Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2388
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: 17008
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Found at i:704 original size:13 final size:13
Alignment explanation
Indices: 686--716 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
676 ACATTTCTTC
686 ATGTATCGATACA
1 ATGTATCGATACA
699 ATGTATCGATACA
1 ATGTATCGATACA
*
712 TTGTA
1 ATGTA
717 CCATGTATCG
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:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:787 original size:21 final size:19
Alignment explanation
Indices: 761--834 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
751 CTGCTAGTTT
**
761 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
782 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
801 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AA
821 CATGTATCGATACA
1 CATGTATCGATACA
835 TCTGGGAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 18 0.38
20 15 0.31
21 15 0.31
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1619 original size:13 final size:13
Alignment explanation
Indices: 1601--1635 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1591 AGTAATCAAA
*
1601 AAAGAAACAAAAG
1 AAAGAAAAAAAAG
1614 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
1627 AAA-AAAAAA
1 AAAGAAAAAA
1636 GGGAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:1631 original size:19 final size:19
Alignment explanation
Indices: 1598--1647 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1588 TAAAGTAATC
1598 AAAAAAGAAACAAAAGAAAGAA
1 AAAAAAG-AA-AAAA-AAAGAA
**
1620 AAAAAAGAAAAAAAAAGGG
1 AAAAAAGAAAAAAAAAGAA
1639 AAAAAAGAA
1 AAAAAAGAA
1648 GTTTTAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 13 0.50
20 4 0.15
21 2 0.08
22 7 0.27
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAGAA
Found at i:2885 original size:88 final size:88
Alignment explanation
Indices: 2749--3056 Score: 305
Period size: 88 Copynumber: 3.5 Consensus size: 88
2739 AAACCATATA
** * * *
2749 GCATTTGCATCGCATCATGTGCATTTGCCTCTTTATTGATGCATGCATTTGGATCGTTTCGTGCA
1 GCATTTGCATCATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATCGTTTCATGCA
*
2814 CACCTACACTTTAAATGACATTG
66 CACCTACACTTTAAATGACATTC
** * *
2837 GCATTTGCATTGTAGT-ATGTACATTTACCTCTTTATTGATGCTTGCATTTGCATCGTTTCATGC
1 GCATTTGCATCATA-TCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATCGTTTCATGC
* * * * *
2901 ATATCTATATTTTAGATGACATTC
65 ACACCTACACTTTAAATGACATTC
* * * * **
2925 GTATTTGCATCATATCATGTGCATTTGCCTTTTTATTGATGCTTACATTTGCATTGTTTCATGTT
1 GCATTTGCATCATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATCGTTTCATGCA
*** * * * *
2990 TGTCTATACTTCAGATGACATTT
66 CACCTACACTTTAAATGACATTC
* * * *
3013 GTATTTGCATCATTTCATATGCATTT-CCACTTTATTGATGCTTG
1 GCATTTGCATCATATCATGTGCATTTGCCTCTTTATTGATGCTTG
3057 TGTAGACACC
Statistics
Matches: 186, Mismatches: 32, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
87 16 0.09
88 169 0.91
89 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (88 bp):
GCATTTGCATCATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATCGTTTCATGCA
CACCTACACTTTAAATGACATTC
Found at i:3371 original size:20 final size:20
Alignment explanation
Indices: 3325--3378 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3315 TTTTACAATT
* *
3325 TGTATCGAAACAATAAATTAA
1 TGTATCGATAC-ATAAATGAA
* *
3346 TATATCGATACATAAGTGAA
1 TGTATCGATACATAAATGAA
3366 TGTATCGATACAT
1 TGTATCGATACAT
3379 GCTTGAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAATGAA
Found at i:3385 original size:20 final size:21
Alignment explanation
Indices: 3348--3396 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
3338 TAAATTAATA
3348 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATG
***
3368 TATCGATACATGCTTGAAATG
1 TATCGATACATAAGTGAAATG
3389 TATCGATA
1 TATCGATA
3397 TTGGACCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATG
Found at i:5917 original size:96 final size:95
Alignment explanation
Indices: 5672--5922 Score: 292
Period size: 96 Copynumber: 2.6 Consensus size: 95
5662 AAAATTTTAT
* * *
5672 TCATC-GGGATACTCTAACCCCATTCTTCTGAGGA-AAACTCCAATCTCGTTTTTAAACTTGTTA
1 TCATCGGGGACACTCTAACCCCATTCTTC--AGGAGATACTCCAATCTCGTTTTTAAACTTGTCA
*
5735 AGATTTAAATCTTATTTTCACCCAAAGTGTCA
64 AGATTTAAATCTTATTTTCACCCAAAGTGCCA
* * * * * *
5767 TCATTGGGGACACTCCAACCCTATTCTTCCGAGAGGATACTCCAACCCCGTTTTTAAACTTGTCA
1 TCATCGGGGACACTCTAACCCCATTCTTCAG-GA-GATACTCCAATCTCGTTTTTAAACTTGTCA
* *
5832 AGA-TTAAATCTTATTTTCACCTAAATTGCCA
64 AGATTTAAATCTTATTTTCACCCAAAGTGCCA
* * *
5863 TCGTCGGGGACACTCTAACCCCATTCCTTCAAGGAGATACTCCAATCTCATTTTTGAACT
1 TCATCGGGGACACTCTAACCCCATT-CTTC-AGGAGATACTCCAATCTCGTTTTTAAACT
5923 AAAAAATTGA
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
94 1 0.01
95 6 0.05
96 87 0.67
97 34 0.26
98 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (95 bp):
TCATCGGGGACACTCTAACCCCATTCTTCAGGAGATACTCCAATCTCGTTTTTAAACTTGTCAAG
ATTTAAATCTTATTTTCACCCAAAGTGCCA
Found at i:8171 original size:40 final size:40
Alignment explanation
Indices: 8127--8397 Score: 213
Period size: 40 Copynumber: 6.8 Consensus size: 40
8117 TATCTCGATA
* * *
8127 AACTCCTCTCATTTGTTGCCTTATAGGTTTTGTCCTAGTC
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* * * * * *
8167 AACTCATCCCACTTGTTAATTTGTAGGTGTTGTCTTAGTC
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* * * **
8207 AACTCTTCCCATTT-TTGACTTGTAAGTTTTGTCCCAACC
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* ** * * * * * *
8246 AAATTTTCCCTTTTGTTAACTTGGAGGTTTTGTCTTGGTT
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* * *
8286 AACT-CTCCCATTTGTTGACTTGTAGGTTTTGTCTTGGTT
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* * * *
8325 AATTCTTCCCATTTGATGACTTGTAGGTTTTGTCCTTGTC
1 AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
* * *
8365 AACTCTTCTCTCTTTTGTTGACTTATAGGTTTT
1 AACTC--CTCCCATTTGTTGACTTGTAGGTTTT
8398 ATCTCGATTA
Statistics
Matches: 179, Mismatches: 48, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
39 62 0.35
40 96 0.54
42 21 0.12
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (40 bp):
AACTCCTCCCATTTGTTGACTTGTAGGTTTTGTCCTAGTC
Found at i:8334 original size:79 final size:79
Alignment explanation
Indices: 8127--8397 Score: 251
Period size: 79 Copynumber: 3.4 Consensus size: 79
8117 TATCTCGATA
* * * * * * * *
8127 AACTCCTCTCATTTGTTGCCTTATAGGTTTTGTCCTAGTCAACTCATCCCACTTGTTAATTTGTA
1 AACTCTTCCCATTTGTTGACTTATAGGTTTTGTCCTAGTAAATTCTTCCCATTTGTTAACTTGTA
*
8192 GGTGTTGTCTTAGTC
66 GGTTTTGTCTT-GTC
* * * ** * *
8207 AACTCTTCCCATTT-TTGACTTGTAAGTTTTGTCCCAACCAAATT-TTCCCTTTTGTTAACTTGG
1 AACTCTTCCCATTTGTTGACTTATAGGTTTTGT-CCTAGTAAATTCTTCCCATTTGTTAACTTGT
*
8270 AGGTTTTGTCTTGGTT
65 AGGTTTTGTCTT-GTC
* * * * * *
8286 AACTC-TCCCATTTGTTGACTTGTAGGTTTTGTCTTGGTTAATTCTTCCCATTTGATGACTTGTA
1 AACTCTTCCCATTTGTTGACTTATAGGTTTTGTCCTAGTAAATTCTTCCCATTTGTTAACTTGTA
8350 GGTTTTGTCCTTGTC
66 GGTTTTGT-CTTGTC
*
8365 AACTCTTCTCTCTTTTGTTGACTTATAGGTTTT
1 AACTCTTC-C-CATTTGTTGACTTATAGGTTTT
8398 ATCTCGATTA
Statistics
Matches: 152, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
78 13 0.09
79 95 0.62
80 23 0.15
81 1 0.01
82 20 0.13
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (79 bp):
AACTCTTCCCATTTGTTGACTTATAGGTTTTGTCCTAGTAAATTCTTCCCATTTGTTAACTTGTA
GGTTTTGTCTTGTC
Found at i:8432 original size:66 final size:66
Alignment explanation
Indices: 8345--8478 Score: 157
Period size: 66 Copynumber: 2.0 Consensus size: 66
8335 ATTTGATGAC
* * * * * *
8345 TTGTAGGTTTTGTCCTTGTCAACTCTTCTCT-CTTTT-GTTGACTTATAGGTTTTATCTCGATTA
1 TTGTAGCTTTTGTCCTAGTCAACT-TT-TCTACTTTTCATTGACTTATAGGTTTCATCTCCATCA
8408 ACT
64 ACT
*
8411 TTGTAGCTTTTGTGCC-AGTCAACTTTTTTACTTTTCATTGACTTATAGGTTTCATCTCCATCAA
1 TTGTAGCTTTTGT-CCTAGTCAACTTTTCTACTTTTCATTGACTTATAGGTTTCATCTCCATCAA
8475 CT
65 CT
8477 TT
1 TT
8479 CTCATTAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
64 2 0.03
65 7 0.12
66 47 0.81
67 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.50
Consensus pattern (66 bp):
TTGTAGCTTTTGTCCTAGTCAACTTTTCTACTTTTCATTGACTTATAGGTTTCATCTCCATCAAC
T
Found at i:8822 original size:80 final size:80
Alignment explanation
Indices: 8562--8860 Score: 253
Period size: 80 Copynumber: 3.8 Consensus size: 80
8552 CAACTCTCCC
* * *
8562 ATTCATTGACTTGT-GAGTTTTGTCCTT-CTCAATTCTTCCCATTTGTTGACTTGTAGGTTTTGT
1 ATTCATTGACTTGTAG-GTTTTGTCCTTGGTCAACTCTTCCCATTTGTTAACTTGTAGG-TTTGT
8625 CTCGATCAACTCTTTTCCT
64 CTCGATCAA--CTTTTCCT
* ** * * * * *
8644 TTTTGTTGACTTATAGGTTTTGTCCTTGGT-AA-T-TCCCCCTGTTGTTGACTTGTA-GTTTCAT
1 ATTCATTGACTTGTAGGTTTTGTCCTTGGTCAACTCTTCCCAT-TTGTTAACTTGTAGGTTT-GT
8705 CTCGATCAA-TTCTT-CT
64 CTCGATCAACTT-TTCCT
* * *
8721 TTTCTATTGACTTGTA-ATTTTGT-CTTGGTCAACTCTTCCCATTCGTTAACTTGTAGGTTCTGT
1 ATTC-ATTGACTTGTAGGTTTTGTCCTTGGTCAACTCTTCCCATTTGTTAACTTGTAGGTT-TGT
8784 -TCCGATCAACTTTTCCT
64 CT-CGATCAACTTTTCCT
* * * * *
8801 ATTCATTAACTTGTAGGTTTTGT-CTTGGTTAACTTTTCTCAATTGTTAACTTGTAGGTTT
1 ATTCATTGACTTGTAGGTTTTGTCCTTGGTCAACTCTTCCCATTTGTTAACTTGTAGGTTT
8861 CGTCCTAGTC
Statistics
Matches: 177, Mismatches: 25, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
76 6 0.03
77 15 0.08
78 24 0.14
79 32 0.18
80 61 0.34
81 14 0.08
82 23 0.13
83 2 0.01
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.49
Consensus pattern (80 bp):
ATTCATTGACTTGTAGGTTTTGTCCTTGGTCAACTCTTCCCATTTGTTAACTTGTAGGTTTGTCT
CGATCAACTTTTCCT
Found at i:8835 original size:40 final size:40
Alignment explanation
Indices: 8730--8874 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 40
8720 TTTTCTATTG
* * *
8730 ACTTGTA-ATTTTGTCTTGGTCAACTCTTCCCATTCGTTA
1 ACTTGTAGGTTTTGTCTTGGTCAACTTTTCCAATTCGTTA
* * * * *
8769 ACTTGTAGGTTCTGT-TCCGATCAACTTTTCCTATTCATTA
1 ACTTGTAGGTTTTGTCT-TGGTCAACTTTTCCAATTCGTTA
*
8809 ACTTGTAGGTTTTGTCTTGGTTAACTTTTCTCAATT-GTTA
1 ACTTGTAGGTTTTGTCTTGGTCAACTTTTC-CAATTCGTTA
* * *
8849 ACTTGTAGGTTTCGTCCTAGTCAACT
1 ACTTGTAGGTTTTGTCTTGGTCAACT
8875 CTTTTTATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 8 0.09
40 72 0.85
41 5 0.06
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (40 bp):
ACTTGTAGGTTTTGTCTTGGTCAACTTTTCCAATTCGTTA
Found at i:8861 original size:159 final size:159
Alignment explanation
Indices: 8566--8861 Score: 350
Period size: 159 Copynumber: 1.9 Consensus size: 159
8556 TCTCCCATTC
* * * * *
8566 ATTGACTTGTGAGTTTTGTCCTTCTCAATTCTTCCCATTTGTTGACTTGTAGGTTTTGTCTCGAT
1 ATTGACTTGTGAATTTTGTCCTTCTCAACTCTTCCCATTCGTTAACTTGTAGGTTCTGTCTCGAT
* ** * ** *
8631 CAACTCTTTTCCTTTTTGTTGACTTATAGGTTTTGTCCTTGGTAATTCCCCCTGTTGTTGACTTG
66 CAAC-CTTTTCCTATTCATTAACTTATAGGTTTTGTCCTTGGTAATTCCCCCAATTGTTAACTTG
8696 TAGTTTCATCTCGATCAATTCTTCTTTTCT
130 TAGTTTCATCTCGATCAATTCTTCTTTTCT
*
8726 ATTGACTTGT-AATTTTGT-CTTGGTCAACTCTTCCCATTCGTTAACTTGTAGGTTCTGT-TCCG
1 ATTGACTTGTGAATTTTGTCCTT-CTCAACTCTTCCCATTCGTTAACTTGTAGGTTCTGTCT-CG
* ** *
8788 ATCAA-CTTTTCCTATTCATTAACTTGTAGGTTTTGT-CTTGGTTAACTTTTCTCAATTGTTAAC
64 ATCAACCTTTTCCTATTCATTAACTTATAGGTTTTGTCCTTGG-TAA-TTCCCCCAATTGTTAAC
8851 TTGTAGGTTTC
127 TTGTA-GTTTC
8862 GTCCTAGTCA
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
156 5 0.04
157 29 0.25
158 20 0.18
159 50 0.44
160 10 0.09
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (159 bp):
ATTGACTTGTGAATTTTGTCCTTCTCAACTCTTCCCATTCGTTAACTTGTAGGTTCTGTCTCGAT
CAACCTTTTCCTATTCATTAACTTATAGGTTTTGTCCTTGGTAATTCCCCCAATTGTTAACTTGT
AGTTTCATCTCGATCAATTCTTCTTTTCT
Found at i:8887 original size:40 final size:39
Alignment explanation
Indices: 8765--8921 Score: 106
Period size: 40 Copynumber: 3.9 Consensus size: 39
8755 CTTCCCATTC
* * *
8765 GTTAACTTGTAGG-TTCTGTTCCGA-TCAACTTTTCCTATTC
1 GTTAACTTGTAGGTTTC-G-TCCTAGTCAACTTTT-TTATTT
* * * * * * *
8805 ATTAACTTGTAGGTTTTGTCTTGGTTAACTTTTCTCAATT
1 GTTAACTTGTAGGTTTCGTCCTAGTCAACTTTT-TTATTT
8845 GTTAACTTGTAGGTTTCGTCCTAGTCAACTCTTTTTATTT
1 GTTAACTTGTAGGTTTCGTCCTAGTCAACT-TTTTTATTT
* * *
8885 GTTGACTTTTCA-GTTTCAT-CTCAGTCAACTTTTTTAT
1 GTTAACTTGT-AGGTTTCGTCCT-AGTCAACTTTTTTAT
8922 CTTATTTGAC
Statistics
Matches: 92, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
39 11 0.12
40 75 0.82
41 6 0.07
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (39 bp):
GTTAACTTGTAGGTTTCGTCCTAGTCAACTTTTTTATTT
Found at i:9105 original size:40 final size:39
Alignment explanation
Indices: 9042--9319 Score: 229
Period size: 40 Copynumber: 7.0 Consensus size: 39
9032 AGTTATATCC
* * *
9042 TGGTCAACTCTCCTATTTATTGACTTGTAGGTTTCATCT
1 TGGTCAACTTTTCTATTTGTTGACTTGTAGGTTTCATCT
* *
9081 TAGTCAACTCGTTT-TATTTGTTGACTTGTAGGTTTCATTT
1 TGGTCAACT--TTTCTATTTGTTGACTTGTAGGTTTCATCT
* * * *
9121 TGATCAACTTTTTCCATTAGTTGACTTGTAGGTTTCATCA
1 TGGTCAAC-TTTTCTATTTGTTGACTTGTAGGTTTCATCT
* * * * **
9161 TAGTCAACCTTTCCTATTCGTTGACTTGTAAGTTTTGTCT
1 TGGTCAA-CTTTTCTATTTGTTGACTTGTAGGTTTCATCT
* * * *
9201 CGGTCAACTTTTCTCA-TTATTGACTTATAGATTTCATCT
1 TGGTCAACTTTTCT-ATTTGTTGACTTGTAGGTTTCATCT
* * *
9240 TGGTCAACTCATTCCATTTGTTGACTTATCA-GTTTCATCT
1 TGGTCAACT-TTTCTATTTGTTGACTTGT-AGGTTTCATCT
* * * *
9280 TGGTCAACTATTTCCATTCGTTGACTTATCGGTTTCATCT
1 TGGTCAACT-TTTCTATTTGTTGACTTGTAGGTTTCATCT
9320 CAATCTACCT
Statistics
Matches: 190, Mismatches: 39, Indels: 19
0.77 0.16 0.08
Matches are distributed among these distances:
39 42 0.22
40 144 0.76
41 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (39 bp):
TGGTCAACTTTTCTATTTGTTGACTTGTAGGTTTCATCT
Found at i:9208 original size:80 final size:81
Alignment explanation
Indices: 9061--9319 Score: 296
Period size: 80 Copynumber: 3.2 Consensus size: 81
9051 CTCCTATTTA
* * * *
9061 TTGACTTGTAGGTTTCATCTTAGTCAACTCGTTT--TATTTGTTGACTTGTAGGTTTCATTTTGA
1 TTGACTTATAGGTTTCATCTTAGTCAACTC-TTTCCTATTTGTTGACTTGTAAGTTTCATCTTGG
9124 TCAACTTTTTCCATTAG
65 TCAACTTTTTCCATTAG
* * * ** *
9141 TTGACTTGTAGGTTTCATCATAGTCAAC-CTTTCCTATTCGTTGACTTGTAAGTTTTGTCTCGGT
1 TTGACTTATAGGTTTCATCTTAGTCAACTCTTTCCTATTTGTTGACTTGTAAGTTTCATCTTGGT
9205 CAAC-TTTTCTCATTA-
66 CAACTTTTTC-CATTAG
* * * * *
9220 TTGACTTATAGATTTCATCTTGGTCAACTCATTCC-ATTTGTTGACTTATCAGTTTCATCTTGGT
1 TTGACTTATAGGTTTCATCTTAGTCAACTCTTTCCTATTTGTTGACTTGTAAGTTTCATCTTGGT
* *
9284 CAACTATTTCCATTCG
66 CAACTTTTTCCATTAG
*
9300 TTGACTTATCGGTTTCATCT
1 TTGACTTATAGGTTTCATCT
9320 CAATCTACCT
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
78 3 0.02
79 61 0.41
80 86 0.57
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (81 bp):
TTGACTTATAGGTTTCATCTTAGTCAACTCTTTCCTATTTGTTGACTTGTAAGTTTCATCTTGGT
CAACTTTTTCCATTAG
Found at i:9443 original size:64 final size:63
Alignment explanation
Indices: 9333--9535 Score: 219
Period size: 64 Copynumber: 3.2 Consensus size: 63
9323 TCTACCTTGT
* * *
9333 TTGACTATATCAGCTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATTTTTGA
1 TTGACTATATCAGTTTTGCCCTA-TCAACACTCTAAACCTAGGTTACATCCTAGTCATCTTTGA
* * * * * *
9397 TTGATTGTATCAGTTTTGCCCTGATCAACCCTCTAAACCTCA-GTTACATCTTCGTCATCTTTGC
1 TTGACTATATCAGTTTTGCCCT-ATCAACACTCTAAACCT-AGGTTACATCCTAGTCATCTTTGA
* * * * * *
9461 TTGACTATATCAGTTTTGCCCTAATCAATACTTTAGACCTAGGTTACATCCTAATCATCCTTGT
1 TTGACTATATCAGTTTTGCCCT-ATCAACACTCTAAACCTAGGTTACATCCTAGTCATCTTTGA
*
9525 TTGACTGTATC
1 TTGACTATATC
9536 GATTTCACCT
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
63 1 0.01
64 111 0.97
65 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (63 bp):
TTGACTATATCAGTTTTGCCCTATCAACACTCTAAACCTAGGTTACATCCTAGTCATCTTTGA
Found at i:9553 original size:128 final size:127
Alignment explanation
Indices: 9327--9784 Score: 386
Period size: 128 Copynumber: 3.6 Consensus size: 127
9317 TCTCAATCTA
* * *
9327 CCTTGTTTGACTATATCAGCTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATT
1 CCTTGCTTGACTATATCAGTTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATC
* * *
9392 TTTGATTGATTGTATCAGTTTTGC-CCTGATCAACCCTCTAAACCTCA-GTTACATCTTCGTCAT
66 CTTGTTTGATTGTATC-GATTT-CACCTGATCAACCCTCTAAA-CTCAGGTTACATCTTCGTCAT
* * * * *
9455 CTTTGCTTGACTATATCAGTTTTGCCCTAATCAATACTTTAGACCTAGGTTACATCCTAATCATC
1 CCTTGCTTGACTATATCAGTTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATC
* * * * * * *
9520 CTTGTTTGACTGTATCGATTTCACCTTGGTCAACCCTTTAGACTTAGGTTACATCTTGGTTAT
66 CTTGTTTGATTGTATCGATTTCACC-TGATCAACCCTCTAAACTCAGGTTACATCTTCGTCAT
* * ** * * * * * *
9583 CCTTGCTTAACTCTATTGGTTTTGCCCTAGTTAACCCTCTGGACCTAAGTTACATCTTGGTCATC
1 CCTTGCTTGACTATATCAGTTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATC
* * * *** * * * *
9648 CTTGTTTAATTGTATCGGTTTCATCCTAATCATTTCTTTAGAC-CTAGGTTATGCA-C-TGGTTA
66 CTTGTTTGATTGTATCGATTTCA-CCTGATCAACCCTCTAAACTC-AGGTTA--CATCTTCGTCA
9710 T
127 T
* * * * * * *
9711 CCTTGCTTGACTGTATCAGTTTTACCTTGGTCAACCCTCTAGACTTAGGTTACGTCCTAGTCATC
1 CCTTGCTTGACTATATCAGTTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATC
* *
9776 TTTGCTTGA
66 CTTGTTTGA
9785 CTGAATCATT
Statistics
Matches: 264, Mismatches: 59, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
126 1 0.00
127 9 0.03
128 249 0.94
129 3 0.01
130 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (127 bp):
CCTTGCTTGACTATATCAGTTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATC
CTTGTTTGATTGTATCGATTTCACCTGATCAACCCTCTAAACTCAGGTTACATCTTCGTCAT
Found at i:9559 original size:64 final size:64
Alignment explanation
Indices: 9354--9795 Score: 238
Period size: 64 Copynumber: 6.9 Consensus size: 64
9344 AGCTTTGCCC
* * * ** * * *
9354 TAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATTTTTGATTGATTGTATCAGTTTTGC-CC
1 TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATC-GATTT-CACC
9418 T
64 T
* * * * * * * *
9419 GA-TCAACCCTCTAAACCTCA-GTTACATCTTCGTCATCTTTGCTTGACTATATCAGTTTTGC-C
1 TAGTCAACCCTTTAGACCT-AGGTTACATCCTGGTCATCCTTGCTTGACTGTATC-GATTT-CAC
9481 C-
63 CT
* ** ** *
9482 TAATCAATACTTTAGACCTAGGTTACATCCTAATCATCCTTGTTTGACTGTATCGATTTCACCT
1 TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATCGATTTCACCT
* * * * * * * * ** *
9546 TGGTCAACCCTTTAGACTTAGGTTACATCTTGGTTATCCTTGCTTAACTCTATTGGTTTTGCCC
1 TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATCGATTTCACCT
* * * * * * * * *
9610 TAGTTAACCCTCTGGACCTAAGTTACATCTTGGTCATCCTTGTTTAATTGTATCGGTTTCATCC-
1 TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATCGATTTCA-CCT
* *** * *
9674 TAATCATTTCTTTAGACCTAGGTT--ATGCACTGGTTATCCTTGCTTGACTGTATC-AGTTTTAC
1 TAGTCAACCCTTTAGACCTAGGTTACAT-C-CTGGTCATCCTTGCTTGACTGTATCGA-TTTCAC
9736 CT
63 CT
* * * * * * *
9738 TGGTCAACCCTCTAGACTTAGGTTACGTCCTAGTCATCTTTGCTTGACTGAATC-ATTT
1 TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATCGATTT
9796 TTGCCCCTAG
Statistics
Matches: 287, Mismatches: 78, Indels: 26
0.73 0.20 0.07
Matches are distributed among these distances:
62 3 0.01
63 14 0.05
64 264 0.92
65 5 0.02
66 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (64 bp):
TAGTCAACCCTTTAGACCTAGGTTACATCCTGGTCATCCTTGCTTGACTGTATCGATTTCACCT
Found at i:9800 original size:192 final size:191
Alignment explanation
Indices: 9327--9808 Score: 502
Period size: 192 Copynumber: 2.5 Consensus size: 191
9317 TCTCAATCTA
* * * * * * * *
9327 CCTTGTTTGACTATATCAGCTTTGCCCTAGTCAACACTCTAGACCTAGGTTACATCCTAGTCATT
1 CCTTGTTTGACTGTATCAGTTTTACCTTGGTCAACCCTCTAGACTTAGGTTACATCCTAGTCATC
* * * *
9392 TTTGATTGATTGTATCAGTTTTGCCCT-GATCAACCCTCTAAACCTCAGTTACATCTTCGTCATC
66 TTTGCTTGACTGTATCAGTTTTGCCCTAG-TTAACCCTCTAAACCTAAGTTACATCTTCGTCATC
* * **
9456 TTTGCTTGACTATATCAGTTTTGCCCTAATCAATACTTTAGACCTAGGTTACATCCTAATCAT
130 CTTGCTTAACTATATCAGTTTCACCCTAATCAATACTTTAGACCTAGGTTACA-CCTAATCAT
* * * * *
9519 CCTTGTTTGACTGTATC-GATTTCACCTTGGTCAACCCTTTAGACTTAGGTTACATCTTGGTTAT
1 CCTTGTTTGACTGTATCAG-TTTTACCTTGGTCAACCCTCTAGACTTAGGTTACATCCTAGTCAT
* * * ** ** *
9583 CCTTGCTTAACTCTATTGGTTTTGCCCTAGTTAACCCTCTGGACCTAAGTTACATCTTGGTCATC
65 CTTTGCTTGACTGTATCAGTTTTGCCCTAGTTAACCCTCTAAACCTAAGTTACATCTTCGTCATC
* * * * * * * ** *
9648 CTTGTTTAATTGTATCGGTTTCATCCTAATCATTTCTTTAGACCTAGGTTATGCA-CTGGTTAT
130 CTTGCTTAACTATATCAGTTTCACCCTAATCAATACTTTAGACCTAGGTTA--CACCTAATCAT
* *
9711 CCTTGCTTGACTGTATCAGTTTTACCTTGGTCAACCCTCTAGACTTAGGTTACGTCCTAGTCATC
1 CCTTGTTTGACTGTATCAGTTTTACCTTGGTCAACCCTCTAGACTTAGGTTACATCCTAGTCATC
* *
9776 TTTGCTTGACTGAATCATTTTTGCCCCTAGTTA
66 TTTGCTTGACTGTATCAGTTTTG-CCCTAGTTA
9809 GCCTTCTAGA
Statistics
Matches: 231, Mismatches: 53, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
191 1 0.00
192 217 0.94
193 11 0.05
194 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (191 bp):
CCTTGTTTGACTGTATCAGTTTTACCTTGGTCAACCCTCTAGACTTAGGTTACATCCTAGTCATC
TTTGCTTGACTGTATCAGTTTTGCCCTAGTTAACCCTCTAAACCTAAGTTACATCTTCGTCATCC
TTGCTTAACTATATCAGTTTCACCCTAATCAATACTTTAGACCTAGGTTACACCTAATCAT
Found at i:12981 original size:156 final size:156
Alignment explanation
Indices: 12749--13542 Score: 603
Period size: 156 Copynumber: 5.1 Consensus size: 156
12739 AATATTTTAG
* * * * * * * *
12749 TAATTTTTCTAAAACTAAATCCTAAGTAGTCATTAGGTCACTTTTATACTAAAAGTGTGTATTTA
1 TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
* * **
12814 GGGTAGTTTCACCCTCATTTTATGATCTTTTTGTGCCTTTTAAGGTTACTAGGATAC-TTCATAT
66 GGATAGGTTCACCCTC-TTTTATGATCTTTTTGTATCTTTTAAGGTTACTAGGATACTTTCATAT
* * *
12878 TAAAGGTCTAACTTAGGGGCATTTTGA
130 TAAAGGTATACCTTAGAGGCATTTTGA
* * * * *
12905 TAATTTTCCTAGAATTAAGTCCTAGGTAGTCATTGGGTCGCTTTTATGTCAAAGGTATGTGTTTA
1 TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
* * * * * *
12970 AGATAGGTTCA--CT-TTCTTA-GCTTCATTTTCGTATCCTTTAGGGTTACTAAGATACTTTCAT
66 GGATAGGTTCACCCTCTT-TTATG-ATC-TTTTTGTATCTTTTAAGGTTACTAGGATACTTTCAT
* * *
13031 GTTAATGGTATACCTT--A-TCATTTTGA
128 ATTAAAGGTATACCTTAGAGGCATTTTGA
* * * **
13057 TAATTTTCCTAAAACTAAATCCTAGGTAGTCAATGGGTTGTTTTTATGCCAAATATGTGTGTTTA
1 TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
* * * * * * * * *
13122 GGAGAGATTCACCTTTTTTTTTTATGATCTTTTTGTGTCTTTTACGGTTACCAAGATACTTTCAC
66 GGATAGGTTCACC---CTCTTTTATGATCTTTTTGTATCTTTTAAGGTTACTAGGATACTTTCAT
* * * *
13187 ATTGAAA-ATATATCC-CAAAGGCATTTTTGG
128 ATT-AAAGGTATA-CCTTAGAGGCA-TTTTGA
* * * * * *
13217 TAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATGCTAAAGGTGTGTGTTT-
1 TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
* * * * *
13281 GAGATAGGTTCA--CTCTCTTA-GCTCCATATTCGTATCTTTTAAGGTTATTAGGATACTTTCAT
66 G-GATAGGTTCACCCTCTTTTATGAT-C-TTTTTGTATCTTTTAAGGTTACTAGGATACTTTCAT
* * * *
13343 GTTAAAAGTATACCTTAGAGTCATTTTGG
128 ATTAAAGGTATACCTTAGAGGCATTTTGA
* * * * * * * *
13372 TAATTTTCCTAAAACTAAATCATAGGTAGTTAGTGGGTTGTTTTTATGCCAAAGGTATATATTTA
1 TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
* * * *
13437 GGATAGTTTCACCCTTCTTTTATAATTTTTTTGTATCTTTTACA-GTTACT-GAGATACTTTCAC
66 GGATAGGTTCACCC-TCTTTTATGATCTTTTTGTATCTTTTA-AGGTTACTAG-GATACTTTCAT
* ** * * *
13500 ATTAAAAGTATACCCCAAAAGCAATTTTGG
128 ATTAAAGGTATACCTTAGAGGC-ATTTTGA
13530 TAATTTTCCTAAA
1 TAATTTTCCTAAA
13543 CTGAGTCTTA
Statistics
Matches: 495, Mismatches: 113, Indels: 58
0.74 0.17 0.09
Matches are distributed among these distances:
152 74 0.15
153 5 0.01
154 28 0.06
155 94 0.19
156 137 0.28
157 55 0.11
158 31 0.06
159 4 0.01
160 67 0.14
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (156 bp):
TAATTTTCCTAAAACTAAATCCTAGGTAGTCATTGGGTCGCTTTTATGCCAAAGGTGTGTGTTTA
GGATAGGTTCACCCTCTTTTATGATCTTTTTGTATCTTTTAAGGTTACTAGGATACTTTCATATT
AAAGGTATACCTTAGAGGCATTTTGA
Found at i:13280 original size:312 final size:310
Alignment explanation
Indices: 12895--13653 Score: 916
Period size: 312 Copynumber: 2.4 Consensus size: 310
12885 CTAACTTAGG
* * * * * * *
12895 GGCATTTTGATAATTTTCCTAGAATTAAGTCCTAGGTAGTCATTGGGTCGCTTTTATGTCAAAGG
1 GGCATTTTGGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATGT-AAAGG
* *
12960 TATGTGTTTAAGATAGGTTCACTTTCTTAGCTTCATTTTCGTATCCTTTAGGGTTACTAAGATAC
65 TGTGTGTTTAAGATAGGTTCACTTTCTTAGCTTCATTTTCGTATCCTTTAAGGTTACTAAGATAC
** *
13025 TTTCATGTTAATGGTATACCTT-A-TCATTTTGATAATTTTCCTAAAACTAAATCCTAGGTAGTC
130 TTTCATGTTAAAAGTATACCTTAAGTCATTTTGATAATTTTCCTAAAACTAAATCATAGGTAGTC
* * * * * * *
13088 AATGGGTTGTTTTTATGCCAAATATGTGTGTTTAGGAGAGATTCACCTTTTTTTTTTATGATCTT
195 AATGGGTTGTTTTTATGCCAAAGATATATATTTAGGAGAGATTCACC--CTTCTTTTATAATCTT
* * *
13153 TTTGTGTCTTTTACGGTTACCAAGATACTTTCACATTGAAAA-TATATCCCAAA
258 TTTGTATCTTTTACAGTTACCAAGATACTTTCACATT-AAAAGTATACCCCAAA
13206 GGCATTTTTGGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATGCTAAAG
1 GGCA-TTTTGGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATG-TAAAG
* * * * * * *
13271 GTGTGTGTTTGAGATAGGTTCACTCTCTTAGCTCCATATTCGTATCTTTTAAGGTTATTAGGATA
64 GTGTGTGTTTAAGATAGGTTCACTTTCTTAGCTTCATTTTCGTATCCTTTAAGGTTACTAAGATA
*
13336 CTTTCATGTTAAAAGTATACCTTAGAGTCATTTTGGTAATTTTCCTAAAACTAAATCATAGGTAG
129 CTTTCATGTTAAAAGTATACCTTA-AGTCATTTTGATAATTTTCCTAAAACTAAATCATAGGTAG
* * * * * *
13401 TTAGTGGGTTGTTTTTATGCCAAAGGTATATATTTAGGATAGTTTCACCCTTCTTTTATAATTTT
193 TCAATGGGTTGTTTTTATGCCAAAGATATATATTTAGGAGAGATTCACCCTTCTTTTATAATCTT
**
13466 TTTGTATCTTTTACAGTTACTGAGATACTTTCACATTAAAAGTATACCCCAAA
258 TTTGTATCTTTTACAGTTACCAAGATACTTTCACATTAAAAGTATACCCCAAA
* * * ** *
13519 AGCAATTTTGGTAATTTTCCT-AAACTGAGTCTTACGTAATCACTAGGTCATTTTTATATTAAAG
1 GGC-ATTTTGGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTAT-GTAAAG
* * * * * ** **
13583 GTGTGTGTTTATGATAAGTTCA-TTCTCCTAGCTTCATTTTGGTGTTTTTTAAGGTTACCGAGAT
64 GTGTGTGTTTAAGATAGGTTCACTT-TCTTAGCTTCATTTTCGTATCCTTTAAGGTTACTAAGAT
13647 ACTTTCA
128 ACTTTCA
13654 CATCGAAAGT
Statistics
Matches: 381, Mismatches: 58, Indels: 17
0.84 0.13 0.04
Matches are distributed among these distances:
311 5 0.01
312 224 0.59
313 74 0.19
314 2 0.01
315 76 0.20
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (310 bp):
GGCATTTTGGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATGTAAAGGT
GTGTGTTTAAGATAGGTTCACTTTCTTAGCTTCATTTTCGTATCCTTTAAGGTTACTAAGATACT
TTCATGTTAAAAGTATACCTTAAGTCATTTTGATAATTTTCCTAAAACTAAATCATAGGTAGTCA
ATGGGTTGTTTTTATGCCAAAGATATATATTTAGGAGAGATTCACCCTTCTTTTATAATCTTTTT
GTATCTTTTACAGTTACCAAGATACTTTCACATTAAAAGTATACCCCAAA
Found at i:13622 original size:157 final size:157
Alignment explanation
Indices: 13151--13667 Score: 446
Period size: 155 Copynumber: 3.3 Consensus size: 157
13141 TTTTATGATC
* * * * * *
13151 TTTTTGTGTCTTTTACGGTTACCAAGATACTTTCACATTGAAAA-TATATCCCAAAGGCATTTTT
1 TTTTTGTATCTTTTAAGGTTACCGAGATACTTTCACATT-AAAAGTATACCCCAAAAGCAATTTT
* *
13215 GGTAATTTTCCTAAAACTGAGTCCTAGGTAATCACTAGGTCGCTTTTATGCTAAAGGTGTGTGTT
65 GGTAATTTTCCTAAAACTGAGTCATAGGTAATCACTAGGTCGTTTTTATGCTAAAGGTGTGTGTT
* * *
13280 TGAGATAGGTTCACTCTCTTAGCTCCA--
130 T-AGATAAGTTCACTCTCCTAGCTTCATT
* * ** ** ** *
13307 TATTCGTATCTTTTAAGGTTA-TTAGGATACTTTCATGTTAAAAGTATA-CCTTAGAGTC-ATTT
1 TTTTTGTATCTTTTAAGGTTACCGA-GATACTTTCACATTAAAAGTATACCCCAAAAG-CAATTT
* * * * * * * * * * *
13369 TGGTAATTTTCCTAAAACTAAATCATAGGTAGTTAGTGGGTTGTTTTTATGCCAAAGGTATATAT
64 TGGTAATTTTCCTAAAACTGAGTCATAGGTAATCACTAGGTCGTTTTTATGCTAAAGGTGTGTGT
* * ** *
13434 TTAGGAT-AGTTTCACCCTTCT-TTTATAATT
129 TTA-GATAAG-TTCACTCTCCTAGCT-TCATT
*
13464 TTTTTGTATCTTTTACA-GTTACTGAGATACTTTCACATTAAAAGTATACCCCAAAAGCAATTTT
1 TTTTTGTATCTTTTA-AGGTTACCGAGATACTTTCACATTAAAAGTATACCCCAAAAGCAATTTT
* * * **
13528 GGTAATTTTCCT-AAACTGAGTCTTACGTAATCACTAGGTCATTTTTATATTAAAGGTGTGTGTT
65 GGTAATTTTCCTAAAACTGAGTCATAGGTAATCACTAGGTCGTTTTTATGCTAAAGGTGTGTGTT
*
13592 TATGATAAGTTCATTCTCCTAGCTTCATT
130 TA-GATAAGTTCACTCTCCTAGCTTCATT
** **
13621 TTGGTGT-T-TTTTAAGGTTACCGAGATACTTTCACATCGAAAGTATAC
1 TTTTTGTATCTTTTAAGGTTACCGAGATACTTTCACATTAAAAGTATAC
13668 TTAAGGGTAT
Statistics
Matches: 276, Mismatches: 70, Indels: 31
0.73 0.19 0.08
Matches are distributed among these distances:
154 4 0.01
155 112 0.41
156 35 0.13
157 97 0.35
158 28 0.10
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (157 bp):
TTTTTGTATCTTTTAAGGTTACCGAGATACTTTCACATTAAAAGTATACCCCAAAAGCAATTTTG
GTAATTTTCCTAAAACTGAGTCATAGGTAATCACTAGGTCGTTTTTATGCTAAAGGTGTGTGTTT
AGATAAGTTCACTCTCCTAGCTTCATT
Found at i:15153 original size:23 final size:25
Alignment explanation
Indices: 15120--15171 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
15110 TTGAAATATA
**
15120 AAAAAATTTAATTTTATTAA-ATTT
1 AAAAAATTTAATTAAATTAATATTT
15144 AAAAAA-TTAATTAAATTAATATTT
1 AAAAAATTTAATTAAATTAATATTT
15168 AAAA
1 AAAA
15172 TTTTTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAAAAATTTAATTAAATTAATATTT
Found at i:15501 original size:20 final size:20
Alignment explanation
Indices: 15478--15525 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
15468 GAATAATATT
15478 TTAAAATTAAAATTATCT-GA
1 TTAAAATT-AAATTATCTCGA
* **
15498 TTAAAAATATCTTATCTCGA
1 TTAAAATTAAATTATCTCGA
15518 TTAAAATT
1 TTAAAATT
15526 TTGTTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAAAATTAAATTATCTCGA
Done.