Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold224
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: 480342
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 1 of 3
Found at i:43895 original size:113 final size:113
Alignment explanation
Indices: 43697--43922 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 113
43687 AAAGCTCCAC
*
43697 CTGATTCAGAAACCCATGCTCCTGATCATGGTCCAAACTTGTTTACAGTACCCGAAACATCTTTA
1 CTGATTCAGAAACCCATGCTCCCGATCATGGTCCAAACTTGTTTACAGTACCCGAAACATCTTTA
43762 TATGACTGTGCAACTTGATTCAAGTAAAATAGATCTTAAATCTTGGTA
66 TATGACTGTGCAACTTGATTCAAGTAAAATAGATCTTAAATCTTGGTA
*
43810 CTGATTCAGAAACCCATGCTCCCGATCATGGTCCAACCTTGTTTACAGTACCCGAAACATCTTTA
1 CTGATTCAGAAACCCATGCTCCCGATCATGGTCCAAACTTGTTTACAGTACCCGAAACATCTTTA
43875 TATGACTGTGCAACTTGATTCAAGTAAAATAGATCTTAAATCTTGGTA
66 TATGACTGTGCAACTTGATTCAAGTAAAATAGATCTTAAATCTTGGTA
43923 ATTAAGTCTG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (113 bp):
CTGATTCAGAAACCCATGCTCCCGATCATGGTCCAAACTTGTTTACAGTACCCGAAACATCTTTA
TATGACTGTGCAACTTGATTCAAGTAAAATAGATCTTAAATCTTGGTA
Found at i:46036 original size:20 final size:19
Alignment explanation
Indices: 45990--46045 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
45980 AAAACCCTTA
**
45990 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
46010 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
46030 AATGTATCGATACATG
1 AATGTATCGATACATG
46046 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:46122 original size:13 final size:13
Alignment explanation
Indices: 46104--46129 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46094 TACAGCAAGT
46104 ATGTATCGATACA
1 ATGTATCGATACA
46117 ATGTATCGATACA
1 ATGTATCGATACA
46130 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:48295 original size:21 final size:21
Alignment explanation
Indices: 48262--48306 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
48252 TTGCAAGTTG
*
48262 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
48284 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
48304 AAA
1 AAA
48307 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:50130 original size:15 final size:15
Alignment explanation
Indices: 50110--50140 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50100 TAAAAATGTC
*
50110 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
50125 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
50140 C
1 C
50141 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:52242 original size:13 final size:13
Alignment explanation
Indices: 52224--52262 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
52214 ACATTTTTCT
52224 TTGTATCGATACA
1 TTGTATCGATACA
52237 TTGTATCGATACA
1 TTGTATCGATACA
52250 TTGTATCGATACA
1 TTGTATCGATACA
52263 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:52407 original size:21 final size:21
Alignment explanation
Indices: 52383--52429 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
52373 AAATCTTTTG
52383 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
52404 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
52424 CAAAAT
1 CAAAAT
52430 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:52426 original size:20 final size:19
Alignment explanation
Indices: 52385--52427 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
52375 ATCTTTTGCA
52385 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
52405 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
52425 AAA
1 AAA
52428 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:54742 original size:20 final size:19
Alignment explanation
Indices: 54696--54751 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
54686 AAAACCCTTA
**
54696 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
54716 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
54736 AATGTATCGATACATG
1 AATGTATCGATACATG
54752 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:54828 original size:13 final size:13
Alignment explanation
Indices: 54810--54835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54800 TACAGCAAGT
54810 ATGTATCGATACA
1 ATGTATCGATACA
54823 ATGTATCGATACA
1 ATGTATCGATACA
54836 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:56742 original size:47 final size:46
Alignment explanation
Indices: 56686--56783 Score: 121
Period size: 43 Copynumber: 2.2 Consensus size: 46
56676 CTTAATTTCG
* * *
56686 TGAATATTATTTATACATTTATGAATTTGAACATTTACCATAATTAA
1 TGAACATTA-TTATACATTCATGAATTTAAACATTTACCATAATTAA
* *
56733 TGAAC---ATTATGCATTCATGAATTTAAATATTTACCATAATTAA
1 TGAACATTATTATACATTCATGAATTTAAACATTTACCATAATTAA
56776 TGAACATT
1 TGAACATT
56784 CATGTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
43 38 0.88
44 1 0.02
47 4 0.09
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (46 bp):
TGAACATTATTATACATTCATGAATTTAAACATTTACCATAATTAA
Found at i:56754 original size:43 final size:43
Alignment explanation
Indices: 56696--56783 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
56686 TGAATATTAT
* *
56696 TTATACATTTATGAATTTGAACATTTACCATAATTAATGAACA
1 TTATACATTCATGAATTTAAACATTTACCATAATTAATGAACA
* *
56739 TTATGCATTCATGAATTTAAATATTTACCATAATTAATGAACA
1 TTATACATTCATGAATTTAAACATTTACCATAATTAATGAACA
56782 TT
1 TT
56784 CATGTTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (43 bp):
TTATACATTCATGAATTTAAACATTTACCATAATTAATGAACA
Found at i:57290 original size:2 final size:2
Alignment explanation
Indices: 57285--57332 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
57275 CTCTTCTCTC
* *
57285 AT AT AT AA AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57327 AT AT AT
1 AT AT AT
57333 GTTGTGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60205 original size:32 final size:32
Alignment explanation
Indices: 60164--60263 Score: 200
Period size: 32 Copynumber: 3.1 Consensus size: 32
60154 CAAAAATTTC
60164 AAATTTCTATAATTTGTATCGATACAAACAGT
1 AAATTTCTATAATTTGTATCGATACAAACAGT
60196 AAATTTCTATAATTTGTATCGATACAAACAGT
1 AAATTTCTATAATTTGTATCGATACAAACAGT
60228 AAATTTCTATAATTTGTATCGATACAAACAGT
1 AAATTTCTATAATTTGTATCGATACAAACAGT
60260 AAAT
1 AAAT
60264 GTATCAATAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (32 bp):
AAATTTCTATAATTTGTATCGATACAAACAGT
Found at i:60286 original size:20 final size:21
Alignment explanation
Indices: 60242--60315 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
60232 TTCTATAATT
*
60242 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
60263 TGTATCAATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* *
60283 TGTATCGATACATGC-CTAAAA
1 TGTATCGATACATACAGT-AAA
60304 TGTATCGATACA
1 TGTATCGATACA
60316 AAACCACCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.41
21 26 0.59
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:60430 original size:170 final size:170
Alignment explanation
Indices: 60228--60544 Score: 571
Period size: 170 Copynumber: 1.9 Consensus size: 170
60218 TACAAACAGT
*
60228 AAATTTCTATAATTTGTATCGATACAAACAGTAAATGTATCAATACATAAGTGAATGTATCGATA
1 AAATTTCTATAATTTGTATCGATACAAACAGTAAATATATCAATACATAAGTGAATGTATCGATA
* *
60293 CATGCCTAAAATGTATCGATACAAAACCACCCTGCATTTTGAAAAGGAAATGTATCGATACATAA
66 CATGCCTAAAATGTATCGATACAAAACCACCATGCATTTTGAAAAGGAAATGTATAGATACATAA
60358 GTAAATGTATCGATACAAGGTCCTAACGGTCAAAAATTTC
131 GTAAATGTATCGATACAAGGTCCTAACGGTCAAAAATTTC
* *
60398 AAATTTCTATAATTTGTATCGATATAAACAGTAAATATATCGATACATAAGTGAATGTATCGATA
1 AAATTTCTATAATTTGTATCGATACAAACAGTAAATATATCAATACATAAGTGAATGTATCGATA
* *
60463 CATGCCTAAAATGTATCGATACAAAACTACCATGCATTTTGGAAAGGAAATGTATAGATACATAA
66 CATGCCTAAAATGTATCGATACAAAACCACCATGCATTTTGAAAAGGAAATGTATAGATACATAA
60528 GTAAATGTATCGATACA
131 GTAAATGTATCGATACA
60545 TTTCTCATTG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
170 140 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (170 bp):
AAATTTCTATAATTTGTATCGATACAAACAGTAAATATATCAATACATAAGTGAATGTATCGATA
CATGCCTAAAATGTATCGATACAAAACCACCATGCATTTTGAAAAGGAAATGTATAGATACATAA
GTAAATGTATCGATACAAGGTCCTAACGGTCAAAAATTTC
Found at i:60460 original size:20 final size:21
Alignment explanation
Indices: 60412--60485 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
60402 TTCTATAATT
* *
60412 TGTATCGATATAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
60433 TATATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* *
60453 TGTATCGATACATGC-CTAAAA
1 TGTATCGATACATACAGT-AAA
60474 TGTATCGATACA
1 TGTATCGATACA
60486 AAACTACCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 18 0.42
21 25 0.58
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:63717 original size:164 final size:164
Alignment explanation
Indices: 63447--63759 Score: 393
Period size: 164 Copynumber: 1.9 Consensus size: 164
63437 CTTTTTTATC
* * * *
63447 AAAAGGAATCTGATTCTCAAATATAATTTATGCATTAGTCTAATCTTTGTAGTGTCATACTTATA
1 AAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGTAGTGTCACACTTATA
* * *
63512 ATCAACCAACTTTTCTTTTTTTTTTTACCAAAAGAAATCTGATTCTCATG-TACAGTTCATGCAT
66 ATCAACCAACTTTTCTTTTTTTTTATACAAAAAGAAATCTGATTCTCA-GATACAATTCATGCAT
63576 TAATCTAATCATTGCAGTCTTTCTTTTTTCATATA
130 TAATCTAATCATTGCAGTCTTTCTTTTTTCATATA
* * * *
63611 AAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT-TCTTGTAGTTTGACATTTAT
1 AAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCT-TTGTAGTGTCACACTTAT
* * * *
63675 AATCAATC-AGTCTTTCTTTTTTTTCCTATA-AAAAAG-AATCTGATTCTCAGATATAATTTATG
65 AATCAACCAACT-TTTCTTTTTTTT--TATACAAAAAGAAATCTGATTCTCAGATACAATTCATG
* *
63737 CATTAATCTAATCTTTGTAGTCT
127 CATTAATCTAATCATTGCAGTCT
63760 GACATTTATA
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
163 4 0.03
164 115 0.91
165 5 0.04
166 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (164 bp):
AAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGTAGTGTCACACTTATA
ATCAACCAACTTTTCTTTTTTTTTATACAAAAAGAAATCTGATTCTCAGATACAATTCATGCATT
AATCTAATCATTGCAGTCTTTCTTTTTTCATATA
Found at i:63741 original size:94 final size:94
Alignment explanation
Indices: 63581--63825 Score: 329
Period size: 94 Copynumber: 2.6 Consensus size: 94
63571 TGCATTAATC
* * *
63581 TAATCATTGCAGTCTTTC--TTTTTTCATATAAAAAAGAATCCGATTCTCAGATATAATTCATGC
1 TAATCAAT-CAGTCTTTCTTTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGC
* *
63644 ATTAGTCTAAT-TCTTGTAGTTTGACATTTA
65 ATTAATCTAATCT-TTGTAGTCTGACATTTA
*
63674 TAATCAATCAGTCTTTCTTTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAATTTATGCA
1 TAATCAATCAGTCTTTCTTTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCA
63739 TTAATCTAATCTTTGTAGTCTGACATTTA
66 TTAATCTAATCTTTGTAGTCTGACATTTA
* * * *
63768 TAATTAATCA-ACTTTTCTTTTTTTTTCC-ATAAAAAAAAATCTGATTTTCAGATATAAT
1 TAATCAATCAGTC-TTTC-TTTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAAT
63826 CACATTTATT
Statistics
Matches: 137, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
92 9 0.07
93 8 0.06
94 109 0.80
95 11 0.08
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.44
Consensus pattern (94 bp):
TAATCAATCAGTCTTTCTTTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCA
TTAATCTAATCTTTGTAGTCTGACATTTA
Found at i:64753 original size:14 final size:15
Alignment explanation
Indices: 64726--64755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64716 TTATTATGTT
64726 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
64741 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
64756 AGTTTTTTAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:65048 original size:24 final size:22
Alignment explanation
Indices: 65007--65086 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
64997 GAATAGAGGG
*
65007 TTTTTT-ATTTGAATAATGATAAT
1 TTTTTTAATTTG-TTAATG-TAAT
**
65030 TTTTTTAATTCT-TTAAATGTTGT
1 TTTTTTAATT-TGTT-AATGTAAT
65053 TTTTTTAATTTGTTAATGTAAAT
1 TTTTTTAATTTGTTAATGT-AAT
65076 TTTTTTAATTT
1 TTTTTTAATTT
65087 AATTAAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.13
23 33 0.70
24 7 0.15
25 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTTAATTTGTTAATGTAAT
Found at i:65220 original size:111 final size:112
Alignment explanation
Indices: 65055--65334 Score: 325
Period size: 111 Copynumber: 2.4 Consensus size: 112
65045 AATGTTGTTT
** * *
65055 TTTTAATTTGTTAATGTAAATTTTTTTAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAAA-TTTTTTAAAATAATTAAATATTATTTTTAATTTTATTAAAAAAT
* *
65120 AATAATAAT-AA-A-TACTTTTATTTTTA-TAAAAATATAATAATTAATA
65 AATAATAATAAACATTAATTTAATTTTTATTAAAAA-A-AATAATTAATA
* * *
65166 TTTTATTTTGTTAATGTAAGTTTTTTAAACATAATTAAATATTATTTTTAATTTTATTAAATAAT
1 TTTTAATTTGTTAATGTAAATTTTTTAAA-ATAATTAAATATTATTTTTAATTTTATTAAAAAAT
*
65231 AATAATAATAAACCATTTTTAATTTAATTTTTATTTTAAAAAAATAATTAATA
65 AATAATAATAAA-CA---TTAATTTAATTTTTA-TTAAAAAAAATAATTAATA
* *
65284 TTTTAATTTATTAATGTAAATTTTTTTAAAGTCAATTAAATATTATTTTTA
1 TTTTAATTTGTTAATGTAAA-TTTTTTAAAAT-AATTAAATATTATTTTTA
65335 TTAAAAATAA
Statistics
Matches: 143, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
110 8 0.06
111 58 0.41
112 2 0.01
114 1 0.01
118 41 0.29
119 28 0.20
120 5 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (112 bp):
TTTTAATTTGTTAATGTAAATTTTTTAAAATAATTAAATATTATTTTTAATTTTATTAAAAAATA
ATAATAATAAACATTAATTTAATTTTTATTAAAAAAAATAATTAATA
Found at i:68620 original size:22 final size:21
Alignment explanation
Indices: 68595--68639 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
68585 AGAACCCAAA
68595 ATAACTTAAACTTAAATAAAAT
1 ATAACTTAAACTTAAA-AAAAT
* * *
68617 ATAATTTAAATTTTAAAAAAT
1 ATAACTTAAACTTAAAAAAAT
68638 AT
1 AT
68640 TAATTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAACTTAAACTTAAAAAAAT
Found at i:75003 original size:62 final size:62
Alignment explanation
Indices: 74926--75491 Score: 597
Period size: 62 Copynumber: 9.1 Consensus size: 62
74916 GGTAGAAAAG
* *
74926 TCAAAGAGCAGGACGCCTTCTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * *
74988 TCAAAGAGCAAGACGCCTTTTCCTTTTGAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT-AGTCC
* * * * * * * *
75050 TCAAATAG-AGGATGCCTTTTCCTTTT-AAAGCCTACACGAGTTGGTGACACCTTTTAGTTC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * *
75110 TCAAATAGC-AGAACG-TTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCCATTAGTCC
1 TCAAAGAGCAAG-ACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * *
75171 TCAAAGAGCATGATGCTTTTTTCTTTTCAAAGCCCATAAGAGTTAGTGGCACCCTTTAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * *
75233 TCAAAAAGCAGGATGCCTTTTTCTTTTCAAGGCCCACACGAGTTGATGGCACCTTTTAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * **
75295 TCAAAGAGTAGGACG-TTTTTTCTTTTCAAAGCCCATACGAATTGGTGGTTCCCTTTAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * * * *
75356 TCAAAGAGTAAAACACCTTTTTCTTTTTAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
1 TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
* * * *
75418 TCAAGGAGCAAGACACTTTCTTTTTCCCTTTT-AAAGCCCACACGAGTTGGTGGCATCTTTTAGT
1 TCAAAGAGCAAGACGC---CTTTTT--CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
*
75482 CT
61 CC
75484 TCAAAGAG
1 TCAAAGAG
75492 TAGGACACTT
Statistics
Matches: 422, Mismatches: 69, Indels: 22
0.82 0.13 0.04
Matches are distributed among these distances:
60 42 0.10
61 115 0.27
62 216 0.51
65 6 0.01
66 38 0.09
67 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (62 bp):
TCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
Found at i:75391 original size:123 final size:124
Alignment explanation
Indices: 74926--75491 Score: 629
Period size: 123 Copynumber: 4.6 Consensus size: 124
74916 GGTAGAAAAG
*
74926 TCAAAGAGCAGGACGCCTTCTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
1 TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
* * * * * *
74991 AAGAGCAAGACGCCTTTTCCTTTTGAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
66 AAGAGCAAAACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
* * * * * * *
75050 TCAAATAG-AGGATGCCTTTTCCTTTT-AAAGCCTACACGAGTTGGTGACACCTTTTAGTTCTCA
1 TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
* * * * * **
75113 AATAGCAGAACG-TTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCCATTAGTCC
66 AAGAGCAAAACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
* * * * * *
75171 TCAAAGAGCATGATGCTTTTTTCTTTTCAAAGCCCATAAGAGTTAGTGGCACCCTTTAGTCCTCA
1 TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
* ** * *
75236 AAAAGCAGGATGCCTTTTTCTTTTCAAGGCCCACACGAGTTGATGGCACCTTTTAGTCC
66 AAGAGCAAAACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
* * * * **
75295 TCAAAGAGTAGGACG-TTTTTTCTTTTCAAAGCCCATACGAATTGGTGGTTCCCTTTAGTCCTCA
1 TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
* * *
75359 AAGAGTAAAACACCTTTTTCTTTTTAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
66 AAGAGCAAAACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
* * * * *
75418 TCAAGGAGCAAGACACTTTCTTTTTCCCTTTT-AAAGCCCACACGAGTTGGTGGCATCTTTTAGT
1 TCAAAGAGCAGGACGC---CTTTTT--CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
*
75482 CTTCAAAGAG
61 CCTCAAAGAG
75492 TAGGACACTT
Statistics
Matches: 366, Mismatches: 67, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
121 45 0.12
122 57 0.16
123 160 0.44
124 59 0.16
127 5 0.01
128 35 0.10
129 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (124 bp):
TCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCA
AAGAGCAAAACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCTTTTAGTCC
Found at i:75553 original size:43 final size:43
Alignment explanation
Indices: 75505--75921 Score: 293
Period size: 43 Copynumber: 9.8 Consensus size: 43
75495 GACACTTTCC
* * *
75505 TCATTTCCTTTTTTTCCTTTATCCTAAAAGAGCAGGATTCACT
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
* * *
75548 TCATTTTCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGTTGCACT
1 TCATTTCCTT-TTTTTCC-TTTGTCCTCAAAGAGCAGGATGCACT
* ** * *
75593 TTATTT-C--TTTTTCCTTTGTCCTCAAAGAGCAGGGCGTACC
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
* * ** *
75633 TCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCAAAACGCACT
1 TCATTTCC-TTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
* * * *
75677 TTATTTCCTTCTTTTCCTTTTTGTCCTTAAAGAGCATGACTGCACT
1 TCATTTCCTTTTTTTCC--TTTGTCCTCAAAGAGCAGGA-TGCACT
* * * * *
75723 TTATTT-C-ATTTTTCCTTAGTCCTCAAAAAGCAGGGTGCACCT
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCA-CT
* *
75765 T-ATTTCCTTCTTTTCCTTAGTCCTCAAAGAGCAGGATGC-C-
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
* * * ** *
75805 T--TTTCC-TTTTCTCTTTTGTCCTCAAAGAGCATGACACATT
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
* * *
75845 TCATTTCCTTTTTTCCCTTTGTCCTCAAGGAGCA--ATACACTT
1 TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCAC-T
* * * * *
75887 TCCTTTTTCTTTTTTTCCATTGTCTTCAAGGAGCA
1 T-CATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCA
75922 AGACCTAAGC
Statistics
Matches: 297, Mismatches: 58, Indels: 38
0.76 0.15 0.10
Matches are distributed among these distances:
38 24 0.08
39 5 0.02
40 29 0.10
41 20 0.07
42 26 0.09
43 92 0.31
44 46 0.15
45 44 0.15
46 11 0.04
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (43 bp):
TCATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
Found at i:75688 original size:129 final size:131
Alignment explanation
Indices: 75503--75797 Score: 382
Period size: 129 Copynumber: 2.3 Consensus size: 131
75493 AGGACACTTT
* * * ** ** *
75503 CCTCATTTCCTTTTTTTCCTTTA-TCCTAAAAGAGCAGGATTCACTTCATTTTCTTCTTTTCCCT
1 CCTCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCAAAACGCACTTCATTTCCTTCTTTTCCCT
** * * *
75567 TTTGTCCTCAAAGAGCA-GGTTGCACTTTATTTC-TTTTTCCTTTGTCCTCAAAGAGCAGGGCGT
66 TTTGTCCTCAAAGAGCATGACTGCACTTTATTTCATTTTTCCTTAGTCCTCAAAAAGCAGGGCGC
75630 A
131 A
* *
75631 CCTCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCAAAACGCACTTTATTTCCTTCTTTTCCTT
1 CCTCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCAAAACGCACTTCATTTCCTTCTTTTCCCT
* *
75696 TTTGTCCTTAAAGAGCATGACTGCACTTTATTTCATTTTTCCTTAGTCCTCAAAAAGCAGGGTGC
66 TTTGTCCTCAAAGAGCATGACTGCACTTTATTTCATTTTTCCTTAGTCCTCAAAAAGCAGGGCGC
75761 A
131 A
* * *
75762 CCTTATTTCC-TTCTTTTCCTTAGTCCTCAAAGAGCA
1 CCTCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCA
75798 GGATGCCTTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 21 0.15
129 49 0.34
130 38 0.26
131 36 0.25
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (131 bp):
CCTCATTTCCTTTTTTTTCATTAGTCCTCAAAGAGCAAAACGCACTTCATTTCCTTCTTTTCCCT
TTTGTCCTCAAAGAGCATGACTGCACTTTATTTCATTTTTCCTTAGTCCTCAAAAAGCAGGGCGC
A
Found at i:77791 original size:83 final size:79
Alignment explanation
Indices: 77568--77812 Score: 301
Period size: 79 Copynumber: 3.1 Consensus size: 79
77558 ATTCATGTTT
* * * **
77568 TTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTTCAAAATACTTATTTTTCACAATCGGGG
1 TTATTTCCAAAGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
77633 ATACTCCAACCCTG
66 ATACTCCAACCCTG
* * ** * * *
77647 TTATTTCCAAGGGGAGACTCTAACTTCAGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGG
1 TTATTTCCAAAGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
77712 ATACTCCAACCCTG
66 ATACTCCAACCCTG
* * *
77726 TTATTTCCACAATCAGGGATATTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCATAATC
1 TTATTT-C-CAA--AGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATC
* *
77791 GGGGATACTCTAACCCCG
62 GGGGATACTCCAACCCTG
77809 TTAT
1 TTAT
77813 ATCCGAGGGA
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
79 75 0.54
80 1 0.01
81 3 0.02
83 61 0.44
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
TTATTTCCAAAGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCTG
Found at i:77869 original size:29 final size:29
Alignment explanation
Indices: 77816--77874 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 29
77806 CCGTTATATC
77816 CGAGGGAATACTCCAATCTCATTTT-TTT
1 CGAGGGAATACTCCAATCTCATTTTATTT
*
77844 CGAGGGGATACTCCAAT-TCGGATTTTATTT
1 CGAGGGAATACTCCAATCTC--ATTTTATTT
77874 C
1 C
77875 CAAAATATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 16 0.59
29 5 0.19
30 4 0.15
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (29 bp):
CGAGGGAATACTCCAATCTCATTTTATTT
Found at i:77927 original size:107 final size:107
Alignment explanation
Indices: 77741--78049 Score: 426
Period size: 107 Copynumber: 2.9 Consensus size: 107
77731 TCCACAATCA
* * * * * * * *
77741 GGGATATTCCAACCCCGG-TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGATACTCCAA-TCCGGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAAC
* * *
77805 CCCGTTATATCCGAGGGAATACTCCAATCTCATTTTTTTCGAG
65 CCCGTTATTTTCGAGGGAATACTCCAACCTCATTTTTTTCGAG
* * *
77848 GGGATACTCCAATTCGGATTTTATTTCCAAAATATTGATTTTTCACAATCGGGGATACTCCCACC
1 GGGATACTCCAATCCGGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAACC
*
77913 CCGTTATTTTCGAGGGAATACTCTAACCTCATTTTTTTCGAG
66 CCGTTATTTTCGAGGGAATACTCCAACCTCATTTTTTTCGAG
*
77955 GGGATACTCCAATCCGGATTTTATTTCCAAAATATCGATTTTCCACAATCGGGGATACTCCAACC
1 GGGATACTCCAATCCGGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAACC
78020 CCGTTATTTTCGAAGGG-ATAC-CCTAACCTC
66 CCGTTATTTTCG-AGGGAATACTCC-AACCTC
78050 GGTTTTATTT
Statistics
Matches: 179, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
106 4 0.02
107 171 0.96
108 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (107 bp):
GGGATACTCCAATCCGGATTTTATTTCCAAAATATCGATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAGGGAATACTCCAACCTCATTTTTTTCGAG
Found at i:77976 original size:29 final size:28
Alignment explanation
Indices: 77919--77981 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
77909 CACCCCGTTA
* *
77919 TTTTCGAGGGAATACTCTAACCTCATTT
1 TTTTCGAGGGAATACTCCAACCGCATTT
* *
77947 TTTTCGAGGGGATACTCCAATCCGGATTT
1 TTTTCGAGGGAATACTCCAA-CCGCATTT
77976 TATTTC
1 T-TTTC
77982 CAAAATATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.62
29 7 0.24
30 4 0.14
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (28 bp):
TTTTCGAGGGAATACTCCAACCGCATTT
Found at i:78119 original size:79 final size:79
Alignment explanation
Indices: 77947--78108 Score: 238
Period size: 79 Copynumber: 2.1 Consensus size: 79
77937 AACCTCATTT
* * * *
77947 TTTTCGAGGGGATACTCC-AATC-CGGATTTTATTTCCAAAATATCGATTTTCCACAATCGGGGA
1 TTTTCGAAGGGATAC-CCTAACCTCGG-TTTTATTTCCAAAACATCAATTTTCCACAATCGGGGA
*
78010 TACTCCAACCCCGTTA
64 TACTCCAAACCCGTTA
*
78026 TTTTCGAAGGGATACCCTAACCTCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATA
1 TTTTCGAAGGGATACCCTAACCTCGGTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATA
78091 CTCCAAACCCGTTA
66 CTCCAAACCCGTTA
78105 TTTT
1 TTTT
78109 TTAGAGGATA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 2 0.03
79 70 0.93
80 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TTTTCGAAGGGATACCCTAACCTCGGTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATA
CTCCAAACCCGTTA
Found at i:78589 original size:19 final size:19
Alignment explanation
Indices: 78583--78777 Score: 84
Period size: 19 Copynumber: 9.9 Consensus size: 19
78573 TTTATAAACT
* *
78583 ATTTTTAAACTTTTTTTAA
1 ATTTATAAACTATTTTTAA
78602 ATTTATAAACTATTTTTTAA
1 ATTTATAAACTA-TTTTTAA
* *
78622 TTATTTATAAACTATCTGACATGAA
1 --ATTTATAAACTAT-T---TTTAA
* *
78647 ATATT-T-AATTATTTATAAA
1 AT-TTATAAACTATTT-TTAA
*
78666 CTATTTTTAAACTATTTTTAA
1 --ATTTATAAACTATTTTTAA
78687 ATTTATAAACTATTTTTTAA
1 ATTTATAAACTA-TTTTTAA
* * *
78707 TTATTTATAAACTA-TCTGAC
1 --ATTTATAAACTATTTTTAA
*
78727 A--T-GAAA-TA--TTTAA
1 ATTTATAAACTATTTTTAA
78740 TTATTTATAAACTATTTTTAA
1 --ATTTATAAACTATTTTTAA
78761 ATTTATAAACTATTTTT
1 ATTTATAAACTATTTTT
78778 TATTACTGCC
Statistics
Matches: 134, Mismatches: 18, Indels: 48
0.67 0.09 0.24
Matches are distributed among these distances:
13 2 0.01
14 2 0.01
15 4 0.03
16 1 0.01
17 1 0.01
18 4 0.03
19 43 0.32
20 19 0.14
21 13 0.10
22 37 0.28
23 3 0.02
24 2 0.01
25 3 0.02
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTATAAACTATTTTTAA
Found at i:78591 original size:11 final size:11
Alignment explanation
Indices: 78572--78721 Score: 68
Period size: 11 Copynumber: 14.2 Consensus size: 11
78562 CTCTTTTTAA
*
78572 ATTTATAAACT
1 ATTTTTAAACT
78583 ATTTTTAAACT
1 ATTTTTAAACT
*
78594 -TTTTTTAA--
1 ATTTTTAAACT
*
78602 ATTTATAAACT
1 ATTTTTAAACT
* *
78613 ATTTTTTAATT
1 ATTTTTAAACT
*
78624 ATTTATAAACT
1 ATTTTTAAACT
* *
78635 ATCTGACATGAAA-T
1 AT-T---TTTAAACT
*
78649 A--TTT-AATT
1 ATTTTTAAACT
*
78657 ATTTATAAACT
1 ATTTTTAAACT
78668 ATTTTTAAACT
1 ATTTTTAAACT
78679 ATTTTT-AA--
1 ATTTTTAAACT
*
78687 ATTTATAAACT
1 ATTTTTAAACT
* *
78698 ATTTTTTAATT
1 ATTTTTAAACT
*
78709 ATTTATAAACT
1 ATTTTTAAACT
78720 AT
1 AT
78722 CTGACATGAA
Statistics
Matches: 100, Mismatches: 25, Indels: 28
0.65 0.16 0.18
Matches are distributed among these distances:
7 2 0.02
8 8 0.08
9 8 0.08
10 11 0.11
11 65 0.65
12 1 0.01
14 2 0.02
15 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (11 bp):
ATTTTTAAACT
Found at i:78618 original size:22 final size:21
Alignment explanation
Indices: 78582--78721 Score: 96
Period size: 22 Copynumber: 6.7 Consensus size: 21
78572 ATTTATAAAC
*
78582 TATTTTTAAACT-TTTTTTAA
1 TATTTATAAACTATTTTTTAA
78602 -ATTTATAAACTATTTTTTAA
1 TATTTATAAACTATTTTTTAA
** *
78622 TTATTTATAAACTATCTGACATGAA
1 -TATTTATAAACTAT-T--TTTTAA
* * *
78647 -ATATT-T-AATTATTTATAAA
1 TAT-TTATAAACTATTTTTTAA
*
78666 CTATTTTTAAACTA-TTTTTAA
1 -TATTTATAAACTATTTTTTAA
78687 -ATTTATAAACTATTTTTTAA
1 TATTTATAAACTATTTTTTAA
78707 TTATTTATAAACTAT
1 -TATTTATAAACTAT
78722 CTGACATGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
19 25 0.26
20 17 0.18
21 9 0.09
22 35 0.37
23 4 0.04
24 2 0.02
25 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (21 bp):
TATTTATAAACTATTTTTTAA
Found at i:78657 original size:33 final size:29
Alignment explanation
Indices: 78617--78755 Score: 98
Period size: 33 Copynumber: 4.7 Consensus size: 29
78607 TAAACTATTT
78617 TTTAATTATTTATAAACTATCTGACATGAAATA
1 TTTAATTATTTATAAACTAT-T---ATGAAATA
* *
78650 TTTAATTATTTATAAACTATTTTTAAACTA
1 TTTAATTATTTATAAACTATTATGAAA-TA
78680 TTT--TTAAATTTATAAACTA-T-T----T-
1 TTTAATT--ATTTATAAACTATTATGAAATA
78702 TTTAATTATTTATAAACTATCTGACATGAAATA
1 TTTAATTATTTATAAACTAT-T---ATGAAATA
78735 TTTAATTATTTATAAACTATT
1 TTTAATTATTTATAAACTATT
78756 TTTAAATTTA
Statistics
Matches: 88, Mismatches: 2, Indels: 33
0.72 0.02 0.27
Matches are distributed among these distances:
22 15 0.17
23 1 0.01
24 3 0.03
28 4 0.05
29 5 0.06
30 17 0.19
32 3 0.03
33 40 0.45
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (29 bp):
TTTAATTATTTATAAACTATTATGAAATA
Found at i:78691 original size:30 final size:30
Alignment explanation
Indices: 78657--78717 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
78647 ATATTTAATT
*
78657 ATTTATAAACTATTTTTAAACTATTTTTAA
1 ATTTATAAACTATTTTTAAACTATTTATAA
* *
78687 ATTTATAAACTATTTTTTAATTATTTATAA
1 ATTTATAAACTATTTTTAAACTATTTATAA
78717 A
1 A
78718 CTATCTGACA
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:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTATAAACTATTTTTAAACTATTTATAA
Found at i:78715 original size:85 final size:85
Alignment explanation
Indices: 78572--78761 Score: 371
Period size: 85 Copynumber: 2.2 Consensus size: 85
78562 CTCTTTTTAA
*
78572 ATTTATAAACTATTTTTAAACTTTTTTTAAATTTATAAACTATTTTTTAATTATTTATAAACTAT
1 ATTTATAAACTATTTTTAAACTATTTTTAAATTTATAAACTATTTTTTAATTATTTATAAACTAT
78637 CTGACATGAAATATTTAATT
66 CTGACATGAAATATTTAATT
78657 ATTTATAAACTATTTTTAAACTATTTTTAAATTTATAAACTATTTTTTAATTATTTATAAACTAT
1 ATTTATAAACTATTTTTAAACTATTTTTAAATTTATAAACTATTTTTTAATTATTTATAAACTAT
78722 CTGACATGAAATATTTAATT
66 CTGACATGAAATATTTAATT
78742 ATTTATAAACTATTTTTAAA
1 ATTTATAAACTATTTTTAAA
78762 TTTATAAACT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (85 bp):
ATTTATAAACTATTTTTAAACTATTTTTAAATTTATAAACTATTTTTTAATTATTTATAAACTAT
CTGACATGAAATATTTAATT
Found at i:84186 original size:2 final size:2
Alignment explanation
Indices: 84179--84212 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
84169 TTGTAATTTA
84179 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
84213 GATTCCAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86801 original size:3 final size:3
Alignment explanation
Indices: 86793--86831 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
86783 GAAATAGATA
86793 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
86832 ATGTGTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:87380 original size:43 final size:43
Alignment explanation
Indices: 87333--87459 Score: 200
Period size: 44 Copynumber: 2.9 Consensus size: 43
87323 TTATTATATA
* * *
87333 CATTCAAGAATTTAAACACTTATCATAATTAATGAACATTATG
1 CATTCATGAATTTAAACATTTACCATAATTAATGAACATTATG
*
87376 CATTCATGAATTAGAAACATTTACCATAATTAATGAACATTATG
1 CATTCATGAATT-TAAACATTTACCATAATTAATGAACATTATG
*
87420 CATTCATGAATTTGAACATTTACCATAATTAATGAACATT
1 CATTCATGAATTTAAACATTTACCATAATTAATGAACATT
87460 TATATTTTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 37 0.48
44 40 0.52
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (43 bp):
CATTCATGAATTTAAACATTTACCATAATTAATGAACATTATG
Found at i:87416 original size:20 final size:20
Alignment explanation
Indices: 87391--87461 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 20
87381 ATGAATTAGA
87391 AACATTTACCATAATTAATG
1 AACATTTACCATAATTAATG
*
87411 AACATTATGCATTCATGAATT--TG
1 AACATT-T--A-CCAT-AATTAATG
87434 AACATTTACCATAATTAATG
1 AACATTTACCATAATTAATG
87454 AACATTTA
1 AACATTTA
87462 TATTTTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
18 4 0.10
19 3 0.07
20 17 0.40
21 1 0.02
22 1 0.02
23 9 0.21
24 3 0.07
25 4 0.10
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (20 bp):
AACATTTACCATAATTAATG
Found at i:87436 original size:23 final size:23
Alignment explanation
Indices: 87365--87439 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
87355 TCATAATTAA
87365 TGAACATTATGCATTCATGAATT
1 TGAACATTATGCATTCATGAATT
* *
87388 AGAAACATT-T--A-CCAT-AATT
1 TG-AACATTATGCATTCATGAATT
87407 AATGAACATTATGCATTCATGAATT
1 --TGAACATTATGCATTCATGAATT
87432 TGAACATT
1 TGAACATT
87440 TACCATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
19 4 0.10
20 9 0.22
21 3 0.08
23 11 0.28
24 9 0.22
25 4 0.10
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (23 bp):
TGAACATTATGCATTCATGAATT
Found at i:90330 original size:21 final size:21
Alignment explanation
Indices: 90305--90353 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
90295 TAATCAACAC
*
90305 TCAATAAATAATTAGA-TAAAT
1 TCAATAAA-AATTAAATTAAAT
90326 TCAATATAAAATTAAATTAAAT
1 TCAATA-AAAATTAAATTAAAT
90348 T-AATAA
1 TCAATAA
90354 TTGATAGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TCAATAAAAATTAAATTAAAT
Found at i:105357 original size:91 final size:91
Alignment explanation
Indices: 105152--105343 Score: 246
Period size: 91 Copynumber: 2.1 Consensus size: 91
105142 CAACTGTGAT
* *
105152 ATTTACAATCAAT-AACTTTTATGTTTTTTTACCAAAAAAAATATGATTCTCAAATATAATCCAT
1 ATTTACAATCAATCAACTTTTCT-TTTTTTTACCAAAAAAAATATGATTCTCAAATACAATCCAT
* * *
105216 GCATTAGTCTAATTCTTGCAGTTTGAC
65 GCATTAGTCTAATCCTTGCAATCTGAC
* * * *
105243 ATTTACAATCAATCAACTTTTCTTTTTTTTACCAAAAGAAATCTGATTCTCAAATACAATTCGTG
1 ATTTACAATCAATCAACTTTTCTTTTTTTTACCAAAAAAAATATGATTCTCAAATACAATCCATG
*
105308 TATTAG-CTTAATCCTT-CTAATCTGAC
66 CATTAGTC-TAATCCTTGC-AATCTGAC
105334 ATTTACAATC
1 ATTTACAATC
105344 CATGCATTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
90 2 0.02
91 78 0.89
92 8 0.09
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.41
Consensus pattern (91 bp):
ATTTACAATCAATCAACTTTTCTTTTTTTTACCAAAAAAAATATGATTCTCAAATACAATCCATG
CATTAGTCTAATCCTTGCAATCTGAC
Found at i:105453 original size:67 final size:66
Alignment explanation
Indices: 105344--105476 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 66
105334 ATTTACAATC
* * ** * *
105344 CATGCATTATTCTTATCAATTTTTTTCATATCAAAAGGAATCTAATTCTCGTAAATAATCTATGC
1 CATGCATTAGTCTTATCAACTTCGTTCATATCAAAAGAAATCTAATTC-CATAAATAATCTATGC
105409 AT
65 AT
* * * *
105411 CATGCATTAGTCTTGTCAACTTCGTTCATATCAAAAGAAATCTGATTCCATTAGTAATCTATGCA
1 CATGCATTAGTCTTATCAACTTCGTTCATATCAAAAGAAATCTAATTCCATAAATAATCTATGCA
105476 T
66 T
105477 TAATCACATT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
66 15 0.27
67 41 0.73
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (66 bp):
CATGCATTAGTCTTATCAACTTCGTTCATATCAAAAGAAATCTAATTCCATAAATAATCTATGCA
T
Found at i:105596 original size:164 final size:167
Alignment explanation
Indices: 105411--105842 Score: 518
Period size: 168 Copynumber: 2.6 Consensus size: 167
105401 ATCTATGCAT
* * *
105411 CATGCATTAGTCTTGTCAACTTCGTTCATATCA-AAAGAAATCTGATTCCATT-AGTAATCTATG
1 CATGCATTAGTCTTATCAACTTCTTTCATATTAGAAAGAAATCTGATTCCATTAAG-AATCTATG
* * * *
105474 CATTAATCACATTTATTTCAAAACAGAATCT-TGCATTAGTCCCATCTTTCAAATTTCAACCCAT
65 CATTTATCATATTTA-TTCAAAACAGAATCTATGCATTAGTCCCATCTTTCAAACTCCAACCCAT
* *
105538 GCATTAGTCTA-TTC-AATGCAGTCTGACATTTACAATC
129 ACATTAGTCTATTTCTAATGCAGTCTAACATTTACAATC
* * *
105575 TATGCATTAGTCTTATCAACTTCTTTCGTATTAGAAAG-AATTTGATTCCTATTAAGAATCTATG
1 CATGCATTAGTCTTATCAACTTCTTTCATATTAGAAAGAAATCTGATTCC-ATTAAGAATCTATG
* * * * *
105639 TATTTATCATATTTATTCAAAAATAGAATCTATGCATTAGTCTCATCTTTCGAACTCCAATCCAT
65 CATTTATCATATTTATTC-AAAACAGAATCTATGCATTAGTCCCATCTTTCAAACTCCAACCCAT
** * *
105704 ACATTAGTCTATTTCTTGTGTAGTTTAACATTTACAATC
129 ACATTAGTCTATTTCTAATGCAGTCTAACATTTACAATC
* * * * *
105743 CATGCATTAATATTATAAACTTCTTTCATATTAGAAA-AATTCTAATTCCCATTAAGAATCTATG
1 CATGCATTAGTCTTATCAACTTCTTTCATATTAGAAAGAAATCTGATT-CCATTAAGAATCTATG
* *
105807 CATTTATCATATTTATTCAAAGCAGAATCCATGCAT
65 CATTTATCATATTTATTCAAAACAGAATCTATGCAT
105843 CAGTTTCCTT
Statistics
Matches: 226, Mismatches: 33, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
164 41 0.18
165 38 0.17
166 40 0.18
167 18 0.08
168 87 0.38
169 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (167 bp):
CATGCATTAGTCTTATCAACTTCTTTCATATTAGAAAGAAATCTGATTCCATTAAGAATCTATGC
ATTTATCATATTTATTCAAAACAGAATCTATGCATTAGTCCCATCTTTCAAACTCCAACCCATAC
ATTAGTCTATTTCTAATGCAGTCTAACATTTACAATC
Found at i:105906 original size:39 final size:38
Alignment explanation
Indices: 105861--105979 Score: 121
Period size: 39 Copynumber: 3.1 Consensus size: 38
105851 TTTTTTGAAT
* * *
105861 TTTAATAAAAAATTTATATATTAATCACATCTTTTATA
1 TTTAATAAAAAATTTATACATTAATCATATCTTTTAAA
* * * * * *
105899 TTCTAATAAATAATATATACATTATTAATATATTTCAAAA
1 TT-TAATAAAAAATTTATACATTAATCATATCTTT-TAAA
* *
105939 TTTAATAAAAAATTTATACATTAGTCATATCTTTTAGA
1 TTTAATAAAAAATTTATACATTAATCATATCTTTTAAA
105977 TTT
1 TTT
105980 TAGTTAACCG
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
38 7 0.11
39 52 0.83
40 4 0.06
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (38 bp):
TTTAATAAAAAATTTATACATTAATCATATCTTTTAAA
Found at i:106206 original size:14 final size:13
Alignment explanation
Indices: 106166--106208 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
106156 ATATATATAA
106166 AAAAAATATATTTT
1 AAAAAATAT-TTTT
*
106180 GAAAAATATTTTT
1 AAAAAATATTTTT
106193 AAATAAATATTTTT
1 AAA-AAATATTTTT
106207 AA
1 AA
106209 GAATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:108017 original size:32 final size:33
Alignment explanation
Indices: 107962--108023 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
107952 TTTTAAAATT
*
107962 TTTTTAAAATATTAATAATTCATAATATATAAA
1 TTTTAAAAATATTAATAATTCATAATATATAAA
*
107995 TTTTAAAAAT-TTATATAA-TCATATTATAT
1 TTTTAAAAATATTA-ATAATTCATAATATAT
108024 TTATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (33 bp):
TTTTAAAAATATTAATAATTCATAATATATAAA
Found at i:108030 original size:32 final size:33
Alignment explanation
Indices: 107959--108031 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
107949 TATTTTTAAA
107959 ATTT-TTTT-AAAATATTAATAATTCATAATAT
1 ATTTATTTTAAAAATATTAATAATTCATAATAT
** *
107990 ATAAATTTTAAAAAT-TTATATAA-TCATATTAT
1 ATTTATTTTAAAAATATTA-ATAATTCATAATAT
108022 ATTTATTTTA
1 ATTTATTTTA
108032 TTTTTCATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
31 2 0.06
32 23 0.68
33 9 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTTATTTTAAAAATATTAATAATTCATAATAT
Found at i:115007 original size:29 final size:26
Alignment explanation
Indices: 114955--115017 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
114945 TTTTGAATGC
**
114955 AATATAAATAATAAATTAAAAATATA
1 AATATAAATAATAAAAAAAAAATATA
114981 AATATAATATAATATAAAAAAATAATATA
1 AATATAA-ATAATA-AAAAAAA-AATATA
*
115010 AATTTAAA
1 AATATAAA
115018 AATTAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 6 0.19
29 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AATATAAATAATAAAAAAAAAATATA
Found at i:115018 original size:18 final size:19
Alignment explanation
Indices: 114984--115032 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
114974 AAATATAAAT
114984 ATAATAT-AATATAAAAAA
1 ATAATATAAATATAAAAAA
*
115002 ATAATATAAAT-TTAAAAA
1 ATAATATAAATATAAAAAA
* *
115020 TTAATAAAAATAT
1 ATAATATAAATAT
115033 GACGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATATAAATATAAAAAA
Found at i:115639 original size:16 final size:16
Alignment explanation
Indices: 115604--115638 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
115594 ATAGAATCAT
115604 AAAATAAAAATTTTAA
1 AAAATAAAAATTTTAA
115620 AAAAT-AAAATTTTAA
1 AAAATAAAAATTTTAA
115635 AAAA
1 AAAA
115639 AAACTCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAAAAATTTTAA
Found at i:117730 original size:11 final size:11
Alignment explanation
Indices: 117714--117848 Score: 93
Period size: 11 Copynumber: 13.3 Consensus size: 11
117704 ATATGATTAC
117714 ATAATATAAAT
1 ATAATATAAAT
*
117725 ATAATATAAAA
1 ATAATATAAAT
117736 ATTAAT-TAAA-
1 A-TAATATAAAT
117746 AT-ATAATAAA-
1 ATAAT-ATAAAT
117756 ATAATATAAAT
1 ATAATATAAAT
117767 AT-AT-TAAAT
1 ATAATATAAAT
* *
117776 TTTATAT-AAT
1 ATAATATAAAT
117786 ATAA-AT-AAT
1 ATAATATAAAT
*
117795 -TAATATATCAAA
1 ATAATATA--AAT
117807 ATAATATAAAT
1 ATAATATAAAT
117818 AT-ATA-AAAT
1 ATAATATAAAT
117827 AT--T-TAAAT
1 ATAATATAAAT
117835 ATAATATAAAT
1 ATAATATAAAT
117846 ATA
1 ATA
117849 TACATTATAA
Statistics
Matches: 102, Mismatches: 6, Indels: 32
0.73 0.04 0.23
Matches are distributed among these distances:
8 12 0.12
9 20 0.20
10 25 0.25
11 32 0.31
12 6 0.06
13 7 0.07
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:117775 original size:51 final size:51
Alignment explanation
Indices: 117720--117846 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
117710 TTACATAATA
*
117720 TAAATATAATATAA-A-AATTAATTAAAATATAAT-AAAATAATATAAATATAT
1 TAAATATAATATAATATAAATAATT--AATAT-ATCAAAATAATATAAATATAT
* *
117771 TAAATTTTATATAATATAAATAATTAATATATCAAAATAATATAAATATAT
1 TAAATATAATATAATATAAATAATTAATATATCAAAATAATATAAATATAT
*
117822 AAAATATTTAAATATAATATAAATA
1 TAAATA--T-AATATAATATAAATA
117847 TATACATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
50 2 0.03
51 39 0.61
52 1 0.02
53 8 0.12
54 14 0.22
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (51 bp):
TAAATATAATATAATATAAATAATTAATATATCAAAATAATATAAATATAT
Found at i:117810 original size:17 final size:16
Alignment explanation
Indices: 117726--117843 Score: 73
Period size: 18 Copynumber: 6.9 Consensus size: 16
117716 AATATAAATA
117726 TAATATA-AAAATTAAT
1 TAATATATAAAA-TAAT
117742 TAAAATATAATAAAATAAT
1 T--AATAT-ATAAAATAAT
*
117761 ATAAATATATTAAAT--T
1 -T-AATATATAAAATAAT
*
117777 TTATATAATATAAATAAT
1 TAATAT-ATA-AAATAAT
117795 TAATATATCAAAATAAT
1 TAATATAT-AAAATAAT
*
117812 ATAAATATATAAAATATT
1 -T-AATATATAAAATAAT
*
117830 TAA-ATATAATATAA
1 TAATATATAAAATAA
117844 ATATATACAT
Statistics
Matches: 83, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
14 4 0.05
15 12 0.14
16 8 0.10
17 10 0.12
18 26 0.31
19 18 0.22
20 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATATAAAATAAT
Found at i:117859 original size:26 final size:27
Alignment explanation
Indices: 117717--117861 Score: 131
Period size: 28 Copynumber: 5.3 Consensus size: 27
117707 TGATTACATA
*
117717 ATATAAATATAATATAAAAATTAATTAAAAT
1 ATATAAA-ATAATATAAATA-T-ATT-AAAT
117748 ATAATAAAATAATATAAATATATTAAAT
1 AT-ATAAAATAATATAAATATATTAAAT
* *
117776 -T-TTATATAATATAAATA-ATT-AAT
1 ATATAAAATAATATAAATATATTAAAT
*
117799 ATATCAAAATAATATAAATATATAAAAT
1 ATAT-AAAATAATATAAATATATTAAAT
* *
117827 ATTTAAATATAATATAAATATA-TACAT
1 ATATAAA-ATAATATAAATATATTAAAT
117854 -TATAAAAT
1 ATATAAAAT
117862 CTAACGAAGC
Statistics
Matches: 97, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.03
24 4 0.04
25 17 0.18
26 18 0.19
27 9 0.09
28 24 0.25
29 3 0.03
30 1 0.01
31 13 0.13
32 5 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAAAATAATATAAATATATTAAAT
Found at i:118417 original size:3 final size:3
Alignment explanation
Indices: 118405--118446 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
118395 TATTTAGACG
*
118405 ATT A-T ATT ATT ATT ACT 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
118447 AAAACAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:118952 original size:3 final size:3
Alignment explanation
Indices: 118944--118996 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
118934 TTTTTATACA
118944 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
118992 ATT AT
1 ATT AT
118997 ACTGAAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:119249 original size:19 final size:19
Alignment explanation
Indices: 119212--119251 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
119202 AATAATTTTA
** *
119212 TTATTTTTATGTTTTAAAT
1 TTATTTTTACATTTAAAAT
119231 TTATTTTTACATTTAAAAT
1 TTATTTTTACATTTAAAAT
119250 TT
1 TT
119252 TTAAATCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATTTTTACATTTAAAAT
Found at i:120573 original size:14 final size:14
Alignment explanation
Indices: 120556--120609 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
120546 TAAATAAAAT
120556 TATTAATATATAAA
1 TATTAATATATAAA
120570 TATT-A-ATATAAA
1 TATTAATATATAAA
*
120582 -ATTAATATATTAA
1 TATTAATATATAAA
*
120595 TATTATTATA-AAA
1 TATTAATATATAAA
120608 TA
1 TA
120610 AATAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 11 0.32
14 12 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAATATATAAA
Found at i:120587 original size:11 final size:12
Alignment explanation
Indices: 120563--120606 Score: 54
Period size: 11 Copynumber: 3.6 Consensus size: 12
120553 AATTATTAAT
120563 ATATAAATATTA
1 ATATAAATATTA
120575 ATATAAA-ATTA
1 ATATAAATATTA
120586 ATATATTAATATTA
1 ATATA--AATATTA
*
120600 TTATAAA
1 ATATAAA
120607 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 9 0.32
13 2 0.07
14 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAATATTA
Found at i:120591 original size:25 final size:25
Alignment explanation
Indices: 120557--120613 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
120547 AAATAAAATT
120557 ATTAATATATAAATATTAATATAAA
1 ATTAATATATAAATATTAATATAAA
* *
120582 ATTAATATATTAATATTATTATAAA
1 ATTAATATATAAATATTAATATAAA
*
120607 ATAAATA
1 ATTAATA
120614 AATTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTAATATATAAATATTAATATAAA
Found at i:124484 original size:44 final size:44
Alignment explanation
Indices: 124435--124524 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
124425 AAGCAATTGC
124435 AATTGCAAACACATTACCAACAACTTCATTTCTTCCTCACATAT
1 AATTGCAAACACATTACCAACAACTTCATTTCTTCCTCACATAT
*
124479 AATTGCAAACACATTATCAACAACTTCATTTCTTCCTCACATAT
1 AATTGCAAACACATTACCAACAACTTCATTTCTTCCTCACATAT
124523 AA
1 AA
124525 CTATATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.32
Consensus pattern (44 bp):
AATTGCAAACACATTACCAACAACTTCATTTCTTCCTCACATAT
Found at i:132932 original size:52 final size:52
Alignment explanation
Indices: 132854--132982 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
132844 CGAAATATGA
* *
132854 AAATTTGCCTACATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
132906 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
132958 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
132983 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:132993 original size:52 final size:51
Alignment explanation
Indices: 132854--133002 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 51
132844 CGAAATATGA
* * *
132854 AAATTTGCCTACATGTATCGATACATTTCAT-GGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* *
132906 AAATTTGCCTGTATGTATCGATACATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
*
132958 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AACATCAGTGTATCGATACA
133003 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.97
53 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAACATCAGTGTATCGATACATCTGGGC
Found at i:133009 original size:13 final size:13
Alignment explanation
Indices: 132991--133015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132981 CAAAGATCAG
132991 TGTATCGATACAA
1 TGTATCGATACAA
133004 TGTATCGATACA
1 TGTATCGATACA
133016 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:133092 original size:19 final size:19
Alignment explanation
Indices: 133068--133132 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
133058 AGCGATACAT
133068 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
133087 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
133100 TGTATTGATACAACACTTA
1 TGTATCGATACAAAACTTA
133119 TGTATCGATACAAA
1 TGTATCGATACAAA
133133 TCGTTGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.62
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:133101 original size:32 final size:32
Alignment explanation
Indices: 133060--133130 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
133050 AGCTTCGTAG
133060 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
133092 CGATACATTGTATTGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
133124 CGATACA
1 CGATACA
133131 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:133997 original size:39 final size:39
Alignment explanation
Indices: 133943--134021 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
133933 AGTAATAAAG
* *
133943 ATGCCAATATGCTGATTCACGGCCAACGATATTGGACTT
1 ATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT
*
133982 ATGCCGATATGCTGATTCAAGGCCAACGACATTGGACTT
1 ATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT
134021 A
1 A
134022 AAGACAAGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (39 bp):
ATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT
Found at i:134215 original size:29 final size:29
Alignment explanation
Indices: 134163--134267 Score: 110
Period size: 29 Copynumber: 3.6 Consensus size: 29
134153 AAGAAGACGC
134163 CATCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CATCAAC-T-TGTGGGCTTTTGAAAGGGTTG
*
134194 CATCAACTTGTGTGCTTTTG-AA-GGTTG
1 CATCAACTTGTGGGCTTTTGAAAGGGTTG
*
134221 CCA-CTAACTTGTGGGC-TTTGAAAGGGGTG
1 -CATC-AACTTGTGGGCTTTTGAAAGGGTTG
*
134250 CTACCAACTTGTGGGCTT
1 C-ATCAACTTGTGGGCTT
134268 AAAAGGGTAC
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
27 10 0.16
28 17 0.27
29 27 0.42
30 3 0.05
31 7 0.11
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (29 bp):
CATCAACTTGTGGGCTTTTGAAAGGGTTG
Found at i:134401 original size:35 final size:35
Alignment explanation
Indices: 134281--134401 Score: 149
Period size: 36 Copynumber: 3.5 Consensus size: 35
134271 AGGGTACCAT
*
134281 AGAGTTGTGGA-TTTAAAAGGAAAAAGAGTGCCAC
1 AGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCAC
* *
134315 AGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCAC
1 AGAGTTGTGGACTTTAAAAA-GAAAAAGAGTGCCAC
* *
134351 AGAGTTGTGGGCTTTAAAAAGAAGAAAGA-TGTCAC
1 AGAGTTGTGGACTTTAAAAAGAA-AAAGAGTGCCAC
134386 -GAAGTTGTGGACTTTA
1 AG-AGTTGTGGACTTTA
134402 GAAGGTTGCC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
34 10 0.13
35 28 0.36
36 39 0.51
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.23
Consensus pattern (35 bp):
AGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCAC
Found at i:134473 original size:30 final size:30
Alignment explanation
Indices: 134418--134635 Score: 309
Period size: 30 Copynumber: 7.4 Consensus size: 30
134408 TGCCGCTGGT
* *
134418 TTGTGGGCTTTGGAAAA-GATGCCACTGAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
* *
134447 TTGTGGGCTTCGGAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
* *
134477 TTGTGGGCTTTTG---AAGGTTGCCACTAAC
1 TTGTGGGC-TTTGAAAAAGGGTGCCACTGAC
*
134505 TTGTGGGCTTTGAAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
* *
134535 TTGTGGGCTTTGAAAAAGAGTGCCACTAAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
*
134565 TTGTGGGCTTTGAAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
134595 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
134625 TTGTGGGCTTT
1 TTGTGGGCTTT
134636 TGAAGGGTGA
Statistics
Matches: 173, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
27 4 0.02
28 21 0.12
29 16 0.09
30 129 0.75
31 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (30 bp):
TTGTGGGCTTTGAAAAAGGGTGCCACTGAC
Found at i:141652 original size:476 final size:476
Alignment explanation
Indices: 140756--141697 Score: 1638
Period size: 476 Copynumber: 2.0 Consensus size: 476
140746 GAGAAACTTT
*
140756 AACCATTGCTGCGTTTTTCATTTTTGAGCTGAAGAAGATCGTTTCTCCCGAGTGTGAATCCGTTG
1 AACCATTGCTGCGTTTTTCATTTTTGAGCTGAAGAAGATCGTTTCTCCAGAGTGTGAATCCGTTG
* *
140821 AAGGAGGTTGGGCTCTTGTACTAATTATAAGCTCAAGGAATAATGAACCAAGAGAGGGGTGAATT
66 AAGGAGGTTAGGCTCTTGTACCAATTATAAGCTCAAGGAATAATGAACCAAGAGAGGGGTGAATT
*
140886 AGTTCTTTTCGAATTTTAAGTGTTTTGAAAGATTTGGTGCAAAACGATTCAAAAGATAAAAAGAT
131 AGTTCTTTTCGAATTTTAAGTGGTTTGAAAGATTTGGTGCAAAACGATTCAAAAGATAAAAAGAT
*
140951 TAAGGAAGAAAAGCTTGACACAAGAGTTTATAGAAGTTCGATCCAATCTAGTACCTACATCATCT
196 TAAGGAAGAAAAGCTTGACACAAGAGTTTACAGAAGTTCGATCCAATCTAGTACCTACATCATCT
*
141016 CTTTTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAAGAATTGATTACCTTTAAGGCA
261 CTTCTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAAGAATTGATTACCTTTAAGGCA
*
141081 AAGGTATAACCTTACAAAACCTTATCTTTTAAAAGCTAAGATAACAACCTCTCAATCTCTCCAAA
326 AAAGTATAACCTTACAAAACCTTATCTTTTAAAAGCTAAGATAACAACCTCTCAATCTCTCCAAA
* * *
141146 AATTATACCCCAAGTTCGTAAGAGATTATGACTCAAGGTTGGACACAACCTTATGTAAACAATGA
391 AACTATACCCCAAGTTCCTAAGAAATTATGACTCAAGGTTGGACACAACCTTATGTAAACAATGA
141211 AATTATACAAACAATGGACAC
456 AATTATACAAACAATGGACAC
141232 AACCATTGCTGCG-TTTTCTATTTTTGAGCTGAAGAAGATCGTTTCTCCTAG-GTGTGAATCCGT
1 AACCATTGCTGCGTTTTTC-ATTTTTGAGCTGAAGAAGATCGTTTCTCC-AGAGTGTGAATCCGT
* *
141295 TGAAGGAGGTTAGGCTC-TGATACCAATTGTAAGCTTAAGGAATAATGAACCAAGAGAGGGGTGA
64 TGAAGGAGGTTAGGCTCTTG-TACCAATTATAAGCTCAAGGAATAATGAACCAAGAGAGGGGTGA
* *
141359 ATTAGTTCTTTTTGAATTTTAAGTGGTTTGAAAGATTTGGTGCAAAATGATTCAAAAGATAAAAA
128 ATTAGTTCTTTTCGAATTTTAAGTGGTTTGAAAGATTTGGTGCAAAACGATTCAAAAGATAAAAA
* *
141424 GATTAAGGAAGAAAAGCTTGACACAAGAGTTTACAGAAGTTCGGTCCAATCTAGTACCTACGTCA
193 GATTAAGGAAGAAAAGCTTGACACAAGAGTTTACAGAAGTTCGATCCAATCTAGTACCTACATCA
141489 TCTCTTCTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAAGAATTGATTACCTTTAAG
258 TCTCTTCTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAAGAATTGATTACCTTTAAG
* *
141554 GCAAAAGTATAACCTTACAAAACTTTATCTTTTAAAGGCTAAGATAACAACCTCTCAATCTCTCC
323 GCAAAAGTATAACCTTACAAAACCTTATCTTTTAAAAGCTAAGATAACAACCTCTCAATCTCTCC
** * *
141619 AAGGACTATACTCCAAGTTCCTAAGAAATTATGACTCAAGGTTGGACACAACCTTATTTAAACAA
388 AAAAACTATACCCCAAGTTCCTAAGAAATTATGACTCAAGGTTGGACACAACCTTATGTAAACAA
141684 TGAAATTATACAAA
453 TGAAATTATACAAA
141698 TAAGAATTGG
Statistics
Matches: 441, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
475 7 0.02
476 433 0.98
477 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (476 bp):
AACCATTGCTGCGTTTTTCATTTTTGAGCTGAAGAAGATCGTTTCTCCAGAGTGTGAATCCGTTG
AAGGAGGTTAGGCTCTTGTACCAATTATAAGCTCAAGGAATAATGAACCAAGAGAGGGGTGAATT
AGTTCTTTTCGAATTTTAAGTGGTTTGAAAGATTTGGTGCAAAACGATTCAAAAGATAAAAAGAT
TAAGGAAGAAAAGCTTGACACAAGAGTTTACAGAAGTTCGATCCAATCTAGTACCTACATCATCT
CTTCTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAAGAATTGATTACCTTTAAGGCA
AAAGTATAACCTTACAAAACCTTATCTTTTAAAAGCTAAGATAACAACCTCTCAATCTCTCCAAA
AACTATACCCCAAGTTCCTAAGAAATTATGACTCAAGGTTGGACACAACCTTATGTAAACAATGA
AATTATACAAACAATGGACAC
Found at i:142103 original size:14 final size:14
Alignment explanation
Indices: 142084--142110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
142074 ACAATTTTTC
142084 ATGTATCGATACAA
1 ATGTATCGATACAA
142098 ATGTATCGATACA
1 ATGTATCGATACA
142111 TTGTCCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTATCGATACAA
Found at i:142110 original size:34 final size:34
Alignment explanation
Indices: 142063--142130 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
142053 CGTTGGGCAC
* *
142063 AATGTATCAATACAATTTTTC-ATGTATCGATACA
1 AATGTATCAATAC-ATTGTCCTATGTATCGATACA
*
142097 AATGTATCGATACATTGTCCTATGTATCGATACA
1 AATGTATCAATACATTGTCCTATGTATCGATACA
142131 TTTTACTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (34 bp):
AATGTATCAATACATTGTCCTATGTATCGATACA
Found at i:143216 original size:21 final size:22
Alignment explanation
Indices: 143188--143230 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
143178 ATTCTTAACC
143188 TTTTTAAT-AG-GTAAATATAA
1 TTTTTAATGAGAGTAAATATAA
*
143208 TTTTGTAATGAGATTAAATATAA
1 TTTT-TAATGAGAGTAAATATAA
143231 AACTATCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 2 0.11
23 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (22 bp):
TTTTTAATGAGAGTAAATATAA
Found at i:146576 original size:26 final size:23
Alignment explanation
Indices: 146522--146576 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
146512 ATAGCACTTT
* *
146522 ATAATATATTAAAAAAATGAGAG
1 ATAATATATTAAAAAAATCACAG
146545 ATTAATATAATTAAAAAAATACACATG
1 A-TAATAT-ATTAAAAAAAT-CACA-G
146572 ATAAT
1 ATAAT
146577 TTTTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 6 0.23
25 11 0.42
26 6 0.23
27 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (23 bp):
ATAATATATTAAAAAAATCACAG
Found at i:148180 original size:16 final size:16
Alignment explanation
Indices: 148155--148185 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
148145 TTGAGTTTTT
148155 AGTTTAAGTTTAAATG
1 AGTTTAAGTTTAAATG
*
148171 AGTTTGAGTTTAAAT
1 AGTTTAAGTTTAAAT
148186 TTAGATGGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
AGTTTAAGTTTAAATG
Found at i:148183 original size:22 final size:22
Alignment explanation
Indices: 148146--148232 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
148136 TCGGTTTAGT
*
148146 TGAGTTTTTAGTTTAAGTTTAAA
1 TGAG-TTTTAGTTTAAATTTAAA
* *
148169 TGAGTTTGAGTTTAAATTTAGA
1 TGAGTTTTAGTTTAAATTTAAA
* * *
148191 TGGACTTTTAATTT-AGTTTAAA
1 T-GAGTTTTAGTTTAAATTTAAA
* *
148213 TGAGTGTAAGTTTAAATTTA
1 TGAGTTTTAGTTTAAATTTA
148233 TATTTTATTA
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
21 8 0.16
22 28 0.57
23 13 0.27
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.48
Consensus pattern (22 bp):
TGAGTTTTAGTTTAAATTTAAA
Found at i:149190 original size:9 final size:9
Alignment explanation
Indices: 149176--149209 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
149166 AGCTTAATTT
*
149176 TTATTTATC
1 TTATTTATA
149185 TTATTTATA
1 TTATTTATA
149194 TTATTTATA
1 TTATTTATA
149203 TTTATTT
1 -TTATTT
149210 TTCATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (9 bp):
TTATTTATA
Found at i:149901 original size:13 final size:13
Alignment explanation
Indices: 149883--149907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149873 TATAATATTT
149883 TATAAATTTTAAA
1 TATAAATTTTAAA
149896 TATAAATTTTAA
1 TATAAATTTTAA
149908 TATTTGTACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATTTTAAA
Found at i:150249 original size:22 final size:22
Alignment explanation
Indices: 150224--150266 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
150214 TAATTTTATT
150224 TAAA-TTTAATTATAAAAATATA
1 TAAATTTTAA-TATAAAAATATA
150246 TAAATTTTAATATAAAAATAT
1 TAAATTTTAATATAAAAATAT
150267 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATTTTAATATAAAAATATA
Found at i:152224 original size:2 final size:2
Alignment explanation
Indices: 152211--152242 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
152201 AGTTTGCAAC
*
152211 AT AT AC 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
152243 CATAATTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:157081 original size:2 final size:2
Alignment explanation
Indices: 157066--157100 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
157056 TTAACAAGAG
157066 TA TA TA -A TA T- 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 TA T
157101 GCTACTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:157750 original size:13 final size:13
Alignment explanation
Indices: 157732--157756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157722 TATAATATTT
157732 TATAAATTTTAAA
1 TATAAATTTTAAA
157745 TATAAATTTTAA
1 TATAAATTTTAA
157757 CTATTTGTAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATTTTAAA
Found at i:158114 original size:22 final size:23
Alignment explanation
Indices: 158078--158121 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
158068 TAATTTTATT
* *
158078 TAAATTTTTATTATAAGAATATA
1 TAAATTTTTAATATAAAAATATA
158101 TAAA-TTTTAATATAAAAATAT
1 TAAATTTTTAATATAAAAATAT
158122 TTTTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAATTTTTAATATAAAAATATA
Found at i:158156 original size:22 final size:20
Alignment explanation
Indices: 158074--158156 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 20
158064 AAAATAATTT
158074 TATTTAAATTTTTATTATAAGAA
1 TATTTAAATTTTTA-TA-AA-AA
*
158097 TATATAAATTTTAATATAAAAA
1 TATTTAAATTTT--TATAAAAA
**
158119 TATTTTTATTAATTTATAAATAA
1 TATTTAAATT--TTTATAAA-AA
158142 TAATTTAAATTTTTA
1 T-ATTTAAATTTTTA
158157 AACTTATGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 19 0.40
23 16 0.33
24 11 0.23
25 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
TATTTAAATTTTTATAAAAA
Found at i:163100 original size:32 final size:31
Alignment explanation
Indices: 163056--163117 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
163046 ATTTAATAAT
* *
163056 TAAAAATATAAAT-TTTATTTAAATATAATTA
1 TAAAAATATAAATATTAATATAAAT-TAATTA
163087 TAAAATATATAAATATTAATATAAATTAATT
1 TAAAA-ATATAAATATTAATATAAATTAATT
163118 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAAATATAAATATTAATATAAATTAATTA
Found at i:165311 original size:3 final size:3
Alignment explanation
Indices: 165291--165332 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
165281 TTTATAAATT
* * *
165291 TTA TTA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
165333 ATTGTAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:167608 original size:96 final size:96
Alignment explanation
Indices: 167444--167633 Score: 371
Period size: 96 Copynumber: 2.0 Consensus size: 96
167434 GCATTAACGT
167444 ATGAGTACATTTTTCCACTCTAATTCCATTCTTTTGTTTATCCCATGAGTTAAGCTTAAGTGATT
1 ATGAGTACATTTTTCCACTCTAATTCCATTCTTTTGTTTATCCCATGAGTTAAGCTTAAGTGATT
167509 AAGATTTTTATTTTATAATCAACAATAAAGA
66 AAGATTTTTATTTTATAATCAACAATAAAGA
*
167540 ATGAGTACATTTTTCCACTCTAATTCCATTCTTTTGTTTATCTCATGAGTTAAGCTTAAGTGATT
1 ATGAGTACATTTTTCCACTCTAATTCCATTCTTTTGTTTATCCCATGAGTTAAGCTTAAGTGATT
167605 AAGATTTTTATTTTATAATCAACAATAAA
66 AAGATTTTTATTTTATAATCAACAATAAA
167634 ATGTTTGAAT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (96 bp):
ATGAGTACATTTTTCCACTCTAATTCCATTCTTTTGTTTATCCCATGAGTTAAGCTTAAGTGATT
AAGATTTTTATTTTATAATCAACAATAAAGA
Found at i:168088 original size:20 final size:20
Alignment explanation
Indices: 168044--168094 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
168034 ATAATCGTAC
* *
168044 TTGATATATATTATATATTA
1 TTGATAAATTTTATATATTA
*
168064 --AATAAATTTTATATATTA
1 TTGATAAATTTTATATATTA
168082 TTGATAAATTTTA
1 TTGATAAATTTTA
168095 AAATTTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
TTGATAAATTTTATATATTA
Found at i:172573 original size:2 final size:2
Alignment explanation
Indices: 172566--172618 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
172556 TATTAACCAA
* *
172566 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
172608 AT AT AT AT AT A
1 AT AT AT AT AT A
172619 ATGACAAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:173518 original size:17 final size:17
Alignment explanation
Indices: 173498--173547 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
173488 ATCCATATTA
*
173498 TATGAATGTACATAATT
1 TATGAATATACATAATT
* *
173515 TATGAACATGCATAATT
1 TATGAATATACATAATT
* *
173532 TATAAATTTACATAAT
1 TATGAATATACATAAT
173548 AATAGCCATG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (17 bp):
TATGAATATACATAATT
Found at i:174557 original size:14 final size:15
Alignment explanation
Indices: 174538--174566 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
174528 AAAAATTAAA
174538 AATTAATTTT-TATT
1 AATTAATTTTATATT
174552 AATTAATTTTATATT
1 AATTAATTTTATATT
174567 TATGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTAATTTTATATT
Found at i:174780 original size:21 final size:22
Alignment explanation
Indices: 174756--174797 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
174746 TTTTTTTTGT
*
174756 TTTTAAATTTTT-TTGTTTTAG
1 TTTTAAATTTTTCTAGTTTTAG
*
174777 TTTTAGATTTTTCTAGTTTTA
1 TTTTAAATTTTTCTAGTTTTA
174798 AATTAACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (22 bp):
TTTTAAATTTTTCTAGTTTTAG
Found at i:176153 original size:16 final size:17
Alignment explanation
Indices: 176129--176162 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
176119 CAGTATATCT
176129 TTAAGT-AAAATAAAAA
1 TTAAGTAAAAATAAAAA
*
176145 TTAATTAAAAATAAAAA
1 TTAAGTAAAAATAAAAA
176162 T
1 T
176163 AAAATACGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAGTAAAAATAAAAA
Found at i:177174 original size:18 final size:19
Alignment explanation
Indices: 177153--177240 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 19
177143 AATATAAAAA
177153 AATAATATAAAAATTAT-T
1 AATAATATAAAAATTATAT
177171 AAT-ATATCAAAAA-TATAT
1 AATAATAT-AAAAATTATAT
*
177189 AATACCAT-TAATAAAAT-TAT
1 AATA--ATATAA-AAATTATAT
*
177209 AAT-ATATAAAAATATATAA
1 AATAATATAAAAAT-TATAT
177228 ATATAATATAAAA
1 A-ATAATATAAAA
177241 TATAGATTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
17 12 0.21
18 16 0.29
19 5 0.09
20 12 0.21
21 11 0.20
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATATAAAAATTATAT
Found at i:177182 original size:17 final size:18
Alignment explanation
Indices: 177157--177244 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 18
177147 TAAAAAAATA
*
177157 ATATAAAAATTAT-TAAT
1 ATATAAAAAATATATAAT
*
177174 ATATCAAAAATATATAAT
1 ATATAAAAAATATATAAT
*
177192 ACCATTAATAAAAT-TATAAT
1 A-TA-TAA-AAAATATATAAT
177212 ATAT-AAAAATATATAAAT
1 ATATAAAAAATATAT-AAT
*
177230 ATAATATAAAATATA
1 AT-ATAAAAAATATA
177245 GATTCTCGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.09
17 15 0.26
18 11 0.19
19 4 0.07
20 17 0.30
21 5 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATAAAAAATATATAAT
Found at i:177186 original size:39 final size:37
Alignment explanation
Indices: 177143--177240 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 37
177133 AATACAATAC
177143 AATATAAAAAAATAATATAAAAATTATTAATATATCAAA
1 AATATAAAAAAATAATATAAAAATTA-TAATATAT-AAA
** *
177182 AATATATAATACCATTA-AT-AAAATTATAATATATAAA
1 AATATA-AA-AAAATAATATAAAAATTATAATATATAAA
* *
177219 AATATATAAATATAATATAAAA
1 AATATAAAAAAATAATATAAAA
177241 TATAGATTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
35 4 0.08
36 3 0.06
37 12 0.25
38 8 0.17
39 13 0.27
40 4 0.08
41 4 0.08
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (37 bp):
AATATAAAAAAATAATATAAAAATTATAATATATAAA
Found at i:177950 original size:43 final size:44
Alignment explanation
Indices: 177886--177968 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
177876 TATTATTCGA
177886 TTATAATATAATTAAACATA-TTATTATTTT-TTATTTTATTTAT
1 TTATAATATAATTAAACATATTTA-TATTTTATTATTTTATTTAT
** *
177929 TTATAATATAATTAATTATATTTATATTTTATTGTTTTAT
1 TTATAATATAATTAAACATATTTATATTTTATTATTTTAT
177969 ATTTAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 24 0.69
44 11 0.31
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (44 bp):
TTATAATATAATTAAACATATTTATATTTTATTATTTTATTTAT
Found at i:179062 original size:34 final size:34
Alignment explanation
Indices: 179015--179163 Score: 172
Period size: 34 Copynumber: 4.4 Consensus size: 34
179005 TGCCAATATT
*
179015 GATTTGGTGGTTTGTCATTGTTGACTAAATGAGA
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
* * * * * *
179049 GATTTGGTAGTTTGCAAGTGTTGATTAAATGGGT
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
* *
179083 GATTTAGTGGTTTGCCATTATTGACTAAATGAGA
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
* * * * *
179117 GATTTGGTAGTTTCCCATTGTTGATTAAATGGGT
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
179151 GATTTGGTGGTTT
1 GATTTGGTGGTTT
179164 TTACCAAACC
Statistics
Matches: 92, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 92 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (34 bp):
GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
Found at i:179095 original size:68 final size:68
Alignment explanation
Indices: 179014--179163 Score: 246
Period size: 68 Copynumber: 2.2 Consensus size: 68
179004 TTGCCAATAT
* * *
179014 TGATTTGGTGGTTTGTCATTGTTGACTAAATGAGAGATTTGGTAGTTTGCAAGTGTTGATTAAAT
1 TGATTTGGTGGTTTGCCATTATTGACTAAATGAGAGATTTGGTAGTTTCCAAGTGTTGATTAAAT
179079 GGG
66 GGG
* * *
179082 TGATTTAGTGGTTTGCCATTATTGACTAAATGAGAGATTTGGTAGTTTCCCATTGTTGATTAAAT
1 TGATTTGGTGGTTTGCCATTATTGACTAAATGAGAGATTTGGTAGTTTCCAAGTGTTGATTAAAT
179147 GGG
66 GGG
179150 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
179164 TTACCAAACC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.43
Consensus pattern (68 bp):
TGATTTGGTGGTTTGCCATTATTGACTAAATGAGAGATTTGGTAGTTTCCAAGTGTTGATTAAAT
GGG
Found at i:179489 original size:19 final size:19
Alignment explanation
Indices: 179464--179517 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
179454 GTTGTCGATG
*
179464 CACTATTCACGTATATAGA
1 CACTATTCACGTATACAGA
* *
179483 TACTATTCACGTATACAGG
1 CACTATTCACGTATACAGA
179502 CACTATTCACGTATAC
1 CACTATTCACGTATAC
179518 GGTACTGTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (19 bp):
CACTATTCACGTATACAGA
Found at i:179532 original size:18 final size:19
Alignment explanation
Indices: 179463--179532 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
179453 AGTTGTCGAT
* *
179463 GCACTATTCACGTATATAG
1 GCACTATGCACGTATACAG
** *
179482 ATACTATTCACGTATACAG
1 GCACTATGCACGTATACAG
*
179501 GCACTATTCACGTATAC-G
1 GCACTATGCACGTATACAG
* *
179519 GTACTGTGCACGTA
1 GCACTATGCACGTA
179533 AAACAGTGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 12 0.28
19 31 0.72
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (19 bp):
GCACTATGCACGTATACAG
Found at i:183619 original size:22 final size:22
Alignment explanation
Indices: 183594--183640 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
183584 GATCAAATGG
*
183594 TGATTTTGTAATTTGCCATTGT
1 TGATTTGGTAATTTGCCATTGT
**
183616 TGATTTGGTGGTTTGCCATTGT
1 TGATTTGGTAATTTGCCATTGT
183638 TGA
1 TGA
183641 CTAAATGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.51
Consensus pattern (22 bp):
TGATTTGGTAATTTGCCATTGT
Found at i:183664 original size:34 final size:34
Alignment explanation
Indices: 183617--183765 Score: 226
Period size: 34 Copynumber: 4.4 Consensus size: 34
183607 TGCCATTGTT
*
183617 GATTTGGTGGTTTGCCATTGTTGACTAAATGAGA
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGGGA
* * *
183651 GATTTGGTAGTTTGCCATTGTTGATTAAATGGGT
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGGGA
*
183685 GATTTGGTGGTTTGTCATTGTTGACTAAATGGGA
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGGGA
* * *
183719 GATTTGGTAGTTTGCCATTGTTGATTAAATGGGT
1 GATTTGGTGGTTTGCCATTGTTGACTAAATGGGA
183753 GATTTGGTGGTTT
1 GATTTGGTGGTTT
183766 TTACCAAACC
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 102 1.00
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.43
Consensus pattern (34 bp):
GATTTGGTGGTTTGCCATTGTTGACTAAATGGGA
Found at i:183668 original size:56 final size:55
Alignment explanation
Indices: 183578--183744 Score: 156
Period size: 68 Copynumber: 2.8 Consensus size: 55
183568 AAGTGGGAGA
* * *
183578 ATTGTTGA-TCAAATGGTGATTTTGTAATTTGCCATTGTTGATTTGGTGGTTTGCC
1 ATTGTTGACT-AAATGGAGATTTGGTAGTTTGCCATTGTTGATTTGGTGGTTTGCC
183633 ATTGTTGACTAAATGAGAGATTTGGTAGTTTGCCATTGTTGATTAAATGGGTGATTTGGTGGTTT
1 ATTGTTGACTAAATG-GAGATTTGGTAGTTTGCCA---TTG------T---TGATTTGGTGGTTT
*
183698 GTC
53 GCC
183701 ATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATT
1 ATTGTTGACTAAAT-GGAGATTTGGTAGTTTGCCATTGTTGATT
183745 AAATGGGTGA
Statistics
Matches: 93, Mismatches: 4, Indels: 29
0.74 0.03 0.23
Matches are distributed among these distances:
55 13 0.14
56 22 0.24
59 4 0.04
65 4 0.04
68 49 0.53
69 1 0.01
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (55 bp):
ATTGTTGACTAAATGGAGATTTGGTAGTTTGCCATTGTTGATTTGGTGGTTTGCC
Found at i:183725 original size:68 final size:68
Alignment explanation
Indices: 183616--183765 Score: 282
Period size: 68 Copynumber: 2.2 Consensus size: 68
183606 TTGCCATTGT
183616 TGATTTGGTGGTTTGCCATTGTTGACTAAATGAGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
1 TGATTTGGTGGTTTGCCATTGTTGACTAAATGAGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
183681 GGG
66 GGG
* *
183684 TGATTTGGTGGTTTGTCATTGTTGACTAAATGGGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
1 TGATTTGGTGGTTTGCCATTGTTGACTAAATGAGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
183749 GGG
66 GGG
183752 TGATTTGGTGGTTT
1 TGATTTGGTGGTTT
183766 TTACCAAACC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 80 1.00
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.43
Consensus pattern (68 bp):
TGATTTGGTGGTTTGCCATTGTTGACTAAATGAGAGATTTGGTAGTTTGCCATTGTTGATTAAAT
GGG
Found at i:186359 original size:24 final size:23
Alignment explanation
Indices: 186339--186388 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
186329 TCATATTTAG
186339 TATATTATTTTTATATTTATTAAA
1 TATATTA-TTTTATATTTATTAAA
*
186363 TATGTTATTTTATATTT-TTATAA
1 TATATTATTTTATATTTATTA-AA
186386 TAT
1 TAT
186389 TTTAGTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 15 0.62
24 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTATTTTATATTTATTAAA
Found at i:187352 original size:51 final size:51
Alignment explanation
Indices: 187294--187390 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
187284 AAATATATTT
*
187294 TAAATTAAAA-ATTGAAATCAGATGTAATTTTAAATT-AAAAAATGCAGAGTG
1 TAAATTAAAATA-TGAAATAAGATGT-ATTTTAAATTCAAAAAATGCAGAGTG
**
187345 TAAATTAAAATATGAGGTAAGATGTATTTTAAATTCAAAAAATGCA
1 TAAATTAAAATATGAAATAAGATGTATTTTAAATTCAAAAAATGCA
187391 AGCGTATAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
50 10 0.24
51 30 0.73
52 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (51 bp):
TAAATTAAAATATGAAATAAGATGTATTTTAAATTCAAAAAATGCAGAGTG
Found at i:193786 original size:18 final size:18
Alignment explanation
Indices: 193760--193820 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
193750 AAAATTATAT
193760 AAAAA-TTTAAATTTAAA
1 AAAAATTTTAAATTTAAA
*
193777 AAATATTTTAAATTTAAA
1 AAAAATTTTAAATTTAAA
**
193795 AAAAAAATTAAATTTAAA
1 AAAAATTTTAAATTTAAA
193813 AAAAATTT
1 AAAAATTT
193821 GATATCCCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 4 0.11
18 33 0.89
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTTTAAATTTAAA
Found at i:194058 original size:28 final size:28
Alignment explanation
Indices: 194001--194058 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
193991 ATTTTAAAAA
*
194001 TTTTAATAAATAATATATTAATTATTAT
1 TTTTAATAAATAATATATTAATTATAAT
194029 TTTTAATAAA-AATAATATTTAATTA-AAT
1 TTTTAATAAATAAT-ATA-TTAATTATAAT
194057 TT
1 TT
194059 AAAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 3 0.11
28 17 0.63
29 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTAATAAATAATATATTAATTATAAT
Found at i:194116 original size:53 final size:54
Alignment explanation
Indices: 194059--194185 Score: 134
Period size: 53 Copynumber: 2.3 Consensus size: 54
194049 AATTAAATTT
* * *
194059 AAAAAATTTATATTAACAAATTAAAATA-TTAATTATTA-TATTTTTAA-AAAATA
1 AAAAAATTTAAATTAA-AAAATAAAAAAGTT-ATTATTATTATTTTTAATAAAATA
*
194112 AAAAAATTTAAATTAAAAAATAAAAAAGGTTTTTATTATTATTTTTAATAAAATA
1 AAAAAATTTAAATTAAAAAATAAAAAA-GTTATTATTATTATTTTTAATAAAATA
*
194167 CAAAATAATATTTAATTAA
1 -AAAA-AAT-TTAAATTAA
194186 GTTTAAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
52 9 0.15
53 21 0.34
54 11 0.18
55 6 0.10
56 4 0.06
57 3 0.05
58 8 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (54 bp):
AAAAAATTTAAATTAAAAAATAAAAAAGTTATTATTATTATTTTTAATAAAATA
Found at i:195256 original size:19 final size:19
Alignment explanation
Indices: 195232--195281 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
195222 ATTGATACAA
*
195232 TGTATCGATGCATAAGTGT
1 TGTATCGATACATAAGTGT
*
195251 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
195270 TGTATCGATACA
1 TGTATCGATACA
195282 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:195351 original size:13 final size:13
Alignment explanation
Indices: 195333--195372 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
195323 CATTACTCAA
195333 TGTATCGATACAT
1 TGTATCGATACAT
195346 TGTATCGATACAT
1 TGTATCGATACAT
195359 TGTATCGATACAT
1 TGTATCGATACAT
195372 T
1 T
195373 TGATCTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:201327 original size:68 final size:70
Alignment explanation
Indices: 201157--201347 Score: 219
Period size: 68 Copynumber: 2.7 Consensus size: 70
201147 TTTTAAGTTT
* * *
201157 TATAATCAAATTAAAAGATAAATTTTAAATTTTTATAAATAAAATTAAATTACACCATTAAAAAT
1 TATAATCAAA-TAAAAAATAAA-TTTAAATTTTTACAAATAAAA-TAAAGTACACCA-TAAAAAT
*
201222 TTAAAATTA
62 TTAAAACTA
*
201231 TATCATATCTAATAAAAAATATAA-TTAAATTTTTACAAATCAAAATAAAGTAC-CC-TAAAAA-
1 TAT-A-ATCAAATAAAAAATA-AATTTAAATTTTTACAAAT-AAAATAAAGTACACCATAAAAAT
*
201292 TTAAACCTA
62 TTAAAACTA
201301 TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATAGAAATAAA
1 TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATA-AAATAAA
201348 TAATAACTCT
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
67 3 0.03
68 37 0.36
69 1 0.01
70 10 0.10
71 6 0.06
73 2 0.02
74 25 0.24
75 13 0.12
76 7 0.07
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (70 bp):
TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATAAAATAAAGTACACCATAAAAATTTAA
AACTA
Found at i:201719 original size:22 final size:21
Alignment explanation
Indices: 201694--201780 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 21
201684 TTAAACTCAC
201694 ATAATTAAATAAAATAAATTTA
1 ATAATTAAATAAAATAAA-TTA
201716 ATAA--AAATAAAATAAATTA
1 ATAATTAAATAAAATAAATTA
* *
201735 ATATTATAAATAAAAATAAA-TC
1 ATAAT-TAAAT-AAAATAAATTA
*
201757 ATACATTAAAATAAAATAATTTA
1 ATA-ATT-AAATAAAATAAATTA
201780 A
1 A
201781 ACTATCTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
19 6 0.11
20 12 0.23
22 20 0.38
23 15 0.28
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATTAAATAAAATAAATTA
Found at i:201746 original size:28 final size:25
Alignment explanation
Indices: 201700--201754 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 25
201690 TCACATAATT
201700 AAATAAAATAAATTTAATAAAAATA
1 AAATAAAATAAATTTAATAAAAATA
*
201725 AAATAAATTAATATTATAAATAAAAATA
1 AAATAAAATAA-ATT-T-AATAAAAATA
201753 AA
1 AA
201755 TCATACATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.38
26 3 0.12
27 1 0.04
28 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
AAATAAAATAAATTTAATAAAAATA
Done.