Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167868.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_137, 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: 68285
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:2331 original size:2 final size:2
Alignment explanation
Indices: 2326--2367 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2316 TGTGTGTGTG
2326 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2368 ATCTATTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5873 original size:931 final size:931
Alignment explanation
Indices: 4048--5920 Score: 2831
Period size: 932 Copynumber: 2.0 Consensus size: 931
4038 AAATGCTATA
* *
4048 TAACATAGATCCTGCTGAATGAATGTGTACATTAATTAACAAATTGCTACAATTTCATTGTATTT
1 TAACATAGATCCTGCTGAATGAATGTGTACATTAATTAACAAATTGCTACAATTGCATAGTATTT
*
4113 TTTAAATTTATTTGACTAGTTAATTTGCTAATTGTAATTATACATATATATTATTTATTACAGGT
66 TTTAAATTTATTTGACTAGTTAATTTGATAATTGTAATTATACATATATATTA--TATTACAGGT
* * *
4178 TTAAATGGTTTGTTGAGACTACAAAAACTTGAGACTTTGGATCTTTCTGGTAACTACTTTTCAAA
129 TCAAATGGCTTGTTGAGACTACAAAAACTTGAGACTTTAGATCTTTCTGGTAACTACTTTTCAAA
* * * * *
4243 TAACTCTTTGCAGTCCTTAAGTGCTCTCACATCTCTTAAAAATTGATTTTAAGTAACACTCGCAT
194 TAACTCTTTGCAGTCCTTAAGTACACTCACATCTCTTAAAAATTGATTCTAACTAACAATCGCAT
* * *
4308 GGGAGGATCCTTTCCTATCCAAGGTACATCTAATATTTGTTATTAATATCATATTAAGTATTAAT
259 AGAAGGACCCTTTCCTATCCAAGGTACATCTAATATTTGTTATTAATATCATATTAAGTATTAAT
* * * *
4373 TTGTTTTGATTTTTAGTTTAGTTAAATTAAGATTTTTTAATACTTTGTAACAGAGTTACTAAATA
324 TTATTTTGATTTTTAGTGTAGTTAAATTAAGATTTTTTAATACTATATAACAGAGTTACTAAATA
4438 ATATTAAATAATAATTTTTTGATATGTATTGTATTTATAAAAAAAACTGGTATATTTAAATAATT
389 ATATTAAATAATAATTTTTTGATATGTATTGTATTTAT-AAAAAAACTGGTATATTTAAATAATT
* *
4503 AACAAATTTTAACATAAATAATATAATTAAGGTATTTTAAAGCCATATATATATATCATATAGTT
453 AACAAAATTTAACATAAATAATATAATTAAAGTATTTTAAAG-C-TATATATATA-CATATAGTT
* * * *
4568 ATTGGAATATATTAATTTCTTTCATATAAATGCCTAGACTCCTGCATATACTACGTACATGTTTA
515 ATTGGAATATATTAATTTCTTTCAAATAAACGCCTAGACACCTACATATACTACGTACATGTTTA
*
4633 CTTAGTTATTTTAAAGTGTTAGTCAAATACTTATGAATAAAAAGTATAGTCAAAGATTTAATATA
580 CTTAGTTATTTTAAACTGTTAGTCAAATACTTATGAATAAAAAGTATAGTC-AAGATTTAATATA
* * * *
4698 ATTTTGTAATTTTTTAACAATAAACCTGTCATTTTTTATTTTATTATTAATTACAAAATTTAACA
644 ATTTTATAATTTTTTAACAATAAACCTGTCATTTTATATTTTAGTATTAATTACAAAAGTTAACA
*
4763 TAAATAATATATTTAAAGTATTTTTAAGACATGTTTAGTATATTTCTTGCATTTATTAACTTTTT
709 TAAATAATATATTTAAAGTATTTTTAAGACATATTTAGTATATTTCTTGCATTTATTAACTTTTT
* * *
4828 TCATATAAACGCCTACATATCCACATATGCTACATAAATGTTTAATGGATAAAACTTACATGAAG
774 TCATATAAACGCCTACACATCCACATATACTACACAAATGTTTAATGGATAAAACTTACATGAAG
*
4893 TTTAATAGGTGGAGTTTGTGAAGTTTCTTATCAAAAAAATAAAAAATAAAAATTTTAATAAAAAA
839 TTTAATAGGTGGAGTTCGTGAAGTTTCTTATC-AAAAAATAAAAAATAAAAA-TTTAATAAAAAA
*
4958 TCCGAACTAATAAATTAATAAAGCTCAATG
902 TCCAAACTAATAAATTAATAAAGCTCAATG
* *
4988 TAACATATATCCTGCTGAATGAATATGTGTACATTAATTAATAAATTGCTACAATTGCATAGT-T
1 TAACATAGATCCTGCTGAATG-A-ATGTGTACATTAATTAACAAATTGCTACAATTGCATAGTAT
*
5052 TTTTTAAAATTTCTTTGACTAGTTAATTTGATAATTGTAATTATACATATATA-TA-ATTACAGG
64 TTTTT-AAATTTATTTGACTAGTTAATTTGATAATTGTAATTATACATATATATTATATTACAGG
* *
5115 TTCAAATGGCTTGTTGAGACTGCAAAAGCTTGAGACTTTAGATCTTTCTGGTAACTACTTTTCAA
128 TTCAAATGGCTTGTTGAGACTACAAAAACTTGAGACTTTAGATCTTTCTGGTAACTACTTTTCAA
* * *
5180 ATAACTCTTTGCAGTCCTTAAGTACACTCACGTCTCTTAAAAAATTGATTCTATCTGACAAT-GA
193 ATAACTCTTTGCAGTCCTTAAGTACACTCACATCTCTT-AAAAATTGATTCTAACTAACAATCG-
* *
5244 CATAGAAGGACCCTTTCCTGTCCAAGGTACGTCTAATATTTGTTATTAATATCATATTAAGTATT
256 CATAGAAGGACCCTTTCCTATCCAAGGTACATCTAATATTTGTTATTAATATCATATTAAGTATT
*
5309 AATTTATTTTGATTTTTAGTGTAGTTAAATTAAGATTTTTTTAATA-TAATATAATAGAGTTACT
321 AATTTATTTTGATTTTTAGTGTAGTTAAATTAAGA-TTTTTTAATACT-ATATAACAGAGTTACT
*
5373 AAATAATATTAAATAATAATTTTTTGATATTTATTGTA-TT-T-AAAAAA-TGGTATATTTAAAT
384 AAATAATATTAAATAATAATTTTTTGATATGTATTGTATTTATAAAAAAACTGGTATATTTAAAT
** *
5434 AATTAACAAAATTTAACATAAATAATATTTTTAAAGTTTTTTAAAG-TGATATATATA-ATATAG
449 AATTAACAAAATTTAACATAAATAATATAATTAAAGTATTTTAAAGCT-ATATATATACATATAG
*
5497 TTATTGGAATATATTAATTTCTTTCAAATAAACGCCTAGACA-CTCACATATGCTACGTACATGT
513 TTATTGGAATATATTAATTTCTTTCAAATAAACGCCTAGACACCT-ACATATACTACGTACATGT
* * * * *
5561 TTAGTTAGTTATTTTAAACTGTTAGTCAAATATTTATGAATAAAAAGTGTAGTC-AGATTTATTG
577 TTACTTAGTTATTTTAAACTGTTAGTCAAATACTTATGAATAAAAAGTATAGTCAAGATTTAATA
*
5625 TAATTTTATAATTTTTTAACAATAAA-CTCGTCATATTTATGTTTTAGTATTAATTACAAAAGTT
642 TAATTTTATAATTTTTTAACAATAAACCT-GTCAT-TTTATATTTTAGTATTAATTACAAAAGTT
*
5689 AACATAAATAATATATTTAAAGTATTTTTAAGACATATATTTAGTATGTTTCTTGCATTTATTAA
705 AACATAAATAATATATTTAAAGTATTTTTAAGAC--ATATTTAGTATATTTCTTGCATTTATTAA
* *
5754 CTTTTTTCATATAAGCGCCTATACATCCACATATACTACACAAATGTTTAATGGATAAAACTTAC
768 CTTTTTTCATATAAACGCCTACACATCCACATATACTACACAAATGTTTAATGGATAAAACTTAC
* *
5819 ATGAAGTTTAATAGGTGGAGTTCGTGAAGTTTCTTATC-ATAAATAAATAAATAAAAATTTACTA
833 ATGAAGTTTAATAGGTGGAGTTCGTGAAGTTTCTTATCAAAAAATAAA-AAATAAAAATTTAATA
* * * * *
5883 AAAAATCTAAATTGATAAATTAATAGAGTTCAATG
897 AAAAATCCAAACTAATAAATTAATAAAGCTCAATG
5918 TAA
1 TAA
5921 AAATTATTAA
Statistics
Matches: 852, Mismatches: 67, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
928 2 0.00
929 38 0.04
930 107 0.13
931 121 0.14
932 125 0.15
933 9 0.01
935 55 0.06
936 6 0.01
938 105 0.12
939 114 0.13
940 80 0.09
941 9 0.01
942 81 0.10
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (931 bp):
TAACATAGATCCTGCTGAATGAATGTGTACATTAATTAACAAATTGCTACAATTGCATAGTATTT
TTTAAATTTATTTGACTAGTTAATTTGATAATTGTAATTATACATATATATTATATTACAGGTTC
AAATGGCTTGTTGAGACTACAAAAACTTGAGACTTTAGATCTTTCTGGTAACTACTTTTCAAATA
ACTCTTTGCAGTCCTTAAGTACACTCACATCTCTTAAAAATTGATTCTAACTAACAATCGCATAG
AAGGACCCTTTCCTATCCAAGGTACATCTAATATTTGTTATTAATATCATATTAAGTATTAATTT
ATTTTGATTTTTAGTGTAGTTAAATTAAGATTTTTTAATACTATATAACAGAGTTACTAAATAAT
ATTAAATAATAATTTTTTGATATGTATTGTATTTATAAAAAAACTGGTATATTTAAATAATTAAC
AAAATTTAACATAAATAATATAATTAAAGTATTTTAAAGCTATATATATACATATAGTTATTGGA
ATATATTAATTTCTTTCAAATAAACGCCTAGACACCTACATATACTACGTACATGTTTACTTAGT
TATTTTAAACTGTTAGTCAAATACTTATGAATAAAAAGTATAGTCAAGATTTAATATAATTTTAT
AATTTTTTAACAATAAACCTGTCATTTTATATTTTAGTATTAATTACAAAAGTTAACATAAATAA
TATATTTAAAGTATTTTTAAGACATATTTAGTATATTTCTTGCATTTATTAACTTTTTTCATATA
AACGCCTACACATCCACATATACTACACAAATGTTTAATGGATAAAACTTACATGAAGTTTAATA
GGTGGAGTTCGTGAAGTTTCTTATCAAAAAATAAAAAATAAAAATTTAATAAAAAATCCAAACTA
ATAAATTAATAAAGCTCAATG
Found at i:8211 original size:22 final size:22
Alignment explanation
Indices: 8183--8229 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8173 ATGATTAAGT
*
8183 AAAAATTCAAATTTTTTTTCTA
1 AAAAATTCAAATTTTATTTCTA
8205 AAAAATTCAAATTTTATTTCTA
1 AAAAATTCAAATTTTATTTCTA
8227 AAA
1 AAA
8230 CTTAATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATTCAAATTTTATTTCTA
Found at i:11051 original size:28 final size:28
Alignment explanation
Indices: 10995--11084 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
10985 CAAAAAATTC
* * *
10995 AAAACAAAAATTAAATATTTTGATTTAAAT
1 AAAA-AAAAAATAAAAATTTTGA-ATAAAT
*
11025 AAAAAAAAAAGT-TAAATTTTGAATAAAT
1 AAAAAAAAAA-TAAAAATTTTGAATAAAT
* *
11053 ACAAAAAAAATAAAAATTTT-AATAGAT
1 AAAAAAAAAATAAAAATTTTGAATAAAT
11080 AAAAA
1 AAAAA
11085 TCTAGAAGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 11 0.22
28 21 0.42
29 13 0.26
30 5 0.10
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAAAAAAAATAAAAATTTTGAATAAAT
Found at i:11320 original size:9 final size:9
Alignment explanation
Indices: 11300--11349 Score: 73
Period size: 9 Copynumber: 5.3 Consensus size: 9
11290 ATCAATTTTT
11300 AATATTTAA
1 AATATTTAA
*
11309 AAAAGTTTAA
1 AATA-TTTAA
11319 AATATTTAA
1 AATATTTAA
11328 AATATTTAA
1 AATATTTAA
11337 AATATTTATA
1 AATATTTA-A
11347 AAT
1 AAT
11350 TTTTTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
9 25 0.68
10 12 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
AATATTTAA
Found at i:11335 original size:18 final size:19
Alignment explanation
Indices: 11300--11349 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
11290 ATCAATTTTT
*
11300 AATATTTAAAAAAGTTTAA
1 AATATTTAAAATAGTTTAA
11319 AATATTTAAAATA-TTTAA
1 AATATTTAAAATAGTTTAA
11337 AATATTTATAAAT
1 AATATTTA-AAAT
11350 TTTTTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTTAAAATAGTTTAA
Found at i:14550 original size:30 final size:30
Alignment explanation
Indices: 14514--14574 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
14504 TCTTACTCTC
14514 CCAGAATACAATTTGAGCTTGATTTTGTCA
1 CCAGAATACAATTTGAGCTTGATTTTGTCA
* *
14544 CCAGAATACAATTTGGGTTTGATTTTGTCA
1 CCAGAATACAATTTGAGCTTGATTTTGTCA
14574 C
1 C
14575 TAAAAATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (30 bp):
CCAGAATACAATTTGAGCTTGATTTTGTCA
Found at i:16781 original size:17 final size:17
Alignment explanation
Indices: 16751--16794 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16741 TTTTTGTTAT
16751 ATTTTTTA-TAATTTTA
1 ATTTTTTATTAATTTTA
*
16767 ATTTTTTATTCATTTTA
1 ATTTTTTATTAATTTTA
16784 ATTTTTATATT
1 ATTTTT-TATT
16795 GCTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.32
17 13 0.52
18 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTATTAATTTTA
Found at i:24620 original size:12 final size:12
Alignment explanation
Indices: 24603--24640 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
24593 TCAATTTAAT
*
24603 ATAATAATTTTG
1 ATAATAATATTG
*
24615 ATAATAATATTA
1 ATAATAATATTG
24627 ATAATAATATTG
1 ATAATAATATTG
24639 AT
1 AT
24641 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
ATAATAATATTG
Found at i:24993 original size:8 final size:8
Alignment explanation
Indices: 24982--25024 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
24972 CCAAATACCC
24982 AAACAAAA
1 AAACAAAA
24990 AAACAAAA
1 AAACAAAA
24998 AAACAAAA
1 AAACAAAA
*
25006 ACAA-AAAC
1 A-AACAAAA
25014 AAACAAAA
1 AAACAAAA
25022 AAA
1 AAA
25025 AAACAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 2 0.06
8 27 0.87
9 2 0.06
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (8 bp):
AAACAAAA
Found at i:25005 original size:6 final size:6
Alignment explanation
Indices: 24982--25030 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
24972 CCAAATACCC
*
24982 AAACAA AAA-AA CAA-AA AAACAA AAACAA AAAC-- AAACAA AAA-AA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA
25025 AAACAA
1 AAACAA
25031 TCATCCCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 13 0.35
6 20 0.54
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:25025 original size:20 final size:20
Alignment explanation
Indices: 24988--25030 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
24978 ACCCAAACAA
24988 AAAAACAAAAAAACAAAAAC
1 AAAAACAAAAAAACAAAAAC
*
25008 AAAAACAAACAAAAAAAAAAC
1 AAAAACAAA-AAAACAAAAAC
25029 AA
1 AA
25031 TCATCCCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAACAAAAAC
Found at i:25101 original size:8 final size:8
Alignment explanation
Indices: 25088--25130 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
25078 AAAGATACCC
25088 AAACAAAA
1 AAACAAAA
25096 AAACAAAA
1 AAACAAAA
25104 AAACAAAA
1 AAACAAAA
*
25112 ACAA-AAAC
1 A-AACAAAA
25120 AAACAAAA
1 AAACAAAA
25128 AAA
1 AAA
25131 ATAATCCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 2 0.06
8 27 0.87
9 2 0.06
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (8 bp):
AAACAAAA
Found at i:25117 original size:20 final size:20
Alignment explanation
Indices: 25094--25131 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25084 ACCCAAACAA
25094 AAAAACAAA-AAAACAAAAAC
1 AAAAACAAACAAAA-AAAAAC
25114 AAAAACAAACAAAAAAAA
1 AAAAACAAACAAAAAAAA
25132 TAATCCTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAACAAACAAAAAAAAAC
Found at i:25168 original size:104 final size:105
Alignment explanation
Indices: 24976--25186 Score: 370
Period size: 104 Copynumber: 2.0 Consensus size: 105
24966 CCATACCCAA
24976 ATACCCAAACAAAAAAACAAAAAAACAAAAACAAAAACAAACAAAAAAAAAACAATCATCCCCAT
1 ATACCCAAACAAAAAAACAAAAAAACAAAAACAAAAACAAAC-AAAAAAAAACAATCATCCCCAT
*
25041 AGGGAGGAACCCAGCGTCGAGCCATCTGCAACAAAGAAAAG
65 AGGGAGGAACCCAGCGCCGAGCCATCTGCAACAAAGAAAAG
* * *
25082 ATACCCAAACAAAAAAACAAAAAAACAAAAACAAAAACAAAC-AAAAAAAATAATCCTCCCCGTA
1 ATACCCAAACAAAAAAACAAAAAAACAAAAACAAAAACAAACAAAAAAAAACAATCATCCCCATA
25146 GGGAGGAACCCAGCGCCGAGCCATCTGCAACAAAGAAAAG
66 GGGAGGAACCCAGCGCCGAGCCATCTGCAACAAAGAAAAG
25186 A
1 A
25187 AGCTGTCAGT
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 59 0.58
106 42 0.42
ACGTcount: A:0.57, C:0.24, G:0.12, T:0.07
Consensus pattern (105 bp):
ATACCCAAACAAAAAAACAAAAAAACAAAAACAAAAACAAACAAAAAAAAACAATCATCCCCATA
GGGAGGAACCCAGCGCCGAGCCATCTGCAACAAAGAAAAG
Found at i:26210 original size:13 final size:13
Alignment explanation
Indices: 26166--26208 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
26156 TAAAACCTTT
26166 AAACCCTTAAATTC
1 AAACCC-TAAATTC
*
26180 AAACCCTAAATCC
1 AAACCCTAAATTC
26193 AAACCCTAAAGTTC
1 AAACCCTAAA-TTC
26207 AA
1 AA
26209 CCTTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (13 bp):
AAACCCTAAATTC
Found at i:26217 original size:27 final size:27
Alignment explanation
Indices: 26166--26222 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
26156 TAAAACCTTT
*
26166 AAACCCTTAAATTCAAACCCTAAATCC
1 AAACCCTTAAATTCAAACCCTAAATAC
*
26193 AAACCC-TAAAGTTC-AACCTTAAAATAC
1 AAACCCTTAAA-TTCAAACCCT-AAATAC
26220 AAA
1 AAA
26223 ACCCAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (27 bp):
AAACCCTTAAATTCAAACCCTAAATAC
Found at i:26264 original size:7 final size:7
Alignment explanation
Indices: 26213--26256 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
26203 GTTCAACCTT
*
26213 AAAATAC
1 AAAATCC
*
26220 AAAACCC
1 AAAATCC
26227 AAAATCC
1 AAAATCC
26234 AAAATCC
1 AAAATCC
26241 AAAAT-C
1 AAAATCC
26247 AAAATCC
1 AAAATCC
26254 AAA
1 AAA
26257 TCCTAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.64, C:0.25, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAATCC
Found at i:26878 original size:17 final size:18
Alignment explanation
Indices: 26853--26887 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26843 TTATAATAAA
*
26853 AAAAGAATAATAAATTTT
1 AAAAGAATAAAAAATTTT
26871 AAAA-AATAAAAAATTTT
1 AAAAGAATAAAAAATTTT
26888 GATATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAGAATAAAAAATTTT
Found at i:30629 original size:52 final size:52
Alignment explanation
Indices: 30535--30638 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
30525 ATAGCTATAT
* * *
30535 AAACTGGCCTATTGAGAATTTCTTTCCTTTTAAAAATTTTCTTTTGCAAGTC
1 AAACTGGCCTATTAAAAATTTCTTTCCTTTTAAAAATTTTCTTATGCAAGTC
* * *
30587 AAACTTGCCTATTAAAAATCTT-TTTCCTTTT-AGAATTCTTCTTATGTAAGTC
1 AAACTGGCCTATTAAAAAT-TTCTTTCCTTTTAAAAATT-TTCTTATGCAAGTC
30639 TTCTTCTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
51 5 0.11
52 37 0.84
53 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (52 bp):
AAACTGGCCTATTAAAAATTTCTTTCCTTTTAAAAATTTTCTTATGCAAGTC
Found at i:33052 original size:49 final size:50
Alignment explanation
Indices: 32949--33052 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 50
32939 TATTTTAAAA
* * *
32949 ATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCATAAACAACGT
1 ATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTCCCATAAAAAACAT
* *
32999 -TTTTATTTTTAAAGGAAATTGATACTTTCAAC-TTCCCA-AAAAATATAT
1 ATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTCCCATAAAAA-ACAT
33047 ATTTTA
1 ATTTTA
33053 AAAATTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 4 0.09
48 7 0.15
49 36 0.77
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (50 bp):
ATTTTATTTTTAAAGAAAATTGATACTTTCAACTTTCCCATAAAAAACAT
Found at i:33124 original size:15 final size:15
Alignment explanation
Indices: 33104--33143 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
33094 TCAAAAATGC
33104 TTTTAGAAAATTTTA
1 TTTTAGAAAATTTTA
33119 TTTTAG-AAATTTTA
1 TTTTAGAAAATTTTA
33133 TTTTAAGAAAA
1 TTTT-AGAAAA
33144 ATTAATACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 8 0.35
16 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTTTAGAAAATTTTA
Found at i:33313 original size:12 final size:10
Alignment explanation
Indices: 33244--33310 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
33234 AATACTCTTA
*
33244 AAAAAAAAAC
1 AAAAAAATAC
* *
33254 AAACACATA-
1 AAAAAAATAC
*
33263 AATAAAATACC
1 AAAAAAATA-C
33274 AAAATAAATAC
1 AAAA-AAATAC
*
33285 -CAAAAATAC
1 AAAAAAATAC
33294 AAAAAAATAC
1 AAAAAAATAC
33304 AAAAAAA
1 AAAAAAA
33311 AATTGAATCG
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 12 0.27
10 23 0.52
11 4 0.09
12 5 0.11
ACGTcount: A:0.76, C:0.13, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:39274 original size:21 final size:22
Alignment explanation
Indices: 39239--39279 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
39229 TTCTTTAGTA
39239 ATTTTATAGACTTTAGCTTTCT
1 ATTTTATAGACTTTAGCTTTCT
* *
39261 ATTTTTTA-ACTTTATCTTT
1 ATTTTATAGACTTTAGCTTT
39280 GCACTGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (22 bp):
ATTTTATAGACTTTAGCTTTCT
Found at i:41993 original size:60 final size:59
Alignment explanation
Indices: 41831--41996 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 59
41821 GCTTTTGTAT
* * * *
41831 AAAG-AAAATTAATAATTTCAACTTTTCCTTAAAATA-TATTTTTTAAAATGAACTTTT
1 AAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTATTTTTTAAAATGAACTTTC
* * ** * * * * *
41888 TAAGAAAAATTGGTACTTTTGACTTTTTCTCAAAATGCTTATTTTTTAGAATTTAA-TTTC
1 AAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAT-ATTATTTTTTA-AAATGAACTTTC
41948 AAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAATATT-TTTTTTAAA
1 AAAGAAAAATTGATACTTTCAACTTT-TCCTAAAAATATTATTTTTTAAA
41997 CCCTTTTATT
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
57 3 0.04
58 26 0.31
59 7 0.08
60 36 0.42
61 13 0.15
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTATTTTTTAAAATGAACTTTC
Found at i:42239 original size:58 final size:59
Alignment explanation
Indices: 42118--42241 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 59
42108 TAAAAAACCT
* * * *
42118 TTTTATTTTCAAGAGAAATTGATATTTTCAACTTTTCCCAAAAATATATATTTTAAAAA
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCAAAAATATAGATTTTAAAAA
*
42177 -TTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCTC-AAAA-AT-GCTTTTAGAAAA
1 TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCC-CAAAAATATAGATTTTA-AAAA
42234 TTTTATTT
1 TTTTATTT
42242 GATAAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
56 5 0.09
57 6 0.11
58 45 0.79
59 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (59 bp):
TTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTCCCAAAAATATAGATTTTAAAAA
Found at i:42279 original size:178 final size:180
Alignment explanation
Indices: 41939--42300 Score: 502
Period size: 178 Copynumber: 2.0 Consensus size: 180
41929 TTTTTTAGAA
* * * **
41939 TTTAATTTCAAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAATATTTTTTTTAAACCCTTTT
1 TTTAATTTCAAAGAAAAATTGATACTTTCAACTTTCTCCCAAAAATATATATTTTAAA-CAATTT
** * * *
42004 ATTTTAAGGAAAATTGATACTTTCAATTTTCCCCAAAATGTTTTTGAAAATTTTTATTTTATAAA
65 ATTTTAAAAAAAATTGATACTTTCAATTTTCCCAAAAATGTTTTAGAAAATTTTTATTTGATAAA
*
42069 TTTTATTTTTAAGTAAAATTGATACTTTCAACTTTTCCTTAAAAA-ACCTT
130 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTT
* * *
42119 TTTATTTTC-AAGAGAAATTGATATTTTCAACTTT-TCCCAAAAATATATATTTTAAA-AATTTA
1 TTTAATTTCAAAGAAAAATTGATACTTTCAACTTTCTCCCAAAAATATATATTTTAAACAATTTA
42181 TTTTCAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTAGAAAA-TTTTATTTGAT
66 TTTT-AAAAAAAATTGATACTTTCAA-TTTTCC-CAAAAATG-TTTTAGAAAATTTTTATTTGAT
*
42245 AAATTTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATACTTT
127 AAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTT
42298 TTT
1 TTT
42301 TTAAAAAAAT
Statistics
Matches: 162, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
176 8 0.05
177 19 0.12
178 63 0.39
179 55 0.34
180 17 0.10
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (180 bp):
TTTAATTTCAAAGAAAAATTGATACTTTCAACTTTCTCCCAAAAATATATATTTTAAACAATTTA
TTTTAAAAAAAATTGATACTTTCAATTTTCCCAAAAATGTTTTAGAAAATTTTTATTTGATAAAT
TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATACCTT
Found at i:42396 original size:13 final size:15
Alignment explanation
Indices: 42360--42397 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
42350 AAATACTCTT
42360 CAAAATAAACAAACA
1 CAAAATAAACAAACA
42375 CATAAATAAA-AAAC-
1 CA-AAATAAACAAACA
42389 CAAAATAAA
1 CAAAATAAA
42398 TACAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 2 0.09
15 6 0.27
16 7 0.32
ACGTcount: A:0.74, C:0.16, G:0.00, T:0.11
Consensus pattern (15 bp):
CAAAATAAACAAACA
Found at i:42405 original size:11 final size:11
Alignment explanation
Indices: 42389--42426 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
42379 AATAAAAAAC
42389 CAAAATAAATA
1 CAAAATAAATA
*
42400 CAAAATAAACA
1 CAAAATAAATA
42411 CCAAAA-AAATA
1 -CAAAATAAATA
42422 CAAAA
1 CAAAA
42427 ATACAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.74, C:0.16, G:0.00, T:0.11
Consensus pattern (11 bp):
CAAAATAAATA
Found at i:42423 original size:22 final size:24
Alignment explanation
Indices: 42378--42435 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
42368 ACAAACACAT
42378 AAATAAAAAACCAAAATAAATACA
1 AAATAAAAAACCAAAATAAATACA
*
42402 AAAT-AAACACCAAAA-AAATACAA
1 AAATAAAAAACCAAAATAAATAC-A
42425 AAATACAAAAA
1 AAATA-AAAAA
42436 AAAGAATCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 4 0.14
25 4 0.14
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (24 bp):
AAATAAAAAACCAAAATAAATACA
Found at i:43251 original size:19 final size:19
Alignment explanation
Indices: 43229--43319 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
43219 AATCAATCCA
* * *
43229 AAAATAATAATAATATAAT
1 AAAATAAAAAAAAAATAAT
* *
43248 AAAATTAAAAAAAAACAAT
1 AAAATAAAAAAAAAATAAT
43267 -AAATAAAAAAAATAATAAT
1 AAAATAAAAAAAA-AATAAT
*
43286 AAAATAAAAACAAAATAAT
1 AAAATAAAAAAAAAATAAT
43305 -AAATAAAAAATAAAA
1 AAAATAAAAAA-AAAA
43320 AAAAATATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
18 20 0.33
19 29 0.48
20 11 0.18
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAAAAAATAAT
Found at i:43306 original size:38 final size:37
Alignment explanation
Indices: 43230--43314 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 37
43220 ATCAATCCAA
* *
43230 AAATAATAATAATATAATAAAATTAAAAAAAAACAAT
1 AAATAAAAAAAATATAATAAAATTAAAAAAAAACAAT
*
43267 AAATAAAAAAAATAATAATAAAA-TAAAAACAAAATAAT
1 AAATAAAAAAAAT-ATAATAAAATTAAAAA-AAAACAAT
43305 AAATAAAAAA
1 AAATAAAAAA
43315 TAAAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 17 0.40
38 26 0.60
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (37 bp):
AAATAAAAAAAATATAATAAAATTAAAAAAAAACAAT
Found at i:43896 original size:33 final size:33
Alignment explanation
Indices: 43829--43897 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
43819 TTATTGAATT
*
43829 TTAATTTTAAAATATATTTTAAATCATTAAAATA
1 TTAATTTCAAAATATATTTTAAAT-ATTAAAATA
43863 TTAATTTCAAAATAT-TTTT-AATATTTAATAATA
1 TTAATTTCAAAATATATTTTAAATA-TTAA-AATA
43896 TT
1 TT
43898 TTTAAATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 1 0.03
32 7 0.22
33 10 0.31
34 14 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (33 bp):
TTAATTTCAAAATATATTTTAAATATTAAAATA
Found at i:44367 original size:14 final size:14
Alignment explanation
Indices: 44251--44368 Score: 59
Period size: 14 Copynumber: 8.4 Consensus size: 14
44241 ATTCGTATCT
*
44251 TATATATATTTATA
1 TATATATATTAATA
44265 TATATATATCTAATA
1 TATATATAT-TAATA
44280 TATAGTATTTCATTAA-A
1 TATA-TA--T-ATTAATA
* *
44297 TAATATAAATTATTA
1 T-ATATATATTAATA
*
44312 T-TTTATA-TAA-A
1 TATATATATTAATA
*
44323 T-TA-AAATTAATA
1 TATATATATTAATA
* * *
44335 TATTTTTATTAAAA
1 TATATATATTAATA
*
44349 AATATATATTAATA
1 TATATATATTAATA
44363 TATATA
1 TATATA
44369 ATTTTATAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
10 2 0.03
11 6 0.08
12 4 0.05
13 5 0.07
14 34 0.45
15 10 0.13
16 2 0.03
17 4 0.05
18 7 0.09
19 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
TATATATATTAATA
Found at i:46765 original size:3 final size:3
Alignment explanation
Indices: 46757--46806 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
46747 GATTACTGTA
*
46757 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46804 TAT
1 TAT
46807 AAGGTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:48650 original size:7 final size:7
Alignment explanation
Indices: 48638--48716 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
48628 GTTTGTTTTA
48638 TTTTATT
1 TTTTATT
48645 TTTTATT
1 TTTTATT
* *
48652 CTATATT
1 TTTTATT
**
48659 TTGCATT
1 TTTTATT
48666 TTTTA-T
1 TTTTATT
48672 TTTTATT
1 TTTTATT
*
48679 TTTTTTGT
1 TTTTAT-T
48687 ATTTTATT
1 -TTTTATT
*
48695 TATTATT
1 TTTTATT
*
48702 CATTTATT
1 -TTTTATT
*
48710 TATTATT
1 TTTTATT
48717 ACTATTTATT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
6 6 0.11
7 36 0.67
8 7 0.13
9 5 0.09
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTATT
Found at i:48681 original size:21 final size:21
Alignment explanation
Indices: 48642--48680 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48632 GTTTTATTTT
48642 ATTTTTTATTCTATATTTTGC
1 ATTTTTTATTCTATATTTTGC
*
48663 ATTTTTTATT-TTTATTTT
1 ATTTTTTATTCTATATTTT
48681 TTTTGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (21 bp):
ATTTTTTATTCTATATTTTGC
Found at i:48725 original size:17 final size:17
Alignment explanation
Indices: 48689--48786 Score: 75
Period size: 17 Copynumber: 5.9 Consensus size: 17
48679 TTTTTTGTAT
48689 TTTATTTATTATT-C-A
1 TTTATTTATTATTACTA
48704 TTTATTTATTATTACTA
1 TTTATTTATTATTACTA
*
48721 TTTA-TTAATA-TA-TA
1 TTTATTTATTATTACTA
*
48735 TTT-TTTATTACTTATCTG
1 TTTATTTATTA-TTA-CTA
* *
48753 TTTATATATCTATTATTA
1 TTTATTTAT-TATTACTA
48771 TTT-TTTATCTATTACT
1 TTTATTTAT-TATTACT
48787 TAATATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
14 10 0.15
15 15 0.23
16 8 0.12
17 16 0.24
18 8 0.12
19 7 0.11
20 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTATTTATTATTACTA
Found at i:48736 original size:27 final size:28
Alignment explanation
Indices: 48691--48746 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
48681 TTTTGTATTT
* *
48691 TATTTATTATTCATTTATTTATTATTAC
1 TATTTATTAATCATATATTTATTATTAC
*
48719 TATTTATTAAT-ATATATTTTTTATTAC
1 TATTTATTAATCATATATTTATTATTAC
48746 T
1 T
48747 TATCTGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (28 bp):
TATTTATTAATCATATATTTATTATTAC
Found at i:49175 original size:31 final size:32
Alignment explanation
Indices: 49131--49197 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
49121 AATTTTCGAA
49131 TTTCAGTTGAATTTTTCAGCCAAGTTTGAATT
1 TTTCAGTTGAATTTTTCAGCCAAGTTTGAATT
** *
49163 TTTCAG-TGAATTTTTTGGTCAAGTTTGAATT
1 TTTCAGTTGAATTTTTCAGCCAAGTTTGAATT
49194 TTTC
1 TTTC
49198 GACCATCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.51
Consensus pattern (32 bp):
TTTCAGTTGAATTTTTCAGCCAAGTTTGAATT
Found at i:49659 original size:3 final size:3
Alignment explanation
Indices: 49639--49698 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
49629 ATTTATTTAT
* * *
49639 TTA TTT TTA TTG TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
49685 TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TT
49699 TATTGATTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49663 original size:25 final size:25
Alignment explanation
Indices: 49635--49703 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
49625 ATTTATTTAT
*
49635 TTATTTATTTTTATTGTTATTATTA
1 TTATTTATTTTTATTGTTATTATCA
* *
49660 TTATTTATTATTATTATTATTATCA
1 TTATTTATTTTTATTGTTATTATCA
49685 TTACTATTATTATTTATTG
1 TTA-T-TTATT-TTTATTG
49704 ATTAGATTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 25 0.69
26 1 0.03
27 5 0.14
28 5 0.14
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TTATTTATTTTTATTGTTATTATCA
Found at i:49666 original size:19 final size:19
Alignment explanation
Indices: 49639--49782 Score: 86
Period size: 19 Copynumber: 7.5 Consensus size: 19
49629 ATTTATTTAT
*
49639 TTATT-TTTATTGTTATTA
1 TTATTATTTATTATTATTA
49657 TTATTATTTATTATTATTA
1 TTATTATTTATTATTATTA
*
49676 TTATTATCATTACTATTATTA
1 TTATTAT--TTATTATTATTA
* **
49697 TTTATTGATTAGATTAGAATTA
1 -TTATT-ATT-TATTATTATTA
* *
49719 TTTAGTATTTCTTATT-TTA
1 -TTATTATTTATTATTATTA
49738 TT-TTATTCTATCT-TTATCT-
1 TTATTATT-TAT-TATTAT-TA
*
49757 TTATT-TTTATT-TTATTT
1 TTATTATTTATTATTATTA
49774 TTATTATTT
1 TTATTATTT
49783 TCTTTAAATA
Statistics
Matches: 100, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.01
17 14 0.14
18 17 0.17
19 28 0.28
20 6 0.06
21 15 0.15
22 17 0.17
23 2 0.02
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (19 bp):
TTATTATTTATTATTATTA
Found at i:49757 original size:6 final size:5
Alignment explanation
Indices: 49730--49783 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
49720 TTAGTATTTC
* *
49730 TTATT TTATT TTATT CTATCT TTATCT TTATTT TTATT TTATT TT-TA
1 TTATT TTATT TTATT TTAT-T TTAT-T TTA-TT TTATT TTATT TTATT
49777 TTATT TT
1 TTATT TT
49784 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 3 0.07
5 25 0.60
6 13 0.31
7 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:49776 original size:17 final size:17
Alignment explanation
Indices: 49724--49778 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
49714 AATTATTTAG
49724 TATTTCTTATTTTA-TTT
1 TATTT-TTATTTTATTTT
* *
49741 TA-TTCTATCTTTATCTT
1 TATTTTTAT-TTTATTTT
49758 TATTTTTATTTTATTTT
1 TATTTTTATTTTATTTT
49775 TATT
1 TATT
49779 ATTTTCTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 3 0.10
16 6 0.19
17 17 0.55
18 5 0.16
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTATTTTATTTT
Found at i:49871 original size:58 final size:58
Alignment explanation
Indices: 49802--50074 Score: 333
Period size: 58 Copynumber: 4.7 Consensus size: 58
49792 AAAATTCAAA
49802 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * * *
49860 AAAAAATATTTTT--GGAAAAAAGTTGAAAGTATCAATTTTTCTTGGAAATAAGTTTTTTCAA
1 AAAAAATATTTTTAAGG--AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--CTTTC-T
*
49921 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
* * * * *
49979 AAAAAATATTTTTGATGAAAAGTTGAAAGTATCAATTTTTC-TCAAAATTAAAG-TTTTT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-T-AAGCTTTCT
*
50037 AAAAAATATTTTGGAA--AAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTT-TAAGGAAAAGTTGAAAGTATCAATTTT
50075 TCTTATACAA
Statistics
Matches: 191, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
56 2 0.01
57 27 0.14
58 102 0.53
59 8 0.04
60 4 0.02
61 46 0.24
63 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:50008 original size:119 final size:118
Alignment explanation
Indices: 49800--50074 Score: 418
Period size: 119 Copynumber: 2.3 Consensus size: 118
49790 ATAAAATTCA
*
49800 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
**
49865 ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTGGAAA-T-AAGTTTTTT
66 ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTC-TCAAAATTAAAG-TTTTT
49918 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAA
1 -AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAA
*
49983 AATATTTTT-GATGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTT
65 AATATTTTTGGA-AAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTT
* *
50037 --AAAAAATATTTTGGA-AAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
50075 TCTTATACAA
Statistics
Matches: 147, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
115 22 0.15
116 14 0.10
118 6 0.04
119 102 0.69
120 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.37
Consensus pattern (118 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTT
Found at i:50152 original size:11 final size:11
Alignment explanation
Indices: 50132--50165 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
50122 AAAGCAATCA
50132 TTTT-TTTTCT
1 TTTTATTTTCT
50142 TTTTATTTTCT
1 TTTTATTTTCT
50153 TTTTATTTTCT
1 TTTTATTTTCT
50164 TT
1 TT
50166 AATGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTCT
Found at i:60549 original size:11 final size:11
Alignment explanation
Indices: 60528--60604 Score: 63
Period size: 11 Copynumber: 7.2 Consensus size: 11
60518 TGCTTGAATG
60528 AAAAAAT-AAA
1 AAAAAATAAAA
60538 AAAAAAT---A
1 AAAAAATAAAA
60546 AAAAAATAAAA
1 AAAAAATAAAA
60557 AAAAAATGAAAA
1 AAAAAAT-AAAA
**
60569 AAAAAGGAAAA
1 AAAAAATAAAA
*
60580 AAGAAAAGAAAA
1 AA-AAAATAAAA
**
60592 AGTAAATAAAA
1 AAAAAATAAAA
60603 AA
1 AA
60605 GGAAGACTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
8 8 0.15
10 7 0.13
11 22 0.40
12 18 0.33
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:60579 original size:18 final size:19
Alignment explanation
Indices: 60524--60586 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
60514 ACTATGCTTG
60524 AATGAAAAAATAAA-AAAA
1 AATGAAAAAATAAAGAAAA
* *
60542 AATAAAAAAATAAAAAAAA
1 AATGAAAAAATAAAGAAAA
60561 AATGAAAAAA-AAAGGAAAA
1 AATGAAAAAATAAA-GAAAA
60580 AA-GAAAA
1 AATGAAAA
60587 GAAAAAGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 21 0.52
19 19 0.47
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (19 bp):
AATGAAAAAATAAAGAAAA
Found at i:60603 original size:12 final size:10
Alignment explanation
Indices: 60528--60605 Score: 63
Period size: 10 Copynumber: 7.7 Consensus size: 10
60518 TGCTTGAATG
*
60528 AAAAAATAAA
1 AAAAAAGAAA
*
60538 AAAAAATAAA
1 AAAAAAGAAA
60548 AAAATAA-AAA
1 AAAA-AAGAAA
*
60558 AAAAATGAAA
1 AAAAAAGAAA
*
60568 AAAAAAG--G
1 AAAAAAGAAA
60576 AAAAAAGAAA
1 AAAAAAGAAA
60586 AGAAAAAGTAAA
1 A-AAAAAG-AAA
60598 TAAAAAAG
1 -AAAAAAG
60606 GAAGACTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
8 7 0.12
9 1 0.02
10 31 0.54
11 8 0.14
12 9 0.16
13 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.08
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:60605 original size:23 final size:23
Alignment explanation
Indices: 60545--60605 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
60535 AAAAAAAAAT
60545 AAAAAAATAAAAAA-AAAATGAA
1 AAAAAAATAAAAAAGAAAATGAA
*
60567 AAAAAAAGGAAAAAAGAAAA-GAA
1 AAAAAAA-TAAAAAAGAAAATGAA
*
60590 AAAGTAAATAAAAAAG
1 AAA-AAAATAAAAAAG
60606 GAAGACTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 7 0.21
23 19 0.58
24 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAAAAATAAAAAAGAAAATGAA
Found at i:61754 original size:82 final size:82
Alignment explanation
Indices: 61665--61873 Score: 221
Period size: 83 Copynumber: 2.5 Consensus size: 82
61655 AGCAATCTAT
*
61665 TTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTTATTGAGCCTCTG
1 TTTTCAAAGTTGTGA-GCCTCTGTTTAGAGGAGCAATTTA-TTTCCAAAAGTCATTGAGCCTCTG
*
61730 ATTAGAGGAGC-TT-TTTA
64 ATTAGAGGAACTTTATTTA
* ** ** *
61747 TTTTCAAAAGTCAT-TGAGCCTCTGATTAGAGGAGCTTTTTATTTTTAAAAGTCGTTGAGCCTCT
1 TTTTC-AAAGT--TGTGAGCCTCTGTTTAGAGGAGCAATTTATTTCCAAAAGTCATTGAGCCTCT
* *
61811 GTTTAGGGGAACTTTATTTA
63 GATTAGAGGAACTTTATTTA
61831 TCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--TTTATTT
1 T-TTT-CAAAGTTG-TGAGCCTCTGTTTAGAGGAGCAATTTATTT
61874 ATTTTTCTGA
Statistics
Matches: 107, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
82 33 0.31
83 36 0.34
84 8 0.07
85 29 0.27
86 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (82 bp):
TTTTCAAAGTTGTGAGCCTCTGTTTAGAGGAGCAATTTATTTCCAAAAGTCATTGAGCCTCTGAT
TAGAGGAACTTTATTTA
Found at i:61849 original size:44 final size:42
Alignment explanation
Indices: 61618--61980 Score: 310
Period size: 41 Copynumber: 8.5 Consensus size: 42
61608 TCAAAGAGCA
** * * *
61618 ATTTATTTTCTGAAGTTG-TGATGCCTCTGTTCAGATGAGC-A
1 ATTTATTTTCCAAAGTTGTTGA-GCCTCTGTTTAGAGGAGCTT
* * *
61659 ATCTATTTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGAGC-A
1 ATTTATTTTCCAAAGTTGTTGA-GCCTCTGTTTAGAGGAGCTT
* * *
61700 ATTTACTTTCCAAAAGTTATTGAGCCTCTGATTAGAGGAGCTT
1 ATTTATTTTCC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGCTT
* ** *
61743 -TTTATTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTT
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTT
** * * *
61784 -TTTATTTTTAAAAGTCGTTGAGCCTCTGTTTAGGGGAACTTT
1 ATTTATTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC-TT
61826 ATTTATCTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
1 ATTTAT-TTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC-TT
* * *
61870 ATTTATTTTTCTGAAA-TTGTTGAACCTCTATTTAGAGGAG-TT
1 ATTTA-TTTTC-CAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTT
** * *
61912 ATTTATTTTTCCAAAGTCATTGAGTCTCTGCTTAGAGGAGCCTT
1 ATTTA-TTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAG-CTT
*
61956 CGTTTATTCTTCCAAAGTTGTTGAG
1 -ATTTATT-TTCCAAAGTTGTTGAG
61981 TATCTATCAT
Statistics
Matches: 271, Mismatches: 38, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
41 110 0.41
42 64 0.24
43 8 0.03
44 67 0.25
45 22 0.08
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (42 bp):
ATTTATTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTT
Found at i:61941 original size:86 final size:83
Alignment explanation
Indices: 61681--61952 Score: 246
Period size: 86 Copynumber: 3.2 Consensus size: 83
61671 AAGTTGTGAT
* ** ** ** *
61681 GCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTTATTGAGCCTCTGA-TTAGAGGAGCTT-T
1 GCCTCTGATTAGAGGAGCTTTTTA-TTTTTAAAAGTCGTTGAACCTCT-ATTTAGAGGAG-TTAT
*
61744 TTA-TTTTCAAAAGTCATTGA
63 TTATTTTTCCAAAGTCATTGA
* * * *
61764 GCCTCTGATTAGAGGAGCTTTTTATTTTTAAAAGTCGTTGAGCCTCTGTTTAGGGGAACTTTATT
1 GCCTCTGATTAGAGGAGCTTTTTATTTTTAAAAGTCGTTGAACCTCTATTTAGAGG-A-GTTATT
* **
61829 TATCTTTCCAAAGTTGTTGA
64 TATTTTTCCAAAGTCATTGA
* * *
61849 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTGAAA-TTGTTGAACCTCTATTTAGAGGAGTTA
1 GCCTCTGATTAGAGGAGC-TT-TTTA-TTTT-TAAAAGTCGTTGAACCTCTATTTAGAGGAGTTA
61913 TTTATTTTTCCAAAGTCATTGA
62 TTTATTTTTCCAAAGTCATTGA
* *
61935 GTCTCTGCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
61953 CTTCGTTTAT
Statistics
Matches: 154, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
82 25 0.16
83 24 0.16
84 4 0.03
85 30 0.19
86 40 0.26
87 5 0.03
88 22 0.14
89 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (83 bp):
GCCTCTGATTAGAGGAGCTTTTTATTTTTAAAAGTCGTTGAACCTCTATTTAGAGGAGTTATTTA
TTTTTCCAAAGTCATTGA
Found at i:62204 original size:7 final size:7
Alignment explanation
Indices: 62192--62281 Score: 51
Period size: 7 Copynumber: 13.0 Consensus size: 7
62182 GTTTATTTTA
62192 TTTTATT
1 TTTTATT
62199 TTTTATT
1 TTTTATT
* *
62206 CTGTATT
1 TTTTATT
**
62213 TTGCATT
1 TTTTATT
62220 TTTTA-T
1 TTTTATT
62226 TTTTATT
1 TTTTATT
62233 TTTT-TT
1 TTTTATT
*
62239 GTATTA-T
1 -TTTTATT
*
62246 ATTTATT
1 TTTTATT
*
62253 TATTATT
1 TTTTATT
*
62260 CATTTATT
1 -TTTTATT
*
62268 TATTATT
1 TTTTATT
*
62275 ATTTATT
1 TTTTATT
62282 AATATATATA
Statistics
Matches: 61, Mismatches: 17, Indels: 10
0.69 0.19 0.11
Matches are distributed among these distances:
6 11 0.18
7 45 0.74
8 5 0.08
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTATT
Found at i:62222 original size:21 final size:20
Alignment explanation
Indices: 62183--62234 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
62173 CCCATTTCAG
62183 TTTATTT-TATTTT--ATTT
1 TTTATTTGTATTTTGCATTT
62200 TTTATTCTGTATTTTGCATTT
1 TTTATT-TGTATTTTGCATTT
*
62221 TTTATTTTTATTTT
1 TTTATTTGTATTTT
62235 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.20
18 1 0.03
19 6 0.20
20 7 0.23
21 10 0.33
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTATTTGTATTTTGCATTT
Found at i:62252 original size:4 final size:4
Alignment explanation
Indices: 62227--62396 Score: 60
Period size: 4 Copynumber: 44.8 Consensus size: 4
62217 ATTTTTTATT
*
62227 TTTA TTT- TTT- TTGTA TTATA TTTA TTTA -TTA TTCA TTTA TTTA -TTA
1 TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * *
62273 -TTA TTTA TTAA TATA TATA TATT- TTTA -TTA CTTA TCTG TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
62319 TATA -TTA -TTA TATA TCTA -TTA -TTA -TTA -TTG TTTA TCTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
62361 TTAA TATA TTATC TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTT
62397 TTTTCTTCCT
Statistics
Matches: 129, Mismatches: 27, Indels: 20
0.73 0.15 0.11
Matches are distributed among these distances:
3 34 0.26
4 85 0.66
5 10 0.08
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:62280 original size:14 final size:14
Alignment explanation
Indices: 62221--62395 Score: 95
Period size: 14 Copynumber: 12.7 Consensus size: 14
62211 TTTTGCATTT
62221 TTTATTT-TTATT-
1 TTTATTTATTATTA
*
62233 TTTTTTGTATTA-TA
1 TTTATT-TATTATTA
62247 TTTATTTATTATTCA
1 TTTATTTATTATT-A
62262 TTTATTTATTATTA
1 TTTATTTATTATTA
*
62276 TTTA-TTAATATATA
1 TTTATTTATTAT-TA
*
62290 TATATTT-TTATTA
1 TTTATTTATTATTA
*
62303 CTTATCTGT-TTA-TA
1 TTTAT-T-TATTATTA
*
62317 TATATATTATTATATA
1 TTTAT-TTATTAT-TA
*
62333 TCTA-TTATTATTA
1 TTTATTTATTATTA
*
62346 -TTGTTTATCTATTAA
1 TTTATTTAT-TATT-A
* * *
62361 TTAATATATTA-TC
1 TTTATTTATTATTA
62374 TTTATTTA-T-TTA
1 TTTATTTATTATTA
62386 TTTATTTATT
1 TTTATTTATT
62396 TTTTTCTTCC
Statistics
Matches: 125, Mismatches: 20, Indels: 35
0.69 0.11 0.19
Matches are distributed among these distances:
12 16 0.13
13 32 0.26
14 44 0.35
15 23 0.18
16 10 0.08
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:62321 original size:31 final size:30
Alignment explanation
Indices: 62266--62339 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
62256 TATTCATTTA
*
62266 TTTATTATTATTTATTAATATATATATATT
1 TTTATTATTATCTATTAATATATATATATT
*
62296 TTTATTACTTATCTGTT--TATATATATATT
1 TTTATTA-TTATCTATTAATATATATATATT
*
62325 ATTA-TA-TATCTATTA
1 TTTATTATTATCTATTA
62340 TTATTATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 7 0.18
28 2 0.05
29 15 0.39
30 7 0.18
31 7 0.18
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTATTATTATCTATTAATATATATATATT
Found at i:62354 original size:46 final size:46
Alignment explanation
Indices: 62243--62372 Score: 108
Period size: 46 Copynumber: 2.8 Consensus size: 46
62233 TTTTTTGTAT
* * *
62243 TATAT-TTATTTATTA-TTCATTTATTTATTATTAT-TTATTAATATA
1 TATATATTA-TTATTACTT-ATCTATTAATTAATATATTATTAATATA
* * *
62288 TATATATTTTTATTACTTATCTGTTTA-TATATATATTATT-ATATA
1 TATATATTATTATTACTTATCTATTAATTA-ATATATTATTAATATA
* **
62333 TCTATTATTATTATTGTTTATCTATTAATTAATATATTAT
1 TATA-TATTATTATTACTTATCTATTAATTAATATATTAT
62373 CTTTATTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.03
45 29 0.42
46 36 0.52
47 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (46 bp):
TATATATTATTATTACTTATCTATTAATTAATATATTATTAATATA
Found at i:63215 original size:3 final size:3
Alignment explanation
Indices: 63202--63238 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
63192 ATTTATTTAT
63202 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
63239 TGTTGATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:63495 original size:120 final size:120
Alignment explanation
Indices: 63323--63603 Score: 387
Period size: 120 Copynumber: 2.3 Consensus size: 120
63313 ATAAAATTCA
* *
63323 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCAAAAA-
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG--TTTTCAAAAAC
* *
63387 AAA-TATTT-TTGAGGAAAAGTTGAAAGTATCAAATTTTTCTTGAAAAT-AAGCTTTCT
64 AAAGTATTTATTGAGAAAAAGTTGAAAGTATC-AATTTTTCTCGAAAATAAAG-TTTCT
63443 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAGTAAGTTTTCAAAAACA
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA-TAAGTTTTCAAAAACA
* *
63507 AAGGTTTTTTATTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCT
65 AA-G-TATTTATTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCT
63565 AAAAAATATTTTAT-GA-AAAAGTTGAAAGTATCAATTTTT
1 AAAAAATATTTT-TGGAGAAAAGTTGAAAGTATCAATTTTT
63604 TTTGTACAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
118 10 0.07
119 7 0.05
120 45 0.31
121 23 0.16
122 37 0.25
123 25 0.17
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (120 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCAAAAACAA
AGTATTTATTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAGTTTCT
Done.