Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 3 of 29
Found at i:247117 original size:12 final size:12
Alignment explanation
Indices: 247067--247133 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
247057 TTTAAAGTTT
247067 ATATAA-TATAA
1 ATATAATTATAA
*
247078 ATGATTAATGTATTA
1 AT-A-TAAT-TATAA
247093 ATATAGA-TATAA
1 ATATA-ATTATAA
*
247105 ATATAATTTTAA
1 ATATAATTATAA
247117 ATATAATTAT-A
1 ATATAATTATAA
247128 ATATAA
1 ATATAA
247134 AAATATACGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
11 10 0.22
12 23 0.50
13 5 0.11
14 2 0.04
15 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (12 bp):
ATATAATTATAA
Found at i:248469 original size:2 final size:2
Alignment explanation
Indices: 248462--248491 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
248452 TGACAAATAC
248462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
248492 GATGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:250442 original size:27 final size:27
Alignment explanation
Indices: 250388--250444 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
250378 ATTTATGTTT
* ***
250388 ATAATTGTTGAGTGGAAAGTTTGCAAA
1 ATAATTGTTAAGTGGAAAGTTAAAAAA
*
250415 ATAATTGTTAAGTGGGAAGTTAAAAAA
1 ATAATTGTTAAGTGGAAAGTTAAAAAA
250442 ATA
1 ATA
250445 TCATTTAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.32
Consensus pattern (27 bp):
ATAATTGTTAAGTGGAAAGTTAAAAAA
Found at i:251887 original size:6 final size:7
Alignment explanation
Indices: 251870--251895 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
251860 CTTTCTAATT
251870 TTTTTAA
1 TTTTTAA
251877 TTTTTAA
1 TTTTTAA
251884 TTTTTAA
1 TTTTTAA
251891 TTTTT
1 TTTTT
251896 TAAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:253109 original size:21 final size:21
Alignment explanation
Indices: 253083--253122 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
253073 TATTTTATAA
253083 TTAAAT-TATATTTATTTTCTT
1 TTAAATATATATTT-TTTTCTT
*
253104 TTAAATATCTATTTTTTTC
1 TTAAATATATATTTTTTTC
253123 ATATGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATATATATTTTTTTCTT
Found at i:257126 original size:20 final size:18
Alignment explanation
Indices: 257103--257140 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
257093 TAATTATATT
257103 TATTTAACTTATAATTAAAA
1 TATTTAA-TT-TAATTAAAA
257123 TATTTAATTTAATTAAAA
1 TATTTAATTTAATTAAAA
257141 CACTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATTTAATTAAAA
Found at i:260002 original size:19 final size:18
Alignment explanation
Indices: 259965--260004 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
259955 TTCATATTAA
259965 TATTAAAAATAATAATAT
1 TATTAAAAATAATAATAT
*
259983 TATT-AAAAT-ATAATTT
1 TATTAAAAATAATAATAT
259999 TATTAA
1 TATTAA
260005 TATCAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 6 0.30
18 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAAAAATAATAATAT
Found at i:260773 original size:8 final size:9
Alignment explanation
Indices: 260750--260774 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
260740 AAATAATGAA
260750 TATTTTTAT
1 TATTTTTAT
260759 TATTTTTAT
1 TATTTTTAT
260768 TATTTTT
1 TATTTTT
260775 TAAATTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTAT
Found at i:270522 original size:41 final size:37
Alignment explanation
Indices: 270477--270558 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 37
270467 AAATTATTAT
270477 TTAATAATAAA-AATTTTATATATAAATTTAAAAATATATAA
1 TTAAT-ATAAATAATTTT-TAT-T-AATTTAAAAATA-ATAA
*
270518 TTAATATAAATAATTTTTATTAATTTATAAATAATAA
1 TTAATATAAATAATTTTTATTAATTTAAAAATAATAA
270555 TTAA
1 TTAA
270559 AATTTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
37 8 0.21
38 11 0.28
39 1 0.03
40 8 0.21
41 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
TTAATATAAATAATTTTTATTAATTTAAAAATAATAA
Found at i:271138 original size:5 final size:5
Alignment explanation
Indices: 271119--271157 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
271109 TCAAATTTTC
*
271119 AAAAT GAAA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
271158 TGCATATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:271524 original size:34 final size:34
Alignment explanation
Indices: 271478--271763 Score: 414
Period size: 34 Copynumber: 8.5 Consensus size: 34
271468 GTAAAAACCA
* *
271478 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
271512 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
271546 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
271580 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
271614 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
271647 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
271681 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
271715 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
271748 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
271764 TCTCCCACTT
Statistics
Matches: 224, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
33 44 0.20
34 180 0.80
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:271699 original size:101 final size:101
Alignment explanation
Indices: 271478--271759 Score: 519
Period size: 101 Copynumber: 2.8 Consensus size: 101
271468 GTAAAAACCA
* * * *
271478 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
271543 CACCCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAATAATGGTAAGCTACCAAATCTC
271580 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
271645 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
66 CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
271681 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
271746 CACCATTTAATCAA
66 CACCATTTAATCAA
271760 CAATTCTCCC
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 113 0.64
102 63 0.36
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (101 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
CACCATTTAATCAATAATGGTAAGCTACCAAATCTC
Found at i:275856 original size:19 final size:19
Alignment explanation
Indices: 275829--275891 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
275819 TCACGTGTAC
* *
275829 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
275848 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
275867 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
275886 AGTACC
1 AGTACC
275892 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:276242 original size:34 final size:34
Alignment explanation
Indices: 276196--276478 Score: 401
Period size: 34 Copynumber: 8.4 Consensus size: 34
276186 GTAAAAACCA
* *
276196 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
276230 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
276264 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
276298 CCATTTAATCAACAATGGTAAGCTACCAAAT-TT
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
276331 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
276364 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
276398 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * *
276432 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
276465 CCATTTAATCAACA
1 CCATTTAATCAACA
276479 CTTTTTCATC
Statistics
Matches: 221, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
33 72 0.33
34 149 0.67
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:276404 original size:134 final size:135
Alignment explanation
Indices: 276194--276478 Score: 428
Period size: 134 Copynumber: 2.1 Consensus size: 135
276184 TGGTAAAAAC
* * *
276194 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTACCATTTAATCAACAATGGTAAACCACCAA
* *
276259 ATCACCCATTTAATCAATAATGGTAAGCTACCAAATCTCCCATTTAATCAACAATGGTAAGCTAC
66 ATCACCCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAATCAACAATGGTAAACTAC
276324 CAAAT
131 CAAAT
** * * * * *
276329 TTCCATTTAGTCAACAATGGTAAACTACCAAATC-ACCATTTAATCAATAATGGTAAGCTACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTACCATTTAATCAACAATGGTAAACCACCAA
* * *
276393 ATCTCCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTAC
66 ATCACCCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAATCAACAATGGTAAACTAC
276458 CAAAT
131 CAAAT
276463 CACCATTTAATCAACA
1 CACCATTTAATCAACA
276479 CTTTTTCATC
Statistics
Matches: 132, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
134 103 0.78
135 29 0.22
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (135 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTACCATTTAATCAACAATGGTAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAATCAACAATGGTAAACTAC
CAAAT
Found at i:277960 original size:2 final size:2
Alignment explanation
Indices: 277953--277982 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
277943 TTAACTTAAG
*
277953 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
277983 TTAAATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:278037 original size:15 final size:17
Alignment explanation
Indices: 278017--278048 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
278007 TATAGATAAT
278017 AATAAA-AAAA-GAAAA
1 AATAAAGAAAATGAAAA
278032 AATAAAGAAAATGAAAA
1 AATAAAGAAAATGAAAA
278049 GAAAGGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AATAAAGAAAATGAAAA
Found at i:278078 original size:30 final size:30
Alignment explanation
Indices: 278035--278112 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
278025 AAGAAAAAAT
* *
278035 AAAGAAAATGAAAAGAAAGGAAAGTTGCGGA
1 AAAGAAAA-GAAAAGAAAAGAAAGTTGAGGA
*
278066 AATGAAAAGAAAAGAAAAGAAAGTTGAGGA
1 AAAGAAAAGAAAAGAAAAGAAAGTTGAGGA
* *
278096 AAAGAAATGAAATGAAA
1 AAAGAAAAGAAAAGAAA
278113 TATGTATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 34 0.83
31 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.26, T:0.10
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAAAGAAAGTTGAGGA
Found at i:278725 original size:25 final size:23
Alignment explanation
Indices: 278695--278757 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
278685 AAAAAATCGG
*
278695 TAAATAAAAGAAAAGTTATTTTCT
1 TAAATAAAAGAAAAGTAATTTT-T
*
278719 TCAAATAAAA-AATTAGTAATTTTT
1 T-AAATAAAAGAA-AAGTAATTTTT
278743 TAAATAAAAAGAAAA
1 TAAAT-AAAAGAAAA
278758 ATTAGATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 4 0.12
24 10 0.31
25 18 0.56
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (23 bp):
TAAATAAAAGAAAAGTAATTTTT
Found at i:283910 original size:88 final size:82
Alignment explanation
Indices: 283774--283946 Score: 213
Period size: 83 Copynumber: 2.0 Consensus size: 82
283764 TACTGTTTCC
*
283774 TTTGCTTCCCATTCATTACATGAGAATGATATCTTTCTATCCTTTTTTTTCTTTTTCTTTTTGTT
1 TTTGCTTCCCATTCATTACATGAGAATGATATCTTTCTATCC----TTTT-TTTTT-TTTTGGTT
*
283839 ATTTGAGTACTAATGGTTGGTTG
60 ATTCGAGTACTAATGGTTGGTTG
** * *
283862 TTTGCTTCCTGTTCATTACATGAGAATGTTTTCTTATTCTATCC-TTTTTTTTTTTTGGTTATTC
1 TTTGCTTCCCATTCATTACATGAGAATGATATC-T-TTCTATCCTTTTTTTTTTTTTGGTTATTC
283926 GAGTACTAATGGTTGGTTG
64 GAGTACTAATGGTTGGTTG
283945 TT
1 TT
283947 GAGAAACAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
83 31 0.40
84 5 0.06
85 3 0.04
88 29 0.38
89 1 0.01
90 8 0.10
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (82 bp):
TTTGCTTCCCATTCATTACATGAGAATGATATCTTTCTATCCTTTTTTTTTTTTTGGTTATTCGA
GTACTAATGGTTGGTTG
Found at i:285750 original size:36 final size:36
Alignment explanation
Indices: 285710--285828 Score: 157
Period size: 36 Copynumber: 3.3 Consensus size: 36
285700 ACTTTCGAAA
* **
285710 AGAAGCATAAGTAGAAGTCCTCCAAGATCTTCTCGG
1 AGAAGCATAAGCAGAAGTCCTGTAAGATCTTCTCGG
* * ** *
285746 AGAAGCATTAGCCGAAGTCCTGTAAGAGATTGTCGG
1 AGAAGCATAAGCAGAAGTCCTGTAAGATCTTCTCGG
*
285782 AGAAGCATTAGCAGAAGTCCTGTAAGATCTTCTCGG
1 AGAAGCATAAGCAGAAGTCCTGTAAGATCTTCTCGG
285818 AGAAGCATAAG
1 AGAAGCATAAG
285829 TAGGAGCTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (36 bp):
AGAAGCATAAGCAGAAGTCCTGTAAGATCTTCTCGG
Found at i:285756 original size:72 final size:72
Alignment explanation
Indices: 285680--285825 Score: 179
Period size: 72 Copynumber: 2.0 Consensus size: 72
285670 AAGAAAATCA
* * *
285680 ATTAGCAGAAGCCCTGTTAGA-CTT-TCGAAAAGAAGCATAAGTAGAAGTCCTCCAAGATCTTCT
1 ATTAGCAGAAGCCCTGTAAGAGATTGTCG--AAGAAGCATAAGCAGAAGTCCTCCAAGATCTTCT
285743 CGGAGAAGC
64 CGGAGAAGC
* * * * **
285752 ATTAGCCGAAGTCCTGTAAGAGATTGTCGGAGAAGCATTAGCAGAAGTCCTGTAAGATCTTCTCG
1 ATTAGCAGAAGCCCTGTAAGAGATTGTCGAAGAAGCATAAGCAGAAGTCCTCCAAGATCTTCTCG
285817 GAGAAGC
66 GAGAAGC
285824 AT
1 AT
285826 AAGTAGGAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
72 58 0.92
73 2 0.03
74 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (72 bp):
ATTAGCAGAAGCCCTGTAAGAGATTGTCGAAGAAGCATAAGCAGAAGTCCTCCAAGATCTTCTCG
GAGAAGC
Found at i:293103 original size:10 final size:10
Alignment explanation
Indices: 293088--293112 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
293078 ACAAGTCAAT
293088 TAAAAAATTA
1 TAAAAAATTA
293098 TAAAAAATTA
1 TAAAAAATTA
293108 TAAAA
1 TAAAA
293113 TAATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:293112 original size:18 final size:18
Alignment explanation
Indices: 293085--293120 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
293075 GATACAAGTC
*
293085 AATTAAAAAATTATAAAA
1 AATTAAAAAATAATAAAA
*
293103 AATTATAAAATAATAAAA
1 AATTAAAAAATAATAAAA
293121 TATATTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATTAAAAAATAATAAAA
Found at i:293387 original size:2 final size:2
Alignment explanation
Indices: 293380--293419 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
293370 CTCCCTCATA
293380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
293420 TACGTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:297235 original size:2 final size:2
Alignment explanation
Indices: 297228--297254 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
297218 TTAGAATCCT
297228 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
297255 GGTTGGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:297520 original size:2 final size:2
Alignment explanation
Indices: 297515--297545 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
297505 GATGATTATC
297515 AT 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 AT A
297546 ACACGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:299488 original size:2 final size:2
Alignment explanation
Indices: 299481--299514 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
299471 CCTCCTTTTA
299481 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
299515 TTGCTATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:301481 original size:18 final size:20
Alignment explanation
Indices: 301458--301495 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
301448 TAATCACAAA
301458 TTATTTAAT-TATT-ATTTT
1 TTATTTAATATATTGATTTT
301476 TTATTTAATATATTGATTTT
1 TTATTTAATATATTGATTTT
301496 ACGGATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTTAATATATTGATTTT
Found at i:301720 original size:24 final size:20
Alignment explanation
Indices: 301675--301726 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 20
301665 TATTTTTAAA
*
301675 ATTTTTAAAAATTATTTTTT
1 ATTTTTAAAAATAATTTTTT
301695 ATCTTTTAAAAATAATTATTGATT
1 AT-TTTTAAAAATAATT-TT--TT
301719 ATTTTTAA
1 ATTTTTAA
301727 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 2 0.07
23 6 0.22
24 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTAAAAATAATTTTTT
Found at i:302982 original size:22 final size:23
Alignment explanation
Indices: 302949--302998 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
302939 TTTTAATATA
302949 TATTT-AATAATTAA-AATTTTT
1 TATTTAAATAATTAATAATTTTT
302970 TATTTAAATAATTAATAATTTTT
1 TATTTAAATAATTAATAATTTTT
*
302993 AATTTA
1 TATTTA
302999 TTCAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTAAATAATTAATAATTTTT
Found at i:303284 original size:30 final size:30
Alignment explanation
Indices: 303245--303303 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
303235 ATATAAGTCA
* *
303245 TAAACTTTTAAT-TTCATCAAATTAGATCAT
1 TAAAATTTTAATATTAAT-AAATTAGATCAT
*
303275 TAAAATTTTATTATTAATAAATTAGATCA
1 TAAAATTTTAATATTAATAAATTAGATCA
303304 ATTATATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (30 bp):
TAAAATTTTAATATTAATAAATTAGATCAT
Found at i:303621 original size:23 final size:22
Alignment explanation
Indices: 303569--303624 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
303559 AAAATATTTT
303569 TATTTAAATTTAATTATAAAAA
1 TATTTAAATTTAATTATAAAAA
*
303591 TATATAAATATTAA-TATAAAATA
1 TATTTAAAT-TTAATTATAAAA-A
*
303614 TTTTTAAATTT
1 TATTTAAATTT
303625 TTTATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTAAATTTAATTATAAAAA
Found at i:306788 original size:20 final size:21
Alignment explanation
Indices: 306752--306794 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
306742 ATATTTTTAT
306752 TTAAAATTAATTATAAAAATA
1 TTAAAATTAATTATAAAAATA
*
306773 TTAATATTAA-TATAAAAATA
1 TTAAAATTAATTATAAAAATA
306793 TT
1 TT
306795 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAATTAATTATAAAAATA
Found at i:307348 original size:48 final size:46
Alignment explanation
Indices: 307241--307368 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 46
307231 ATAATTGTTG
* *
307241 CACATATATATTTTTATTAATTATATATTATATTTTGCATGTATAC
1 CACATGTATATTATTATTAATTATATATTATATTTTGCATGTATAC
* * *
307287 CGA-TTGTACATATTAATATTAAATATATATTATATTTTGCATGTGCA-AC
1 C-ACATGT--ATATTATTATTAATTATATATTATATTTTGCATGT--ATAC
*
307336 ACACATGTATATTGTTATTAATTATATATTATA
1 -CACATGTATATTATTATTAATTATATATTATA
307369 CTAGAATTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
46 3 0.05
47 1 0.02
48 54 0.82
49 3 0.05
50 5 0.08
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (46 bp):
CACATGTATATTATTATTAATTATATATTATATTTTGCATGTATAC
Found at i:307430 original size:26 final size:27
Alignment explanation
Indices: 307401--307460 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
307391 TCGAATTTTT
307401 TTAATATTTATAAAAATTTAA-TTAAA
1 TTAATATTTATAAAAATTTAAGTTAAA
* *
307427 TTAATAATTATATAAATTTAAGTTAAA
1 TTAATATTTATAAAAATTTAAGTTAAA
307454 -TAATATT
1 TTAATATT
307461 AAATAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATATTTATAAAAATTTAAGTTAAA
Found at i:307447 original size:22 final size:21
Alignment explanation
Indices: 307422--307464 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
307412 AAAAATTTAA
307422 TTAAATT-AATAATTATATAAAT
1 TTAAATTAAATAA-TAT-TAAAT
*
307444 TTAAGTTAAATAATATTAAAT
1 TTAAATTAAATAATATTAAAT
307465 AATCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAATTAAATAATATTAAAT
Found at i:308796 original size:11 final size:12
Alignment explanation
Indices: 308771--308799 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
308761 ATTTCTTTCC
308771 TTTCTTTTCTTT
1 TTTCTTTTCTTT
308783 TTTCTTTT-TTT
1 TTTCTTTTCTTT
308794 TTTCTT
1 TTTCTT
308800 GCAAAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:309111 original size:49 final size:48
Alignment explanation
Indices: 309018--309151 Score: 151
Period size: 49 Copynumber: 2.8 Consensus size: 48
309008 AAGTAATTAT
* *
309018 TGAACGTGTATATAATTATTAATTACATATTATATTTTACACATGCAA
1 TGAACATGTATATTATTATTAATTACATATTATATTTTACACATGCAA
* ** *
309066 TGAACATGTAAATTATTATTAATTTACATATTATATTTTGTACATGTAA
1 TGAACATGTATATTATTATTAA-TTACATATTATATTTTACACATGCAA
* * * * **
309115 CGTACATATATATTGTTATTAATTATGTATTATATTT
1 TGAACATGTATATTATTATTAATTACATATTATATTT
309152 GAAATTAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 32 0.44
49 40 0.56
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (48 bp):
TGAACATGTATATTATTATTAATTACATATTATATTTTACACATGCAA
Found at i:309631 original size:102 final size:100
Alignment explanation
Indices: 309366--309640 Score: 294
Period size: 102 Copynumber: 2.8 Consensus size: 100
309356 ATCTAAGATT
** * * *
309366 TATTTGCAATATTTATGCTGCCATATTGTTTAGCTTAACCCAAACATCTCATATATTTTTATTTT
1 TATTTGCAATATTTATATTGCCATAGTGTTTAGCTTAA-CCAAACATCTTATATTTTTTTATTTT
* * * *
309431 TA----ATTTTCATCTTTTCCCATGTACTTAAAGTT
65 TATTTTATTTTCATCTTTTCACACGTAATTAAAGTA
* * * *
309463 TATTTGTAATATTTATTTTGCCATTGTGTTTAGCTTAAACCAAAAATCTTATATTTATTTTA-TT
1 TATTTGCAATATTTATATTGCCATAGTGTTTAGCTT-AACCAAACATCTTATATTT-TTTTATTT
309527 TTATTTTGCATTTTCATCTTTTCACACGTAATT-AAGTA
64 TTATTTT--ATTTTCATCTTTTCACACGTAATTAAAGTA
* * *
309565 TATTTGCAATATTTATATTGTCATGGTGTTTAGCTTAACTGAAACATCTTATATTTTTTTATTTT
1 TATTTGCAATATTTATATTGCCATAGTGTTTAGCTTAAC-CAAACATCTTATATTTTTTTATTTT
*
309630 TAATTT-TTTTC
65 TATTTTATTTTC
309641 TTTTCCAACG
Statistics
Matches: 149, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
97 50 0.34
98 7 0.05
99 5 0.03
101 8 0.05
102 58 0.39
103 21 0.14
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (100 bp):
TATTTGCAATATTTATATTGCCATAGTGTTTAGCTTAACCAAACATCTTATATTTTTTTATTTTT
ATTTTATTTTCATCTTTTCACACGTAATTAAAGTA
Found at i:314174 original size:19 final size:19
Alignment explanation
Indices: 314152--314242 Score: 53
Period size: 19 Copynumber: 4.7 Consensus size: 19
314142 AAATTTTATG
314152 TATTTATATATTCATATAA
1 TATTTATATATTCATATAA
* * * *
314171 TATTTGTATTTTTATATTA
1 TATTTATATATTCATATAA
* *
314190 TA-TTATAT-TTTATAT-T
1 TATTTATATATTCATATAA
*
314206 TATTTTAATTATTTTTTCATATAA
1 TA-TTT-A-TA--TATTCATATAA
314230 TATTTATATATTC
1 TATTTATATATTC
314243 GTATTTTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
16 2 0.04
17 7 0.13
18 7 0.13
19 22 0.40
20 2 0.04
21 2 0.04
22 2 0.04
23 9 0.16
24 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (19 bp):
TATTTATATATTCATATAA
Found at i:314184 original size:27 final size:26
Alignment explanation
Indices: 314132--314202 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
314122 GTTAATAATT
314132 TATATTATATAAATTTTATGTATTTA
1 TATATTATATAAATTTTATGTATTTA
* *
314158 TATATTCATAT-AATATT-TGTATTTT
1 TATATT-ATATAAATTTTATGTATTTA
*
314183 TATATTATATTATATTTTAT
1 TATATTATA-TAAATTTTAT
314203 ATTTATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 3 0.08
25 14 0.38
26 15 0.41
27 5 0.14
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (26 bp):
TATATTATATAAATTTTATGTATTTA
Found at i:314186 original size:25 final size:24
Alignment explanation
Indices: 314130--314208 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
314120 ACGTTAATAA
*
314130 TTTATATTATATAAATTTTATGTATT
1 TTTATATTATAT-AATATT-TGTATT
*
314156 TATATATTCATATAATATTTGTATT
1 TTTATATT-ATATAATATTTGTATT
* *
314181 TTTATATTATATTATATTT-TATA
1 TTTATATTATATAATATTTGTATT
314204 TTTAT
1 TTTAT
314209 TTTAATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.17
24 10 0.21
25 13 0.28
26 12 0.26
27 4 0.09
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTATATTATATAATATTTGTATT
Found at i:314192 original size:32 final size:29
Alignment explanation
Indices: 314094--314197 Score: 74
Period size: 29 Copynumber: 3.5 Consensus size: 29
314084 ATATTTAGAT
* *
314094 TATTATATATTTATATAATTTTTGATACGTTAA
1 TATTATATA-TTATATAATATTTG-TA--TTTA
*
314127 TAATT-TATATTATATAA-ATTT-TATGTA
1 T-ATTATATATTATATAATATTTGTATTTA
*
314154 T-TTATATATTCATATAATATTTGTATTTT
1 TATTATATATT-ATATAATATTTGTATTTA
314183 TA-TATTATATTATAT
1 TATTA-TATATTATAT
314198 TTTATATTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
25 2 0.03
26 6 0.10
27 9 0.15
28 4 0.07
29 13 0.22
30 6 0.10
31 3 0.05
32 8 0.14
33 5 0.08
34 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (29 bp):
TATTATATATTATATAATATTTGTATTTA
Found at i:314201 original size:17 final size:17
Alignment explanation
Indices: 314130--314209 Score: 60
Period size: 16 Copynumber: 4.8 Consensus size: 17
314120 ACGTTAATAA
*
314130 TTTATATTATA-TAAAT
1 TTTATATTATATTATAT
*
314146 TTTAT-GTAT-TTATAT
1 TTTATATTATATTATAT
* * *
314161 ATTCATATAATATTTGTATT
1 -TTTATATTATA-TTATA-T
314181 TTTATATTATATTATAT
1 TTTATATTATATTATAT
314198 TTTATATT-TATT
1 TTTATATTATATT
314210 TTAATTATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
15 7 0.14
16 13 0.27
17 11 0.22
18 4 0.08
19 13 0.27
20 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTATATTATATTATAT
Found at i:314219 original size:9 final size:11
Alignment explanation
Indices: 314171--314220 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
314161 ATTCATATAA
*
314171 TATTTGTATTTT
1 TATTT-TATATT
*
314183 TATATTATATT
1 TATTTTATATT
314194 ATATTTTATATT
1 -TATTTTATATT
314206 TATTTTA-A-T
1 TATTTTATATT
314215 TATTTT
1 TATTTT
314221 TTCATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 12 0.35
12 14 0.41
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TATTTTATATT
Found at i:314227 original size:23 final size:23
Alignment explanation
Indices: 314129--314227 Score: 76
Period size: 23 Copynumber: 4.1 Consensus size: 23
314119 TACGTTAATA
*
314129 ATTTATATTATA-TAAATTTTATGT
1 ATTTATATTATATTATATTTTA--T
*
314153 ATTTATATATTCATATAATATTTGTAT
1 A-TT-TATATT-ATATTATATTT-TAT
*
314180 TTTTATATTATATTATATTTTAT
1 ATTTATATTATATTATATTTTAT
* *
314203 ATTTATTTTA-ATTATTTTTTCAT
1 ATTTATATTATATTATATTTT-AT
314226 AT
1 AT
314228 AATATTTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
22 9 0.15
23 15 0.24
24 11 0.18
25 8 0.13
26 8 0.13
27 4 0.06
28 5 0.08
29 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTATATTATATTATATTTTAT
Found at i:315435 original size:104 final size:104
Alignment explanation
Indices: 315320--315544 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
315310 CATATATGCA
*
315320 TATATTGTTATTAATTATATTTTATGTTCTCTATTAATTAATAATTTTGTAACTAAATTAAAATA
1 TATATTGTTATTAATTATATTTTATGTTCTCTATTAATTAATAATTTTATAACTAAATTAAAATA
* * **
315385 TAATTAATTTCTTTATAACTTAAGTAATTATTGCATTTG
66 TAACTAATTTCTTTATAACTTAAGTAATTATTACACGTG
* *
315424 TATATTGTTATTGATTATATTTTATGTTCTCTATTAATTAATAATTTTATAGCTAAATTAAAATA
1 TATATTGTTATTAATTATATTTTATGTTCTCTATTAATTAATAATTTTATAACTAAATTAAAATA
*
315489 TAACTAATTTCTTTATAACTTAATTAATTATTACACGTG
66 TAACTAATTTCTTTATAACTTAAGTAATTATTACACGTG
315528 TATATTGTTATTAATTA
1 TATATTGTTATTAATTA
315545 CATATTATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
104 112 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (104 bp):
TATATTGTTATTAATTATATTTTATGTTCTCTATTAATTAATAATTTTATAACTAAATTAAAATA
TAACTAATTTCTTTATAACTTAAGTAATTATTACACGTG
Found at i:315618 original size:155 final size:151
Alignment explanation
Indices: 315431--315714 Score: 365
Period size: 155 Copynumber: 1.9 Consensus size: 151
315421 TTGTATATTG
* * * *
315431 TTATTGATTATATTTTATGTTCTCTATTAATTAAT-AATTTTATAGCTAAATTAAAATATAACTA
1 TTATTAATTAAATTTTATGTTATCTATTAATTAATAAATTTT-TAACTAAATTAAAATATAACTA
** * * *
315495 ATTTCTTTATAACTTAATTAATTATTACACGTGTATATTGTTATTAATTACATATTATAATTTTA
65 AACT-TTTATAAATTAACTAATTATTACA--TATATATTGTTATTAATTACATATTAT-ATTTTA
315560 TAATTAAATTGAAATATAATTATTTT
126 TAATTAAATTGAAATATAATTATTTT
* * * *
315586 TTATTAATTAAATTATTATTTTATCT-TTAATTAATAAATTTTTAATTGAATTAAAATATAATTA
1 TTATTAATTAAATT-TTATGTTATCTATTAATTAATAAATTTTTAACTAAATTAAAATATAACTA
* *
315650 AACTTTTATAAATTAACTAATTATTACATATATATTTTTATTAATTACATATTATATTTTTTAAT
65 AACTTTTATAAATTAACTAATTATTACATATATATTGTTATTAATTACATATTATATTTTATAAT
315715 GTGCAACACG
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
151 9 0.08
152 25 0.22
154 22 0.20
155 41 0.37
156 15 0.13
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (151 bp):
TTATTAATTAAATTTTATGTTATCTATTAATTAATAAATTTTTAACTAAATTAAAATATAACTAA
ACTTTTATAAATTAACTAATTATTACATATATATTGTTATTAATTACATATTATATTTTATAATT
AAATTGAAATATAATTATTTT
Found at i:321150 original size:3 final size:3
Alignment explanation
Indices: 321142--321184 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
321132 CATAAATGTA
321142 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
321185 ATGAATGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:321876 original size:137 final size:138
Alignment explanation
Indices: 321615--321898 Score: 301
Period size: 137 Copynumber: 2.1 Consensus size: 138
321605 AAATAAATTA
* * * * * **
321615 TTTTTTATTTATCAAAAAAACTTAATACCAAAATATTTAAGTTAAATAAATCTATTACAACTTGG
1 TTTTTTATTTATCAAAAAAAATTAATA-CAAAATAATCAAATTAAATAAATCTATCACAACTCCG
** * * * *
321680 ACACTACATATGTTACTATTTATGATTTTCATAATTGAGACGAATGTTTTTGTCTCAAAAT-TTG
65 ACACTACATACATTACTATTTATAATTTTCATAATTGAGACGAATGATTTTATCACAAAATGTTG
*
321744 TCGTAAAAAT
130 ACG-AAAAAT
* *
321754 TTTTTTATTTAT-AAAAAAAATTAATA-AAAATAATCAAATTAAATAAATCTGTCACAACTCCGT
1 TTTTTTATTTATCAAAAAAAATTAATACAAAATAATCAAATTAAATAAATCTATCACAACTCCGA
* *
321817 CATTACGTACCATTACTATTTATAATTCTT-ATAATT-ATGAC-AGATGATTTTATCACAAAATG
66 CACTACATA-CATTACTATTTATAATT-TTCATAATTGA-GACGA-ATGATTTTATCACAAAATG
321879 TTGACGAAAAAT
127 TTGACGAAAAAT
321891 TTATTTTA
1 TT-TTTTA
321899 AATGCAAACA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
136 38 0.31
137 46 0.38
138 25 0.21
139 12 0.10
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (138 bp):
TTTTTTATTTATCAAAAAAAATTAATACAAAATAATCAAATTAAATAAATCTATCACAACTCCGA
CACTACATACATTACTATTTATAATTTTCATAATTGAGACGAATGATTTTATCACAAAATGTTGA
CGAAAAAT
Found at i:322416 original size:15 final size:15
Alignment explanation
Indices: 322398--322427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
322388 TAAATTAATT
322398 TTAAATTAAATTTTA
1 TTAAATTAAATTTTA
*
322413 TTAAATTATATTTTA
1 TTAAATTAAATTTTA
322428 AAATTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAATTAAATTTTA
Found at i:322417 original size:26 final size:25
Alignment explanation
Indices: 322388--322455 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
322378 TAATTAATTG
*
322388 TAAATTAATTTTAAATTAAATTTTA
1 TAAATTAATTTTAAATTAAATTATA
*
322413 TTAAATTATATTTTAAAATTTAATTATA
1 -TAAATTA-ATTTT-AAATTAAATTATA
* *
322441 AAAATCAATTTTAAA
1 TAAATTAATTTTAAA
322456 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 3 0.08
26 12 0.33
27 10 0.28
28 11 0.31
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAATTAATTTTAAATTAAATTATA
Found at i:322975 original size:17 final size:16
Alignment explanation
Indices: 322924--322966 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
322914 AAATTATTTA
322924 AAATTAAAAT-TAAAT
1 AAATTAAAATATAAAT
* *
322939 AATTTAAAAAATAAAT
1 AAATTAAAATATAAAT
322955 AAATTAAAATAT
1 AAATTAAAATAT
322967 GACATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTAAAATATAAAT
Found at i:323483 original size:15 final size:15
Alignment explanation
Indices: 323463--323506 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
323453 TAATATATAA
323463 ATTTAAAATTAAAAT
1 ATTTAAAATTAAAAT
* *
323478 ATTTAAATTTAAATT
1 ATTTAAAATTAAAAT
*
323493 ATTTTAAATTAAAA
1 ATTTAAAATTAAAA
323507 CATTAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAAATTAAAAT
Found at i:323491 original size:14 final size:14
Alignment explanation
Indices: 323441--323502 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
323431 ATCTATAAAT
323441 ATTTATAATATTTAA
1 ATTTA-AATATTTAA
* *
323456 TATATAAAT-TTAAA
1 -ATTTAAATATTTAA
*
323470 ATTAAAATATTTAA
1 ATTTAAATATTTAA
323484 ATTTAAATTATTTTAA
1 ATTTAAA-TA-TTTAA
323500 ATT
1 ATT
323503 AAAACATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 6 0.16
14 14 0.38
15 5 0.14
16 12 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATATTTAA
Found at i:323500 original size:16 final size:15
Alignment explanation
Indices: 323441--323506 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
323431 ATCTATAAAT
*
323441 ATTTATAATATTT-A
1 ATTTAAAATATTTAA
* *
323455 ATATATAA-ATTTAA
1 ATTTAAAATATTTAA
*
323469 AATTAAAATATTTAA
1 ATTTAAAATATTTAA
*
323484 ATTTAAATTATTTTAA
1 ATTTAAAATA-TTTAA
323500 A-TTAAAA
1 ATTTAAAA
323507 CATTAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
13 4 0.10
14 13 0.31
15 19 0.45
16 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATATTTAA
Found at i:323895 original size:30 final size:31
Alignment explanation
Indices: 323861--323973 Score: 96
Period size: 30 Copynumber: 3.8 Consensus size: 31
323851 TTTAGATTAT
323861 AATTAAAAT-TTAAAAACTT-TTTGAAATATA
1 AATTAAAATATTAAAAACTTATTT-AAATATA
* *
323891 AATT-AAATATTAAGAACTTATTTAAGTATA
1 AATTAAAATATTAAAAACTTATTTAAATATA
** **
323921 AATT-AAATATTAAAGTCTTAACTAAATAT-
1 AATTAAAATATTAAAAACTTATTTAAATATA
* *
323950 AA-TAAAATA-TACAAATTTATTTAA
1 AATTAAAATATTAAAAACTTATTTAA
323974 TAAACTAGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
28 10 0.15
29 11 0.17
30 42 0.64
31 3 0.05
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (31 bp):
AATTAAAATATTAAAAACTTATTTAAATATA
Found at i:325009 original size:19 final size:19
Alignment explanation
Indices: 324968--325010 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
324958 TTAGTTTGGT
* *
324968 TATTTAAAAATAATTGAAT
1 TATTTAAAAATAATTAAAA
324987 TATTTAAAAAT-ATATAAAA
1 TATTTAAAAATAAT-TAAAA
325006 TATTT
1 TATTT
325011 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTTAAAAATAATTAAAA
Found at i:325044 original size:21 final size:21
Alignment explanation
Indices: 324997--325045 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
324987 TATTTAAAAA
* *
324997 TATATAAAATATTTTTTTATT
1 TATATTAAATATTTTATTATT
*
325018 TTTATTAAATATTTTAATT-TT
1 TATATTAAATATTTT-ATTATT
325039 TATATTA
1 TATATTA
325046 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATTAAATATTTTATTATT
Found at i:325046 original size:24 final size:25
Alignment explanation
Indices: 325010--325058 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
325000 ATAAAATATT
* *
325010 TTTTTATTTTTATTAAATATTTTAA
1 TTTTTATTATTATTAAAAATTTTAA
325035 TTTTTA-TATTATTAAAAATTTTAA
1 TTTTTATTATTATTAAAAATTTTAA
325059 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTATTATTATTAAAAATTTTAA
Found at i:326577 original size:17 final size:17
Alignment explanation
Indices: 326555--326593 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
326545 TAAAATTATC
*
326555 AAATTATCAAATTTTTT
1 AAATTATCAAATTTTTA
326572 AAATTATCAAATTTTTA
1 AAATTATCAAATTTTTA
326589 AAATT
1 AAATT
326594 TTTCAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATCAAATTTTTA
Found at i:326595 original size:25 final size:25
Alignment explanation
Indices: 326541--326601 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
326531 TTAAATATTT
*
326541 ATTTTAAAATTATCAAATTATCAAA
1 ATTTTTAAATTATCAAATTATCAAA
* * *
326566 TTTTTTAAATTATCAAATTTTTAAA
1 ATTTTTAAATTATCAAATTATCAAA
*
326591 ATTTTTCAATT
1 ATTTTTAAATT
326602 CTATAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTTTAAATTATCAAATTATCAAA
Found at i:327849 original size:2 final size:2
Alignment explanation
Indices: 327842--327866 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
327832 AGAAAATTAT
327842 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
327867 TAATCTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:328443 original size:17 final size:17
Alignment explanation
Indices: 328423--328484 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
328413 ATAAATATAA
328423 AAATAATATAAATTATT
1 AAATAATATAAATTATT
*
328440 AAAT-ATATAAAATTTTT
1 AAATAATAT-AAATTATT
328457 AAATATAAATATAATATATATT
1 -AA-AT-AATATAA-AT-TATT
328479 AAATAA
1 AAATAA
328485 GTAATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 2 0.06
19 4 0.11
20 4 0.11
21 8 0.22
22 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATAATATAAATTATT
Found at i:328459 original size:25 final size:23
Alignment explanation
Indices: 328412--328470 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
328402 ATGCAAATTG
328412 TATAAATATAAAAATAATATAAA
1 TATAAATATAAAAATAATATAAA
* *
328435 TTATTAAATATATAAAAT-TTTTAAA
1 -TA-TAAATATA-AAAATAATATAAA
328460 TATAAATATAA
1 TATAAATATAA
328471 TATATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 8 0.26
24 4 0.13
25 13 0.42
26 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATAAATATAAAAATAATATAAA
Found at i:336446 original size:13 final size:12
Alignment explanation
Indices: 336391--336447 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 12
336381 AAAATTTAAA
336391 TATATTATATTT
1 TATATTATATTT
*
336403 TA-ACTAT-TTT
1 TATATTATATTT
336413 TATATTATA-TT
1 TATATTATATTT
336424 TATATTATATTT
1 TATATTATATTT
*
336436 GTATCTTATATT
1 -TATATTATATT
336448 AAATCCGCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.13
11 19 0.50
12 4 0.11
13 10 0.26
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATATTATATTT
Found at i:336752 original size:22 final size:24
Alignment explanation
Indices: 336697--336754 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 24
336687 TTTGATTATA
336697 ATATTAATATGTATTATTATTTGTAT
1 ATATTAATA--TATTATTATTTGTAT
336723 ATATTAATATATTATT-TTT-TAT
1 ATATTAATATATTATTATTTGTAT
*
336745 TTATTAATAT
1 ATATTAATAT
336755 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 12 0.39
23 3 0.10
24 7 0.23
26 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (24 bp):
ATATTAATATATTATTATTTGTAT
Found at i:336828 original size:23 final size:23
Alignment explanation
Indices: 336796--336849 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
336786 AAATTTTTTA
336796 ATAATATATATTATTA-TATAATAT
1 ATAA-ATATATTATTATTAT-ATAT
*
336820 ATAAATATATTTTTATTATATAT
1 ATAAATATATTATTATTATATAT
336843 ACTAAAT
1 A-TAAAT
336850 TTGGGCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAAATATATTATTATTATATAT
Found at i:337355 original size:10 final size:10
Alignment explanation
Indices: 337342--337380 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
337332 TTATATAAAA
*
337342 AATATTAATC
1 AATATAAATC
*
337352 AATATAAATT
1 AATATAAATC
*
337362 AATATGAATC
1 AATATAAATC
337372 AATATAAAT
1 AATATAAAT
337381 TAATTGAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (10 bp):
AATATAAATC
Found at i:337371 original size:20 final size:20
Alignment explanation
Indices: 337342--337394 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
337332 TTATATAAAA
*
337342 AATATTAATCAATATAAATT
1 AATATGAATCAATATAAATT
337362 AATATGAATCAATATAAATT
1 AATATGAATCAATATAAATT
*
337382 AAT-TGAATTAATA
1 AATATGAATCAATA
337395 CGTGAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
AATATGAATCAATATAAATT
Found at i:342871 original size:348 final size:349
Alignment explanation
Indices: 342234--342879 Score: 1213
Period size: 348 Copynumber: 1.9 Consensus size: 349
342224 TTACATATTC
342234 TTTTTTTTTTTTAAAGCAAAGTCAACTGCATATTCAATAGATGATATTTAACCAGACAGAAGCAA
1 TTTTTTTTTTTTAAAGCAAAGTCAACTGCATATTCAATAGATGATATTTAACCAGACAGAAGCAA
* *
342299 TTGGCAGTAAATAGATTTTGTCAAGATAACTTCTATATACTCAGTCTTGTGATGAAGAGAATGAG
66 TTGCCAGTAAATAGATTTTGTCAAGATAACTTCTATATACTCAGTCTTGAGATGAAGAGAATGAG
* * *
342364 AAGATCCCAAAAGATAACAAAGGAAACAACAGCAACAGACATCACAGTCTGAGAATTAACTAAGA
131 AAGAGCCCAAAAGATAACAAAAGAAACAACAGCAACAGACACCACAGTCTGAGAATTAACTAAGA
*
342429 CATGGAAACTTCATTCAGTGAGAATTAATTGGCTTTGAATGGAGCAGGAAAGTGCAACAGTATAT
196 CATGGAAACTTCATTCAGTGAGAATTAATTGGCTTTGAATGGAGCAGAAAAGTGCAACAGTATAT
342494 ACCAATGTTGCTCTGACTCTTTATTTTTCTTTTAAGTAAAGTCAACTTAAAAGCAAAGTCAACTG
261 ACCAATGTTGCTCTGACTCTTTATTTTTCTTTTAAGTAAAGTCAACTTAAAAGCAAAGTCAACTG
342559 CCAACAGTATACATCATATTCTTT
326 CCAACAGTATACATCATATTCTTT
342583 TTTTTTTTTTTTAAAGCAAAGTCAACTGCATATTCAATAGATGATATTTAACCAGACAGAAGCAA
1 TTTTTTTTTTTTAAAGCAAAGTCAACTGCATATTCAATAGATGATATTTAACCAGACAGAAGCAA
342648 TTGCCAGTAAATAGATTTTGTCAAGAT-ACTTCTATATACTCAGTCTTGAGATGAAGAGAATGAG
66 TTGCCAGTAAATAGATTTTGTCAAGATAACTTCTATATACTCAGTCTTGAGATGAAGAGAATGAG
*
342712 AAGAGCCCAAAAGATAACAAAAGAAACAACAGCAATAGACACCACAGTCTGAGAATTAACTAAGA
131 AAGAGCCCAAAAGATAACAAAAGAAACAACAGCAACAGACACCACAGTCTGAGAATTAACTAAGA
*
342777 CATGGAAACTTCATTCAGTGAGAATTAATTGGCTTTGAATGGTGCAGAAAAGTGCAACAGTATAT
196 CATGGAAACTTCATTCAGTGAGAATTAATTGGCTTTGAATGGAGCAGAAAAGTGCAACAGTATAT
342842 ACCAATGTTGCTCTGACTCTTTATTTTTCTTTTAAGTA
261 ACCAATGTTGCTCTGACTCTTTATTTTTCTTTTAAGTA
342880 CCTTTGTCCG
Statistics
Matches: 289, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
348 198 0.69
349 91 0.31
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (349 bp):
TTTTTTTTTTTTAAAGCAAAGTCAACTGCATATTCAATAGATGATATTTAACCAGACAGAAGCAA
TTGCCAGTAAATAGATTTTGTCAAGATAACTTCTATATACTCAGTCTTGAGATGAAGAGAATGAG
AAGAGCCCAAAAGATAACAAAAGAAACAACAGCAACAGACACCACAGTCTGAGAATTAACTAAGA
CATGGAAACTTCATTCAGTGAGAATTAATTGGCTTTGAATGGAGCAGAAAAGTGCAACAGTATAT
ACCAATGTTGCTCTGACTCTTTATTTTTCTTTTAAGTAAAGTCAACTTAAAAGCAAAGTCAACTG
CCAACAGTATACATCATATTCTTT
Found at i:345169 original size:14 final size:14
Alignment explanation
Indices: 345147--345282 Score: 54
Period size: 14 Copynumber: 9.6 Consensus size: 14
345137 CTGCTGTTAG
345147 ATTAT-TTTTTATT
1 ATTATATTTTTATT
* *
345160 ATTATATTTTAAAT
1 ATTATATTTTTATT
*
345174 ATTATATATTTA-T
1 ATTATATTTTTATT
* *
345187 A-TAAATTTTAATAT
1 ATTATATTTTTAT-T
* **
345201 ATAATAATTAATATT
1 ATTAT-ATTTTTATT
*
345216 A-TATAATTTTTAAT
1 ATTAT-ATTTTTATT
345230 ATT-TATTTATT-TAT
1 ATTATATTT-TTAT-T
345244 ATTATATTATATT-TT
1 ATTATATT-T-TTATT
345259 ATATAATATTTTTATT
1 AT-T-ATATTTTTATT
345275 ATT-TATTT
1 ATTATATTT
345283 ATGTAATTAA
Statistics
Matches: 93, Mismatches: 17, Indels: 26
0.68 0.12 0.19
Matches are distributed among these distances:
12 7 0.08
13 16 0.17
14 35 0.38
15 14 0.15
16 16 0.17
17 5 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTTTTATT
Found at i:345214 original size:26 final size:26
Alignment explanation
Indices: 345165--345214 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
345155 TTATTATTAT
* *
345165 ATTTTAAATATTATATATTTATATAA
1 ATTTTAAATATAATATATTAATATAA
345191 ATTTTAATATATAATA-ATTAATAT
1 ATTTTAA-ATATAATATATTAATAT
345215 TATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTTAAATATAATATATTAATATAA
Found at i:345218 original size:31 final size:31
Alignment explanation
Indices: 345174--345263 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 31
345164 TATTTTAAAT
345174 ATTATATATTTATATAAATTTTAATATATAATA
1 ATTA-ATA-TTATATAAATTTTAATATATAATA
* * * *
345207 ATTAATATTATATAATTTTTAATATTTATTT
1 ATTAATATTATATAAATTTTAATATATAATA
* *
345238 ATTTATATTATATTATATTTT-ATATA
1 ATTAATATTATA-TAAATTTTAATATA
345264 ATATTTTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 35 0.73
32 9 0.19
33 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTAATATTATATAAATTTTAATATATAATA
Found at i:345259 original size:17 final size:17
Alignment explanation
Indices: 345172--345268 Score: 64
Period size: 17 Copynumber: 6.0 Consensus size: 17
345162 TATATTTTAA
*
345172 ATATTATATATT-TATAT
1 ATATTTTATATTATAT-T
* *
345189 AAATTTTA-A-TATATA
1 ATATTTTATATTATATT
* * *
345204 ATAATTAATATTATATA
1 ATATTTTATATTATATT
345221 AT-TTTTAATATT-TATT
1 ATATTTT-ATATTATATT
345237 -TA-TTTATATTATATT
1 ATATTTTATATTATATT
*
345252 ATATTTTATATAATATT
1 ATATTTTATATTATATT
345269 TTTATTATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
14 5 0.08
15 14 0.23
16 12 0.19
17 31 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATATTATATT
Found at i:345280 original size:45 final size:42
Alignment explanation
Indices: 345206--345302 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 42
345196 AATATATAAT
* *
345206 AATTA-ATATTATATAATTTTTAATATTTATTTATTTATATTA
1 AATTATATTTTATATAATTTTTAATATTTATTTATGTA-ATTA
* *
345248 TATTATATTTTATATAATATTTTTATTATTTATTTATGTAATTA
1 AATTATATTTTATAT-A-ATTTTTAATATTTATTTATGTAATTA
*
345292 AATTTTATTTT
1 AATTATATTTT
345303 GTTTTAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 4 0.09
43 8 0.17
44 14 0.30
45 20 0.43
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (42 bp):
AATTATATTTTATATAATTTTTAATATTTATTTATGTAATTA
Found at i:346230 original size:2 final size:2
Alignment explanation
Indices: 346223--346251 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
346213 TCTTCATGCC
346223 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
346252 AAATAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:353295 original size:28 final size:28
Alignment explanation
Indices: 353270--353336 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
353260 TTTTTTTACT
*
353270 AATT-TAAAAATAAAATATTTATTTTAA
1 AATTATAAAAATAAAAAATTTATTTTAA
*
353297 AATTATAAAAATAAAAAATTTA-ATTATA
1 AATTATAAAAATAAAAAATTTATTTTA-A
353325 AATTA-AAAAATA
1 AATTATAAAAATA
353337 TATAATTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTATAAAAATAAAAAATTTATTTTAA
Found at i:353323 original size:21 final size:20
Alignment explanation
Indices: 353297--353335 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
353287 TTTATTTTAA
353297 AATTATAAAAATAAAAAATTT
1 AATTAT-AAAATAAAAAATTT
*
353318 AATTATAAATTAAAAAAT
1 AATTATAAAATAAAAAAT
353336 ATATAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTATAAAATAAAAAATTT
Found at i:354106 original size:15 final size:15
Alignment explanation
Indices: 354085--354118 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
354075 AATATTAAAA
*
354085 TTAAATTTATTTATAT
1 TTAATTTTATTT-TAT
354101 TTAATTTTATTTTAT
1 TTAATTTTATTTTAT
354116 TTA
1 TTA
354119 CGAAAACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTATTTTAT
Found at i:354772 original size:10 final size:10
Alignment explanation
Indices: 354759--354783 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
354749 CTTTAATAAA
354759 ATAAAATATT
1 ATAAAATATT
354769 ATAAAATATT
1 ATAAAATATT
354779 ATAAA
1 ATAAA
354784 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Found at i:355463 original size:18 final size:17
Alignment explanation
Indices: 355424--355466 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
355414 AATTTTATTC
355424 AAATTATTATTTAATAA
1 AAATTATTATTTAATAA
*
355441 AAATTATTATTTTATAA
1 AAATTATTATTTAATAA
355458 ATAATTATT
1 A-AATTATT
355467 TGAGTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTATTATTTAATAA
Found at i:355665 original size:12 final size:11
Alignment explanation
Indices: 355624--355666 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
355614 AAAATTTATT
355624 TATTATTTAAAA
1 TATTA-TTAAAA
355636 -ATTATTAAAA
1 TATTATTAAAA
355646 TATTATTAAATA
1 TATTATTAAA-A
*
355658 TTTTATTAA
1 TATTATTAA
355667 TATAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 6 0.21
11 13 0.46
12 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:356105 original size:3 final size:3
Alignment explanation
Indices: 356097--356144 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
356087 AAGGGGAAAA
356097 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
356145 CCCCAAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:356464 original size:22 final size:21
Alignment explanation
Indices: 356427--356479 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
356417 ATATATTAAA
356427 ATAATATAAA-TT-TAT-TTTT
1 ATAAT-TAAATTTATATATTTT
356446 AT-ATTAATATTTATATATTTT
1 ATAATTAA-ATTTATATATTTT
356467 ATAATTAAATTTA
1 ATAATTAAATTTA
356480 AATAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 4 0.14
20 3 0.10
21 11 0.38
22 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATAATTAAATTTATATATTTT
Found at i:358349 original size:7 final size:7
Alignment explanation
Indices: 358337--358379 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
358327 TTATGATTCT
358337 TTAAATA
1 TTAAATA
358344 TTAAATA
1 TTAAATA
358351 TTAAATA
1 TTAAATA
358358 -TAAATA
1 TTAAATA
*
358364 TAAAATA
1 TTAAATA
358371 TATAAATA
1 T-TAAATA
358379 T
1 T
358380 AATTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TTAAATA
Found at i:358363 original size:13 final size:13
Alignment explanation
Indices: 358338--358386 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
358328 TATGATTCTT
358338 TAAATATTAAATA
1 TAAATATTAAATA
358351 TTAAATA-TAAATA
1 -TAAATATTAAATA
358364 TAAAATATATAAATA
1 T-AAATAT-TAAATA
*
358379 TAATTATT
1 TAAATATT
358387 TTATTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 11 0.35
15 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:358375 original size:15 final size:15
Alignment explanation
Indices: 358339--358381 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
358329 ATGATTCTTT
358339 AAATAT-TAAATAT-
1 AAATATATAAATATA
*
358352 TAA-ATATAAATATA
1 AAATATATAAATATA
358366 AAATATATAAATATA
1 AAATATATAAATATA
358381 A
1 A
358382 TTATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.08
13 9 0.36
14 2 0.08
15 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATATAAATATA
Found at i:358561 original size:17 final size:18
Alignment explanation
Indices: 358537--358587 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
358527 TTTTTGAATT
*
358537 ATTAAATAATATTTTATA
1 ATTAAATAATATTTTAAA
358555 A-TAAATAAT-TTTTAAA
1 ATTAAATAATATTTTAAA
*
358571 ATTTAAATATTATTTTA
1 A-TTAAATAATATTTTA
358588 CAAAATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 8 0.29
19 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTAAATAATATTTTAAA
Found at i:359300 original size:1 final size:1
Alignment explanation
Indices: 359294--359320 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
359284 TGCCCTCAAG
359294 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
359321 GGCTGCTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:369389 original size:21 final size:23
Alignment explanation
Indices: 369365--369420 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 23
369355 TTTTATTTAA
369365 AAATAATTATAAAAAAT-ATA-T
1 AAATAATTATAAAAAATAATATT
*
369386 AAAT-ATTGATATAAAATAATATT
1 AAATAATT-ATAAAAAATAATATT
369409 ATAATAA-TATAA
1 A-AATAATTATAA
369421 TGATCAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 3 0.11
21 12 0.43
22 3 0.11
23 5 0.18
24 4 0.14
25 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATAATTATAAAAAATAATATT
Found at i:370344 original size:26 final size:24
Alignment explanation
Indices: 370289--370359 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 24
370279 AATATTATTT
370289 TTATTTAAAT--T-TAATAATATAA
1 TTATTTAAATAATATAATAA-ATAA
370311 TTATTTAACTATTAATATAA-AAATAA
1 TTATTTAA--A-TAATATAATAAATAA
370337 -TATCTTAAATAATATAATAAATA
1 TTAT-TTAAATAATATAATAAATA
370360 GTAAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 7 0.17
25 4 0.10
26 8 0.20
27 3 0.07
28 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATTTAAATAATATAATAAATAA
Found at i:371479 original size:2 final size:2
Alignment explanation
Indices: 371466--371504 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
371456 TTTGAAAGGA
*
371466 AT AT AC AT AT 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 AT AT AT AT AT A
371505 GAAGAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:378842 original size:17 final size:17
Alignment explanation
Indices: 378820--378855 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
378810 ATTTTGATTT
378820 TATATAAATATATTAAA
1 TATATAAATATATTAAA
*
378837 TATATAAATATATTTAA
1 TATATAAATATATTAAA
378854 TA
1 TA
378856 AAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATAAATATATTAAA
Found at i:378844 original size:8 final size:8
Alignment explanation
Indices: 378820--378849 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
378810 ATTTTGATTT
378820 TATATAAA
1 TATATAAA
378828 TATATTAAA
1 TATA-TAAA
378837 TATATAAA
1 TATATAAA
378845 TATAT
1 TATAT
378850 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATAAA
Found at i:378865 original size:31 final size:33
Alignment explanation
Indices: 378796--378865 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
378786 AATAAATTAA
* * *
378796 ATATTAAATATATAATTTTGATTTTATATAAAT
1 ATATTAAATATATAAATATGATTTAATATAAAT
378829 ATATTAAATATATAAATAT-ATTTAATA-AAAT
1 ATATTAAATATATAAATATGATTTAATATAAAT
*
378860 TTATTA
1 ATATTA
378866 TCTTAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 9 0.27
32 7 0.21
33 17 0.52
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATTAAATATATAAATATGATTTAATATAAAT
Found at i:379088 original size:13 final size:13
Alignment explanation
Indices: 379070--379098 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
379060 ACTTTTGAGG
379070 ACCATGAAGATCC
1 ACCATGAAGATCC
379083 ACCATGAAGATCC
1 ACCATGAAGATCC
379096 ACC
1 ACC
379099 CCTGTTAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.34, G:0.14, T:0.14
Consensus pattern (13 bp):
ACCATGAAGATCC
Found at i:380722 original size:2 final size:2
Alignment explanation
Indices: 380717--380742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
380707 TGATATATGC
380717 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
380743 TTCTCAGCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:381170 original size:2 final size:2
Alignment explanation
Indices: 381158--381192 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
381148 TAAGATAGAC
*
381158 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
381193 CACGTAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:382008 original size:53 final size:53
Alignment explanation
Indices: 381944--382044 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
381934 CTACCAAGAA
* * * *
381944 TAAAACAAGGTTCTCAAACATGTTTCACAATGTTTTGATAAGTTGACATAGAG
1 TAAAACAAGGTTCCCAAACATGTATCACAAGGTTTCGATAAGTTGACATAGAG
*
381997 TAAAAGAAGGTTCCCAAACATGTATCACAAGGTTTCGATAAGTTGACA
1 TAAAACAAGGTTCCCAAACATGTATCACAAGGTTTCGATAAGTTGACA
382045 CAACTTTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (53 bp):
TAAAACAAGGTTCCCAAACATGTATCACAAGGTTTCGATAAGTTGACATAGAG
Found at i:382468 original size:2 final size:2
Alignment explanation
Indices: 382461--382489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
382451 TTAAAAAGTG
382461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
382490 GGCTAGTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:383355 original size:2 final size:2
Alignment explanation
Indices: 383350--383376 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
383340 TTTCAGAAAC
383350 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 A
383377 AAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:384404 original size:18 final size:16
Alignment explanation
Indices: 384381--384414 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
384371 TGAATTAATT
384381 TAATATTTATTAATTAAA
1 TAATATTT-TT-ATTAAA
384399 TAATATTTTTATTAAA
1 TAATATTTTTATTAAA
384415 ATTTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATTTTTATTAAA
Found at i:385797 original size:32 final size:30
Alignment explanation
Indices: 385756--385850 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 30
385746 AGAAAGGAGA
*
385756 AAAAAATTATGTATTTGTATTTATTTTTATAT
1 AAAATATTAT-TATTT-TATTTATTTTTATAT
*
385788 AAAATATTA-TATTTTATATATTTTCTATAT
1 AAAATATTATTATTTTATTTATTTT-TATAT
*
385818 -TAATAATTATTTATTTTATATATATTTTTATAT
1 AAAAT-ATTA-TTATTTTAT-T-TATTTTTATAT
385851 GTACATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 12 0.23
30 14 0.26
32 16 0.30
33 5 0.09
34 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (30 bp):
AAAATATTATTATTTTATTTATTTTTATAT
Found at i:385862 original size:33 final size:31
Alignment explanation
Indices: 385797--385865 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 31
385787 TAAAATATTA
385797 TATTTTATATATTTTCTATATTAATAATTATT
1 TATTTTATATATTTTCTATATTAATAA-TATT
*
385829 TATTTTATATATATTTTTATATGTACAT-ATATT
1 TATTTTATATAT-TTTCTATAT-TA-ATAATATT
385862 TATT
1 TATT
385866 ATGTGTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 12 0.36
33 16 0.48
34 3 0.09
35 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (31 bp):
TATTTTATATATTTTCTATATTAATAATATT
Found at i:385872 original size:19 final size:18
Alignment explanation
Indices: 385803--385872 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
385793 ATTATATTTT
385803 ATATATTTTCTATAT-TA-
1 ATATATTTT-TATATGTAC
* *
385820 ATA-ATTATTTAT-TTTAT
1 ATATATT-TTTATATGTAC
385837 ATATATTTTTATATGTAC
1 ATATATTTTTATATGTAC
*
385855 ATATATTTATTATGTGTA
1 ATATATTT-TTATATGTA
385873 TATCATTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
15 1 0.02
16 8 0.18
17 13 0.30
18 14 0.32
19 8 0.18
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (18 bp):
ATATATTTTTATATGTAC
Found at i:386014 original size:24 final size:23
Alignment explanation
Indices: 385970--386015 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
385960 TTTTTACACG
* *
385970 TTAATTATTTATTTATCTATATT
1 TTAATTATTCATGTATCTATATT
*
385993 TTAATATATTCATGTATTTATAT
1 TTAAT-TATTCATGTATCTATAT
386016 CGTATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TTAATTATTCATGTATCTATATT
Found at i:386503 original size:18 final size:18
Alignment explanation
Indices: 386482--386536 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
386472 GATTTAAAAA
386482 TTATTTTTATATATTTTT
1 TTATTTTTATATATTTTT
*
386500 TTATATATTA-ATAATTTATT
1 TTAT-TTTTATAT-ATTT-TT
*
386520 TTA-TTTTATGTATTTTT
1 TTATTTTTATATATTTTT
386537 ATATATATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 2 0.07
18 14 0.47
19 9 0.30
20 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTTATATATTTTT
Found at i:386556 original size:16 final size:16
Alignment explanation
Indices: 386526--386568 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
386516 TATTTTATTT
* *
386526 TATGTATTTTTATATA
1 TATGTATATTAATATA
*
386542 TATGTGTATTAATATA
1 TATGTATATTAATATA
*
386558 TGTGTATATTA
1 TATGTATATTA
386569 TTTTTATGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TATGTATATTAATATA
Found at i:387188 original size:11 final size:11
Alignment explanation
Indices: 387163--387210 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
387153 ACGCACGCAA
387163 AAAAAAAAAAGG
1 AAAAAAAAAA-G
*
387175 AAAAAGAAAAG
1 AAAAAAAAAAG
** *
387186 AAAAATTAAAT
1 AAAAAAAAAAG
387197 AAAAAAAAAAG
1 AAAAAAAAAAG
387208 AAA
1 AAA
387211 GTAATTCTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:393629 original size:13 final size:13
Alignment explanation
Indices: 393611--393638 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
393601 TTTATTGGGC
393611 CTTCCAGCCTTAA
1 CTTCCAGCCTTAA
393624 CTTCCAGCCTTAA
1 CTTCCAGCCTTAA
393637 CT
1 CT
393639 AAGTGACGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.07, T:0.32
Consensus pattern (13 bp):
CTTCCAGCCTTAA
Found at i:397412 original size:3 final size:3
Alignment explanation
Indices: 397404--397441 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
397394 TTCAATAACA
397404 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
397442 GAAATTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:397465 original size:15 final size:13
Alignment explanation
Indices: 397397--397465 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 13
397387 TTAAAAATTC
*
397397 AATAACAAATAAT
1 AATAATAAATAAT
397410 AATAAT-AATAAT
1 AATAATAAATAAT
397422 AATAAT-AATAAT
1 AATAATAAATAAT
397434 AATAATAAGA-AATT
1 AATAATAA-ATAA-T
397448 AATAAATAAATAAAT
1 AAT-AATAAAT-AAT
397463 AAT
1 AAT
397466 CAATCGTGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
12 24 0.49
13 8 0.16
14 6 0.12
15 9 0.18
16 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:402444 original size:20 final size:20
Alignment explanation
Indices: 402421--402505 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 20
402411 TAATTATATT
402421 TAAAATATTATATATTTATA
1 TAAAATATTATATATTTATA
*
402441 T-AAAT-TT-TA-ATATAT-
1 TAAAATATTATATATTTATA
*
402456 TAATA-ATT-TATA-TTATA
1 TAAAATATTATATATTTATA
* *
402473 T-AAATTTTAATATTTTTATA
1 TAAAATATT-ATATATTTATA
*
402493 TAAAATTTTATAT
1 TAAAATATTATAT
402506 CACAATGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
15 1 0.02
16 16 0.32
17 6 0.12
18 2 0.04
19 7 0.14
20 11 0.22
21 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATATTATATATTTATA
Found at i:402461 original size:18 final size:19
Alignment explanation
Indices: 402407--402502 Score: 75
Period size: 20 Copynumber: 5.3 Consensus size: 19
402397 ATTTTTACGT
402407 ATTTTAATTATATT-TA-AA
1 ATTTTAA-TATATTATATAA
*
402425 ATATT-ATATATTTATATAA
1 ATTTTAATATA-TTATATAA
402444 ATTTTAATATATTA-AT-A
1 ATTTTAATATATTATATAA
402461 A--TT--TATATTATATAA
1 ATTTTAATATATTATATAA
*
402476 ATTTTAATATTTTTATATAAA
1 ATTTTAATA-TATTATAT-AA
402497 ATTTTA
1 ATTTTA
402503 TATCACAATG
Statistics
Matches: 63, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
13 7 0.11
14 2 0.03
15 4 0.06
16 4 0.06
17 7 0.11
18 8 0.13
19 11 0.17
20 12 0.19
21 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATATATTATATAA
Found at i:402504 original size:32 final size:32
Alignment explanation
Indices: 402425--402544 Score: 102
Period size: 32 Copynumber: 3.7 Consensus size: 32
402415 TATATTTAAA
* *
402425 ATATTATATATTTATATAAATTTTAATA-TATT
1 ATATAATAT-TTTATATAAATTTTAATATTTTT
*
402457 A-ATAATTTATATTATATAAATTTTAATATTTTT
1 ATATAA--TATTTTATATAAATTTTAATATTTTT
* *
402490 ATATAAAATTTTATATCACAA-TGTAATTATTTTT
1 ATATAATATTTTATAT-A-AATTTTAA-TATTTTT
* *
402524 TTATAATATTTTATGTAAATT
1 ATATAATATTTTATATAAATT
402545 ATGAGATTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
31 3 0.04
32 28 0.39
33 14 0.20
34 26 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (32 bp):
ATATAATATTTTATATAAATTTTAATATTTTT
Found at i:409131 original size:2 final size:2
Alignment explanation
Indices: 409124--409156 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
409114 TTCAGTTTCA
409124 AT AT 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 AT AT A
409157 CACTTTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:409268 original size:2 final size:2
Alignment explanation
Indices: 409261--409298 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
409251 CATAGAACAA
409261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
409299 CAGACTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:410089 original size:16 final size:18
Alignment explanation
Indices: 410057--410091 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
410047 ACATGACTTT
410057 TTATTTCATTATTAATAA
1 TTATTTCATTATTAATAA
410075 TTATTT-ATT-TTAATAA
1 TTATTTCATTATTAATAA
410091 T
1 T
410092 AATAGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTTCATTATTAATAA
Done.