Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004918.1 Hibiscus syriacus cultivar Beakdansim tig00011073_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 134243
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2500 original size:6 final size:6
Alignment explanation
Indices: 2489--2516 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2479 AAGGACTGAC
2489 CGGAGG CGGAGG CGGAGG CGGAGG CGGA
1 CGGAGG CGGAGG CGGAGG CGGAGG CGGA
2517 AGGAGAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.64, T:0.00
Consensus pattern (6 bp):
CGGAGG
Found at i:3838 original size:39 final size:38
Alignment explanation
Indices: 3750--3848 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 38
3740 AAACCAACGT
3750 TATCTTCCATTGATGAATAAATTTGAAGATTTCTCCAC
1 TATCTTCCATTGATGAATAAATTTGAAGATTTCTCCAC
* * * *
3788 TATTTTACATTGATGAATAAATTTTAGAGCTTT-TCCCAC
1 TATCTTCCATTGATGAATAAATTTGA-AGATTTCT-CCAC
*
3827 TATCTTCCATTGATGAACAAAT
1 TATCTTCCATTGATGAATAAAT
3849 CCCAAAACTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 24 0.46
39 28 0.54
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (38 bp):
TATCTTCCATTGATGAATAAATTTGAAGATTTCTCCAC
Found at i:11570 original size:20 final size:20
Alignment explanation
Indices: 11545--11592 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
11535 AAAGTAATAT
*
11545 TAGTTTAGATACTAAGCATA
1 TAGTTTAGATACTAAACATA
11565 TAGTTTAGATACTAAACATA
1 TAGTTTAGATACTAAACATA
11585 TAGTTTAG
1 TAGTTTAG
11593 CCTTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.38
Consensus pattern (20 bp):
TAGTTTAGATACTAAACATA
Found at i:12323 original size:13 final size:13
Alignment explanation
Indices: 12305--12338 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
12295 AATGTATTGT
12305 ACTACATGTATTC
1 ACTACATGTATTC
12318 ACTACATGTATTC
1 ACTACATGTATTC
12331 ACTACATG
1 ACTACATG
12339 AGCATGCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (13 bp):
ACTACATGTATTC
Found at i:15124 original size:20 final size:20
Alignment explanation
Indices: 15101--15153 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
15091 GGCCCTACAA
*
15101 TATCGGTACCCCACTCAAGG
1 TATCGATACCCCACTCAAGG
15121 TATCGATACCCCACTCAAGG
1 TATCGATACCCCACTCAAGG
15141 TATCGATACCCCA
1 TATCGATACCCCA
15154 ATGTTAACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (20 bp):
TATCGATACCCCACTCAAGG
Found at i:20995 original size:42 final size:42
Alignment explanation
Indices: 20912--20997 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
20902 CCGAAACACA
* *
20912 ACCTAAACCCGACCAAAAAATTTTACATCCTTCACCAGACCCG
1 ACCTAAACCCGACCAAAAAATTATACA-CCTCCACCAGACCCG
*
20955 ACCT-AACCCGACCCAAAAAATATATAC-CCTCCACCTGACCCG
1 ACCTAAACCCGA-CCAAAAAAT-TATACACCTCCACCAGACCCG
20997 A
1 A
20998 TTCCGATCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 21 0.55
43 13 0.34
44 4 0.11
ACGTcount: A:0.37, C:0.40, G:0.07, T:0.16
Consensus pattern (42 bp):
ACCTAAACCCGACCAAAAAATTATACACCTCCACCAGACCCG
Found at i:23584 original size:22 final size:22
Alignment explanation
Indices: 23556--23597 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23546 AGTCGAGGGT
* *
23556 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCATTCGAGACATA
23578 TACATAGGTCATTCGAGACA
1 TACATAGGTCATTCGAGACA
23598 AATTTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (22 bp):
TACATAGGTCATTCGAGACATA
Found at i:28987 original size:20 final size:20
Alignment explanation
Indices: 28962--29018 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
28952 AATTATGTAT
28962 GAGGTATCGATACCTGGAGA
1 GAGGTATCGATACCTGGAGA
*
28982 GAGGTATCGATACCTGGAGG
1 GAGGTATCGATACCTGGAGA
*
29002 GTGGTATCGATACCTGG
1 GAGGTATCGATACCTGG
29019 GGTACCGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.16, G:0.37, T:0.23
Consensus pattern (20 bp):
GAGGTATCGATACCTGGAGA
Found at i:29729 original size:22 final size:22
Alignment explanation
Indices: 29699--29762 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
29689 AGTCGAGGGT
*
29699 TACATAGGTCCTTCAAGACATA
1 TACATAGGTCCTTCAGGACATA
* *
29721 TACAGAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCAGGACATA
29743 TACATAGGTCCTTCAGGACA
1 TACATAGGTCCTTCAGGACA
29763 AATTTTACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (22 bp):
TACATAGGTCCTTCAGGACATA
Found at i:52516 original size:528 final size:528
Alignment explanation
Indices: 51514--52570 Score: 2060
Period size: 528 Copynumber: 2.0 Consensus size: 528
51504 CTCATGCCTA
51514 CCATCCTGACTATGGACTAAGCTCTCATCTATAGCTAAAACTCTGAAATTAAAAGAATAAAGAGG
1 CCATCCTGACTATGGACTAAGCTCTCATCTATAGCTAAAACTCTGAAATTAAAAGAATAAAGAGG
51579 AGTCACTATCATTATTCTAGATGCAAAAGAACTTTTATCATCCCTAGTGGCATGTATACTCATAA
66 AGTCACTATCATTATTCTAGATGCAAAAGAACTTTTATCATCCCTAGTGGCATGTATACTCATAA
*
51644 ACTTTTACTGAATCTGACTGTAGATCCTAAGATCGTCTAAACTTGATGCTCTGATATCTTTAAAT
131 ACTTTTACTGAATCTGACTGTAGATCCTAAGATCGTCTAAACTTGACGCTCTGATATCTTTAAAT
51709 ATAACACCCTAAACTAGTACGATATACAGTCGATCGATTAGAATGCTATATAGAACCACCGAAGT
196 ATAACACCCTAAACTAGTACGATATACAGTCGATCGATTAGAATGCTATATAGAACCACCGAAGT
51774 GGCTAACAACAAATTTTCTTTAATTTCTTAATTGAAAAGTTTTTCTTGAAAGTGCTCATAAAGAA
261 GGCTAACAACAAATTTTCTTTAATTTCTTAATTGAAAAGTTTTTCTTGAAAGTGCTCATAAAGAA
51839 ATAAATCGACCACATTTATATAAAATAGTTTACATCAAGAGCTCCTAAAAATAATAAATCAAAAT
326 ATAAATCGACCACATTTATATAAAATAGTTTACATCAAGAGCTCCTAAAAATAATAAATCAAAAT
*
51904 ATACAGACCAGTGTTTTAAATAAAGTTATAACTCAACAAGTACAAGGGTCCACAAATATATATAC
391 ATACAGACCAGTGTTTTAAATAAAGTTATAACTCAACAAGTACAAGGGTCCACAAATATACATAC
51969 CCTCTAAAGAAGAACTCGAGACATACTTTGCTACACTCGGTCTAGATCTCAACTTCTCAAAAGGG
456 CCTCTAAAGAAGAACTCGAGACATACTTTGCTACACTCGGTCTAGATCTCAACTTCTCAAAAGGG
52034 TCCTCGAG
521 TCCTCGAG
*
52042 CCATCCTGACTATGGCCTAAGCTCTCATCTATAGCTAAAACTCTGAAATTAAAAGAATAAAGAGG
1 CCATCCTGACTATGGACTAAGCTCTCATCTATAGCTAAAACTCTGAAATTAAAAGAATAAAGAGG
*
52107 AGTCACTATCATTATTCTAGATGCAGAAGAACTTTTATCATCCCTAGTGGCATGTATACTCATAA
66 AGTCACTATCATTATTCTAGATGCAAAAGAACTTTTATCATCCCTAGTGGCATGTATACTCATAA
52172 ACTTTTACTGAATCTGACTGTAGATCCTAAGATCGTCTAAACTTGACGCTCTGATATCTTTAAAT
131 ACTTTTACTGAATCTGACTGTAGATCCTAAGATCGTCTAAACTTGACGCTCTGATATCTTTAAAT
52237 ATAACACCCTAAACTAGTACGATATACAGTCGATCGATTAGAATGCTATATAGAACCACCGAAGT
196 ATAACACCCTAAACTAGTACGATATACAGTCGATCGATTAGAATGCTATATAGAACCACCGAAGT
*
52302 GGCTAACAACAAATTTTCTTTAATTTCTTAATTGAAAAGTTTTTCTTGAAAGTGTTCATAAAGAA
261 GGCTAACAACAAATTTTCTTTAATTTCTTAATTGAAAAGTTTTTCTTGAAAGTGCTCATAAAGAA
52367 ATAAATCGACCACATTTATATAAAATAGTTTACATCAAGAGCTCCTAAAAATAATAAATCAAAAT
326 ATAAATCGACCACATTTATATAAAATAGTTTACATCAAGAGCTCCTAAAAATAATAAATCAAAAT
52432 ATACAGACCAGTGTTTTAAATAAAGTTATAACTCAACAAGTACAAGGGTCCACAAATATACATAC
391 ATACAGACCAGTGTTTTAAATAAAGTTATAACTCAACAAGTACAAGGGTCCACAAATATACATAC
*
52497 CCTCTAAAGAAGTACTCGAGACATACTTTGCTACACTCGGTCTAGATCTCAACTTCTCAAAAGGG
456 CCTCTAAAGAAGAACTCGAGACATACTTTGCTACACTCGGTCTAGATCTCAACTTCTCAAAAGGG
52562 TCCTCGAG
521 TCCTCGAG
52570 C
1 C
52571 ACTCCTCTAC
Statistics
Matches: 523, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
528 523 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (528 bp):
CCATCCTGACTATGGACTAAGCTCTCATCTATAGCTAAAACTCTGAAATTAAAAGAATAAAGAGG
AGTCACTATCATTATTCTAGATGCAAAAGAACTTTTATCATCCCTAGTGGCATGTATACTCATAA
ACTTTTACTGAATCTGACTGTAGATCCTAAGATCGTCTAAACTTGACGCTCTGATATCTTTAAAT
ATAACACCCTAAACTAGTACGATATACAGTCGATCGATTAGAATGCTATATAGAACCACCGAAGT
GGCTAACAACAAATTTTCTTTAATTTCTTAATTGAAAAGTTTTTCTTGAAAGTGCTCATAAAGAA
ATAAATCGACCACATTTATATAAAATAGTTTACATCAAGAGCTCCTAAAAATAATAAATCAAAAT
ATACAGACCAGTGTTTTAAATAAAGTTATAACTCAACAAGTACAAGGGTCCACAAATATACATAC
CCTCTAAAGAAGAACTCGAGACATACTTTGCTACACTCGGTCTAGATCTCAACTTCTCAAAAGGG
TCCTCGAG
Found at i:54457 original size:24 final size:24
Alignment explanation
Indices: 54425--54475 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
54415 GAATTCCCTC
54425 CAAGGGGTAATAAAGTATTACCTA
1 CAAGGGGTAATAAAGTATTACCTA
54449 CAAGGGGTAATAAAGTATTACCTA
1 CAAGGGGTAATAAAGTATTACCTA
54473 CAA
1 CAA
54476 TAACATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (24 bp):
CAAGGGGTAATAAAGTATTACCTA
Found at i:56053 original size:136 final size:136
Alignment explanation
Indices: 55809--56073 Score: 392
Period size: 136 Copynumber: 1.9 Consensus size: 136
55799 GAAAACTGAG
*
55809 TGAAATACGAACGTTTTGTTATCGATCTTGTCGCAAAATATGATCAATGACGAATGATGATTGGC
1 TGAAATACGAACGTTTTGTTATCGATCTTGTCGCAAAATATGATCAATGACGAACGATGATTGGC
*
55874 TGTCGAAAAGGGCAGTGCTAGAAAAGAAAATTGTTTATAAGTTTGGTGGCAAAATCACTACATTA
66 TGTCGAAAAGGGCAGTGCTAGAAAAGAAAATTGTTTAAAAGTTTGGTGGCAAAATCACTACATTA
55939 AATGAA
131 AATGAA
* * * * *
55945 TGAAATACGGATGTTTTGTTATCGATCTTGTCGTAAAATATTA-CTAATGAC-AGACGATGCTTG
1 TGAAATACGAACGTTTTGTTATCGATCTTGTCGCAAAATATGATC-AATGACGA-ACGATGATTG
* **
56008 GCTG-CTGAAAAGTGCAGTGCTAGAAAAGAAAATTGTTTAAAAGTTTGGTGGCAAAATTGCTACA
64 GCTGTC-GAAAAGGGCAGTGCTAGAAAAGAAAATTGTTTAAAAGTTTGGTGGCAAAATCACTACA
56072 TT
128 TT
56074 GCTAAAGTTC
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
135 3 0.03
136 113 0.97
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (136 bp):
TGAAATACGAACGTTTTGTTATCGATCTTGTCGCAAAATATGATCAATGACGAACGATGATTGGC
TGTCGAAAAGGGCAGTGCTAGAAAAGAAAATTGTTTAAAAGTTTGGTGGCAAAATCACTACATTA
AATGAA
Found at i:56648 original size:28 final size:28
Alignment explanation
Indices: 56602--56661 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
56592 GAAAAAATCG
56602 AATACTTTAAATATATATTTTAATCAAA
1 AATACTTTAAATATATATTTTAATCAAA
** * *
56630 AATACTTTAGGTATTTATTTTGATCAAA
1 AATACTTTAAATATATATTTTAATCAAA
56658 AATA
1 AATA
56662 TAAATTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (28 bp):
AATACTTTAAATATATATTTTAATCAAA
Found at i:58583 original size:20 final size:21
Alignment explanation
Indices: 58558--58650 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
58548 TTTTCCCAAT
*
58558 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
58578 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
58599 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
58619 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
58640 TCGCAATGCGA
1 TCGCAATGCGA
58651 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:58603 original size:41 final size:41
Alignment explanation
Indices: 58558--58650 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
58548 TTTTCCCAAT
58558 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
58599 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
58640 TCGCAATGCGA
1 TCGCAATGCGA
58651 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:58663 original size:41 final size:41
Alignment explanation
Indices: 58577--58711 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
58567 GAATAAGTAA
** *
58577 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
58618 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
58659 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
58700 TTCGCAACGCGA
1 ATCGCAACGCGA
58712 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:58664 original size:20 final size:20
Alignment explanation
Indices: 58639--58732 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
58629 AATTGGGAAA
*
58639 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
58659 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
58680 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
58700 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
58720 TTCGCAACGCGAT
1 ATCGCAACGCGAT
58733 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:59240 original size:20 final size:20
Alignment explanation
Indices: 59215--59252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59205 CGATTCTCTC
59215 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
59235 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
59253 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:60593 original size:18 final size:18
Alignment explanation
Indices: 60572--60616 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
60562 TCCACTTCGG
* *
60572 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
60590 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
60608 GAGCCATCA
1 GAGCCATCA
60617 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:61162 original size:14 final size:14
Alignment explanation
Indices: 61143--61200 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
61133 ATGCGAAATG
61143 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
61157 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
61173 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
61189 AAAATCGCAACG
1 AAAATCGCAACG
61201 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:61185 original size:32 final size:33
Alignment explanation
Indices: 61127--61217 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
61117 GGAAATGGCT
*
61127 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
61160 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
61192 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
61218 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:61211 original size:19 final size:19
Alignment explanation
Indices: 61089--61222 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
61079 TAGTTTACTT
* **
61089 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
61108 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
61128 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
61147 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
61161 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
61179 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
61193 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
61212 TCGCAATGCGA
1 TCGCAACGCGA
61223 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:61268 original size:32 final size:33
Alignment explanation
Indices: 61229--61306 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
61219 GCGATTTGTG
61229 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
61261 TTTCGCGTTGCGA-TTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
* *
61293 TTTCACATTGCGAT
1 TTTCGCGTTGCGAT
61307 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
31 13 0.31
32 29 0.69
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:61325 original size:20 final size:19
Alignment explanation
Indices: 61300--61345 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
61290 TCATTTCACA
61300 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTT-CGCG
*
61320 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCGCG
61339 TTGCGAT
1 TTGCGAT
61346 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCG
Found at i:63359 original size:19 final size:19
Alignment explanation
Indices: 63335--63507 Score: 258
Period size: 19 Copynumber: 9.6 Consensus size: 19
63325 AAAACAGACT
*
63335 ATCGCAATGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
63354 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
63373 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63392 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63411 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63430 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
63444 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63463 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63482 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
63496 ATCGCAATGCGA
1 ATCGCAATGCGA
63508 TTTTCATTTC
Statistics
Matches: 143, Mismatches: 3, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
14 22 0.15
15 2 0.01
16 4 0.03
17 4 0.03
18 1 0.01
19 110 0.77
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:63520 original size:71 final size:69
Alignment explanation
Indices: 63369--63502 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 69
63359 AATGCGAAAT
*
63369 GAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCG
63434 CAACGA
64 CAACGA
63440 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCA
63502 A
66 A
63503 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
66 11 0.18
67 1 0.02
69 2 0.03
71 48 0.77
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.13
Consensus pattern (69 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCA
ACGA
Found at i:63526 original size:52 final size:52
Alignment explanation
Indices: 63335--63507 Score: 292
Period size: 52 Copynumber: 3.2 Consensus size: 52
63325 AAAACAGACT
*
63335 ATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAAA
63392 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
63444 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
63496 ATCGCAATGCGA
1 ATCGCAATGCGA
63508 TTTTCATTTC
Statistics
Matches: 115, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
52 68 0.59
53 1 0.01
55 3 0.03
56 1 0.01
57 42 0.37
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:63583 original size:20 final size:20
Alignment explanation
Indices: 63526--63583 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
63516 TCGCATTGCG
* *
63526 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
63546 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
63566 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
63584 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:64667 original size:24 final size:24
Alignment explanation
Indices: 64640--64693 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
64630 GTATTCGAAA
* *
64640 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
64664 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
64688 TTTGAT
1 TTTGAT
64694 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:64885 original size:12 final size:12
Alignment explanation
Indices: 64868--64892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64858 ATATAATCCT
64868 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64880 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64892 G
1 G
64893 TCCTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:67201 original size:19 final size:19
Alignment explanation
Indices: 67179--67237 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
67169 GGAAATTACT
67179 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
67198 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
67212 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
67231 ATCGCAA
1 ATCGCAA
67238 CGCTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:67442 original size:14 final size:14
Alignment explanation
Indices: 67423--67459 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67413 CATCAATTAA
67423 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
67437 ACAAATCACCTTTT
1 ACAAATCAACTTTT
67451 ACAAATCAA
1 ACAAATCAA
67460 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:68880 original size:21 final size:21
Alignment explanation
Indices: 68814--68880 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
68804 GTGAATCGGG
*
68814 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
68834 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
68856 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
68877 CTCT
1 CTCT
68881 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:68899 original size:42 final size:42
Alignment explanation
Indices: 68853--68934 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
68843 CGATGACAGT
* * *
68853 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAAG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAAG
* * *
68895 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATA
68935 GGCGAGTCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAAG
Found at i:71482 original size:20 final size:20
Alignment explanation
Indices: 71389--71482 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
71379 CGCTATGTAA
* *
71389 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
71409 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
71429 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
71450 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
71470 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
71483 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:71500 original size:21 final size:21
Alignment explanation
Indices: 71471--71563 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
71461 ATAGTAAGTA
71471 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
71492 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
71512 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
71533 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
71553 TCGCATTGCGA
1 TCGCATTGCGA
71564 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:71501 original size:41 final size:41
Alignment explanation
Indices: 71410--71544 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
71400 AAAGTCAGTA
* * * ** *
71410 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
71450 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
71492 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
71533 TCGCGTTGCGAT
1 TCGCGTTGCGAT
71545 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:71545 original size:41 final size:41
Alignment explanation
Indices: 71471--71563 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
71461 ATAGTAAGTA
71471 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
71512 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
71553 TCGCATTGCGA
1 TCGCATTGCGA
71564 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:73105 original size:18 final size:18
Alignment explanation
Indices: 73082--73116 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73072 TTATTAGTAA
*
73082 TATAATGTTTAAATTATT
1 TATAATCTTTAAATTATT
73100 TATAATCTTTAAATTAT
1 TATAATCTTTAAATTAT
73117 AAAATAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TATAATCTTTAAATTATT
Found at i:76774 original size:11 final size:11
Alignment explanation
Indices: 76758--76792 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
76748 ATCGATACCC
*
76758 CTGCTATAGTA
1 CTGCTACAGTA
76769 CTGCTACAGTA
1 CTGCTACAGTA
*
76780 CTGCTACATTA
1 CTGCTACAGTA
76791 CT
1 CT
76793 ACAGTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (11 bp):
CTGCTACAGTA
Found at i:77230 original size:17 final size:17
Alignment explanation
Indices: 77188--77239 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
77178 TGATTATCTT
*
77188 CTTTCTTATCATT-ATC
1 CTTTATTATCATTAATC
77204 CTATTATTATCATTAATAC
1 CT-TTATTATCATTAAT-C
77223 CTTT-TTATCATATAATC
1 CTTTATTATCAT-TAATC
77240 ATATACTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.06
17 18 0.58
18 8 0.26
19 3 0.10
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (17 bp):
CTTTATTATCATTAATC
Found at i:77588 original size:18 final size:18
Alignment explanation
Indices: 77565--77599 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77555 CCGCGTAGAA
77565 ATGTCCCAAAGGACCACT
1 ATGTCCCAAAGGACCACT
*
77583 ATGTCCCGAAGGACCAC
1 ATGTCCCAAAGGACCAC
77600 ATATCACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACT
Found at i:77793 original size:19 final size:19
Alignment explanation
Indices: 77769--77825 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
77759 ATAGCTCTCG
77769 TATCATATAACATGGGCAT
1 TATCATATAACATGGGCAT
**
77788 TATCAT-T----TGTTCAT
1 TATCATATAACATGGGCAT
77802 T-TCATATAACATGGGCAT
1 TATCATATAACATGGGCAT
77820 TATCAT
1 TATCAT
77826 TTGTTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
13 4 0.14
14 7 0.25
18 7 0.25
19 10 0.36
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
TATCATATAACATGGGCAT
Found at i:77812 original size:32 final size:32
Alignment explanation
Indices: 77771--77843 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
77761 AGCTCTCGTA
77771 TCATATAACATGGGCATTATCATTTGTTCATT
1 TCATATAACATGGGCATTATCATTTGTTCATT
77803 TCATATAACATGGGCATTATCATTTGTTCATT
1 TCATATAACATGGGCATTATCATTTGTTCATT
77835 TCATATAAC
1 TCATATAAC
77844 TTGTTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (32 bp):
TCATATAACATGGGCATTATCATTTGTTCATT
Found at i:81283 original size:51 final size:51
Alignment explanation
Indices: 81211--81452 Score: 317
Period size: 51 Copynumber: 4.7 Consensus size: 51
81201 TAATTCATGC
* * * * *
81211 AAAAAAATGTTGCACTTAATACATATTTACATCGGTGTAATTGAATAAAAT
1 AAAAAAGTGTAGCACTTAATACATACTTACACCGGTGTAAGTGAATAAAAT
* * * *
81262 AAACAAGTGTAACACTTAATACATACTTACGCCGGTGTAAGCGAATAAAA-
1 AAAAAAGTGTAGCACTTAATACATACTTACACCGGTGTAAGTGAATAAAAT
* *
81312 AAAAAAGTGTAGCACTTAAATACATACTTACGCCGGTGTAAGTGAATAAAAC
1 AAAAAAGTGTAGCACTT-AATACATACTTACACCGGTGTAAGTGAATAAAAT
*
81364 AAAAAAGTGTAGCACTTAACACATA-TTACACCGGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAATACATACTTACACCGGTGTAAGTGAATAAAAT
* * *
81414 AAAAAAAATGTAGCACTTAACACATACTTACAACGGTGT
1 -AAAAAAGTGTAGCACTTAATACATACTTACACCGGTGT
81453 GAGTATGTCT
Statistics
Matches: 170, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
50 38 0.22
51 104 0.61
52 28 0.16
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (51 bp):
AAAAAAGTGTAGCACTTAATACATACTTACACCGGTGTAAGTGAATAAAAT
Found at i:82666 original size:42 final size:42
Alignment explanation
Indices: 82580--82666 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
82570 CAATTTAATG
* * *
82580 ATTCTAAAAAAATATAAAACTAAAAGAGTTTTATACAGTTTA
1 ATTCTAAAAAAATATAAAAATAAAAGAATTTTACACAGTTTA
*
82622 ATTCTAAAAAGATATAAAAATAAAAGAATTTTACACA-TTATA
1 ATTCTAAAAAAATATAAAAATAAAAGAATTTTACACAGTT-TA
82664 ATT
1 ATT
82667 AGATCCTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (42 bp):
ATTCTAAAAAAATATAAAAATAAAAGAATTTTACACAGTTTA
Found at i:85299 original size:3 final size:3
Alignment explanation
Indices: 85291--85390 Score: 109
Period size: 3 Copynumber: 33.7 Consensus size: 3
85281 CACCCATTTG
*
85291 TTA TTA TTA TTA TT- TTA TTTA TTA CTA TTA TTA TT- TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
85336 CTA TTA TTA TT- TTA TAA TTA -TA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
85380 TTA TTA TTA TT
1 TTA TTA TTA TT
85391 TACAAACCCA
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
2 8 0.10
3 65 0.79
4 9 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:85319 original size:21 final size:21
Alignment explanation
Indices: 85286--85392 Score: 141
Period size: 21 Copynumber: 5.2 Consensus size: 21
85276 TTTTTCACCC
* *
85286 ATTTGTTATTATTATTATTTT
1 ATTTATTACTATTATTATTTT
85307 ATTTATTACTATTATTATTTT
1 ATTTATTACTATTATTATTTT
85328 ATTTATTACTATTATTATTTT
1 ATTTATTACTATTATTATTTT
*
85349 A-TAATTA-TATTATTA--TT
1 ATTTATTACTATTATTATTTT
*
85366 ATTTATTAATATTATTATTATT
1 ATTTATTACTATTATTATT-TT
85388 ATTTA
1 ATTTA
85393 CAAACCCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
17 3 0.04
18 5 0.06
19 16 0.21
20 5 0.06
21 41 0.53
22 7 0.09
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTATTACTATTATTATTTT
Found at i:86786 original size:36 final size:36
Alignment explanation
Indices: 86712--86786 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
86702 TTTTAATACC
*
86712 TTTATTTAATTATAAGTCTTATTATTGTTATTTTTA
1 TTTATTTAATTATAAGTCTTATTATTGTTATTTATA
*
86748 TTTATTTAATGT-TAA-TTTTAGTTATTGTT-TATTATA
1 TTTATTTAAT-TATAAGTCTTA-TTATTGTTAT-TTATA
86784 TTT
1 TTT
86787 TAAATTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
35 5 0.15
36 28 0.82
37 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.65
Consensus pattern (36 bp):
TTTATTTAATTATAAGTCTTATTATTGTTATTTATA
Found at i:87162 original size:23 final size:23
Alignment explanation
Indices: 87127--87170 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
87117 CCTTTTCTGA
*
87127 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
* *
87150 TATTTATATATAAATTAATAT
1 TATTTATAAATAAATAAATAT
87171 AGTTTCTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:90985 original size:15 final size:15
Alignment explanation
Indices: 90967--91009 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
90957 TACCTTTTGT
90967 ATACATTCATTTTTC
1 ATACATTCATTTTTC
*
90982 ATACATTCATTATTC
1 ATACATTCATTTTTC
90997 ATTACATT-ATTTT
1 A-TACATTCATTTT
91010 CTTTATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (15 bp):
ATACATTCATTTTTC
Found at i:100046 original size:113 final size:113
Alignment explanation
Indices: 99886--100134 Score: 437
Period size: 113 Copynumber: 2.2 Consensus size: 113
99876 TGCCAGGTAG
* * *
99886 AGTTCATAATGAGAATAACTCATTTAAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
99951 AACC-TTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAGAGGA
66 AACCTTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCA-AAGA
*
99999 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
100064 AACCTTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAAAGA
66 AACCTTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAAAGA
100112 AGTTCATAATGAGAAGAACTCAT
1 AGTTCATAATGAGAAGAACTCAT
100135 AAGAAAAAGG
Statistics
Matches: 130, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
113 91 0.70
114 39 0.30
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTTGCTTGAATTCATCACTTGATGGATCAACTTTTCCAAAGA
Found at i:100150 original size:19 final size:19
Alignment explanation
Indices: 100126--100164 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
100116 CATAATGAGA
100126 AGAACTCATAAGAAAAAGG
1 AGAACTCATAAGAAAAAGG
*
100145 AGAACTCATCAGAAAAAGG
1 AGAACTCATAAGAAAAAGG
100164 A
1 A
100165 AGAAGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.13, G:0.21, T:0.10
Consensus pattern (19 bp):
AGAACTCATAAGAAAAAGG
Found at i:100167 original size:132 final size:133
Alignment explanation
Indices: 100013--100261 Score: 412
Period size: 132 Copynumber: 1.9 Consensus size: 133
100003 CATAATGAGA
* * * *
100013 AGAACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTT
1 AGAACTCATCAGAAAAAGGAAGAAGATA-TTCATAATGAGAAGAATTTGTTCAAACATTTTGCTT
* *
100077 GAATTCATCACTTGATGGATCAACTTTTCCAAAG-AAGTTCATAATGAGAAGAACTCATAAGAAA
65 GAATTCATCACTTGATGGATCAAATTTTCCAAAGAAAGCTCATAATGAGAAGAACTCATAAGAAA
100141 AAGG
130 AAGG
100145 AGAACTCATCAGAAAAAGGAAGAAGATATTCATAATGAGAAGAATTTGTTCAAACATTTTGCTTG
1 AGAACTCATCAGAAAAAGGAAGAAGATATTCATAATGAGAAGAATTTGTTCAAACATTTTGCTTG
*
100210 AATTCATCACTTGATGGATCAAATTTTCCAGAGAAAGCTCATAATGAGAAGA
66 AATTCATCACTTGATGGATCAAATTTTCCAAAGAAAGCTCATAATGAGAAGA
100262 GCTTATCTGA
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
132 90 0.83
133 18 0.17
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (133 bp):
AGAACTCATCAGAAAAAGGAAGAAGATATTCATAATGAGAAGAATTTGTTCAAACATTTTGCTTG
AATTCATCACTTGATGGATCAAATTTTCCAAAGAAAGCTCATAATGAGAAGAACTCATAAGAAAA
AGG
Found at i:100444 original size:122 final size:122
Alignment explanation
Indices: 100227--100527 Score: 496
Period size: 122 Copynumber: 2.5 Consensus size: 122
100217 CACTTGATGG
* * * * *
100227 ATCAAATTTTCCAGAGAAAGCTCATAATGAGAAGAGCTTATCTGAAGAGGAACAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTGCATA
*
100292 ATGAGAAGAGCTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAGCTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
100349 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTGCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTGCATA
100414 ATGAGAAGAGCTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
66 ATGAGAAGAGCTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
* * * * *
100471 ATCAACATTTCCAGA-AATGTTCATAATGAGAAGAACTCATCTAAAGAAGAAGAAGAA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAA
100528 CTTGTTCAAC
Statistics
Matches: 168, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
121 38 0.23
122 130 0.77
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.23
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTGCATA
ATGAGAAGAGCTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
Found at i:100753 original size:3 final size:3
Alignment explanation
Indices: 100745--100804 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
100735 CATTCATTTG
* *
100745 TTA TTA TTA TTA TT- TTA TTTA TTA CTA TTA ATA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
100791 ATA TTA TCA TTA TT
1 TTA TTA TTA TTA TT
100805 TACAGACCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:100789 original size:16 final size:16
Alignment explanation
Indices: 100748--100797 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
100738 TCATTTGTTA
*
100748 TTATTATT-ATTTTAT
1 TTATTATTAATATTAT
100763 TTATTACTATTAATATTAT
1 TTA-T--TATTAATATTAT
100782 TTATTATTAATATTAT
1 TTATTATTAATATTAT
100798 CATTATTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.10
16 13 0.43
18 5 0.17
19 9 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATTAATATTAT
Found at i:102516 original size:83 final size:83
Alignment explanation
Indices: 102372--102544 Score: 192
Period size: 83 Copynumber: 2.1 Consensus size: 83
102362 CATATTTTAA
* * *
102372 TATTTATTTTTCAATATTAAGAAAGGACAATCTTAAAGCAACTGGATGTCCATTTTATGATATTT
1 TATTTATTTTTCAATATTAAGAAAAGACAATCTTAAAGCAACTAGAAGTCCATTTTATGATATTT
102437 -TAAAATAAATAAAATAT-T
66 CT-AAATAAAT-AAATATCT
* *** * *
102455 TATTTATTTTTTAATATTAAGAAAAGAGTTGTCTTAAAG-AACCTAGAAG-CCCTTTTCTGATAT
1 TATTTATTTTTCAATATTAAGAAAAGA-CAATCTTAAAGCAA-CTAGAAGTCCATTTTATGATAT
*
102518 TTCTAACTAAATAAATATCT
64 TTCTAAATAAATAAATATCT
102538 TATTTAT
1 TATTTAT
102545 ATATAAATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
82 6 0.08
83 56 0.74
84 14 0.18
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (83 bp):
TATTTATTTTTCAATATTAAGAAAAGACAATCTTAAAGCAACTAGAAGTCCATTTTATGATATTT
CTAAATAAATAAATATCT
Found at i:106282 original size:15 final size:16
Alignment explanation
Indices: 106262--106291 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
106252 TCTCTTGATA
106262 ATTTTTATTT-TTTTT
1 ATTTTTATTTATTTTT
106277 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
106292 GATTGTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
ATTTTTATTTATTTTT
Found at i:107260 original size:21 final size:21
Alignment explanation
Indices: 107216--107260 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
107206 CCGAAAATGT
* * *
107216 TAAAAATATTAATTTTTTAAG
1 TAAAAATAATAATATTTCAAG
*
107237 TAAAAATAATAATATTTCAGG
1 TAAAAATAATAATATTTCAAG
107258 TAA
1 TAA
107261 CTTTTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
TAAAAATAATAATATTTCAAG
Found at i:109314 original size:28 final size:26
Alignment explanation
Indices: 109250--109312 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
109240 TTTAGGGATA
* **
109250 AATTTATAAAATTTTAAAGAGACGAT
1 AATTTATAAAATTTTAAAAAGAAAAT
109276 AATTTATAAAATTTTAAAAAGAAAAT
1 AATTTATAAAATTTTAAAAAGAAAAT
109302 ATATTT-TAAAA
1 A-ATTTATAAAA
109313 AAAATATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
AATTTATAAAATTTTAAAAAGAAAAT
Found at i:111391 original size:23 final size:22
Alignment explanation
Indices: 111340--111391 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
111330 TAGTAAAATG
111340 ATAAT-AATAAAATTTTAAAAA
1 ATAATAAATAAAATTTTAAAAA
* * *
111361 ATGGATAAATAAAATTTATCAATA
1 AT-AATAAATAAAATTT-TAAAAA
111385 ATAATAA
1 ATAATAA
111392 TAATAAGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 14 0.58
24 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAATAAATAAAATTTTAAAAA
Found at i:111937 original size:16 final size:13
Alignment explanation
Indices: 111903--111928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111893 ACCTCATCCA
111903 TTCTCTCCTCCTT
1 TTCTCTCCTCCTT
111916 TTCTCTCCTCCTT
1 TTCTCTCCTCCTT
111929 CGTTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (13 bp):
TTCTCTCCTCCTT
Found at i:112731 original size:12 final size:12
Alignment explanation
Indices: 112716--112762 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
112706 AAATGAGAAA
112716 AAAATAATAAAT
1 AAAATAATAAAT
112728 AAAATAA-ATAAT
1 AAAATAATA-AAT
*
112740 AATAATGATAAAT
1 AA-AATAATAAAT
*
112753 AAAAAAATAA
1 AAAATAATAA
112763 CAAAAGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 18 0.62
13 9 0.31
14 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:112738 original size:16 final size:15
Alignment explanation
Indices: 112713--112754 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
112703 AAAAAATGAG
112713 AAAA-AAATAATAAAT
1 AAAATAAATAAT-AAT
112728 AAAATAAATAATAAT
1 AAAATAAATAATAAT
*
112743 AATGATAAATAA
1 AA-AATAAATAA
112755 AAAAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:112844 original size:39 final size:37
Alignment explanation
Indices: 112801--112899 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 37
112791 AAACTACAAA
112801 AAAAATATTTTTCAAAAATCTATATAATATATA-TTTTAT
1 AAAAATA-TTTTCAAAAAT-TATATAATATATACTTTT-T
112840 AAAAATATTTT--AAAATTATATATTATATATACTTTTT
1 AAAAATATTTTCAAAAATTATATA--ATATATACTTTTT
*
112877 AAAAATGTTTTC-AAAATTATATA
1 AAAAATATTTTCAAAAATTATATA
112900 GTTTTCAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
35 6 0.11
36 5 0.09
37 18 0.33
38 19 0.35
39 7 0.13
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
AAAAATATTTTCAAAAATTATATAATATATACTTTTT
Found at i:112880 original size:37 final size:38
Alignment explanation
Indices: 112801--112899 Score: 130
Period size: 37 Copynumber: 2.6 Consensus size: 38
112791 AAACTACAAA
* *
112801 AAAAATATTTTTCAAAAATCTATATAATATATATTTTAT
1 AAAAATA-TTTTCAAAATTATATATAATATATATTTTAT
*
112840 AAAAATATTTT-AAAATTATATATTATATATACTTTT-T
1 AAAAATATTTTCAAAATTATATATAATATATA-TTTTAT
*
112877 AAAAATGTTTTCAAAATTATATA
1 AAAAATATTTTCAAAATTATATA
112900 GTTTTCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 28 0.52
38 19 0.35
39 7 0.13
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (38 bp):
AAAAATATTTTCAAAATTATATATAATATATATTTTAT
Found at i:112905 original size:17 final size:17
Alignment explanation
Indices: 112883--112942 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
112873 TTTTAAAAAT
112883 GTTTTCAAAATTATATA
1 GTTTTCAAAATTATATA
* *
112900 GTTTTCAAAA-AATATT
1 GTTTTCAAAATTATATA
* * *
112916 TTTTTAAAAACTATATA
1 GTTTTCAAAATTATATA
112933 -TTTTCAAAAT
1 GTTTTCAAAAT
112943 GTTTTTTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (17 bp):
GTTTTCAAAATTATATA
Found at i:112952 original size:31 final size:33
Alignment explanation
Indices: 112884--113001 Score: 96
Period size: 33 Copynumber: 3.5 Consensus size: 33
112874 TTTAAAAATG
* *
112884 TTTTCAAAATTATATAGTTTTCAAAAAATATTT
1 TTTTAAAAACTATATAGTTTTCAAAAAATATTT
**
112917 TTTTAAAAACTATATA-TTTTCAAAATGT-TTT
1 TTTTAAAAACTATATAGTTTTCAAAAAATATTT
* * ** *
112948 TTTTAAAATATATAATATATATATTTTTAAAAATGTTT
1 TTTTAAAA-A-CT-ATATA-GT-TTTCAAAAAATATTT
112986 TTTTAAAAACTATATA
1 TTTTAAAAACTATATA
113002 TTATATTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 11 0.16
32 11 0.16
33 15 0.22
34 5 0.07
35 5 0.07
36 2 0.03
37 8 0.12
38 11 0.16
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (33 bp):
TTTTAAAAACTATATAGTTTTCAAAAAATATTT
Found at i:112987 original size:38 final size:38
Alignment explanation
Indices: 112927--113009 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 38
112917 TTTTAAAAAC
*
112927 TATATA-TTTTCAAAATGTTTTTTTTAAAATA-TATAATA
1 TATATATTTTTAAAAATGTTTTTTTTAAAA-ACTAT-ATA
112965 TATATATTTTTAAAAATG-TTTTTTTAAAAACTATATA
1 TATATATTTTTAAAAATGTTTTTTTTAAAAACTATATA
113002 T-TATATTT
1 TATATATTT
113010 ACTATATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 7 0.17
37 5 0.12
38 20 0.48
39 10 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (38 bp):
TATATATTTTTAAAAATGTTTTTTTTAAAAACTATATA
Found at i:112988 original size:40 final size:39
Alignment explanation
Indices: 112927--113223 Score: 134
Period size: 36 Copynumber: 7.4 Consensus size: 39
112917 TTTTAAAAAC
* *
112927 TATATATTTTCAAAATGTTTTTTTTAAAA-TATATAATA
1 TATATATTTTAAAAATGTTTTTTTAAAAACTATATAATA
*
112965 TATATATTTTTAAAAATGTTTTTTTAAAAACTATATATTA
1 TATATA-TTTTAAAAATGTTTTTTTAAAAACTATATAATA
* * * *
113005 TATTTACTATATAATATATATTTTTTCAAAAATGTTTTAAAAACTATATATTA
1 TATATA-T-TTTAA-A-A-A--TGTT------T-TTTTAAAAACTATATAATA
* * *
113058 TATTTATTTT-CAAA-G-TGTTTTAAAAACTATATAATA
1 TATATATTTTAAAAATGTTTTTTTAAAAACTATATAATA
* *
113094 TATATATTTTTAAAAATG---CTTTAAAAACTATATATTA
1 TATATA-TTTTAAAAATGTTTTTTTAAAAACTATATAATA
* * * *
113131 TATTTATTTTCAAAATG---CTTTAAAAATTATATAATA
1 TATATATTTTAAAAATGTTTTTTTAAAAACTATATAATA
* * *
113167 TATAAATGTTTTCAAACATG---TTTTCAAAACTATATATTATA
1 TAT--ATATTTT-AAAAATGTTTTTTTAAAAACTATATA--ATA
113208 TATATATTTTCAAAAA
1 TATATATTTT-AAAAA
113224 CCATTTGCAA
Statistics
Matches: 207, Mismatches: 29, Indels: 45
0.74 0.10 0.16
Matches are distributed among these distances:
36 53 0.26
37 26 0.13
38 14 0.07
39 51 0.25
40 14 0.07
41 10 0.05
42 1 0.00
43 2 0.01
44 1 0.00
46 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
51 2 0.01
52 2 0.01
53 25 0.12
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (39 bp):
TATATATTTTAAAAATGTTTTTTTAAAAACTATATAATA
Found at i:113002 original size:31 final size:31
Alignment explanation
Indices: 112865--113003 Score: 97
Period size: 31 Copynumber: 4.3 Consensus size: 31
112855 TTATATATTA
* *
112865 TATATACTTTTTAAAAATG---TTTTCAAAAT
1 TATATA-TTTTTAAAAATGTTTTTTTAAAAAC
* *
112894 TATATAGTTTTCAAAAAATATTTTTTTAAAAAC
1 TATATA-TTTT-TAAAAATGTTTTTTTAAAAAC
* *
112927 TATATA-TTTTCAAAATGTTTTTTTTAAAATATATAATA
1 TATATATTTTTAAAAATG-TTTTTTT---A-A-A-AA-C
112965 TATATATTTTTAAAAATGTTTTTTTAAAAAC
1 TATATATTTTTAAAAATGTTTTTTTAAAAAC
112996 TATATATT
1 TATATATT
113004 ATATTTACTA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
29 10 0.12
30 11 0.13
31 18 0.21
32 2 0.02
33 15 0.17
34 2 0.02
35 2 0.02
36 1 0.01
37 2 0.02
38 13 0.15
39 10 0.12
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (31 bp):
TATATATTTTTAAAAATGTTTTTTTAAAAAC
Found at i:113052 original size:37 final size:37
Alignment explanation
Indices: 113010--113248 Score: 245
Period size: 36 Copynumber: 6.4 Consensus size: 37
113000 TATTATATTT
113010 ACTATATAATATATATTTTTTCAAAAATGTTTTAAAA
1 ACTATATAATATATATTTTTTCAAAAATGTTTTAAAA
* *
113047 ACTATATATTATAT-TTATTTTC-AAAGTGTTTTAAAA
1 ACTATATAATATATATT-TTTTCAAAAATGTTTTAAAA
*
113083 ACTATATAATATATATATTTTT-AAAAATGCTTTAAAA
1 ACTATATAATATATAT-TTTTTCAAAAATGTTTTAAAA
* *
113120 ACTATATATTATAT-TTATTTTC-AAAATGCTTTAAAA
1 ACTATATAATATATATT-TTTTCAAAAATGTTTTAAAA
* * * *
113156 ATTATATAATATATAAATGTTTTCAAACATGTTTTCAAA
1 ACTATATAATATAT--ATTTTTTCAAAAATGTTTTAAAA
* *** **
113195 ACTATATATTATATATATATTTTCAAAAACCATTTGCAA
1 ACTATATA--ATATATATTTTTTCAAAAATGTTTTAAAA
113234 ACTATATAATATATA
1 ACTATATAATATATA
113249 GATATATATG
Statistics
Matches: 170, Mismatches: 20, Indels: 24
0.79 0.09 0.11
Matches are distributed among these distances:
35 1 0.01
36 59 0.35
37 55 0.32
38 6 0.04
39 43 0.25
41 6 0.04
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
ACTATATAATATATATTTTTTCAAAAATGTTTTAAAA
Found at i:113063 original size:53 final size:54
Alignment explanation
Indices: 112956--113063 Score: 175
Period size: 53 Copynumber: 2.0 Consensus size: 54
112946 TTTTTTAAAA
112956 TATATAATATATATATTTTTAAAAATGTTTTTTTAAAAACTATATATTATATTTAC
1 TATATAATATATATATTTTTAAAAATG--TTTTTAAAAACTATATATTATATTTAC
113012 TATATAATATATAT-TTTTTCAAAAATG-TTTTAAAAACTATATATTATATTTA
1 TATATAATATATATATTTTT-AAAAATGTTTTTAAAAACTATATATTATATTTA
113064 TTTTCAAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
53 25 0.49
55 5 0.10
56 21 0.41
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (54 bp):
TATATAATATATATATTTTTAAAAATGTTTTTAAAAACTATATATTATATTTAC
Found at i:113093 original size:73 final size:73
Alignment explanation
Indices: 113010--113248 Score: 318
Period size: 73 Copynumber: 3.2 Consensus size: 73
113000 TATTATATTT
*
113010 ACTATATAATATATATTTTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAGTG
1 ACTATATAATATATATTTTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATG
*
113075 TTTTAAAA
66 CTTTAAAA
*
113083 ACTATATAATATATATATTTTT-AAAAATGCTTTAAAAACTATATATTATATTTATTTTCAAAAT
1 ACTATATAATATATAT-TTTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAAT
113147 GCTTTAAAA
65 GCTTTAAAA
* * * *
113156 ATTATATAATATATAAATGTTTTCAAACATGTTTTCAAAACTATATATTATATATATATTTTCAA
1 ACTATATAATATAT--ATTTTTTCAAAAATGTTTTAAAAACTATATATTATAT-T-TATTTTCAA
** **
113221 AAACCATTTGCAA
62 AATGC-TTTAAAA
113234 ACTATATAATATATA
1 ACTATATAATATATA
113249 GATATATATG
Statistics
Matches: 146, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
73 77 0.53
74 9 0.06
75 28 0.19
76 2 0.01
77 12 0.08
78 18 0.12
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (73 bp):
ACTATATAATATATATTTTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAATG
CTTTAAAA
Found at i:113236 original size:39 final size:38
Alignment explanation
Indices: 113012--113253 Score: 226
Period size: 39 Copynumber: 6.4 Consensus size: 38
113002 TTATATTTAC
* * *
113012 TATATAATATATATTTTTTCAAAAATGTTTTAAAAACTA
1 TATATTATATATATATTTTCAAAAA-GCTTTAAAAACTA
** *
113051 TATATTATAT-T-TATTTTCAAAGTGTTTTAAAAACTA
1 TATATTATATATATATTTTCAAAAAGCTTTAAAAACTA
*
113087 TATA--ATATATATATTTTTAAAAATGCTTTAAAAACTA
1 TATATTATATATATATTTTCAAAAA-GCTTTAAAAACTA
* *
113124 TATATTATAT-T-TATTTTCAAAATGCTTTAAAAATTA
1 TATATTATATATATATTTTCAAAAAGCTTTAAAAACTA
* * * * * *
113160 TATAATATATAAATGTTTTCAAACATGTTTTCAAAACTA
1 TATATTATATATATATTTTCAAA-AAGCTTTAAAAACTA
* **
113199 TATATTATATATATATTTTCAAAAACCATTTGCAAACTA
1 TATATTATATATATATTTTCAAAAAGC-TTTAAAAACTA
* *
113238 TATAATATATAGATAT
1 TATATTATATATATAT
113254 ATATGAAATA
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
34 4 0.02
35 1 0.01
36 47 0.28
37 35 0.21
38 12 0.07
39 68 0.41
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (38 bp):
TATATTATATATATATTTTCAAAAAGCTTTAAAAACTA
Found at i:113819 original size:165 final size:164
Alignment explanation
Indices: 113630--114436 Score: 874
Period size: 165 Copynumber: 4.9 Consensus size: 164
113620 TTGTTGACAA
* * * * *
113630 ATAGCCCTTCTTGCCTTGAGCTATGCTATAAATGATGTGCCTTGGAGCTGAGCGTGGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * **
113695 AAAGGTCTTCTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTGAATGATGTGCCCTCGA
66 AAAGGTCTT-TGGTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGA
*
113760 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAG
130 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
* *
113795 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAG-TGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * * * * *
113859 GAAGGTCATTGGTGACTGATAACCCTTTTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAT
66 AAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGAA
* *
113924 GCTGAGTGTAATCGAACTCGGGGGTCTTCGGTAG
131 GCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
* * * * * *
113958 ATAACCTTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCAAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
114023 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATACTGCAAATGATGTGCCCTCG
66 AAAGGTCTTTGG-TGACAGATAACCCTTCT-AGACTTAAGTTATACTGCAAATGATGTGCCCTCG
114087 AAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
129 AAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
* * *
114123 ATAGCCCTTATCGACTTAAGCTATACTGTAAATGATGTGTCCTT-GAGTTGAGCGTAGTCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
* * * * * * *
114187 CAAAGGTCTTTCGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTG
65 CAAAGGTCTTT-GGTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCG
* * * *
114251 GAGCTGAGCGTAGTCGAACTCGGAGGTCTTTGGTGACAG
129 AAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAG
* * * * * * * * * *
114290 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGTCCTTGAAGCTGAGTGTAATCGAACT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
* * * * * * * * * *
114355 CGAGGGTCTTT-G-G-CAGATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGACGTG-CCTTGG
65 CAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGA
* *
114416 AGCTGAGCGTAGTCGAACTCG
130 AGCTGAGTGTAATCGAACTCG
114437 AAGGGATTTG
Statistics
Matches: 557, Mismatches: 75, Indels: 21
0.85 0.11 0.03
Matches are distributed among these distances:
163 125 0.22
164 142 0.25
165 220 0.39
166 7 0.01
167 38 0.07
168 25 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (164 bp):
ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
AAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTGCCCTCGAA
GCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAG
Found at i:114389 original size:164 final size:164
Alignment explanation
Indices: 113619--114565 Score: 706
Period size: 165 Copynumber: 5.8 Consensus size: 164
113609 ACTCGATGAT
* * * * * * * *
113619 TTTGTTGACAAATAGCCCTTCTTGCCTTGAGCTATGCTATAAATGATGTG-CCTTGGAGCTGAGC
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
** * * * * * * **
113683 GTGGTCGAACTCAAAGGTCTTCTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTGAATG
66 GTAATCGAACTCGAGGGTCTT-T-G-G-CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG
* * * *
113748 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-GAGGGTC
127 ATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGGA-GGTC
* * * * * *
113787 TTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTT-AGAG-TGAG
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGA-AGCTGAG
* * * * * * * * * * * *
113846 CGTAGTCGAACTCGAAGGTCATTGGTGACTGATAACCCTTTTAGCCTTGAGTTATACTGTAAATG
65 TGTAATCGAACTCGAGGGTC-TT--TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG
* * * * *
113911 ATGTGCCCTCGATGCTGAGTGTAATCGAACTCGGGGGTC
127 ATGTGCCTTGGA-GCTGAGCGTAGTCGAACTCGGAGGTC
* * * * * * * * * *
113950 TTCGGT---AGATAACCTTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGC
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
* * * * * * *
114011 ATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATACTGCAAATG
66 GTAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG
* * * * *
114076 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC
127 ATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTC
* * * * * * * * *
114115 TTT-G-G-CAGATAGCCCTTATCGACTTAAGCTATACTGTAAATGATGTGTCCTTG-AGTTGAGC
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
* * * * * * *
114176 GTAGTCGAACTCAAAGGTCTTTCGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATG
66 GTAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG
*
114241 ATATGCCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTC
127 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTC
* *
114279 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGTCCTTGAAGCTGAGT
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
* * *
114344 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGACGT
66 GTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* **
114409 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGGA
131 GCCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTC
* * * *
114443 TTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTGCCCTCGAAGCTGAGT
1 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
* *
114508 GTAATCGAA--CGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
66 GTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
114566 AGTTTGTTTA
Statistics
Matches: 664, Mismatches: 95, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
162 50 0.08
163 107 0.16
164 214 0.32
165 216 0.33
166 12 0.02
167 40 0.06
168 25 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCCTTGAAGCTGAGT
GTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTC
Found at i:114402 original size:413 final size:409
Alignment explanation
Indices: 113788--114565 Score: 1171
Period size: 413 Copynumber: 1.9 Consensus size: 409
113778 TCGAGGGTCT
* * * *
113788 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGTGAGCGTAGTC
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGTGAGCGTAGTC
* * *
113853 GAACTCGAAGGTCATTGGTGACTGATAACCCTTTTAGCCTTGAGTTATACTGTAAATGATGTGCC
66 GAACTCGAAGGTCATTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATATGCC
* * *
113918 CTCGATGCTGAGTGTAATCGAACTCGGGGGTCTTCGGTAGATAACCTTTCTCGACTTAAGCTATA
131 CTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGCAGATAACCTTTCTCGACTTAAGCTATA
* ** *
113983 CTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACC
196 CTGCAAATGACGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGGATTTGG-TGACAGATAACC
* *
114048 CTTCTCA-ACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
260 CTTCT-AGACTTAAGTTATACTGCAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAA--CGAGG
*
114112 GTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATACTGTAAATGATGTGTCCTTGAGTTGAGCG
322 GTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATACTGCAAATGATGTGTCCTTGAGTTGAGCG
114177 TAGTCGAACTCAAAGGTCTTTCG
387 TAGTCGAACTCAAAGGTCTTTCG
* * *
114200 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAG-TGAGCGTAGT
* * ** *
114265 CGAACTCGGAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGT
65 CGAACTCGAAGGTCATTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATATGC
* * *
114330 CCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCTTTCTCGACTTAAGCTAT
130 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGCAGATAACCTTTCTCGACTTAAGCTAT
* * * *
114395 GCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGGATTTGGTGATAGATAACC
195 ACTGCAAATGACGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGGATTTGGTGACAGATAACC
* * * *
114460 CTTCTAGCCTTGAGTTATGCTGTAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACGAGGGTC
260 CTTCTAGACTTAAGTTATACTGCAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACGAGGGTC
*
114525 TTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
325 TTTGGCAGATAGCCCTTATCGACTTAAGCTATACTGCAAAT
114566 AGTTTGTTTA
Statistics
Matches: 327, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
410 46 0.14
411 1 0.00
412 107 0.33
413 173 0.53
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (409 bp):
TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTAGAGTGAGCGTAGTC
GAACTCGAAGGTCATTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATATGCC
CTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGCAGATAACCTTTCTCGACTTAAGCTATA
CTGCAAATGACGTGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGGATTTGGTGACAGATAACCC
TTCTAGACTTAAGTTATACTGCAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACGAGGGTCT
TTGGCAGATAGCCCTTATCGACTTAAGCTATACTGCAAATGATGTGTCCTTGAGTTGAGCGTAGT
CGAACTCAAAGGTCTTTCG
Found at i:114422 original size:328 final size:327
Alignment explanation
Indices: 113603--114437 Score: 948
Period size: 328 Copynumber: 2.5 Consensus size: 327
113593 AGCTGAATGG
* * * * * *
113603 AATCGAACTC-GATGAT-TTTGTTGACAAATAGCCCTTCTTGCCTTGAGCTATGCTATAAATGAT
1 AATCGAACTCGGA-GGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGAT
* * * *
113666 GTGCCTTGGAGCTGAGCGTGGTCGAACTCAAAGGTCTTCTGGTGACAGATAACCCTTCTAGCCTT
65 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-T-G-G-CAGATAACCCTTCTCGACTT
* **
113731 GAGTTATGCTGTGAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGA
126 AAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGA
* * *
113796 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGTGAGCGTAGTCGAACTCGA
191 TAGCCCTTATCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGTGAGCGTAGTCGAACTCAA
* * * * * * *
113861 AGGTCATTGGTGACTGATAACCCTTTTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGATGC
256 AGGTCATTGGTGACAGACAACCCTTCTAGACTTAAGTTATACTGCAAATGATATGCCCTCGATGC
*
113926 TGAGTGT
321 TGAGCGT
* * * * * * * *
113933 AATCGAACTCGGGGGTCTTCGGT---AGATAACCTTTCTCGACTTAAGCTATACTGCAAATGATG
1 AATCGAACTCGGAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATG
* * *
113995 TGCCTTGGAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAACTTA
66 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTA
* *
114060 AGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
127 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGAT
*
114125 AGCCCTTATCGACTTAAGCTATACTGTAAATGATGTGTCCTT-GAGTTGAGCGTAGTCGAACTCA
192 AGCCCTTATCGACTTAAGCTATACTGCAAATGATGTG-CCTTAGAG-TGAGCGTAGTCGAACTCA
* * * * * * *
114189 AAGGTCTTTCGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGA-
255 AAGGTCATT-GGTGACAGACAACCCTTCTAGACTTAAGTTATACTGCAAATGATATGCCCTCGAT
114253 GCTGAGCGT
319 GCTGAGCGT
* * * *
114262 AGTCGAACTCGGAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATA
1 AATCGAACTCGGAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATG
* * * * * * *
114327 TGTCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCTTTCTCGACTTAAGC
66 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
114392 TATGCTGCAAATGACGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGA
130 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
114438 AGGGATTTGG
Statistics
Matches: 419, Mismatches: 73, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
328 199 0.47
329 98 0.23
330 55 0.13
331 7 0.02
332 33 0.08
333 27 0.06
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (327 bp):
AATCGAACTCGGAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATG
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTT
ATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCC
CTTATCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGTGAGCGTAGTCGAACTCAAAGGTC
ATTGGTGACAGACAACCCTTCTAGACTTAAGTTATACTGCAAATGATATGCCCTCGATGCTGAGC
GT
Found at i:119891 original size:23 final size:22
Alignment explanation
Indices: 119840--119891 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
119830 TAGTTAAATG
119840 ATAAT-AATAAAATTTAAAAAA
1 ATAATAAATAAAATTTAAAAAA
* *
119861 ATGGATAAATAAAATTTATCAAAA
1 AT-AATAAATAAAATTTA-AAAAA
119885 ATAATAA
1 ATAATAA
119892 TAATAATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 15 0.60
24 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAATAAATAAAATTTAAAAAA
Found at i:120432 original size:13 final size:14
Alignment explanation
Indices: 120414--120444 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
120404 TCAGCCGTTC
120414 TCTCCTCCTTT-TT
1 TCTCCTCCTTTGTT
120427 TCTCCTCCTTTGTT
1 TCTCCTCCTTTGTT
120441 TCTC
1 TCTC
120445 TTCTCTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.00, C:0.39, G:0.03, T:0.58
Consensus pattern (14 bp):
TCTCCTCCTTTGTT
Found at i:121259 original size:27 final size:25
Alignment explanation
Indices: 121229--121290 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
121219 AGAAAAAAAT
*
121229 AATAAATAAAAAATAATAATAATGATA
1 AATAAATAAAAAATAACAA-AA-GATA
*
121256 AAT-AA-AAAAAATAACAAAAGGTA
1 AATAAATAAAAAATAACAAAAGATA
*
121279 AATAAATTAAAA
1 AATAAATAAAAA
121291 TAGAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.20
24 4 0.13
25 15 0.50
26 2 0.07
27 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (25 bp):
AATAAATAAAAAATAACAAAAGATA
Found at i:121280 original size:23 final size:23
Alignment explanation
Indices: 121230--121284 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
121220 GAAAAAAATA
* *
121230 ATAAATAAAAAATAATAATAATG
1 ATAAATAAAAAATAATAAAAAAG
121253 ATAAATAAAAAA-AATAACAAAAG
1 ATAAATAAAAAATAATAA-AAAAG
*
121276 GTAAATAAA
1 ATAAATAAA
121285 TTAAAATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
ATAAATAAAAAATAATAAAAAAG
Found at i:121351 original size:39 final size:37
Alignment explanation
Indices: 121308--121406 Score: 107
Period size: 37 Copynumber: 2.6 Consensus size: 37
121298 AAACTACAAG
121308 AAAAATATTTTTCAAAAATCTATATAATATATA-TTTTAT
1 AAAAATA-TTTTCAAAAAT-TATATAATATATACTTTT-T
*
121347 AAAAATATTTT--AAAATTATAAATTATATATACTTTTT
1 AAAAATATTTTCAAAAATTAT--ATAATATATACTTTTT
*
121384 AAAAATGTTTTC-AAAATTATATA
1 AAAAATATTTTCAAAAATTATATA
121407 GTTTTCAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
35 3 0.06
36 7 0.13
37 20 0.38
38 16 0.30
39 7 0.13
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
AAAAATATTTTCAAAAATTATATAATATATACTTTTT
Found at i:121452 original size:29 final size:30
Alignment explanation
Indices: 121372--121452 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
121362 TTATAAATTA
* * * *
121372 TATATACTTTTTAAAA-ATGTTTTCAAAAT
1 TATATACTTTTCAAAATATTTTTTAAAAAC
*
121401 TATATAGTTTTCAAAAAATATTTTTTAAAAAC
1 TATATACTTTTC--AAAATATTTTTTAAAAAC
121433 TATATA-TTTTCAAAATATTT
1 TATATACTTTTCAAAATATTT
121453 AAAAAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 19 0.43
31 9 0.20
32 16 0.36
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATACTTTTCAAAATATTTTTTAAAAAC
Found at i:121506 original size:37 final size:37
Alignment explanation
Indices: 121465--121710 Score: 201
Period size: 37 Copynumber: 6.4 Consensus size: 37
121455 AAAATATATA
121465 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
1 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
* * *
121502 TATATATTATATTTATTTTC-AAAATTTTTTAAAAAC
1 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
* *
121538 TATATAATATATAGATATAATATATATTTTTAAAAATGCTTTAAAAAC
1 -------TATAT--A-AT-ATATATATTTTCAAAAATGTTTTAAAAAC
* * * *
121586 TATATATTATATTTATTTTC-AAAATGCTTTAAAAAT
1 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
* * *
121622 TATATAATATATAAATATTTTCAAATATATTTTCAAAAC
1 TATATAATATAT--ATATTTTCAAAAATGTTTTAAAAAC
* * **
121661 TATATATTATATATATTTTCAAAAACT-ATTTGCAAAC
1 TATATAATATATATATTTTCAAAAA-TGTTTTAAAAAC
121698 TATATAATATATA
1 TATATAATATATA
121711 GATATATATG
Statistics
Matches: 168, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
36 41 0.24
37 59 0.35
38 9 0.05
39 23 0.14
41 5 0.03
43 5 0.03
45 1 0.01
46 1 0.01
47 10 0.06
48 14 0.08
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
Found at i:121557 original size:13 final size:13
Alignment explanation
Indices: 121539--121563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121529 TTTAAAAACT
121539 ATATAATATATAG
1 ATATAATATATAG
121552 ATATAATATATA
1 ATATAATATATA
121564 TTTTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATATAATATATAG
Found at i:121566 original size:84 final size:81
Alignment explanation
Indices: 121437--121719 Score: 332
Period size: 84 Copynumber: 3.5 Consensus size: 81
121427 AAAAACTATA
*
121437 TATTTTCAAAA-TATTTAAAAA-ATATATATATATA-ATATATATATTTTCAAAAATGTTTTAAA
1 TATTTTCAAAATTATTTAAAAATATATATATATAGATATATATATATTTTCAAAAATGTTTTAAA
121499 AACTATATATTATATT
66 AACTATATATTATATT
* * *
121515 TATTTTCAAAATTTTTTAAAAACTATATAATATATAGATATAATATATATTTTTAAAAATGCTTT
1 TATTTTCAAAATTATTTAAAAA-TATAT-ATATATAGATAT-ATATATATTTTCAAAAATGTTTT
121580 AAAAACTATATATTATATT
63 AAAAACTATATATTATATT
** * * *
121599 TATTTTCAAAATGCTTTAAAAAT-TATATA-AT--ATATA-A-ATATTTTCAAATATATTTTCAA
1 TATTTTCAAAATTATTTAAAAATATATATATATAGATATATATATATTTTCAAAAATGTTTTAAA
*
121658 AACTATATATTATATA
66 AACTATATATTATATT
* * *
121674 TATTTTCAAAAACTATTTGCAAACTATATAATATATAGATATATAT
1 TATTTTC-AAAATTATTT-AAAAATATAT-ATATATAGATATATAT
121720 GAAATAAAAA
Statistics
Matches: 173, Mismatches: 17, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
75 39 0.23
76 8 0.05
77 5 0.03
78 18 0.10
79 12 0.07
80 4 0.02
81 7 0.04
82 16 0.09
83 4 0.02
84 60 0.35
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (81 bp):
TATTTTCAAAATTATTTAAAAATATATATATATAGATATATATATATTTTCAAAAATGTTTTAAA
AACTATATATTATATT
Found at i:130416 original size:30 final size:30
Alignment explanation
Indices: 130380--130440 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
130370 TGAGGTCATA
130380 GACATATATGGCGTTGATATTACCTTTATC
1 GACATATATGGCGTTGATATTACCTTTATC
** *
130410 GACATATATGTTGTTGATATTATCTTTATC
1 GACATATATGGCGTTGATATTACCTTTATC
130440 G
1 G
130441 GTTGTTTTCT
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:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (30 bp):
GACATATATGGCGTTGATATTACCTTTATC
Done.