Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2785
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: 55967
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Found at i:4286 original size:46 final size:46
Alignment explanation
Indices: 4219--4345 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
4209 TAACCCGCCT
* * * * *
4219 ATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTCCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATCCGCATCC
*
4265 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATCCGCATCC
*
4311 AAAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
4346 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATCCGCATCC
Found at i:4364 original size:46 final size:45
Alignment explanation
Indices: 4225--4364 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
4215 GCCTATAAGC
* *
4225 GAACTCGGACTCAACTCAATGAGCTCGG--GCGTC-CGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAC-CATCC-T-AGT
*** * *
4271 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAAAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC--TAGT
4317 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
4363 GA
1 GA
4365 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
46 70 0.90
47 3 0.04
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:7022 original size:43 final size:43
Alignment explanation
Indices: 6873--7173 Score: 288
Period size: 43 Copynumber: 7.1 Consensus size: 43
6863 ATATTGTACA
* ** *
6873 ATGCCAACGTCCCAGACGTGGTTTTACAT-GCT-ATCTTATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCG-TAATCACATATCG
* * * * * * *
6916 ATGCAAATGTCCTAGAC-AGGTTTTACAC-TAATCAAATAT-G
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* * * * * * * *
6956 ATGTCGATGTCTCAGACATGGTCTTACACGTAACCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* *
6999 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* * *
7042 ATGCCAATGTCCTAGACTTGGTCTTACTCGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* **
7085 ATGCCAACGTCCCAGACGTAGTCTTACTCAAAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
* *
7128 ATGCCAACGTCCCAGATGTGGTCTTACTCGTATTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
7171 ATG
1 ATG
7174 TCACATATAT
Statistics
Matches: 212, Mismatches: 41, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
40 13 0.06
41 16 0.08
42 17 0.08
43 166 0.78
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAATCACATATCG
Found at i:7138 original size:129 final size:126
Alignment explanation
Indices: 6873--7173 Score: 334
Period size: 129 Copynumber: 2.4 Consensus size: 126
6863 ATATTGTACA
* * ** *
6873 ATGCCAACGTCCCAGACGTGGTTTTACATGCT-ATCTTATATCAATGCAAATGTCCTAGACAGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCGATGCAAATGTCCTAGACAGGT
* * * * * * ** *
6937 TTTACACTAATCAAATATGATGTCGATGTCTCAGACATGGTCTTACACGTAACCATATATCG
65 CTTACACTAATCAAATATGATGCCAACGTCCCAGACATAGTCTTACACAAAACCACATATCG
* * *
6999 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGACTTGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCAAATGTCCTAGAC-AGGT
* * * * *
7064 CTTACTCGTAATCACATATCGATGCCAACGTCCCAGACGTAGTCTTACTCAAAATCACATATCG
65 CTTACAC-TAATCAAATAT-GATGCCAACGTCCCAGACATAGTCTTACACAAAACCACATATCG
* * *
7128 ATGCCAACGTCCCAGATGTGGTCTTACTCGTATTCACATATCGATG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATG
7174 TCACATATAT
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
125 1 0.01
126 51 0.35
127 8 0.06
128 10 0.07
129 75 0.52
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (126 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCAAATGTCCTAGACAGGTC
TTACACTAATCAAATATGATGCCAACGTCCCAGACATAGTCTTACACAAAACCACATATCG
Found at i:8479 original size:14 final size:15
Alignment explanation
Indices: 8462--8490 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8452 TCACAAAAAT
8462 TTCACACAT-ATAAA
1 TTCACACATAATAAA
8476 TTCACACATAATAAA
1 TTCACACATAATAAA
8491 CAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12321 original size:42 final size:42
Alignment explanation
Indices: 12262--12347 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
12252 AGAAAGAAAG
12262 ATGCAATTTGGGTTCTAGTTGACCGATTGATGAAATCAACTC
1 ATGCAATTTGGGTTCTAGTTGACCGATTGATGAAATCAACTC
12304 ATGCAATTTGGGTTCTAGTTGACCGATTGATGAAATCAACTC
1 ATGCAATTTGGGTTCTAGTTGACCGATTGATGAAATCAACTC
12346 AT
1 AT
12348 TTTATTCTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
ATGCAATTTGGGTTCTAGTTGACCGATTGATGAAATCAACTC
Found at i:19678 original size:24 final size:23
Alignment explanation
Indices: 19625--19690 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
19615 TTCGGTCTAT
* * *
19625 ATATCGGGAAGTTCATAAGAGCC
1 ATATCAGGAAGTTCACAAGAACC
19648 ATAATCAGGAAGTTCACAAGGAACC
1 AT-ATCAGGAAGTTCACAA-GAACC
* *
19673 ATATCAAGAAGCTCACAA
1 ATATCAGGAAGTTCACAA
19691 AGAGAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.06
24 28 0.78
25 6 0.17
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
ATATCAGGAAGTTCACAAGAACC
Found at i:34540 original size:34 final size:34
Alignment explanation
Indices: 34502--34566 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
34492 ATACTGAGTT
*
34502 GGGCTAAGGCCCAGACTAATACTACTACTGTAGC
1 GGGCTAAGGCCCACACTAATACTACTACTGTAGC
* * *
34536 GGGCTAAGGCCCACACTGATATTGCTACTGT
1 GGGCTAAGGCCCACACTAATACTACTACTGT
34567 TAAGGGCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTAATACTACTACTGTAGC
Found at i:34574 original size:34 final size:34
Alignment explanation
Indices: 34502--34580 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
34492 ATACTGAGTT
* *
34502 GGGCTAAGGCCCAGACTAATACTACTACTGTAGC
1 GGGCTAAGGCCCACACTAATACTACTACTGTAGA
* * *
34536 GGGCTAAGGCCCACACTGATATTGCTACTGTTA-A
1 GGGCTAAGGCCCACACTAATACTACTACTG-TAGA
*
34570 GGGCTTAGGCC
1 GGGCTAAGGCC
34581 AGACTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTAATACTACTACTGTAGA
Found at i:43559 original size:37 final size:37
Alignment explanation
Indices: 43498--43576 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43488 TTATTATGAA
* * *
43498 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
43535 GTCTTACCCGGGCAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43572 GTCTT
1 GTCTT
43577 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43771 original size:49 final size:48
Alignment explanation
Indices: 43694--43851 Score: 264
Period size: 49 Copynumber: 3.2 Consensus size: 48
43684 GCCCTTCGGG
43694 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
43744 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
43793 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
43840 ACTTTCACATTC
1 ACTTTCACATTC
43852 TCAAAGTAAG
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
47 14 0.13
49 86 0.83
50 4 0.04
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:48727 original size:486 final size:485
Alignment explanation
Indices: 47817--48789 Score: 1705
Period size: 486 Copynumber: 2.0 Consensus size: 485
47807 GTTGGTGGAA
* ** *
47817 TTGTAATAGCTCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACTGCAAAATCCGAAATAGA
1 TTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCCGAAATAAA
47882 AATAATTATTCTATGATTATTTTGAGGTCTATGATATGATTTCATGATTGTGTGAAAATTTCGTG
66 AATAATTATTCTATGATTATTTTGAGGTCTATGATATGATTTCATGATTGTGTGAAAATTTCGTG
47947 AAGAAATTCTATGCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACT
131 AAGAAATTCTATGCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACT
* * *
48012 TGCATTCTAGAAGTTTCTAGTATGAAATTGCTTTGAAACATTAACTATGAGGTCTTAAATAGCAA
196 TGCATTCTAGAAGTTTCTACTATGAAATTGCTTTGAAACATTAACTAAGAGGTCTTAAATAGAAA
* *
48077 TTTGACCAATTTCTAAGTGATGGACAAAAATCGGACATGGATGGAATTTTTGAAAGTTTAGTAAG
261 TTTGACAAATTTCTAAGTGATGGACAAAAATCGGACATGGATGGAATTTTTAAAAGTTTAGTAAG
48142 GAAGGGCATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACT
326 GAAGGGCATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACT
48207 CATCTTTTTCATGGAGGTCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCA
391 CATCTTTTTCATGGAGGTCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCA
48272 AGCTCAATAGTAAGTCCGTTATAACCCCGT
456 AGCTCAATAGTAAGTCCGTTATAACCCCGT
* * *
48302 TTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACGAAATCTGAGATAAA
1 TTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCCGAAATAAA
*
48367 AATAATTACTT-TATGATTATTTTGAGGTCTATGATATGATTTCATGATTGTGTGAAAATTTTGT
66 AATAATTA-TTCTATGATTATTTTGAGGTCTATGATATGATTTCATGATTGTGTGAAAATTTCGT
*
48431 GAAGAAATTCTATGCATAAAGTGCTCAATTTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAG
130 GAAGAAATTCTATGCATAAAGTGCTCAA-TTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAA
* * *
48496 CTTGCATTCTAGAAGTTTCTACTATGAAATTGCTTTGAAATATTAATTAAGAGGTCTTAAATATA
194 CTTGCATTCTAGAAGTTTCTACTATGAAATTGCTTTGAAACATTAACTAAGAGGTCTTAAATAGA
* *
48561 AATTTGACAAATTTCTAAGTTATGGACAAAAATTGGACATGGATGGAATTTTTAAAAGTTTAGTA
259 AATTTGACAAATTTCTAAGTGATGGACAAAAATCGGACATGGATGGAATTTTTAAAAGTTTAGTA
*
48626 AGGAAGGGCATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTTA
324 AGGAAGGGCATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGA
*
48691 CTCATCTTTTTCATGGAGGTCGACATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTC
389 CTCATCTTTTTCATGGAGGTCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTC
* * *
48756 CAAGCTCAATAGTAAGTCCTTTATGACCTCGT
454 CAAGCTCAATAGTAAGTCCGTTATAACCCCGT
48788 TT
1 TT
48790 TTCAAGTTCT
Statistics
Matches: 462, Mismatches: 24, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
485 146 0.32
486 316 0.68
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (485 bp):
TTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCCGAAATAAA
AATAATTATTCTATGATTATTTTGAGGTCTATGATATGATTTCATGATTGTGTGAAAATTTCGTG
AAGAAATTCTATGCATAAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAACT
TGCATTCTAGAAGTTTCTACTATGAAATTGCTTTGAAACATTAACTAAGAGGTCTTAAATAGAAA
TTTGACAAATTTCTAAGTGATGGACAAAAATCGGACATGGATGGAATTTTTAAAAGTTTAGTAAG
GAAGGGCATTTTGGTCATTTGGTAATTAAAAGAAATAAAAAGGGAAAATAAAGCCAAAATTGACT
CATCTTTTTCATGGAGGTCGAAATTAGCATGGGGGAAGCCATGGCTAGGGTTTTCAAGCTTTCCA
AGCTCAATAGTAAGTCCGTTATAACCCCGT
Found at i:53549 original size:47 final size:47
Alignment explanation
Indices: 53390--53841 Score: 596
Period size: 47 Copynumber: 9.6 Consensus size: 47
53380 CCCTTCGGGA
* * *
53390 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTC-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
**
53436 CTTATCA-A-CCATACACATGTTCACATTCATCACATTGGCCATTC-GC
1 CTTATCACATATATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
* *
53482 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
53529 CTTATCACACATACACA-TGTTCACATTCATCACATAGGCCATTCGG-
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
53575 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53623 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
53670 CTTATCACATATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53766 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53815 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53842 TATTCAAATA
Statistics
Matches: 371, Mismatches: 21, Indels: 27
0.89 0.05 0.06
Matches are distributed among these distances:
44 6 0.02
45 2 0.01
46 107 0.29
47 120 0.32
48 43 0.12
49 93 0.25
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:53759 original size:96 final size:95
Alignment explanation
Indices: 53390--53841 Score: 627
Period size: 96 Copynumber: 4.8 Consensus size: 95
53380 CCCTTCGGGA
* * * **
53390 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGCCTTATCA-A-CCATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATATACA
* *
53451 CATGTTCACATTCATCACATTGGCCATT-CGC
66 C-T-TTCACATTCATCACATCGGCCATTAGGC
* * * *
53482 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATT-GGCCTTATCACATATATA
* *
53544 CA-TGTTCACATTCATCACATAGGCCATTCGG-
64 CACT-TTCACATTCATCACATCGGCCATTAGGC
*
53575 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGCCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATATACA
53640 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* *
53670 CTTATCACATATATATACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT-GGCCTTATCACATATATAC
53735 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
53766 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT-GGCCTTATCACATATATAC
53831 ACTTTCACATT
65 ACTTTCACATT
53842 TATTCAAATA
Statistics
Matches: 325, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
91 2 0.01
92 34 0.10
93 41 0.13
94 44 0.14
95 80 0.25
96 124 0.38
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55119 original size:52 final size:54
Alignment explanation
Indices: 55033--55146 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 54
55023 ACAAGGGATG
*
55033 ATGGGCAAAACATGTCATGAACATGTTGTGTTAATG-GAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATAAACATGTTGTGTTAATGAG-AAATAAAATAAGAAGC
* *
55087 CTGGGCAAAA-ATG-CATAAACATGTT-TGTTTAATGAGAGATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATAAACATGTTGTG-TTAATGAGAAATAAAATAAGAAGC
55139 ATGGGCAA
1 ATGGGCAA
55147 TAACTAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
51 2 0.04
52 39 0.72
53 4 0.07
54 9 0.17
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.24
Consensus pattern (54 bp):
ATGGGCAAAACATGTCATAAACATGTTGTGTTAATGAGAAATAAAATAAGAAGC
Done.