Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1935
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: 57850
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:3806 original size:37 final size:37
Alignment explanation
Indices: 3756--3838 Score: 134
Period size: 37 Copynumber: 2.2 Consensus size: 37
3746 TGAGTGATAA
3756 ATCC-GCTAAGTCCCGAAGCATTTATGCTAGTGA-TTTT
1 ATCCAGCT-AGTCCCGAAGCATTT-TGCTAGTGAGTTTT
3793 ATCCAGCTAGTCCCGAAGCATTTTGCTAGTGAGTTTT
1 ATCCAGCTAGTCCCGAAGCATTTTGCTAGTGAGTTTT
3830 ATCCAGCTA
1 ATCCAGCTA
3839 AAACCGAAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 9 0.20
37 32 0.73
38 3 0.07
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (37 bp):
ATCCAGCTAGTCCCGAAGCATTTTGCTAGTGAGTTTT
Found at i:3846 original size:37 final size:37
Alignment explanation
Indices: 3768--3851 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
3758 CCGCTAAGTC
***
3768 CCGAAGCATTTATGCTAGTGATTTTATCCAGCTAGTC
1 CCGAAGCATTTATGCTAGTGATTTTATCCAGCTAAAA
3805 CCGAAGCATTT-TGCTAGTGAGTTTTATCCAGCTAAAA
1 CCGAAGCATTTATGCTAGTGA-TTTTATCCAGCTAAAA
3842 CCGAAGCATT
1 CCGAAGCATT
3852 GTCAGTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 9 0.21
37 34 0.79
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (37 bp):
CCGAAGCATTTATGCTAGTGATTTTATCCAGCTAAAA
Found at i:10231 original size:22 final size:23
Alignment explanation
Indices: 10194--10236 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10184 CTTCCTTCAA
10194 TTCTTATTATTATTTTCCCATGC
1 TTCTTATTATTATTTTCCCATGC
*
10217 TTCTTATT-TTATTTTTCCAT
1 TTCTTATTATTATTTTCCCAT
10237 AACACAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (23 bp):
TTCTTATTATTATTTTCCCATGC
Found at i:16788 original size:40 final size:40
Alignment explanation
Indices: 16743--16934 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
16733 ATAACCACAA
* *
16743 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
16783 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
16823 GCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * * * *
16863 GCATAAATACCGTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
16903 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
16935 CATTCAAATG
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:21908 original size:20 final size:21
Alignment explanation
Indices: 21874--21922 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
21864 TACTAGGATG
21874 GTTGAGTTCCGAGCTCGTTGA
1 GTTGAGTTCCGAGCTCGTTGA
21895 GTTGAGTT-CGAGCTCGTTGA
1 GTTGAGTTCCGAGCTCGTTGA
21915 GTTGAGTT
1 GTTGAGTT
21923 TGAGTTCGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.37
Consensus pattern (21 bp):
GTTGAGTTCCGAGCTCGTTGA
Found at i:31408 original size:43 final size:42
Alignment explanation
Indices: 31252--31414 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 42
31242 TACCAAGATA
* * * *
31252 TGATTACATGTAAGACCATCTCTGAGACATTGGCATCTTTTG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCATATG
* * *
31294 TGGTTACATGTAAGACCATATTTGGGACATTGGCATCATTATA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCA-TATG
* * * * * * * *
31337 TGATTTCGTGTAAGATCTTGTCTAGGATAGTGGCATCGATATG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATC-ATATG
* *
31380 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTACATGTAAGACCATATCTGGGACATTGGCAT
31415 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
42 39 0.41
43 54 0.57
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
TGATTACATGTAAGACCATATCTGGGACATTGGCATCATATG
Found at i:34572 original size:24 final size:24
Alignment explanation
Indices: 34540--34615 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
34530 ACACCTTCAT
* *
34540 ATACATATACACATGAACAGATAC
1 ATACTTATACACATGAACACATAC
34564 ATACTTATACACATGAACACATAC
1 ATACTTATACACATGAACACATAC
* * *
34588 ATACTTATACATATAAACACATAT
1 ATACTTATACACATGAACACATAC
34612 ATAC
1 ATAC
34616 ATACCTTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (24 bp):
ATACTTATACACATGAACACATAC
Found at i:37446 original size:21 final size:21
Alignment explanation
Indices: 37422--37470 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
37412 TTCAGTTTCT
37422 CATTTTGGCACTTTTCTTTTG
1 CATTTTGGCACTTTTCTTTTG
***
37443 CATTTTTTTTACTTTTCTTTTG
1 CA-TTTTGGCACTTTTCTTTTG
37465 CATTTT
1 CATTTT
37471 TTTCTCTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.10, C:0.16, G:0.08, T:0.65
Consensus pattern (21 bp):
CATTTTGGCACTTTTCTTTTG
Found at i:37456 original size:22 final size:22
Alignment explanation
Indices: 37431--37473 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
37421 TCATTTTGGC
37431 ACTTTTCTTTTGCATTTTTTTT
1 ACTTTTCTTTTGCATTTTTTTT
37453 ACTTTTCTTTTGCATTTTTTT
1 ACTTTTCTTTTGCATTTTTTT
37474 CTCTCTGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.72
Consensus pattern (22 bp):
ACTTTTCTTTTGCATTTTTTTT
Found at i:37470 original size:12 final size:12
Alignment explanation
Indices: 37433--37470 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
37423 ATTTTGGCAC
37433 TTTTCTTTTGCA
1 TTTTCTTTTGCA
*
37445 TTTT-TTTTAC-
1 TTTTCTTTTGCA
37455 TTTTCTTTTGCA
1 TTTTCTTTTGCA
37467 TTTT
1 TTTT
37471 TTTCTCTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.18
11 10 0.45
12 8 0.36
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTGCA
Found at i:45255 original size:784 final size:784
Alignment explanation
Indices: 43749--46110 Score: 4373
Period size: 784 Copynumber: 3.0 Consensus size: 784
43739 AACTTATCCC
* * *
43749 TGTGACAACCCTAATGTGACCCTAGTCGAGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
* *
43814 ATAATTAACCGTCATAATTGATGCTCATTATATGTACATGTGCATGTGTGAAAATTTCGTGTTTG
66 ATAATTAACCGTCATAATTGATGCTCATTATATGTACATGTGCATGTGTGAAAATTTCATTTTTG
43879 AATTTTGTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
131 AATTTTGTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
43944 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
196 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
*
44009 CAAATTAAGGCATAGTGTCCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGT
261 CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGT
*
44074 GACGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAGAAAGAATG
326 GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAGAAAGAATG
*
44139 TGTGTGATTGTTTCTCCCCCATCCCCATTGCCGTGAATGGAAGAAAGAAAAAAAAAAGTGTCCAT
391 TGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGGAAGAAAGAAAAAAAAAAGTGTCCAT
*
44204 CTTTTTTCATTTCTCTTGGTCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTTCTTTGGTTC
456 CTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTTCTTTGGTTC
44269 TTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGTCGATATTAA
521 TTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGTCGATATTAA
44334 GGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCAAGTTATTGT
586 GGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCAAGTTATTGT
*
44399 TGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGACTATGGAGATTAATAAG
651 TGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGGCTATGGAGATTAATAAG
44464 GGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTGATGATTA
716 GGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTGATGATTA
44529 TGAG
781 TGAG
44533 TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
*
44598 ATAATTAACCGTCATAATTGATTCTCATTATATGTACATGTGCATGTGTGAAAATTTCATTTTTG
66 ATAATTAACCGTCATAATTGATGCTCATTATATGTACATGTGCATGTGTGAAAATTTCATTTTTG
*
44663 AATTTTTTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
131 AATTTTGTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
44728 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
196 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
*
44793 CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGTCACAAACAAGTTATGTTAGT
261 CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGT
*
44858 GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAAAAAAGAAATGGAAAAAAGAAAGAATG
326 GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAGAAAGAATG
44923 TGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGGAAGAAAGAAAAAAAAAAGTGTCCAT
391 TGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGGAAGAAAGAAAAAAAAAAGTGTCCAT
44988 CTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTTCTTTGGTTC
456 CTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTTCTTTGGTTC
45053 TTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGTCGATATTAA
521 TTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGTCGATATTAA
45118 GGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCAAGTTATTGT
586 GGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCAAGTTATTGT
45183 TGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGGCTATGGAGATTAATAAG
651 TGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGGCTATGGAGATTAATAAG
*
45248 GGTGATGGTTATGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTGATGATTA
716 GGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTGATGATTA
*
45313 TGGG
781 TGAG
45317 TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
1 TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
* *
45382 ATAATTAACCATCATAATTGATGCTCATTATATGTACATGTGCATGTATGAAAATTTCATTTTTG
66 ATAATTAACCGTCATAATTGATGCTCATTATATGTACATGTGCATGTGTGAAAATTTCATTTTTG
*
45447 AATTTTGTTAATTGCAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
131 AATTTTGTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
45512 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
196 AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
*
45577 CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGCCACAAACATGTTATGTTAGT
261 CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGT
*
45642 GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAAAGAAAGAT
326 GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGG--AAAAAAGAAAGAA
* *
45707 TGTGTGTGATTGTTTCTCCCCCCACCCCATTGCCGTGAATGTAAGAAAGAAAACAAAAAAAAAAG
389 TGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATG---G-AAG-AAAGAAAAAAAAAAG
*
45772 TGTCCATCTTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAGGAAAGGAAACAAGTTGTGTT
449 TGTCCATC--TTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
* * *
45837 CTTTGGTTCTTCTTGGCCGGATTGAGAGGAGGAAGGAAAGAGTGAAGCAATCAGTCATCTTAGGT
512 CTTTGGTTCTTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
45902 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
577 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
* *
45967 AGTTATTGTTGGTAACCCATGTTGAAATTGTTATTTTGGAATAAGTAAGGTTTTCGGCTATGGAG
642 AGTTATTGTTGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGGCTATGGAG
*
46032 ATTAATAAGTGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
707 ATTAATAAGGGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
46097 TGATGATTATGAG
772 TGATGATTATGAG
46110 T
1 T
46111 TTCTTTCTTG
Statistics
Matches: 1533, Mismatches: 36, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
784 1135 0.74
786 52 0.03
789 1 0.00
790 3 0.00
791 22 0.01
793 320 0.21
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (784 bp):
TGTGACACCCCTAATTTGACCCTAGTCGGGAAGTGGTTTCGGGACCACTAAACCGAGTCATAAAA
ATAATTAACCGTCATAATTGATGCTCATTATATGTACATGTGCATGTGTGAAAATTTCATTTTTG
AATTTTGTTAATTGTAAGTGAATTTTATCAAATAGGACTTATGTGAGAAAATTTAGAAATGTGCT
AGGCAAATGCAAAGTGGCCTATTAATGCATATTGTGAAAATGATGGGTTTGCATGTCAATTTACC
CAAATTAAGGCATAGTGGCCGGCCATGCTATGAGTGGAAACATGTCACAAACATGTTATGTTAGT
GATGTATGTTAGGAACAATAAAATAAGGAGTATGGGTAATAAAGAAATGGAAAAAAGAAAGAATG
TGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGGAAGAAAGAAAAAAAAAAGTGTCCAT
CTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTTCTTTGGTTC
TTCTTGGCCGAATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGTCGATATTAA
GGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCAAGTTATTGT
TGGTAAACCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTCGGCTATGGAGATTAATAAG
GGTGATGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTGATGATTA
TGAG
Found at i:47995 original size:96 final size:96
Alignment explanation
Indices: 47885--48061 Score: 336
Period size: 96 Copynumber: 1.8 Consensus size: 96
47875 GTGAACATGC
47885 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
47950 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
47981 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
48046 GATGGCCGATGTGATG
66 AATGGCCGATGTGATG
48062 TGTAACACCC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:48003 original size:49 final size:47
Alignment explanation
Indices: 47864--48061 Score: 326
Period size: 47 Copynumber: 4.2 Consensus size: 47
47854 TTAGGATTCT
* * *
47864 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
47911 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47958 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
48007 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTGATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
48054 ATGTGATG
1 ATGTGATG
48062 TGTAACACCC
Statistics
Matches: 144, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
46 1 0.01
47 96 0.67
49 47 0.33
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:49664 original size:28 final size:28
Alignment explanation
Indices: 49601--49751 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
49591 ATATTAAGTC
*
49601 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49628 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49656 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49684 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49712 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49741 CGCACACTTAG
1 CGCACACTTAG
49752 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.