGATATCCTCACT
1 GAAATTTTGATATCCTCCCT
*
4533 G-AATTTTGGTATCCTCCCT
1 GAAATTTTGATATCCTCCCT
4552 GAAATTTTGAT
1 GAAATTTTGAT
4563 TACTCCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (20 bp):
GAAATTTTGATATCCTCCCT
Found at i:4693 original size:22 final size:22
Alignment explanation
Indices: 4668--4914 Score: 159
Period size: 22 Copynumber: 11.3 Consensus size: 22
4658 AATCACATTT
*
4668 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCTTTA
*
4690 TGAAATTTTGATAACATCTTTA
1 TGAAATTTTGATAACCTCTTTA
* * * * *
4712 TAAAATTTTGTTGACCCCTCTA
1 TGAAATTTTGATAACCTCTTTA
* * *
4734 TGAAATTTTGATAATCACATTA
1 TGAAATTTTGATAACCTCTTTA
*
4756 TGTAATTTTGATAACCTCGTTT-
1 TGAAATTTTGATAACCTC-TTTA
** **
4778 TGAAATTTTGATAACAACACTA
1 TGAAATTTTGATAACCTCTTTA
4800 TGAAATTTTGATAA--TCTTCATA
1 TGAAATTTTGATAACCTCTT--TA
*
4822 T-AAATTTTGATAATCATATCTTTA
1 TGAAATTTTGATAA-C--CTCTTTA
* * * *
4846 TGAAATTTCGATAATCACTCTA
1 TGAAATTTTGATAACCTCTTTA
* *
4868 TGAGA-TTTGATAACCT-TCTA
1 TGAAATTTTGATAACCTCTTTA
* * *
4888 TCAAATTTTGGT-A-CTCCTTA
1 TGAAATTTTGATAACCTCTTTA
4908 TGAAATT
1 TGAAATT
4915 GAGACTTTTA
Statistics
Matches: 171, Mismatches: 42, Indels: 26
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.01
20 17 0.10
21 26 0.15
22 106 0.62
23 2 0.01
24 3 0.02
25 11 0.06
26 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCTTTA
Found at i:4694 original size:44 final size:44
Alignment explanation
Indices: 4644--4837 Score: 163
Period size: 44 Copynumber: 4.4 Consensus size: 44
4634 GAAATACCAC
4644 TATGAAATTTTTG-TAATCACATTTTGAAAATTTGATAACCTCTT
1 TATGAAA-TTTTGATAATCACATTTTGAAAATTTGATAACCTCTT
* * * *
4688 TATGAAATTTTGATAA-CATC-TTTAT-AAAATTTTGTTGACCCCTC
1 TATGAAATTTTGATAATCA-CATTT-TGAAAA-TTTGATAACCTCTT
* * *
4732 TATGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGTT
1 TATGAAATTTTGATAATCACATTTTGAAAATTTGATAACCTC-TT
* * *
4777 T-TGAAATTTTGATAA-CAACACTATGAAATTTTGATAA--TCTT
1 TATGAAATTTTGATAATC-ACATTTTGAAAATTTGATAACCTCTT
4818 CATAT-AAATTTTGATAATCA
1 --TATGAAATTTTGATAATCA
4838 TATCTTTATG
Statistics
Matches: 124, Mismatches: 13, Indels: 27
0.76 0.08 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 29 0.23
44 83 0.67
45 8 0.06
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (44 bp):
TATGAAATTTTGATAATCACATTTTGAAAATTTGATAACCTCTT
Found at i:4757 original size:66 final size:66
Alignment explanation
Indices: 4668--4880 Score: 202
Period size: 66 Copynumber: 3.2 Consensus size: 66
4658 AATCACATTT
* * * * * * ** *
4668 TGAAAATTTGATAACCTCTTTATGAAATTTTGATAACATCTTTATAAAATTTTGTTGACCCCTCT
1 TGAAATTTTGATAATCTCATTATGAAATTTTGATAACATCTTTATGAAATTTTGATAACAACACT
4733 A
66 A
* * *
4734 TGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGTTT-TGAAATTTTGATAACAACAC
1 TGAAATTTTGATAATCTCATTATGAAATTTTGATAACATC-TTTATGAAATTTTGATAACAACAC
4798 TA
65 TA
*
4800 TGAAATTTTGATAATCTTCA-TAT-AAATTTTGATAATCATATCTTTATGAAATTTCGATAATC-
1 TGAAATTTTGATAATC-TCATTATGAAATTTTGATAA-C--ATCTTTATGAAATTTTGATAA-CA
*
4862 ACTCTA
61 ACACTA
*
4868 TGAGA-TTTGATAA
1 TGAAATTTTGATAA
4881 CCTTCTATCA
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
65 11 0.09
66 70 0.57
67 16 0.13
68 24 0.20
69 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (66 bp):
TGAAATTTTGATAATCTCATTATGAAATTTTGATAACATCTTTATGAAATTTTGATAACAACACT
A
Found at i:4806 original size:88 final size:88
Alignment explanation
Indices: 4643--4809 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
4633 AGAAATACCA
* *
4643 CTATGAAATTTTTGTAATCACATTTTGAAAATTTGATAACCTCTTTATGAAATTTTGATAACATC
1 CTATGAAATTTTTGTAATCACATTATGAAAATTTGATAACCTCTTTATGAAATTTTGATAACAAC
**
4708 TTTATAAAATTTTGTTGACCCCT
66 ACTATAAAATTTTGTTGACCCCT
* *
4731 CTATGAAA-TTTTGATAATCACATTATGTAATTTTGATAACCTCGTTT-TGAAATTTTGATAACA
1 CTATGAAATTTTTG-TAATCACATTATGAAAATTTGATAACCTC-TTTATGAAATTTTGATAACA
*
4794 ACACTATGAAATTTTG
64 ACACTATAAAATTTTG
4810 ATAATCTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 5 0.07
88 62 0.89
89 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (88 bp):
CTATGAAATTTTTGTAATCACATTATGAAAATTTGATAACCTCTTTATGAAATTTTGATAACAAC
ACTATAAAATTTTGTTGACCCCT
Found at i:4840 original size:18 final size:19
Alignment explanation
Indices: 4802--4840 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
4792 CAACACTATG
4802 AAATTTTGATAATCTTCATAT
1 AAATTTTGATAA--TTCATAT
4823 AAATTTTGATAA-TCATAT
1 AAATTTTGATAATTCATAT
4841 CTTTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATTTTGATAATTCATAT
Found at i:4949 original size:22 final size:22
Alignment explanation
Indices: 4668--4974 Score: 122
Period size: 22 Copynumber: 13.8 Consensus size: 22
4658 AATCACATTT
* *
4668 TGAAAATTTGATAACC-TCTTTA
1 TGAAATTTTGATAACCTTC-ATA
4690 TGAAATTTTGATAACATCTT--TA
1 TGAAATTTTGATAAC--CTTCATA
* * * *
4712 TAAAATTTTGTTGACCCCTC-TA
1 TGAAATTTTGAT-AACCTTCATA
* *
4734 TGAAATTTTGATAATC-ACATTA
1 TGAAATTTTGATAACCTTCA-TA
* * *
4756 TGTAATTTTGATAACC-TCGTTT
1 TGAAATTTTGATAACCTTC-ATA
**
4778 TGAAATTTTGATAA-CAACACTA
1 TGAAATTTTGATAACCTTCA-TA
*
4800 TGAAATTTTGATAATCTTCATA
1 TGAAATTTTGATAACCTTCATA
* *
4822 T-AAATTTTGATAATCATATCTTTA
1 TGAAATTTTGATAA-CCT-TC-ATA
*
4846 TGAAATTTCGATAATCAC-TC-TA
1 TGAAATTTTGATAA-C-CTTCATA
*
4868 TGAGA-TTTGATAACCTTC-TA
1 TGAAATTTTGATAACCTTCATA
* * *
4888 TCAAATTTTGGTACTCCTT-ATGAAA
1 TGAAATTTTGATA-ACCTTCAT---A
*
4913 TTGAGACTTTT-ATAACCTTCATA
1 -TGA-AATTTTGATAACCTTCATA
*
4936 TGAAATTTTGATAACC-ACACTA
1 TGAAATTTTGATAACCTTCA-TA
*
4958 TAAAATTTTGATAACCT
1 TGAAATTTTGATAACCT
4975 CCCGATGAAG
Statistics
Matches: 217, Mismatches: 39, Indels: 57
0.69 0.12 0.18
Matches are distributed among these distances:
19 1 0.00
20 9 0.04
21 37 0.17
22 126 0.58
23 8 0.04
24 6 0.03
25 19 0.09
26 6 0.03
27 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
TGAAATTTTGATAACCTTCATA
Found at i:5126 original size:22 final size:22
Alignment explanation
Indices: 5094--5230 Score: 125
Period size: 22 Copynumber: 6.1 Consensus size: 22
5084 TTGTGATAAT
* *
5094 TAACCACCCTATGAAATTTCAA
1 TAACCACACTATGAAATTTTAA
*
5116 TAACCA-ACCTAAGAAATTTTAA
1 TAACCACA-CTATGAAATTTTAA
* *
5138 TAAACTGATC-CTATGAAATTTTAG
1 T-AAC-CA-CACTATGAAATTTTAA
* **
5162 TAACCACTCTATGAAATTTTGG
1 TAACCACACTATGAAATTTTAA
* *
5184 TAACCACACTATGGAATTTTGA
1 TAACCACACTATGAAATTTTAA
*
5206 TAACCACACTATGAAATTTTGA
1 TAACCACACTATGAAATTTTAA
5228 TAA
1 TAA
5231 ACTCCTCATG
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.01
22 76 0.78
23 6 0.06
24 14 0.14
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
TAACCACACTATGAAATTTTAA
Found at i:5242 original size:44 final size:42
Alignment explanation
Indices: 5101--5255 Score: 123
Period size: 44 Copynumber: 3.5 Consensus size: 42
5091 AATTAACCAC
* * * *
5101 CCTATGAAATTTCAATAACCA-ACCTAAGAAATTTTAATAAACTGAT
1 CCTATGGAATTT-TATAACCACA-CTATGAAATTTTGATAAAC---T
* * * * *
5147 CCTATGAAATTTTAGTAACCACTCTATGAAATTTTGGTAACCA
1 CCTATGGAATTTTA-TAACCACACTATGAAATTTTGATAAACT
5190 CACTATGGAATTTTGATAACCACACTATGAAATTTTGATAAACT
1 C-CTATGGAATTTT-ATAACCACACTATGAAATTTTGATAAACT
*
5234 CCTCATGGAATTATAATAACCA
1 CCT-ATGGAATT-TTATAACCA
5256 TCTTATGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
43 3 0.03
44 51 0.57
45 3 0.03
46 33 0.37
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (42 bp):
CCTATGGAATTTTATAACCACACTATGAAATTTTGATAAACT
Found at i:5245 original size:22 final size:22
Alignment explanation
Indices: 5148--5245 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
5138 TAAACTGATC
* * *
5148 CTATGAAATTTT-AGTAACCACT
1 CTATGGAATTTTGA-TAAACACA
* * *
5170 CTATGAAATTTTGGTAACCACA
1 CTATGGAATTTTGATAAACACA
*
5192 CTATGGAATTTTGATAACCACA
1 CTATGGAATTTTGATAAACACA
* *
5214 CTATGAAATTTTGATAAACTC-
1 CTATGGAATTTTGATAAACACA
5235 CTCATGGAATT
1 CT-ATGGAATT
5246 ATAATAACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.03
22 64 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (22 bp):
CTATGGAATTTTGATAAACACA
Found at i:5580 original size:30 final size:31
Alignment explanation
Indices: 5546--5610 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
5536 TGGCAATTTA
* *
5546 GAAATATGTTTTAAAAGA-AA-GGTACAATTG
1 GAAATATATTTTAAAA-ATAAGGGTACAATAG
5576 GAAATATATTTTAAAAATAAGGGTACAATAG
1 GAAATATATTTTAAAAATAAGGGTACAATAG
5607 GAAA
1 GAAA
5611 ACATAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.03
30 17 0.55
31 13 0.42
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.28
Consensus pattern (31 bp):
GAAATATATTTTAAAAATAAGGGTACAATAG
Found at i:18608 original size:319 final size:320
Alignment explanation
Indices: 14834--22775 Score: 6000
Period size: 319 Copynumber: 24.4 Consensus size: 320
14824 ATTTATTTCT
* * * * ** * *
14834 AATCTAATGTGGCTGAGATTTGGTTAGATGATTACAGATATTTCAAGAAGTCTTTTAGACAAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * ** * * * *
14899 CCATGCAAAACTAAGTCAAGACCCCGAAACGCGTTTTTAGCAAAAAACCATGATGGTTATTAGTA
66 TCATGCAAAATTGAG-CCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGG---TTAGTA
* *
14964 CACGATTTCGGCT-AAAACTAAC-CTG-AAAATTTTTTCCTCAATTCTTTGCCACAATACTCAGA
127 CACGATTTCGGCTAAAAACTGACTC-GAAAAATTTTTT-CTCAATTTTTTGCCACAATACTCAGA
* * * * * * *
15026 AAAAATATATAATTCAACACCAAAAAAATTGAAAGGTTTTTCATGCTT-TTAACATCGTTTTTCC
190 AAAAATATATAATTCAACGCCAAAAAGATTG-ACGGGTTTTCACGCTTCTAAATATCGTTTTTCC
* * * * *
15090 A-TTTTTCCGGAATTTATTTCTAATTAAATCGAAATAA-ATTCAGATGCTCATAAAAATAAATTC
254 ATTTTTTCC-GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
15153 TTA
318 TTA
* * ** *
15156 AATCCAATGTGGCTGAGATTTGATTAGAT-AATTATAGATATTTCGAGGAGTCTTTATGCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAA-TATAGATATTTCAAGGAGTCTTTGCGCCCAAA
* * * * * * * * *
15220 ACCATGCAGAACTAAGTCGAGGC-CCGAAAACGCATTTTTAGCCAAAAACCGTGATGG-TGGTAC
65 ATCATGCAAAATTGAGCCG-GGCTCCG-GAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTAC
* * * * * *
15283 ACGATTTCAGCTAAAAACTGACAC-AAATATTTTTTCT-AATTTTTTTGCCATAATAATCATAAA
128 ACGATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAA
** * ** * * * * *
15346 AAATATATAATTCAA-TACTAAAA-ATAAATGGTTTTTAACCCTTCT-AATACCGTTTTTCCATT
192 AAATATATAATTCAACGCCAAAAAGATTGACGGGTTTTCACGCTTCTAAATATCGTTTTTCCA-T
* * * * *
15408 TTTTTCCGAATTAATTTCTAATTAAACCGAAAAAAGATTCAGATACTCGTAAAAGCAAATTCTTA
256 TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * ** * * *
15473 TATCCAATGTAGCAGAGATTTGATTCCATGAATATAGATATTTTACGGAGTCTTTGCACCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * ** *
15538 TCATGCAAAACTGATCCGGGCTCTC-GAACGCGTTTTTAGCAAAAAAAAAAAAAAAGTGATGTTT
66 TCATGCAAAATTGAGCCGGGCTC-CGGAACGCGTTTTTAGC-------AAAAAACCGTGATGGTT
* * * * * *
15602 AGTACACAATTTGGGCTAAAATTTTGCAAAAATTGACTCGAAAAGTTTTTCCTCAATTTTTTTGA
123 AGTACACGATTTCGGC--------T--AAAAACTGACTCGAAAAATTTTTTCTCAA-TTTTTTGC
* ** * *
15667 CACAATACTCAGGAAAAATATATAATTCAACGTAAAAAAGATTAAAGGGTTTTTCACGCTTCT-A
177 CACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGG-TTTTCACGCTTCTAA
* * * *
15731 ACATCGTTTTTCCAATTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATCCAAATGCTC
241 ATATCGTTTTTCC-A-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
*
15796 GTAAAAACAAAT-CTTT
304 GTAAAAACAAATCCTTA
** * * * * **
15812 AATCCAATGTCCCTAAAATTTGGTTTGATGAATATAGATATTTCAAGAAGTCTTTGCGCTTAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * *
15877 TCATGCAAAATTGAGTCGGGCTCCGGAATGCGTTTTTTGGCCAAAAACCGTGATGGTTA-TCACA
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCG-TTTTTAGCAAAAAACCGTGATGGTTAGT-ACA
* * * * * *
15941 TGATTTTGGCTAAACACTAACCCGAAAAGA-TTTTTCTCAATTTTTTTCCACAATACTCAG-AAA
129 CGATTTCGGCTAAAAACTGACTCGAAAA-ATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
* * * * * * ** *
16004 AGTGTATAATTAAACGACAAAAAGATTGACAAGATTTTCACGCTTCTAAATATTATTTTCCCATT
193 AATATATAATTCAACGCCAAAAAGATTGAC-GGGTTTTCACGCTTCTAAATATCGTTTTTCCA--
*
16069 TTTTTTCCGAATTAATTTCTAATTAAATCGAAA-AAGATTCAGATACTCGTAAAAACAAATCCTT
255 TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
16133 A
320 A
** * *
16134 TGTCCAATGTGGCTGAGATTT-GTTCGATGAATATAGATATTTCAAGGAGTCTTTGCACCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* *** ***
16198 TCATGCAAAATTGAGCCGGGCTCCGGAACGCATTTTTAGCAAAAAAAAAAATGATAAATAGTACA
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGC--AAAAAACCGTGATGGTTAGTACA
* ** * * * **
16263 CGATTTCGACTAAAATTTTGCAAAAATTGACAAGAAAGGTTTTTCCTCAATTTTTTTGAAACAAT
129 CGATTTCGGCTAAAA-ACTG----ACTCG--AA-AAA--TTTTTTCTCAA-TTTTTTGCCACAAT
* *
16328 ACAT-A-AAAGAATATATAATTCAACGCCAAAAAGATT-ACAGAGTTTTTCACGCTTCTAAATAT
183 AC-TCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC-G-GGTTTTCACGCTTCTAAATAT
*
16390 CGTTTTTCCATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAATAAGATTCAGATGCTCGTAA
245 CGTTTTTCCA--TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAA
16455 AAACAAATCCTTA
308 AAACAAATCCTTA
* * * * * *
16468 AATCCAATGTGGCTTAGATTTGGTTAGATGAATATACATATTTCAAGAAGTCTTTGTGCTCAAAT
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * * * * *
16533 TCATGCAAAATTGAGCAGGACACCGGAACGCGTTTTTAGCCAAAAACTGTGATAGTTATTACATG
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACG
* * * *
16598 ATTTCGGTTAAAAACTGAC-CCAAAATTTATTTTTTCTCAATTTTTTACCACAATACTCATAAAA
131 ATTTCGGCTAAAAACTGACTCGAAAA---ATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
* * ** *
16662 AATATATAATTCAACGCCAGAATGATTGACGAAATTTAT-ACGCTTCTAAATATCGTTTTCCCAT
193 AATATATAATTCAACGCCAAAAAGATTGACG-GGTTT-TCACGCTTCTAAATATCGTTTTTCCA-
** * * * * * *
16726 TTTTTTTCTTAATTAATTTATAATTAGATCGAAACAAAATTTAGATACTCGTAAAAACAAATTCT
255 -TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
16791 TA
319 TA
* * * * * * *
16793 TATCCAATGTGGCTAAGATTTGATTCGATGAATATAAATATTTTAAGGAGTCTTTGGGCCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * ** *
16858 TCATGCGAAACTT-ATCCGGGCTCTC-GAACGCGTTTTTAGCAAAAAAAAAAAATGTGATGTTTA
66 TCATGC-AAAATTGAGCCGGGCTC-CGGAACGCGTTTTTAGC-----AAAAAACCGTGATGGTTA
** * * **
16921 GTACATAATTTGGGCTAAAATTTTTCCAAAAATTGACTC-AAAAAGTTTTCCCTCAATTTTTTTA
124 GTACACGATTTCGGC---------T--AAAAACTGACTCGAAAAA-TTTTTTCTCAA--TTTTT-
* *
16985 TGCCACAATACTCAGGAAAAATATATAATTCAACGCCAAAAAAGATT-ACAGAGTTTTTCACGCT
174 TGCCACAATACTCAGAAAAAATATATAATTCAACGCC-AAAAAGATTGAC-G-GGTTTTCACGCT
17049 TCTAAATATCGTTTTTCCA-TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATG
236 TCTAAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATG
*
17113 CTCGTAAAAACAATTCCTTA
301 CTCGTAAAAACAAATCCTTA
* * * **
17133 AATCCAATGTGACTGATATTTGGTTAGATGAATATACATATTTCAAGGAGTCTTTGCGGTCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * * *
17198 TCATGAAAAATTGAGCCGGACTCCGGAACGCGTTTTTAGCCAAAAACTGTGATAGTTATTACACG
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACG
* * * *
17263 ATTTCGGCTAAAAATTTAC-CAGAAAATTTTTTTTCTCAA-TTTTTACCACAATACTCA-ACAAA
131 ATTTCGGCTAAAAACTGACTC-GAAAA-ATTTTTTCTCAATTTTTTGCCACAATACTCAGA-AAA
* ** * *
17325 AATATATAATTCAACGCCAGAAAGATTGACAGAATTTTCACACTTCTAAATATCGTTTTCCCA-T
193 AATATATAATTCAACGCCAAAAAGATTGAC-GGGTTTTCACGCTTCTAAATATCGTTTTTCCATT
* ** *
17389 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAAATTCAGATAATCGTAAAAACAAATTCTTA
257 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * * * * *
17453 TATCCAATGTGACTAAGATTTGATTCGGTGAATATAGATATTTCAAGGAGTCTTTGGGTCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * ** *
17518 TCATGCGAAACTGATCCGGGCTCTC-GAACGCGTTTTTAGCCAAAAAAAAAAAAAGAAGTGATGT
66 TCATGCAAAATTGAGCCGGGCTC-CGGAACGCGTTTTTAG-C-------AAAAAA-CCGTGATGG
* * * * *
17582 TTAGTACACAATTTGGGCTAAAATTTTGCAAAAATTGACTCGAAAAGTTTTTCCTCAATTTTTTT
121 TTAGTACACGATTTCGGC--------T--AAAAACTGACTCGAAAAATTTTTTCTCAA-TTTTTT
* * *
17647 GCCACAATACTCA-AGAAAAATATATAATTCAACGCAAAAAAGATTAAAGGGGTTTTCACGCTTC
175 GCCACAATACTCAGA-AAAAATATATAATTCAACGCCAAAAAGATT-GACGGGTTTTCACGCTTC
* * * * * *
17711 T-AACATCATTTTTCCATTTTTTTTTTCAAATTAATTTCTAATTAAATCGAAACAAGATCCAAAT
238 TAAATATCGTTTTTCCA---TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGAT
* *
17775 GCTCATAAAAACAAAT-CTTT
300 GCTCGTAAAAACAAATCCTTA
* * * * * * **
17795 AATCCAATGTCGTTTA-A-AT--TT-GATGAATATAGATATTTCAAGGTGTCGTTGCGCTTAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * *
17855 TCATGCAAAATTGAGCCGGGCTCTGAAATGCGTTTTTAGCCAAAAACCATGATGGTTA-TCACAC
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGT-ACAC
* * * *
17919 GATTTTGGCTAAAAACTAACCCGAAAAGA-TTTTTCTCAATTTTTTTCCACAATACTCAGAAAAG
130 GATTTCGGCTAAAAACTGACTCGAAAA-ATTTTTTCTCAATTTTTTGCCACAATACTC-----AG
* * *
17983 TATATATATATATATATAATTAAACGCCAAAAAGATTGACAGGATTTTCACGCTTCTAAATATTG
189 -A-A-A-A-A-ATATATAATTCAACGCCAAAAAGATTGAC-GGGTTTTCACGCTTCTAAATATCG
* * * * *
18048 -TTTT-CGTATTTTTCCGGATTAAATTCTAATTAAATCGAAACAAGATTCAAATACTCGTAAAAA
247 TTTTTCCAT-TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
*
18111 -AAATCATTA
311 CAAATCCTTA
* * * * * * *
18120 TATCCAATGTGGCTAAGATTT-GTTCGATGAATGTAGAAATTTAAAGGAGTCTTGGCGCCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
** ** * *
18184 TCATGCAAAATTGAG-CGGGCTCCAAAACGCGTTTTTAGTC-AAAAACTATGATGATTATTACAC
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG-CAAAAAACCGTGATGGTTAGTACAC
* * *
18247 GATTTTCGGCTAAAAACTGACTTGAAATATATTTTCTCAATTTTTTTGCCACAATACTCAGAAAA
130 GA-TTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAA
* * * * *
18312 AATATATAATTCAACACCAAAAAGATTGACGGGATTTGACACTTCTAAATAACGTTTTTCCA-TT
193 AATATATAATTCAACGCCAAAAAGATTGACGGGTTTTCACGCTTCTAAATATCGTTTTTCCATTT
* * *
18376 TTCCCAAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
258 TTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * * * * *
18439 AATTCGATGTGGCAGAGATTTGGTTAGTTTAATATAGATATTTTAAGGAGCCATTGCGCCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
** * * * *
18504 TCATGCAAAATTGAGCATGTCTCTGGAATGCGTTTTTAGCAAAAAACCGTGATGGTTATTACACG
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACG
* * * *
18569 ATTTTGGCTAAAAACTGACTCGAAAAACTTTTT-TCAATTTTTTGCCGCAATACTTAGAAAAAAT
131 ATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAAT
* ** ** * *
18633 ATATAATTCAACACCAAAAAGATTGACAGGAATTTCACGCTTCTAAATATCACTCTCCCA--TTT
196 ATATAATTCAACGCCAAAAAGATTGAC-GGGTTTTCACGCTTCTAAATATCGTTTTTCCATTTTT
** * * * *
18696 TCCTGTTTTAATTTCTGATTAAATCGAAACAAAATTCAGATACTCGTAAAAGCAAATCCTTA
260 TCC-GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * *
18758 TATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAGGAGTCTTTCCACCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * ** *
18823 TCATGCAAAACTGATCCGGGCTCTGGAACGCGTCTTTAGCTAAAAAAAGGTGTTGGTTGGCTAGT
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGC-AAAAAACCGTGATGG-T---TAGT
* * *
18888 ACACGATTTCGGCTAAAATTTTCCAAAAATTGACCCG-AAAAGTTTTTCTCAATTTTTTTGCCAC
126 ACACGATTTCGGC--------T--AAAAACTGACTCGAAAAATTTTTTCTCAA-TTTTTTGCCAC
* ** * * *
18952 AATACTC-GGAAAAATATATGGTTCAACGCCAAAAAGA-TGAAATGGCTTTTCACGCTT-TTAAT
180 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTG--ACGGGTTTTCACGCTTCTAAAT
** * * *
19014 ATAATTTTTCCATTTTTTTCCAAATTAATTTCTAATTAAATCGAAAAAAGATTCAGATGCTCATA
243 ATCGTTTTTCCA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTA
*
19079 AAAACAAATTCTTA
307 AAAACAAATCCTTA
* * ** *
19093 AATCCAAAGTGGCTGAGATTTGGTTAGATGATTATAGATATTTCAAGGAGTCTTTTAGCCTAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* ** * * * * * * * *
19158 CCATAAAAAACTGA-CTCGAGAC-CGCGAAACACGTTTTTAACCAAAACCCGTGATGGTTAGAAC
66 TCATGCAAAATTGAGC-CG-GGCTC-CGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTAC
* * * * * *
19221 AAGATATCGTCT-AAAACTGACTTGAGAATTTTTTTCCTCAATTTTTTGCCACAATACTC--AAA
128 ACGATTTCGGCTAAAAACTGACTCGAAAAATTTTTT-CTCAATTTTTTGCCACAATACTCAGAAA
* * * * * * * *
19283 AAATATATAATTCAACACTAAAAA-AGTTCAAGGATTTTTCACGCTTTTGACAT-T-ATTTTTCC
192 AAATATATAATTCAACGCCAAAAAGA-TTGACGG-GTTTTCACGCTTCT-AAATATCGTTTTTCC
* * **
19345 A-TTTTTCCGAATTTATTTCTAATTAAATCGAAACAAGATTAAGATGCTTATAAAAACAAATCCT
254 ATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
19409 TA
319 TA
* * * ** ** * *
19411 AATCTAA-GTGGCTGAGATTTGGTTAGATGATTAAAGATATTTTGAGGAGTCTTTATGGCAAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * ** * * * **
19475 CCATACAGAACCGAGTCGTGGC-CCCGAATCGCGTTTTTAGCCAAAAA-C-T-A-GGACGAGTAC
66 TCATGCAAAATTGAGCCG-GGCTCCGGAA-CGCGTTTTTAGCAAAAAACCGTGATGG-TTAGTAC
* * * * * *
19535 ACGATTTCGGCTAAAAATTGACCCG-TAAATTTTTTCTCAATTTTTTGCCAGAATACTTATAAAA
128 ACGATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
* * * * * * *
19599 AATATATAATTGAACGCCAAAAATATTGAAGAGTTTCTCACACTTGT-AATATCATTTTTCCATT
193 AATATATAATTCAACGCCAAAAAGATTGACGGGTTT-TCACGCTTCTAAATATCGTTTTTCCATT
* * *
19663 TTTGCCAAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
257 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * * * * *
19727 AATTCAATGTGGTTGTGATTTGGTTAGTTAAATATAGATATTTTAAGGAATCTTTGCACCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* ** * * * *
19792 TCATGCAAAATTGAGTCGGGCTCTAGAACGCGCTTTTAACCAAAAACCGTGATGGTTATTACACG
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACG
* * *
19857 ATTTCGGCTAAAAACTGACTTGAAAAATATTTTCTGAATTTTTTGCCACAATACTCAGAAAAAAT
131 ATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAAT
* * * * * * *
19922 ATATAATTCAACGCCAAAATGATTAATGGGTTTTTCATGCTT-TTAATATCGTATTTCCATTTGT
196 ATATAATTCAACGCCAAAAAGATTGACGGG-TTTTCACGCTTCTAAATATCGTTTTTCCATTTTT
*
19986 TCCGATTTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
260 TCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* ** *
20047 AATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTTTTTGCCCGAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTC-TTTGCGCCCAAA
* * *
20112 TTCATGCAAAATTGAGCCGGGCT------C-CGTTTTTGGCAAAAAAAAAACCGTGAT-ATTAAG
65 ATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGC----AAAAAACCGTGATGGTT-AG
* * *
20169 CACACGGTTTCGGCTAAAAACTTAAC-C-AAAAGA-TTTTTCTCAATTTTTTTTGCCACAATACT
125 TACACGATTTCGGCTAAAAAC-TGACTCGAAAA-ATTTTTTCTCAA--TTTTTTGCCACAATACT
* **** * * *
20231 C-GTAAAAAATAAATAATTCAATAAAAAAAATATTGAAGGGTTTTCCACACTTCT-AATATCGTT
186 CAG-AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGTTTT-CACGCTTCTAAATATCGTT
*
20294 TTCCCATTATTTT-CGAATTAATTTCTAATTAAATCGAAACAAGATTCATATTTCAGATGCTCGT
249 TTTCCATT-TTTTCCGAATTAATTTCTAATTAAATCGAAACAAG------A-TTCAGATGCTCGT
20358 AAAAACAAATCCTTA
306 AAAAACAAATCCTTA
** * * * * * * * *
20373 AATCCAATGAAGTTG-GTATTTGCTTCGATGAATATAGAAATTTCAGGGAGTATTTACGCCAAAA
1 AATCCAATGTGGCTGAG-ATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAA
* * * * * * * * *
20437 ATTATGCAAAACTAAGCTGGGGC-CCTAGAACGCGTTTTTAGCAAAAAATCGT--T-ATAAGTAA
65 ATCATGCAAAATTGAGC-CGGGCTCC-GGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTAC
* * * *
20498 ACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAATTTTTTTCCTCAATTTTTTGCAATAA
128 ACGATTTCGGC--------T--AAAAACTGACTCGAAAAATTTTTT-CTCAATTTTTTGCCACAA
* * * *
20563 TACTCAGAAAAAATATATAAGTCAATGCC-AAAAGAATTGACGAGCTTTTCACACTTCT-AATAT
182 TACTCAGAAAAAATATATAATTCAACGCCAAAAAG-ATTGACG-GGTTTTCACGCTTCTAAATAT
* * * * * *
20626 CGTTTTCCCA-TTTTTCCAAATTTATTTCTAATTAAATCGAAACAACATTTAAATGCTCGTAAAA
245 CGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
20690 ACAAATCCTTA
310 ACAAATCCTTA
* *
20701 AATCCAATGTGGCTGAGATTTGGTTAGATGGATATAGATATTTCAAGGAGTCTTT-CTGCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGC-GCCCAAA
* * * * * * *
20765 ATCATGC-AAATCTAAGTCGGGGCCCCGAAATGTGTTTTTAGCAAAAAAACG-G-T-G--A-T--
65 ATCATGCAAAAT-TGAG-CCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTAC
* * * *
20821 --GGTTTCGGCTAAAAACTGACCCGAAAAGTTTATTT-TCAATTTTTTGCCACAACACTCAGAAA
128 ACGATTTCGGCTAAAAACTGACTCGAAAAATTT-TTTCTCAATTTTTTGCCACAATACTCAGAAA
* * * * * * * * *
20883 AAATATTTAATTCAACGCTAAAACGATTTAAGGGTTTTTCACG-TTTTTAATAT-TTTTTTCTAT
192 AAATATATAATTCAACGCCAAAAAGATTGACGGG-TTTTCACGCTTCTAAATATCGTTTTTCCAT
* * *
20946 TTTTTCCCAATTAATTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAACAAGTCCTTA
256 TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * *
21011 AATCCAATGTGG-TCGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGTTTTTGCACCCAAA
1 AATCCAATGTGGCT-GAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAA
* * * *
21075 ATCATGCAAAATTGAGTCGGGCTCCGAAACGCATTTTTAGTC-AAAAACCGTGATGATTAGTACA
65 ATCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAG-CAAAAAACCGTGATGGTTAGTACA
* ** * *
21139 CAATTTCGGCTAAAAACTGATCTAAAAAAATTTTTTCTCAATTTTTTGTCATAATACTCAG-AAA
129 CGATTTCGGCTAAAAACTGA-CTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
* * *
21203 AATATATAATTCAACGCCAAAAAGATTGGCGAGATTTTTACGCTTCTAAATATCGTTTTTCCA--
193 AATATATAATTCAACGCCAAAAAGATTGACG-GGTTTTCACGCTTCTAAATATCGTTTTTCCATT
* * *
21266 TTTTCCGAATTAATTTCTAATTAAATCGAAACAATATTCAGATACTCGTAAAAAAAAATCCTTA
257 TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* * * * *
21330 TATCCAATGTGACTGATATTTGGTTCGATGAATATAGATATTTCAAGGACTCTTTGCGCCCAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * * * * **
21395 TTATGCAAAACTAATCCGAGCTACGGAACGTGTTTTTAGCAAAAAAAAAAAAAAAAATGTGATGG
66 TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGC----------AAAAAACCGTGATGG
* * * *
21460 TTAGTACACGATTTCGGAT-AAAATTGAC-CAGAAAAGTTTTTTCTCAATTTCTTTACCACAATA
121 TTAGTACACGATTTCGGCTAAAAACTGACTC-GAAAAATTTTTTCTCAATTT-TTTGCCACAATA
* ** * ** * *
21523 CT-AAATATATATATATATATAGATAGAAAAAGGATTAAAGATTAAAGATTAAAGGGTTTTTCAC
184 CTCAGA-A-A-A-A-ATATATA-AT---TCAACG---CCA-A--AAAGATTGACGGG-TTTTCAC
* * * * *
21587 GCTTCT-AATATCATTTTTCCATTTTTTTCCCCGAATTTATTACTAATTAAATAGAAAAAAGATT
233 GCTTCTAAATATCGTTTTTCCA-TTTTTT--CCGAATTAATTTCTAATTAAATCGAAACAAGATT
* * *
21651 AAAATTCTCG-AAAAACAAATCCTTA
295 CAGATGCTCGTAAAAACAAATCCTTA
* * * *** *
21676 AATCCAATGTGGCTGA-AATTGGTTAGATGATTATAGATATTTTAAGGAGTCTTT-ATTCTAATA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAA-A
* * * * * * * ** * * *
21739 ACCAAGCAAAACTGAGTCGAGGCCCCGAAACGTGTTTTTAGCCTAAAACTGTGATAGTTAGTACC
65 ATCATGCAAAATTGAGCCG-GGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACA
* ** * *
21804 CGATTTCGGGTAAAAACTGACTCAGAGAATTTTTTTTCTCAATTTTTTTGCCAAAATACTTA-AA
129 CGATTTCGGCTAAAAACTGACTC-GA-AAAATTTTTTCTCAA-TTTTTTGCCACAATACTCAGAA
* * * * *
21868 ATATATATATAATCCAATGTCAAAAAGATTGAAGTGGTTTTCACGCTTCTAACAT-T-GTTTTTC
191 A-AAATATATAATTCAACGCCAAAAAGATTGACG-GGTTTTCACGCTTCTAA-ATATCGTTTTTC
* * *
21931 CATTATTTTGTTTCCGAATTAATATCTAATTAAATCGAAACAAGATTCAGATACTTGTAAAAACA
253 C---A-TTT-TTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA
*
21996 AATACTTA
313 AATCCTTA
* * * ** * * *
22004 AATCGAATGAGGCTGGGATTTGGTTCCATGAATATAGATATTTCAAGAAGTCTTTACGCCAAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * * ** * *
22069 TAATGTAAAACTAAGCCGAGG-TCCCAAAACGCGTTTTTAGCAAAAAACTGTGAT-G--AGTAAA
66 TCATGCAAAATTGAGCCG-GGCT-CCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACA
* * *
22130 CGAATTTTGGTTAAAATTTTACAAAAACTGAACTC-AAAAATTTTTCCTCAATTATTTT-CCACA
129 CG-ATTTCGG--------CT--AAAAACTG-ACTCGAAAAATTTTTTCTCAATT-TTTTGCCACA
* * * *
22193 ATACTCAGAAAAGATATATAATTCAACGCCAAAACA-ATTAAAGTGTTTTTCACGCTTCTAAA-A
181 ATACTCAGAAAAAATATATAATTCAACGCCAAAA-AGATTGACG-GGTTTTCACGCTTCTAAATA
* * * * *
22256 TCATTTTTCC---TTTTCCGAATTTATTTCTAATTAAATCGAAATAAGATTCAGATACTCGTTAA
244 TCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
22318 AACAAATCCTTA
309 AACAAATCCTTA
* ** * * * * * * * ** *
22330 GATTTAATGTGGCTGGGATTTGGTTTGGTTATTTTAGATATTTCAAGGAGTTTTTATGCCAAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* ** * * ** * * **
22395 CCATGCAAAACAGAGTCGGGGTCCTTAAACGCGTTTTTTTGGC-AAAAACCG-CA---ACA-TAC
66 TCATGCAAAATTGAGCCGGGCTCC-GGAACGCG--TTTTTAGCAAAAAACCGTGATGGTTAGTAC
* * * ** *
22454 ACGAATTCGGCTAAAAACAGACTCGAAAAATATTTTCTCAATTTTTTGCGTCAATACACAGAAAA
128 ACGATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAG-AAA
* * * * * *
22519 AATATATATAATTTAATGCCAAAAAGATTGAAGTGCTTTTCACCCTTCT-AATTTCGTTTTTCCA
192 AA-ATATATAATTCAACGCCAAAAAGATTGACG-GGTTTTCACGCTTCTAAATATCGTTTTTCCA
* *
22583 TTTTTTTCGAATTAATATTC-AATTAAATCGAAACAAGATTC-GAATGCTCGTAAAAACAAATCA
255 TTTTTTCCGAATTAAT-TTCTAATTAAATCGAAACAAGATTCAG-ATGCTCGTAAAAACAAATCC
22646 TTA
318 TTA
* * * * *
22649 AATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAGGGGGTCTTTACGCCGAAAA
1 AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
* * * *
22714 TCATGCATAATTGAGCCGTGGCT-CGGAAACGCTTTTTTAGCCAAAAACCGTGAAGGTTAGTA
66 TCATGCAAAATTGAGCCG-GGCTCCGG-AACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTA
22776 GTTATCATAG
Statistics
Matches: 6126, Mismatches: 1098, Indels: 791
0.76 0.14 0.10
Matches are distributed among these distances:
309 36 0.01
310 182 0.03
311 30 0.00
312 3 0.00
313 34 0.01
314 67 0.01
315 90 0.01
316 182 0.03
317 284 0.05
318 315 0.05
319 686 0.11
320 568 0.09
321 290 0.05
322 216 0.04
323 41 0.01
324 66 0.01
325 351 0.06
326 241 0.04
327 87 0.01
328 284 0.05
329 231 0.04
330 48 0.01
331 17 0.00
332 19 0.00
333 194 0.03
334 185 0.03
335 315 0.05
336 156 0.03
337 106 0.02
338 34 0.01
339 170 0.03
340 267 0.04
341 21 0.00
342 67 0.01
343 107 0.02
344 3 0.00
345 51 0.01
346 46 0.01
347 36 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (320 bp):
AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAA
TCATGCAAAATTGAGCCGGGCTCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACG
ATTTCGGCTAAAAACTGACTCGAAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAAT
ATATAATTCAACGCCAAAAAGATTGACGGGTTTTCACGCTTCTAAATATCGTTTTTCCATTTTTT
CCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
Found at i:22856 original size:21 final size:20
Alignment explanation
Indices: 22832--22877 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
22822 CTCTGGGTCA
*
22832 CGGGTCAATTGGTTCAACCGT
1 CGGGTCAATTGGGTCAA-CGT
*
22853 CGGGTCAATTGGGTCAATGT
1 CGGGTCAATTGGGTCAACGT
22873 CGGGT
1 CGGGT
22878 TAATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (20 bp):
CGGGTCAATTGGGTCAACGT
Found at i:25065 original size:122 final size:121
Alignment explanation
Indices: 24828--25070 Score: 262
Period size: 122 Copynumber: 2.0 Consensus size: 121
24818 TTTTTTAAAT
*
24828 TAAAATGGCAAAAATAAAATAATTATAAAATATTAAATTTAATTAAATAAAATAGAGTTTTTAAT
1 TAAAATGGCAAAAATAAAATAATTATAAAATATTAAATTTAATTAAATAAAATAGAGCTTTTAAT
** * * * *
24893 ATAATAAAACTGTATATTAAAAGATTTTAATATATCCAAATTTTTATTGAAAAATAG
66 ATAATAAAACTAAATATTAAAAGA-TTGAATATATACAAATATGTATTGAAAAATAG
* * * *
24950 TAAAATGGTAAAAATAAAGTAATTATAAAGATATTAGATTTCATTAAATAAAAATAGAGCTTTTA
1 TAAAATGGCAAAAATAAAATAATTATAAA-ATATTAAATTTAATTAAAT-AAAATAGAGCTTTTA
* * *
25015 GTA-AATAAAACTAAAATAGTTAAACA-A-TGACATTTA-AGAAATATGT-TTGAAAAATA
64 ATATAATAAAACT-AAATA-TTAAA-AGATTGA-ATATATACAAATATGTATTGAAAAATA
25071 AGAGTAAATG
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
122 37 0.37
123 34 0.34
124 23 0.23
125 6 0.06
126 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (121 bp):
TAAAATGGCAAAAATAAAATAATTATAAAATATTAAATTTAATTAAATAAAATAGAGCTTTTAAT
ATAATAAAACTAAATATTAAAAGATTGAATATATACAAATATGTATTGAAAAATAG
Found at i:25132 original size:13 final size:14
Alignment explanation
Indices: 25113--25149 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
25103 ACTCGTACTT
25113 TTATATATATAATA
1 TTATATATATAATA
25127 -TATATATAT-ATA
1 TTATATATATAATA
25139 TTATATATATA
1 TTATATATATA
25150 GTAAGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATATATAATA
Found at i:25134 original size:15 final size:15
Alignment explanation
Indices: 25114--25149 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25104 CTCGTACTTT
25114 TATATATATAATATA
1 TATATATATAATATA
*
25129 TATATATATATTATA
1 TATATATATAATATA
25144 TATATA
1 TATATA
25150 GTAAGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATATAATATA
Found at i:25167 original size:2 final size:2
Alignment explanation
Indices: 25114--25149 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
25104 CTCGTACTTT
25114 TA TA TA TA TA -A TA TA TA TA TA TA TA T- 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
25150 GTAAGATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.