Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009511.1 Corchorus capsularis cultivar CVL-1 contig09532, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 148810
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:9224 original size:60 final size:60
Alignment explanation
Indices: 9130--9292 Score: 222
Period size: 60 Copynumber: 2.7 Consensus size: 60
9120 GCTAATTGCT
* * ** *
9130 CAAATAAGGGCCTAACATTTGTC-AAAATATTCAAATAAGGGTCTC-ATCTTTTAATTTGGC
1 CAAATAAGGGCCTAAC-GTTATCGAAAATGCTCAAATAAGGG-CCCGATCTTTTAATTTGGC
* *
9190 CAAATAAGGGTCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTGATTTGGC
1 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
*
9250 CAAATAAGGGCCTAACGTTATTGAAAATGCTCAAATAAGGGCC
1 CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCC
9293 TAACGTTATC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
59 6 0.07
60 86 0.93
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (60 bp):
CAAATAAGGGCCTAACGTTATCGAAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
Found at i:9228 original size:31 final size:31
Alignment explanation
Indices: 9190--9321 Score: 146
Period size: 31 Copynumber: 4.3 Consensus size: 31
9180 TTAATTTGGC
*
9190 CAAATAAGGGTCTAACGTTATCGAAAATGCT
1 CAAATAAGGGCCTAACGTTATCGAAAATGCT
* * * **
9221 CAAATAAGGGCCCGATC-TT-TTG-ATTTGGC-
1 CAAATAAGGG-CCTAACGTTATCGAAAAT-GCT
*
9250 CAAATAAGGGCCTAACGTTATTGAAAATGCT
1 CAAATAAGGGCCTAACGTTATCGAAAATGCT
*
9281 CAAATAAGGGCCTAACGTTATCAAAAATGCT
1 CAAATAAGGGCCTAACGTTATCGAAAATGCT
9312 CAAATAAGGG
1 CAAATAAGGG
9322 TCTGGTTTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.05
29 14 0.17
30 9 0.11
31 53 0.64
32 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
CAAATAAGGGCCTAACGTTATCGAAAATGCT
Found at i:9386 original size:31 final size:31
Alignment explanation
Indices: 9351--9456 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
9341 ACGTATGAGA
9351 TAGGCCCTTATTTGAGCATTTTGGCAAACGT
1 TAGGCCCTTATTTGAGCATTTTGGCAAACGT
** *
9382 TAGGCCCTTATTTG-GCCAAATT--CAAA-GAC
1 TAGGCCCTTATTTGAG-CATTTTGGCAAACG-T
** *
9411 CGGGCCCTTATTTGAGCATTTTGGCAAACAT
1 TAGGCCCTTATTTGAGCATTTTGGCAAACGT
*
9442 TAGGTCCTTATTTGA
1 TAGGCCCTTATTTGA
9457 TCAAATTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
28 1 0.02
29 20 0.35
30 2 0.04
31 34 0.60
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (31 bp):
TAGGCCCTTATTTGAGCATTTTGGCAAACGT
Found at i:9426 original size:60 final size:60
Alignment explanation
Indices: 9352--9514 Score: 218
Period size: 60 Copynumber: 2.7 Consensus size: 60
9342 CGTATGAGAT
* *
9352 AGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTCAAAGACC
1 AGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGACCAAATTAAAAGACC
* * * * *
9412 GGGCCCTTATTTGAGCATTTTGGCAAACATTAGGTCCTTATTTGATCAAATTAAAAGATC
1 AGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGACCAAATTAAAAGACC
* * * **
9472 AGGCCTTTGTTTGAACATTTTGATAAACGTTAGGCCCTTATTT
1 AGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTT
9515 AAGCAATTAG
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 88 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (60 bp):
AGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGACCAAATTAAAAGACC
Found at i:12959 original size:1 final size:1
Alignment explanation
Indices: 12953--12977 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
12943 AAGGAAAGGC
12953 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
12978 AATAGAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:28386 original size:17 final size:18
Alignment explanation
Indices: 28351--28386 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
28341 CTGACGTGGC
28351 ATGCCACGTGTACCAAAA
1 ATGCCACGTGTACCAAAA
28369 ATGCCACGTGTA-CAAAA
1 ATGCCACGTGTACCAAAA
28386 A
1 A
28387 GGACACATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (18 bp):
ATGCCACGTGTACCAAAA
Found at i:36296 original size:29 final size:30
Alignment explanation
Indices: 36226--36296 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
36216 TAAAGCCAAA
*
36226 AAAAATTAGTAAACTTAATTGGGCAATCTGCC
1 AAAAATTA--AAACTTAATTGGGCAATATGCC
* *
36258 AAAAA-AAAAACTTAATTGGGGAATATG-C
1 AAAAATTAAAACTTAATTGGGCAATATGCC
36286 AAAAATTAAAA
1 AAAAATTAAAA
36297 TAGGAGGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 6 0.18
29 22 0.65
31 1 0.03
32 5 0.15
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (30 bp):
AAAAATTAAAACTTAATTGGGCAATATGCC
Found at i:44633 original size:107 final size:107
Alignment explanation
Indices: 44406--44777 Score: 554
Period size: 107 Copynumber: 3.5 Consensus size: 107
44396 AATTTTTCTG
* * ** * * *
44406 ACCCTTAAAATTAAATTTTAATTTTAATTT-GGGCTAAACTTAGTG-AATTAATTATATATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
* * *
44469 TTTCTAAAACCCTATAACAAT--ATTATTAATTATGGAATTT
66 TTTCTAAAATCCTATAACAATAAATTATTAATTTTGAAATTT
*
44509 ACCTTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
*
44574 TTTCTAAAATTCTATAACAATAAATTATTAATTTTGAAATTT
66 TTTCTAAAATCCTATAACAATAAATTATTAATTTTGAAATTT
44616 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
*
44681 TTTCTAAAATCCTATAACAATAAATTACTATTGATTTTGAAATTT
66 TTTCTAAAATCCTATAACAATAAA-T--TATTAATTTTGAAATTT
* *
44726 ACCATTAAAATAAAAATAAAATTTTAATTTGGGGCTAAAATTAGTGAAATTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
44778 AGGCTAAACT
Statistics
Matches: 245, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
103 25 0.10
104 15 0.06
105 34 0.14
107 104 0.42
108 1 0.00
110 66 0.27
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (107 bp):
ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
TTTCTAAAATCCTATAACAATAAATTATTAATTTTGAAATTT
Found at i:53431 original size:21 final size:21
Alignment explanation
Indices: 53397--53437 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
53387 TACCCATATT
*
53397 ATAAAAGGGAC-AAAATCCAC
1 ATAAAAGAGACAAAAATCCAC
53417 ATAAAATGAGACAAAAATCCA
1 ATAAAA-GAGACAAAAATCCA
53438 AATACATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (21 bp):
ATAAAAGAGACAAAAATCCAC
Found at i:56549 original size:33 final size:34
Alignment explanation
Indices: 56482--56551 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
56472 CTTTGAAATT
**
56482 AACAGTAGAAATTAATTTTGGCCAAAAAACAAAAA
1 AACAGTAGAAATTAA-TTTGGAAAAAAAACAAAAA
*
56517 AACAGTAGAAATTAA-TTGGAAAAAAAAGAAAAA
1 AACAGTAGAAATTAATTTGGAAAAAAAACAAAAA
56550 AA
1 AA
56552 AAGAAATGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 17 0.53
35 15 0.47
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (34 bp):
AACAGTAGAAATTAATTTGGAAAAAAAACAAAAA
Found at i:56553 original size:35 final size:34
Alignment explanation
Indices: 56482--56552 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
56472 CTTTGAAATT
** *
56482 AACAGTAGAAATTAATTTTGGCCAAAAAACAAAAA
1 AACAGTAGAAATTAA-TTTGGAAAAAAAAAAAAAA
56517 AACAGTAGAAATTAA-TTGGAAAAAAAAGAAAAAA
1 AACAGTAGAAATTAATTTGGAAAAAAAA-AAAAAA
56551 AA
1 AA
56553 AGAAATGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 10 0.31
34 7 0.22
35 15 0.47
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (34 bp):
AACAGTAGAAATTAATTTGGAAAAAAAAAAAAAA
Found at i:57778 original size:11 final size:11
Alignment explanation
Indices: 57762--57787 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57752 TTGGGGAGTG
57762 TTTTTATTTTA
1 TTTTTATTTTA
57773 TTTTTATTTTA
1 TTTTTATTTTA
57784 TTTT
1 TTTT
57788 AATTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:59798 original size:67 final size:67
Alignment explanation
Indices: 59690--59824 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
59680 GTAGATGCAG
59690 TTATCAAAATCATTTGTTGGCATGAAGGCTGTTGTTTTGTTGTGCTCCTTTTCATGGGATGGCTA
1 TTATCAAAATCATTTGTTGGCATGAAGGCTGTTGTTTTGTTGTGCTCCTTTTCATGGGATGGCTA
59755 GA
66 GA
59757 TTATCAAAATCATTTGTTGGCATGAAGGCTGTTGTTTTGTTGTGCTCCTTTTCATGGGATGGCTA
1 TTATCAAAATCATTTGTTGGCATGAAGGCTGTTGTTTTGTTGTGCTCCTTTTCATGGGATGGCTA
59822 GA
66 GA
59824 T
1 T
59825 AAGCATTATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.42
Consensus pattern (67 bp):
TTATCAAAATCATTTGTTGGCATGAAGGCTGTTGTTTTGTTGTGCTCCTTTTCATGGGATGGCTA
GA
Found at i:63384 original size:52 final size:51
Alignment explanation
Indices: 63306--63413 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 51
63296 GAGGTTGATA
63306 AGTTCATTGCACCGATTCTCAAAACTAGGCAAATCATAAGCAGCATAGTTT
1 AGTTCATTGCACCGATTCTCAAAACTAGGCAAATCATAAGCAGCATAGTTT
*
63357 GAGTTCATTGCACCGATTCTCTAAACTAGGCAAATCATAAGCAGCATAGTTT
1 -AGTTCATTGCACCGATTCTCAAAACTAGGCAAATCATAAGCAGCATAGTTT
63409 AGTTC
1 AGTTC
63414 GACAAAAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 5 0.09
52 50 0.91
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (51 bp):
AGTTCATTGCACCGATTCTCAAAACTAGGCAAATCATAAGCAGCATAGTTT
Found at i:69855 original size:40 final size:41
Alignment explanation
Indices: 69770--69857 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 41
69760 GAAATACAAA
* **
69770 TTTTTTTAGACGATGTCAAACCAAACCTTACATTTATTTAT
1 TTTTTTTAGACGATATCAAACCAAACCTTACATTTATCAAT
*
69811 TTTTTTT-GACGATATCAAACCAAACCTTACA-TTGTCAAT
1 TTTTTTTAGACGATATCAAACCAAACCTTACATTTATCAAT
69850 GTTTTTTT
1 -TTTTTTT
69858 TTTTTGATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 5 0.12
40 30 0.71
41 7 0.17
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (41 bp):
TTTTTTTAGACGATATCAAACCAAACCTTACATTTATCAAT
Found at i:70744 original size:1 final size:1
Alignment explanation
Indices: 70738--70771 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
70728 ATTGATAAAG
70738 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
70772 CTTTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:73384 original size:1 final size:1
Alignment explanation
Indices: 73378--73409 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
73368 ATCTGCTGGC
*
73378 TTTTTTTTTTTTTTTTTTTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
73410 ATTTAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:89174 original size:2 final size:2
Alignment explanation
Indices: 89167--89191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89157 ATTTTTGGGA
89167 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 A
89192 GGTTTTTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91635 original size:13 final size:13
Alignment explanation
Indices: 91617--91647 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
91607 GATGAACGAA
*
91617 TTTTTCCTTTTTC
1 TTTTTCCTTTTCC
91630 TTTTTCCTTTTCC
1 TTTTTCCTTTTCC
91643 TTTTT
1 TTTTT
91648 AGATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCCTTTTCC
Found at i:102542 original size:26 final size:26
Alignment explanation
Indices: 102506--102559 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
102496 TACCGTAAAG
*
102506 TTATGGGCTCAAATAGTTTAATTAGT
1 TTATGGACTCAAATAGTTTAATTAGT
102532 TTATGGACTCAAATAGTTTAATTAGT
1 TTATGGACTCAAATAGTTTAATTAGT
102558 TT
1 TT
102560 GTTTATTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (26 bp):
TTATGGACTCAAATAGTTTAATTAGT
Found at i:114953 original size:9 final size:9
Alignment explanation
Indices: 114909--114953 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
114899 ATAGTCATAG
*
114909 TCATATTCA
1 TCATAATCA
*
114918 TCATAGTCA
1 TCATAATCA
*
114927 TCATAACCA
1 TCATAATCA
*
114936 TCATCATCA
1 TCATAATCA
114945 TCATAATCA
1 TCATAATCA
114954 ACTCCATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (9 bp):
TCATAATCA
Found at i:116021 original size:45 final size:45
Alignment explanation
Indices: 115935--116022 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
115925 TTTCCTTCTC
** * * *
115935 TTTTGCCAATCTACGCTTGAACTTTTTTTTTCTTTTTTTTTTTTT
1 TTTTGCCAATCTACGCTTGAACTTACTGTTACTTTTCTTTTTTTT
115980 TTTTGCCAATCTACGCTTGAACTTCACTGTTAC-TTTCTTTTTT
1 TTTTGCCAATCTACGCTTGAACTT-ACTGTTACTTTTCTTTTTT
116023 AACAGTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.14, C:0.19, G:0.08, T:0.59
Consensus pattern (45 bp):
TTTTGCCAATCTACGCTTGAACTTACTGTTACTTTTCTTTTTTTT
Found at i:117861 original size:29 final size:29
Alignment explanation
Indices: 117822--117901 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
117812 ACACAAAACG
117822 GTCAAATAAGCCCCTGAACTCTAATTGCA
1 GTCAAATAAGCCCCTGAACTCTAATTGCA
117851 GTCAAATAAGCCCCTGAACTCTAATTGCA
1 GTCAAATAAGCCCCTGAACTCTAATTGCA
*
117880 GTCAAATAAGCCCTTGAACTCT
1 GTCAAATAAGCCCCTGAACTCT
117902 TTAAAAAGGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (29 bp):
GTCAAATAAGCCCCTGAACTCTAATTGCA
Found at i:122124 original size:9 final size:9
Alignment explanation
Indices: 122110--122140 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
122100 CGGTTTAACC
122110 ACCGGTTGA
1 ACCGGTTGA
122119 ACCGGTTGA
1 ACCGGTTGA
*
122128 ACCGGTTAA
1 ACCGGTTGA
122137 ACCG
1 ACCG
122141 TATACCGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (9 bp):
ACCGGTTGA
Found at i:128927 original size:21 final size:22
Alignment explanation
Indices: 128894--128938 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
128884 AAAACAAAAA
*
128894 CAAAAAACTACCCTAATTATCAC
1 CAAAAAAC-ACCCTAATTACCAC
128917 CAAAAAA-ACCCTAATTACCAC
1 CAAAAAACACCCTAATTACCAC
128938 C
1 C
128939 CCCGCCCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (22 bp):
CAAAAAACACCCTAATTACCAC
Found at i:135179 original size:15 final size:15
Alignment explanation
Indices: 135159--135345 Score: 133
Period size: 15 Copynumber: 11.9 Consensus size: 15
135149 GTTGTGCGTT
135159 AGGGGAGACTCCCTC
1 AGGGGAGACTCCCTC
*
135174 AGGGGAAACTCCCTC
1 AGGGGAGACTCCCTC
*
135189 AGGGGAGACTTCCTTGC
1 AGGGGAGAC-TCCCT-C
*** *
135206 TACACGAGACTCCCTT
1 -AGGGGAGACTCCCTC
*
135222 AAGGGAGAC-CCCTTGC
1 AGGGGAGACTCCC-T-C
* * *
135238 TATGCGAGACTCCTTC
1 -AGGGGAGACTCCCTC
135254 AGGGGAGACTCCCTC
1 AGGGGAGACTCCCTC
135269 AGGGGAGACTCCCTTGC
1 AGGGGAGACTCCC-T-C
* * *
135286 TATGCGATACTCCCTC
1 -AGGGGAGACTCCCTC
* * *
135302 AAGGGAGACTTCGTC
1 AGGGGAGACTCCCTC
135317 AGGGGAGACTCCCTC
1 AGGGGAGACTCCCTC
*
135332 AAGGGAGACTCCCT
1 AGGGGAGACTCCCT
135346 TATTACGCAA
Statistics
Matches: 132, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
14 3 0.02
15 89 0.67
16 7 0.05
17 15 0.11
18 18 0.14
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (15 bp):
AGGGGAGACTCCCTC
Found at i:135246 original size:32 final size:33
Alignment explanation
Indices: 135181--135267 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 33
135171 CTCAGGGGAA
* *
135181 ACTCCCTCAGGGGAGACTTCCTTGCTACACGAG
1 ACTCCCTTAGGGGAGACTCCCTTGCTACACGAG
* **
135214 ACTCCCTTAAGGGAGAC-CCCTTGCTATGCGAG
1 ACTCCCTTAGGGGAGACTCCCTTGCTACACGAG
135246 ACT-CCTTCAGGGGAGACTCCCT
1 ACTCCCTT-AGGGGAGACTCCCT
135268 CAGGGGAGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 4 0.09
32 23 0.50
33 19 0.41
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.22
Consensus pattern (33 bp):
ACTCCCTTAGGGGAGACTCCCTTGCTACACGAG
Found at i:135298 original size:48 final size:48
Alignment explanation
Indices: 135211--135330 Score: 170
Period size: 48 Copynumber: 2.5 Consensus size: 48
135201 CTTGCTACAC
* * * *
135211 GAGACTCCCTTAAGGGAGAC-CCCTTGCTATGCGAGACTCCTTCAGGG
1 GAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGAGACTCCCTCAAGG
*
135258 GAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGATACTCCCTCAAGG
1 GAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGAGACTCCCTCAAGG
* *
135306 GAGACTTCGTCAGGGGAGACTCCCT
1 GAGACTCCCTCAGGGGAGACTCCCT
135331 CAAGGGAGAC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 18 0.28
48 47 0.72
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (48 bp):
GAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGAGACTCCCTCAAGG
Found at i:135298 original size:80 final size:80
Alignment explanation
Indices: 135163--135310 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 80
135153 TGCGTTAGGG
* *
135163 GAGACTCCCTCAGGGGAAACTCCCTCAGGGGAGACTTCCTTGCTACACGAGACTCCCTTAAGGGA
1 GAGACTCCCTCAGGGGAAACTCCCTCAGGGGAGACTCCCTTGCTACACGAGACTCCCTCAAGGGA
135228 GACCCCTTGCTATGC
66 GACCCCTTGCTATGC
* * ** *
135243 GAGACTCCTTCAGGGGAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGATACTCCCTCAAGGGA
1 GAGACTCCCTCAGGGGAAACTCCCTCAGGGGAGACTCCCTTGCTACACGAGACTCCCTCAAGGGA
135308 GAC
66 GAC
135311 TTCGTCAGGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.20
Consensus pattern (80 bp):
GAGACTCCCTCAGGGGAAACTCCCTCAGGGGAGACTCCCTTGCTACACGAGACTCCCTCAAGGGA
GACCCCTTGCTATGC
Found at i:135361 original size:63 final size:63
Alignment explanation
Indices: 135243--135375 Score: 178
Period size: 63 Copynumber: 2.1 Consensus size: 63
135233 CTTGCTATGC
* * * * * *
135243 GAGACTCCTTCAGGGGAGACTCCCTCAGGGGAGACTCCCTTGCTATGCGATACTCCCTCA-AGG
1 GAGACTCCGTCAGGGGAGACTCCCTCAAGGGAGACTCCCTTACTACGCAAGACTCCCTCAGA-G
* *
135306 GAGACTTCGTCAGGGGAGACTCCCTCAAGGGAGACTCCCTTATTACGCAAGACTCCCTCAGAG
1 GAGACTCCGTCAGGGGAGACTCCCTCAAGGGAGACTCCCTTACTACGCAAGACTCCCTCAGAG
135369 GAGACTC
1 GAGACTC
135376 TCTTACTACG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
63 59 0.98
64 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (63 bp):
GAGACTCCGTCAGGGGAGACTCCCTCAAGGGAGACTCCCTTACTACGCAAGACTCCCTCAGAG
Found at i:135364 original size:33 final size:33
Alignment explanation
Indices: 135322--135385 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
135312 TCGTCAGGGG
*
135322 AGACTCCCTCA-AGGGAGACTCCCTTATTACGCA
1 AGACTCCCTCAGA-GGAGACTCCCTTACTACGCA
*
135355 AGACTCCCTCAGAGGAGACTCTCTTACTACG
1 AGACTCCCTCAGAGGAGACTCCCTTACTACG
135386 TGCTAGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (33 bp):
AGACTCCCTCAGAGGAGACTCCCTTACTACGCA
Found at i:135375 original size:15 final size:15
Alignment explanation
Indices: 135243--135375 Score: 65
Period size: 15 Copynumber: 8.5 Consensus size: 15
135233 CTTGCTATGC
* *
135243 GAGACTCCTTCAGGG
1 GAGACTCCCTCAGAG
*
135258 GAGACTCCCTCAGGG
1 GAGACTCCCTCAGAG
*
135273 GAGACTCCCTTGCTATG-C
1 GAGACTCCC-T-C-A-GAG
*
135291 GATACTCCCTCA-AGG
1 GAGACTCCCTCAGA-G
* * *
135306 GAGACTTCGTCAGGG
1 GAGACTCCCTCAGAG
135321 GAGACTCCCTCA-AGG
1 GAGACTCCCTCAGA-G
* *
135336 GAGACTCCCTTATTACG
1 GAGACTCCCTCA-GA-G
*
135353 CAAGACTCCCTCAGAG
1 -GAGACTCCCTCAGAG
135369 GAGACTC
1 GAGACTC
135376 TCTTACTACG
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
15 62 0.69
16 3 0.03
17 5 0.06
18 19 0.21
19 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (15 bp):
GAGACTCCCTCAGAG
Found at i:135693 original size:12 final size:12
Alignment explanation
Indices: 135657--135711 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
135647 TTAATACAGG
*
135657 TATCGACAGATA
1 TATCGACGGATA
* *
135669 TGTCGAACTGATA
1 TATCG-ACGGATA
135682 TATCGACGGATA
1 TATCGACGGATA
*
135694 TATCGATGGATA
1 TATCGACGGATA
135706 TATCGA
1 TATCGA
135712 GGTATCGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 27 0.73
13 10 0.27
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (12 bp):
TATCGACGGATA
Found at i:135693 original size:25 final size:24
Alignment explanation
Indices: 135657--135711 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
135647 TTAATACAGG
*
135657 TATCGACAGATATGTCGAACT-GATA
1 TATCGACAGATATATCG-A-TGGATA
*
135682 TATCGACGGATATATCGATGGATA
1 TATCGACAGATATATCGATGGATA
135706 TATCGA
1 TATCGA
135712 GGTATCGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 11 0.41
25 15 0.56
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (24 bp):
TATCGACAGATATATCGATGGATA
Found at i:136799 original size:3 final size:3
Alignment explanation
Indices: 136791--136820 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
136781 TCATTTCCCC
136791 CAT CAT CAT CAT CAT CAT CAT CAT CA- CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
136821 TTCTGTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:137298 original size:12 final size:12
Alignment explanation
Indices: 137281--137319 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
137271 TTACAGATAT
137281 CGGATATATCGA
1 CGGATATATCGA
137293 CGGATATATCGA
1 CGGATATATCGA
137305 -GG---TATCGA
1 CGGATATATCGA
137313 CGGATAT
1 CGGATAT
137320 TTAATTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
11 2 0.09
12 13 0.57
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (12 bp):
CGGATATATCGA
Found at i:137625 original size:46 final size:46
Alignment explanation
Indices: 137547--137635 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
137537 TGTTCCCCAA
* * * **
137547 CTCTTACGGGGAGGCTTACCCAGCTTTTGCGCGGAGCACTCTCTTG
1 CTCTCACGCGGAGGCTCACCCAGCTCCTGCGCGGAGCACTCTCTTG
* *
137593 CTCTCACGCGGAGGCTCACCTAGCTCCTGCGCGGAGCGCTCTC
1 CTCTCACGCGGAGGCTCACCCAGCTCCTGCGCGGAGCACTCTC
137636 CAAGAAGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.12, C:0.36, G:0.28, T:0.24
Consensus pattern (46 bp):
CTCTCACGCGGAGGCTCACCCAGCTCCTGCGCGGAGCACTCTCTTG
Found at i:138049 original size:15 final size:16
Alignment explanation
Indices: 138025--138082 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
138015 CACCTAATAC
*
138025 AAATAATCACCTGGT-
1 AAATACTCACCTGGTG
138040 AAATACTCACCTGGTG
1 AAATACTCACCTGGTG
*
138056 CAATACTCACCTGGTG
1 AAATACTCACCTGGTG
*
138072 AGATACTCACC
1 AAATACTCACC
138083 CACACTCACC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 14 0.37
16 24 0.63
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (16 bp):
AAATACTCACCTGGTG
Found at i:141677 original size:49 final size:49
Alignment explanation
Indices: 141605--142170 Score: 608
Period size: 49 Copynumber: 11.5 Consensus size: 49
141595 CATTTCAGCT
*
141605 TTCATCTTTACTTGCTATCTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* ** *
141654 TTCATCTTTACCTGCTATTTCCCAAAATGCCCTTCCCAGATGGAAGCCA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* * * * *
141703 TTCATTTTTGCTAGCTATTTCCCAAAACGTCCTTCCCAGACGGAAGCCA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* *
141752 TTCATCTTTACTTGTTATTTCCCAAAGCGCCCTTCCCAGAAACGGAAGTCA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAG--ACGGAAGCCA
*
141803 TTCA-CTTTTACTTGCAATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
1 TTCATC-TTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* * * *
141852 TTTATTTTTACTTGTTATTTCCTAAAGCGCCCTTCCCAGACGGAAGCCA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* *
141901 TTCATCTTTACTTACTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCTA
1 TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* * *
141950 TTTAT-TTTCGCTTGCTATTTCCCAAAGCGCCATTCCCAGACGGAAGCCA
1 TTCATCTTT-ACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* * * * * * *
141999 TTTATTTTTGCTTGCTATCTCCCCAAAACACCCTTCCCGGACGGAAGCCA
1 TTCATCTTTACTTGCTAT-TTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
* * * *
142049 TAT-ATCTTTACTTGCTATTTCCC-AAGATGCCCTTCCCGGACGAAAGGCA
1 T-TCATCTTTACTTGCTATTTCCCAAAG-CGCCCTTCCCAGACGGAAGCCA
* * * * ** * * *
142098 CTGAT-TATTACCTG-TTTTTCCCAAAATGCCCTTCGCGGACGGAAGGCA
1 TTCATCT-TTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
*
142146 CTT-AT-TTTACTTGCTATTTTCCAAA
1 -TTCATCTTTACTTGCTATTTCCCAAA
142171 AATGCCCTTC
Statistics
Matches: 442, Mismatches: 61, Indels: 29
0.83 0.11 0.05
Matches are distributed among these distances:
47 6 0.01
48 46 0.10
49 301 0.68
50 44 0.10
51 45 0.10
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (49 bp):
TTCATCTTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCA
Found at i:141971 original size:198 final size:196
Alignment explanation
Indices: 141611--142170 Score: 630
Period size: 198 Copynumber: 2.9 Consensus size: 196
141601 AGCTTTCATC
* * *
141611 TTTACTTGCTATCTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTCATCTTTACCTGCTATTTCC
1 TTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATCTTTACTTGCTATTTCC
* * * * *
141676 CAAAATGCCCTTCCCAGATGGAAGCCATTCATTTTTGCTAGCTATTTCCCAAAACGTCCTTCCCA
66 CAAAACGCCCTTCCCAGACGGAAGCCATTCATCTTTACTAGCTATTTCCCAAAACGCCCTTCCCA
* * *
141741 GACGGAAGCCATTCATCTTTACTTGTTATTTCCCAAAGCGCCCTTCCCAGAAACGGAAGTCATTC
131 GACGGAAGCCATTCATCTTTACTTGCTATTTCCCAAAGCGCCATTCCCAG--ACGGAAGCCATTC
141806 ACT
194 ACT
* * *
141809 TTTACTTGCAATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATTTTTACTTGTTATTTCC
1 TTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATCTTTACTTGCTATTTCC
* * *
141874 TAAAGCGCCCTTCCCAGACGGAAGCCATTCATCTTTACTTA-CTATTTCCCAAAGCGCCCTTCCC
66 CAAAACGCCCTTCCCAGACGGAAGCCATTCATCTTTAC-TAGCTATTTCCCAAAACGCCCTTCCC
* * * *
141938 AGACGGAAGCTATTTAT-TTTCGCTTGCTATTTCCCAAAGCGCCATTCCCAGACGGAAGCCATTT
130 AGACGGAAGCCATTCATCTTT-ACTTGCTATTTCCCAAAGCGCCATTCCCAGACGGAAGCCATTC
*
142002 ATT
194 ACT
* * * * * *
142005 TTTGCTTGCTATCTCCCCAAAACACCCTTCCCGGACGGAAGCCATATATCTTTACTTGCTATTTC
1 TTTACTTGCTAT-TTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATCTTTACTTGCTATTTC
* * * * * * * * *
142070 CCAAGATGCCCTTCCCGGACGAAAGGCACTGAT-TATTACCT-G-TTTTTCCCAAAATGCCCTTC
65 CCAAAACGCCCTTCCCAGACGGAAGCCATTCATCT-TTA-CTAGCTATTTCCCAAAACGCCCTTC
* * * *
142132 GCGGACGGAAGGCACTT-AT-TTTACTTGCTATTTTCCAAA
128 CCAGACGGAAGCCA-TTCATCTTTACTTGCTATTTCCCAAA
142171 AATGCCCTTC
Statistics
Matches: 306, Mismatches: 49, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
195 15 0.05
196 56 0.18
197 78 0.25
198 155 0.51
199 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (196 bp):
TTTACTTGCTATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATCTTTACTTGCTATTTCC
CAAAACGCCCTTCCCAGACGGAAGCCATTCATCTTTACTAGCTATTTCCCAAAACGCCCTTCCCA
GACGGAAGCCATTCATCTTTACTTGCTATTTCCCAAAGCGCCATTCCCAGACGGAAGCCATTCAC
T
Found at i:142167 original size:97 final size:97
Alignment explanation
Indices: 142018--142281 Score: 268
Period size: 97 Copynumber: 2.7 Consensus size: 97
142008 GCTTGCTATC
** * * *
142018 TCCCCAAAACACCCTTCCCGGACGGAAGCCA-TATATCTTTACTTGCTATTTCCCAAGATGCCCT
1 TCCCCAAAATGCCCTTCCCGGACGGAAGGCACT-TAT-TTTACTTGCTATTTCCAAAAATGCCCT
* **
142082 TCCCGGACGAAAGGCACTGATTATTA-CCTGTTT
64 TCCCGGACGAAAGACACTGATTATTACCCACTTT
* *
142115 TTCCCAAAATGCCCTTCGCGGACGGAAGGCACTTATTTTACTTGCTATTTTCCAAAAATGCCCTT
1 TCCCCAAAATGCCCTTCCCGGACGGAAGGCACTTATTTTACTTGCTA-TTTCCAAAAATGCCCTT
* * * * * *
142180 CCCGGATGGAATACGCTTATTTTTACCCACTTT
65 CCCGGACGAAAGACACTGATTATTACCCACTTT
* * * *
142213 TCCCCAAAGTGCCCTTCCCCGACGGAAGGCACTAATTTTTACTTGCT-TTTCTAAAACA--CCCT
1 TCCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-TTTTACTTGCTATTTCCAAAA-ATGCCCT
142275 TCCCGGA
64 TCCCGGA
142282 TGGAAGACGC
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
96 22 0.16
97 70 0.50
98 37 0.26
99 11 0.08
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (97 bp):
TCCCCAAAATGCCCTTCCCGGACGGAAGGCACTTATTTTACTTGCTATTTCCAAAAATGCCCTTC
CCGGACGAAAGACACTGATTATTACCCACTTT
Found at i:142199 original size:49 final size:49
Alignment explanation
Indices: 141611--142338 Score: 379
Period size: 49 Copynumber: 14.9 Consensus size: 49
141601 AGCTTTCATC
* ** * *
141611 TTTACTTGCTA-TCTCCCAAAGCGCCCTTCCCAGACGGAAGCCA-TTCAT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTT-AT
* * * *
141659 CTTTACCTGCTA-TTTCCCAAAATGCCCTTCCCAGATGGAAGCCA-TTCATT
1 -TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTT-A-T
* * * * * *
141709 TTTGCTAGCTA-TTTCCCAAAACGTCCTTCCCAGACGGAAGCCA-TTCAT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTT-AT
* ** * *
141757 CTTTACTTGTTA-TTTCCCAAAGCGCCCTTCCCAGAAACGGAAGTCA-TTCACT
1 -TTTACTTGCTATTTTCCCAAAATGCCCTTCCC-G-GACGGAAGGCACTT-A-T
* ** * * *
141809 TTTACTTGC-AATTTCCCAAAGCGCCCTTCCCAGACGGAAGCCATTTATT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
* * ** * *
141858 TTTACTTGTTA-TTTCCTAAAGCGCCCTTCCCAGACGGAAGCCA-TTCAT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTT-AT
* ** * *
141906 CTTTACTTACTA-TTTCCCAAAGCGCCCTTCCCAGACGGAA-GCTATTTAT
1 -TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGC-ACTTAT
* ** * * * *
141955 TTTCGCTTGCTA-TTTCCCAAAGCGCCATTCCCAGACGGAAGCCATTTATT
1 TTT-ACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
* * * ** *
142005 TTTGCTTGCTATCTCCCCAAAACACCCTTCCCGGACGGAAGCCA-TATAT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACT-TAT
* * *
142054 CTTTACTTGCTA-TTTCCCAAGATGCCCTTCCCGGACGAAAGGCACTGAT
1 -TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTAT
* *
142103 TATTACCTG-T-TTTTCCCAAAATGCCCTTCGCGGACGGAAGGCACTTAT
1 T-TTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTAT
* * ** *
142151 TTTACTTGCTATTTTCCAAAAATGCCCTTCCCGGATGGAATACGCTTATT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
*** * * * *
142201 TTTACCCACT-TTTCCCCAAAGTGCCCTTCCCCGACGGAAGGCACTAATT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
* ** * * *
142250 TTTACTTGC--TTTT-CTAAAACACCCTTCCCGGATGGAAGACGC-TAGT
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTA-T
* * ** * *
142296 TTTACTCGCT-TTGTCTTAAAATGCCCTTTCCGGACGAAAGGCA
1 TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCA
142339 AGTTCGCTTT
Statistics
Matches: 556, Mismatches: 97, Indels: 53
0.79 0.14 0.08
Matches are distributed among these distances:
46 10 0.02
47 30 0.05
48 68 0.12
49 347 0.62
50 59 0.11
51 41 0.07
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (49 bp):
TTTACTTGCTATTTTCCCAAAATGCCCTTCCCGGACGGAAGGCACTTAT
Done.