Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold385
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: 1395621
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 8 of 10
Found at i:878349 original size:34 final size:34
Alignment explanation
Indices: 878285--878467 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
878275 TACTTGGAAG
* *
878285 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
878318 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
878352 TGTTGATTAAATAGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
878386 TGTTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
878420 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
878454 TGTTGATTAAATGG
1 TGTTGATTAAATGG
878468 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 121 0.92
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:882944 original size:34 final size:34
Alignment explanation
Indices: 882878--883062 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
882868 AAGTGGGAGA
* *
882878 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
882911 ATTGTTGACTAAATGGAAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
882945 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
882979 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
883013 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
883047 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
883063 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:883053 original size:102 final size:101
Alignment explanation
Indices: 882878--883062 Score: 316
Period size: 102 Copynumber: 1.8 Consensus size: 101
882868 AAGTGGGAGA
882878 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGAAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGAAAATTTGGTAGCTTA
882943 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
882979 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACCATTGTTGACTAAATGGAAAATTTGGTAGCTT
*
883044 GCCATTGTTGATTAAATGG
65 ACCATTGTTGATTAAATGG
883063 TGGTTTTTAC
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 14 0.18
102 64 0.82
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGAAAATTTGGTAGCTTA
CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:883550 original size:21 final size:20
Alignment explanation
Indices: 883520--883560 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
883510 AAAAAATATT
883520 TATATTTAT-ATTAATATTTA
1 TATATTTATAATTAA-ATTTA
883540 TATATTTTATAATTAAATTTA
1 TATA-TTTATAATTAAATTTA
883561 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTATAATTAAATTTA
Found at i:884289 original size:23 final size:23
Alignment explanation
Indices: 884250--884316 Score: 84
Period size: 22 Copynumber: 2.9 Consensus size: 23
884240 TTAAATTATT
884250 ATTTAATTAATAAAAATAATTTAA
1 ATTTAATT-ATAAAAATAATTTAA
* *
884274 ATTTAATTATAAAAATAA-ATAG
1 ATTTAATTATAAAAATAATTTAA
884296 ATATTAA-TATAAAAATAATTT
1 AT-TTAATTATAAAAATAATTT
884317 TTTAATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 15 0.39
23 15 0.39
24 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATTTAATTATAAAAATAATTTAA
Found at i:885774 original size:19 final size:19
Alignment explanation
Indices: 885705--885775 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 19
885695 ATAGACAGGT
*
885705 AATATTTAATATAATTATAAA
1 AATATATAATATAA-TAT-AA
* *
885726 AATATGATATAAATAAAATAA
1 AATAT-ATA-ATATAATATAA
*
885747 TTAAAATATAATATAATATAA
1 --AATATATAATATAATATAA
885768 AATATATA
1 AATATATA
885776 TCTCAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 7 0.18
21 16 0.41
22 7 0.18
23 9 0.23
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
AATATATAATATAATATAA
Found at i:885776 original size:16 final size:16
Alignment explanation
Indices: 885711--885773 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 16
885701 AGGTAATATT
*
885711 TAATATAATTATAA-A
1 TAATATAATTAAAATA
*
885726 -AATATGA-TATAAATA
1 TAATATAATTA-AAATA
885741 -AA-ATAATTAAAATA
1 TAATATAATTAAAATA
885755 TAATATAATATAAAATA
1 TAATATAAT-TAAAATA
885772 TA
1 TA
885774 TATCTCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.05
14 16 0.41
15 7 0.18
16 5 0.13
17 9 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
TAATATAATTAAAATA
Found at i:885833 original size:39 final size:36
Alignment explanation
Indices: 885752--885837 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 36
885742 AATAATTAAA
* * *
885752 ATAT-AATATAATATAAAATATATATCTCAAAATTT
1 ATATAAATATAATACAAAATATATATATCAAAACTT
*
885787 ATATAAATATAATACAAACTATTAATATATCAAAAACTT
1 ATATAAATATAATACAAAATA-T-ATATATC-AAAACTT
885826 ATATAAATATAA
1 ATATAAATATAA
885838 AATAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.09
36 14 0.33
37 1 0.02
38 6 0.14
39 18 0.42
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (36 bp):
ATATAAATATAATACAAAATATATATATCAAAACTT
Found at i:885839 original size:18 final size:19
Alignment explanation
Indices: 885780--885839 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
885770 TATATATCTC
*
885780 AAAATTTATATAAATATAA
1 AAAACTTATATAAATATAA
*
885799 TACAAAC-TAT-TAATATATCA
1 -A-AAACTTATATAA-ATATAA
885819 AAAACTTATATAAATATAA
1 AAAACTTATATAAATATAA
885838 AA
1 AA
885840 TAATTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 4 0.12
19 14 0.42
20 12 0.36
21 3 0.09
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAACTTATATAAATATAA
Found at i:885959 original size:24 final size:25
Alignment explanation
Indices: 885914--885963 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
885904 CACCTTGCTT
885914 GCACCTTCTTCAAAAGAGGCCGTGTA
1 GCACCTTCTTC-AAAGAGGCCGTGTA
885940 GCACCTTCTTC-AAGAGGCCGTGTA
1 GCACCTTCTTCAAAGAGGCCGTGTA
885964 AGGGATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.54
26 11 0.46
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (25 bp):
GCACCTTCTTCAAAGAGGCCGTGTA
Found at i:886819 original size:210 final size:209
Alignment explanation
Indices: 886416--886838 Score: 702
Period size: 210 Copynumber: 2.0 Consensus size: 209
886406 TTTGAGGGAC
* * * *
886416 ATTAATTTATACCCAAAAAGCTTTGCCGAAATTGAATGCATAATTGGTAAGTATATGCTTGGATG
1 ATTAATTTAAACCCAAAAAGCTTTGCAGAAATTGAATGCACAATTGGTAAGTATATGCATGGATG
* * *
886481 ACTTGTCATTCTTATCTGGAAAACAAAATCCCAAATATTCAATGCTGATTGAAGTTTCCATTTTC
66 ACTTGTCATTCTTATCTGGAAAACAAAATCCCAAATAATCAATGCTGATTAAAGTCTCCATTTTC
* *
886546 AAAAATATATTACCAAAAACAAAAATTCTTCTCATTTTGTGCTATGACACTTCATGTCATGATAT
131 AAAAATATATTACCAAAAACAAAAATTCTTCTCATTTTGTCCTATGACACTTCATGTCATGATAC
886611 GAAGAACAATAACA
196 GAAGAACAATAACA
*
886625 ATTAATTTAAACCCAAAAAGCTTTGCAGAAATTGAATGCACAGTTGGTAAGTATATGCATGGATG
1 ATTAATTTAAACCCAAAAAGCTTTGCAGAAATTGAATGCACAATTGGTAAGTATATGCATGGATG
* * *
886690 ATTTGTCATTCTTATCTGGAAAATAAAATCTCAAATAATCAAATGCTGATTAAAGTCTCCATTTT
66 ACTTGTCATTCTTATCTGGAAAACAAAATCCCAAATAATC-AATGCTGATTAAAGTCTCCATTTT
*
886755 CAAAAATATATTACCAAAAACAAGAATTCTTCTCATTTTGTCCTATGACACTTCATGTCATGATA
130 CAAAAATATATTACCAAAAACAAAAATTCTTCTCATTTTGTCCTATGACACTTCATGTCATGATA
*
886820 CGAAGAACAATAACG
195 CGAAGAACAATAACA
886835 ATTA
1 ATTA
886839 CCAGAAACTA
Statistics
Matches: 198, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
209 96 0.48
210 102 0.52
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.33
Consensus pattern (209 bp):
ATTAATTTAAACCCAAAAAGCTTTGCAGAAATTGAATGCACAATTGGTAAGTATATGCATGGATG
ACTTGTCATTCTTATCTGGAAAACAAAATCCCAAATAATCAATGCTGATTAAAGTCTCCATTTTC
AAAAATATATTACCAAAAACAAAAATTCTTCTCATTTTGTCCTATGACACTTCATGTCATGATAC
GAAGAACAATAACA
Found at i:887077 original size:24 final size:25
Alignment explanation
Indices: 887014--887077 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
887004 TGAATTTATT
*
887014 TATA-AATAATATATGTGTTAATGAA
1 TATATAATAA-ATATGTGTTAATAAA
*
887039 TATATAATCAA-ATGTGTTAATAAA
1 TATATAATAAATATGTGTTAATAAA
887063 TA-ATTAA-AAATATGT
1 TATA-TAATAAATATGT
887078 TCATAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 5 0.15
26 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (25 bp):
TATATAATAAATATGTGTTAATAAA
Found at i:887093 original size:21 final size:22
Alignment explanation
Indices: 887048--887093 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
887038 ATATATAATC
* *
887048 AAATGTGTTAATAAATAATTAA
1 AAATATGTTAATAAACAATTAA
*
887070 AAATATGTTCATAAACAA-TAA
1 AAATATGTTAATAAACAATTAA
887091 AAA
1 AAA
887094 CAATTAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
AAATATGTTAATAAACAATTAA
Found at i:887145 original size:18 final size:18
Alignment explanation
Indices: 887122--887156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
887112 AAGTAATTTG
* *
887122 TTTTTATTTTTATATATT
1 TTTTTAATTTTAAATATT
887140 TTTTTAATTTTAAATAT
1 TTTTTAATTTTAAATAT
887157 AAATAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTAAATATT
Found at i:887405 original size:18 final size:18
Alignment explanation
Indices: 887384--887449 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 18
887374 GTGTTAATTT
887384 ATATAATATAAATTATTA
1 ATATAATATAAATTATTA
*
887402 ATATATTA-AAATTTATATA
1 ATATAATATAAA-TTAT-TA
887421 A-AT-ATATAATATT-TTAA
1 ATATAATATAA-ATTATT-A
887438 ATATAATTATAA
1 ATATAA-TATAA
887450 TATTGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 19 0.50
19 5 0.13
20 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAATATAAATTATTA
Found at i:888464 original size:20 final size:20
Alignment explanation
Indices: 888441--888480 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
888431 AAATTTTATT
888441 TAAAT-TTAATTATAAAAATA
1 TAAATATTAA-TATAAAAATA
888461 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
888481 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATATTAATATAAAAATA
Found at i:889662 original size:26 final size:25
Alignment explanation
Indices: 889633--889681 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
889623 GAAAATATTT
* *
889633 ATTTGTTTTTGTTTATTTATTTTTGA
1 ATTTATTTGTGTTTATTT-TTTTTGA
*
889659 ATTTATTTGTGTTTGTTTTTTTT
1 ATTTATTTGTGTTTATTTTTTTT
889682 CATTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (25 bp):
ATTTATTTGTGTTTATTTTTTTTGA
Found at i:890179 original size:20 final size:20
Alignment explanation
Indices: 890156--890209 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
890146 TATATTAAAA
*
890156 TTTATATAAATATATAATAT
1 TTTATATAAATATATAATAC
*
890176 TTTAAATATAAT-TATAATAC
1 TTTATATA-AATATATAATAC
* *
890196 ATTATATTAATATA
1 TTTATATAAATATA
890210 ATAACATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTATATAAATATATAATAC
Found at i:891344 original size:16 final size:17
Alignment explanation
Indices: 891308--891349 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
891298 TAAAATAATT
891308 AAAATATA-ATATTATA
1 AAAATATATATATTATA
*
891324 TAAATATATATATT-TA
1 AAAATATATATATTATA
*
891340 AAAATTTATA
1 AAAATATATA
891350 CAATATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATATATATTATA
Found at i:900965 original size:20 final size:20
Alignment explanation
Indices: 900922--900966 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
900912 TTAATTTTAA
*
900922 ATTTATTATTTTATTAAAAT
1 ATTTATTATTTTATTAAAAC
*
900942 ATTTATATATTTTA-TAATAC
1 ATTTAT-TATTTTATTAAAAC
900962 ATTTA
1 ATTTA
900967 AATAAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTATTATTTTATTAAAAC
Found at i:901002 original size:5 final size:5
Alignment explanation
Indices: 900994--901019 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
900984 TTTAAATAAT
900994 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
901020 TATGAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:901310 original size:3 final size:3
Alignment explanation
Indices: 901302--901343 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
901292 GAACTAAAAT
901302 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
901344 TTTATGAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:903046 original size:75 final size:75
Alignment explanation
Indices: 902923--903072 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
902913 TGTCCTCAAA
902923 ATATTCTAACCGATCAAAAAAATCGTGGGAGTGACAGTAAGGAATAACTCACGACCGACACTTGC
1 ATATTCTAACCGATCAAAAAAATCGTGGGAGTGACAGTAAGGAATAACTCACGACCGACACTTGC
902988 ATTTTGTGCT
66 ATTTTGTGCT
902998 ATATTCTAACCGATCAAAAAAATCGTGGGAGTGACAGTAAGGAATAACTCACGACCGACACTTGC
1 ATATTCTAACCGATCAAAAAAATCGTGGGAGTGACAGTAAGGAATAACTCACGACCGACACTTGC
903063 ATTTTGTGCT
66 ATTTTGTGCT
903073 TAAAGGCCAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (75 bp):
ATATTCTAACCGATCAAAAAAATCGTGGGAGTGACAGTAAGGAATAACTCACGACCGACACTTGC
ATTTTGTGCT
Found at i:904749 original size:35 final size:35
Alignment explanation
Indices: 904703--904772 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
904693 TTCGACGGGA
*
904703 AGTGAGAAAAACTTCTTACTATGCTCCAAAACATT
1 AGTGAGAAAAACTTCTTACTATGCCCCAAAACATT
904738 AGTGAGAAAAACTTCTTACTATGCCCCAAAACATT
1 AGTGAGAAAAACTTCTTACTATGCCCCAAAACATT
904773 CTTAAGCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.27
Consensus pattern (35 bp):
AGTGAGAAAAACTTCTTACTATGCCCCAAAACATT
Found at i:907257 original size:47 final size:47
Alignment explanation
Indices: 907203--907298 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
907193 AAATAATAAC
*
907203 ATTTAATAAATGTAGAATTCATATTCTAATCTTTATAATATTTTTTT
1 ATTTAATAAATGTAGAATTCATATTCTAATATTTATAATATTTTTTT
*
907250 ATTTAATAAATGTAGAATTCATGTTCTAATATTTATAATATTTTTTT
1 ATTTAATAAATGTAGAATTCATATTCTAATATTTATAATATTTTTTT
907297 AT
1 AT
907299 CTACTACTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (47 bp):
ATTTAATAAATGTAGAATTCATATTCTAATATTTATAATATTTTTTT
Found at i:907905 original size:9 final size:9
Alignment explanation
Indices: 907891--907916 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
907881 AATTATGATA
907891 TATATATTT
1 TATATATTT
907900 TATATATTT
1 TATATATTT
907909 TATATATT
1 TATATATT
907917 CATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATATATTT
Found at i:910404 original size:27 final size:27
Alignment explanation
Indices: 910357--910409 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
910347 CATTGCAAAT
* * *
910357 ATTTTAATATCTTAATTATTATAATTA
1 ATTTTAATATATTAATAATTAAAATTA
910384 ATTTTAAATATATTAA-AATTAAAATT
1 ATTTT-AATATATTAATAATTAAAATT
910410 TATTAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTTAATATATTAATAATTAAAATTA
Found at i:911834 original size:15 final size:17
Alignment explanation
Indices: 911784--911826 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
911774 GTATATAAAT
*
911784 ATTTTTTAA--AAAGTA
1 ATTTTTTAATTAAATTA
911799 A-TTTTTAATTAAATTA
1 ATTTTTTAATTAAATTA
911815 ATTTTTTAATTA
1 ATTTTTTAATTA
911827 TATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 1 0.04
16 6 0.25
17 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTTTAATTAAATTA
Found at i:913633 original size:27 final size:30
Alignment explanation
Indices: 913602--913686 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 30
913592 TAAAAATCTT
913602 AATAAAAATTTAAATTATTATT-T-A-ATA
1 AATAAAAATTTAAATTATTATTATAATATA
913629 AATAAAAA-TT-AATT-TTATTATAATATA
1 AATAAAAATTTAAATTATTATTATAATATA
*
913656 AATATAAAATTATAAA-TATTAATATAA-ATA
1 AATA-AAAATT-TAAATTATTATTATAATATA
913686 A
1 A
913687 TTTTTTATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
24 5 0.10
25 5 0.10
26 3 0.06
27 15 0.31
28 4 0.08
29 1 0.02
30 6 0.12
31 10 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AATAAAAATTTAAATTATTATTATAATATA
Found at i:913653 original size:21 final size:25
Alignment explanation
Indices: 913601--913722 Score: 73
Period size: 26 Copynumber: 5.0 Consensus size: 25
913591 ATAAAAATCT
913601 TAATAAAAATTTAAATTATTATTTAA
1 TAATAAAAA-TTAAATTATTATTTAA
913627 TAAATAAAAATT-AATT-TTATTATAA
1 T-AATAAAAATTAAATTATTATT-TAA
* * *
913652 T-ATAAATATAAAATTATAAATATTAA
1 TAATAAAAATTAAATTAT-TAT-TTAA
**
913678 T-ATAAATAATT-TTTTATT-TTTAA
1 TAATAAA-AATTAAATTATTATTTAA
*
913701 -AAT-AAAATAAAATTATT-TTTAA
1 TAATAAAAATTAAATTATTATTTAA
913723 ATAAATATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
21 3 0.04
22 12 0.16
23 13 0.17
24 10 0.13
25 9 0.12
26 18 0.24
27 11 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATAAAAATTAAATTATTATTTAA
Found at i:913679 original size:20 final size:19
Alignment explanation
Indices: 913645--913683 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
913635 AATTAATTTT
913645 ATTATAATATAAATATAAA
1 ATTATAATATAAATATAAA
*
913664 ATTATAAATATTAATATAAA
1 ATTAT-AATATAAATATAAA
913684 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTATAATATAAATATAAA
Found at i:913695 original size:48 final size:44
Alignment explanation
Indices: 913613--913742 Score: 118
Period size: 49 Copynumber: 2.8 Consensus size: 44
913603 ATAAAAATTT
* * *
913613 AAATTATTATTTAATAAATAAAAATTAATTTTATTATAATATAAATATA
1 AAATTATTATTAAATAAAT--ATATT--TTTTATTATAAAATAAA-ATA
*
913662 AAATTATAAATATTAATATAAATA-ATTTTTTATTTTTAAAATAAAATA
1 AAATTAT---TATTAA-ATAAATATATTTTTTA-TTATAAAATAAAATA
*
913710 AAATTATTTTTAAATAAATATATTTTTTATTAT
1 AAATTATTATTAAATAAATATATTTTTTATTAT
913743 TTAAATTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
44 10 0.14
45 13 0.19
48 15 0.21
49 17 0.24
50 3 0.04
51 1 0.01
52 5 0.07
53 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (44 bp):
AAATTATTATTAAATAAATATATTTTTTATTATAAAATAAAATA
Found at i:914617 original size:2 final size:2
Alignment explanation
Indices: 914600--914660 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
914590 ACCTTATTGA
* *
914600 TC TC CC TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
914642 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
914661 TTTCTTGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:915586 original size:13 final size:13
Alignment explanation
Indices: 915541--915587 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
915531 ATTGTGTTTA
*
915541 TATATTTTATCATT
1 TATATATTAT-ATT
915555 TA-ATATTTATATT
1 TATATA-TTATATT
915568 TAATATATTATATT
1 T-ATATATTATATT
915582 TATATA
1 TATATA
915588 AATTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.38
14 15 0.52
15 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATATTATATT
Found at i:920342 original size:318 final size:318
Alignment explanation
Indices: 919765--920398 Score: 1250
Period size: 318 Copynumber: 2.0 Consensus size: 318
919755 TGCTTATACA
919765 ATGAAATTGACCGGATGCGATACTTGTCTTCCATTGACTCTGATATCTATTCTATTCTTTTGGTT
1 ATGAAATTGACCGGATGCGATACTTGTCTTCCATTGACTCTGATATCTATTCTATTCTTTTGGTT
*
919830 GGCTTGTGTCAGCAAAGCCATTCGGTTGAAGCTGCAAAGCTTGCTAGGTCAATGTTTGAAAAAAA
66 GGCTTGTGTCAGCAAAGCCATTCGGTTGAAGCTACAAAGCTTGCTAGGTCAATGTTTGAAAAAAA
*
919895 AATTCGCTTGAAAGCTCCTTATGTCGACAAAATTGTTGAACATCTGAAAAACTCTGGAGATAAGG
131 AAATCGCTTGAAAGCTCCTTATGTCGACAAAATTGTTGAACATCTGAAAAACTCTGGAGATAAGG
919960 AGCTAGTTACACAGCTCGGTAGAATTGGAAGATGAAATTCTTCAAATAACTGTTTAGGTGCCATG
196 AGCTAGTTACACAGCTCGGTAGAATTGGAAGATGAAATTCTTCAAATAACTGTTTAGGTGCCATG
920025 GGGGGCCTTCTTTACAGCTAACTCAAGTTGTTGTTTTCTTAGTTTACGGCATGGTGCC
261 GGGGGCCTTCTTTACAGCTAACTCAAGTTGTTGTTTTCTTAGTTTACGGCATGGTGCC
920083 ATGAAATTGACCGGATGCGATACTTGTCTTCCATTGACTCTGATATCTATTCTATTCTTTTGGTT
1 ATGAAATTGACCGGATGCGATACTTGTCTTCCATTGACTCTGATATCTATTCTATTCTTTTGGTT
920148 GGCTTGTGTCAGCAAAGCCATTCGGTTGAAGCTACAAAGCTTGCTAGGTCAATGTTTGAAAAAAA
66 GGCTTGTGTCAGCAAAGCCATTCGGTTGAAGCTACAAAGCTTGCTAGGTCAATGTTTGAAAAAAA
920213 AAATCGCTTGAAAGCTCCTTATGTCGACAAAATTGTTGAACATCTGAAAAACTCTGGAGATAAGG
131 AAATCGCTTGAAAGCTCCTTATGTCGACAAAATTGTTGAACATCTGAAAAACTCTGGAGATAAGG
920278 AGCTAGTTACACAGCTCGGTAGAATTGGAAGATGAAATTCTTCAAATAACTGTTTAGGTGCCATG
196 AGCTAGTTACACAGCTCGGTAGAATTGGAAGATGAAATTCTTCAAATAACTGTTTAGGTGCCATG
920343 GGGGGCCTTCTTTACAGCTAACTCAAGTTGTTGTTTTCTTAGTTTACGGCATGGTG
261 GGGGGCCTTCTTTACAGCTAACTCAAGTTGTTGTTTTCTTAGTTTACGGCATGGTG
920399 TGAATAAATT
Statistics
Matches: 314, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 314 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (318 bp):
ATGAAATTGACCGGATGCGATACTTGTCTTCCATTGACTCTGATATCTATTCTATTCTTTTGGTT
GGCTTGTGTCAGCAAAGCCATTCGGTTGAAGCTACAAAGCTTGCTAGGTCAATGTTTGAAAAAAA
AAATCGCTTGAAAGCTCCTTATGTCGACAAAATTGTTGAACATCTGAAAAACTCTGGAGATAAGG
AGCTAGTTACACAGCTCGGTAGAATTGGAAGATGAAATTCTTCAAATAACTGTTTAGGTGCCATG
GGGGGCCTTCTTTACAGCTAACTCAAGTTGTTGTTTTCTTAGTTTACGGCATGGTGCC
Found at i:921680 original size:15 final size:15
Alignment explanation
Indices: 921641--921681 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
921631 AATTAATAAA
921641 TTAATT-ATATT-TT
1 TTAATTAATATTATT
* *
921654 TAAATAAATATTATT
1 TTAATTAATATTATT
921669 TTAATTAATATTA
1 TTAATTAATATTA
921682 CTATACATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATTAATATTATT
Found at i:925025 original size:16 final size:16
Alignment explanation
Indices: 924964--925035 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
924954 TTCTGTTTAA
*
924964 TTAATAAATATATATTT
1 TTAAAAAATATA-ATTT
* *
924981 TTATATAAATTTAA-TT
1 TTA-AAAAATATAATTT
*
924997 AT-AAAAATA-AATTT
1 TTAAAAAATATAATTT
925011 TTAAAAAATATAATTT
1 TTAAAAAATATAATTT
925027 TTAAAAAAT
1 TTAAAAAAT
925036 TTTAAATCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.04
14 8 0.17
15 7 0.15
16 17 0.37
17 4 0.09
18 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAAAATATAATTT
Found at i:925040 original size:46 final size:47
Alignment explanation
Indices: 924964--925056 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
924954 TTCTGTTTAA
* * *
924964 TTAATAAATATATATTTTTATATAAATTT-AATTATAAAAATAAATTT
1 TTAAAAAATATATATTTTTATAAAAATTTAAATCAT-AAAATAAATTT
925011 TTAAAAAATATA-ATTTTTA-AAAAATTTTAAATCATAAAATAAATTT
1 TTAAAAAATATATATTTTTATAAAAA-TTTAAATCATAAAATAAATTT
925057 ATGAATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 4 0.10
46 21 0.51
47 16 0.39
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (47 bp):
TTAAAAAATATATATTTTTATAAAAATTTAAATCATAAAATAAATTT
Found at i:927062 original size:43 final size:42
Alignment explanation
Indices: 927005--927101 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 42
926995 AGATTTAAAA
** *
927005 ATAAAAAAATAATTATTTATAATAAT-TTTTTAAAAAATTTT
1 ATAAAAAAATAATTAAATATAAAAATATTTTTAAAAAATTTT
*
927046 ATAAAAATAATTAATTAAATATAAAAATATTTTTTAAAAA--TT
1 ATAAAAA-AA-TAATTAAATATAAAAATATTTTTAAAAAATTTT
927088 A-AAAAAAA-AATTAA
1 ATAAAAAAATAATTAA
927102 CACGTGCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
38 6 0.12
40 2 0.04
41 12 0.24
42 5 0.10
43 14 0.29
44 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (42 bp):
ATAAAAAAATAATTAAATATAAAAATATTTTTAAAAAATTTT
Found at i:927644 original size:16 final size:17
Alignment explanation
Indices: 927602--927652 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
927592 AGATATAATT
927602 TTAATATAAAATTATAA
1 TTAATATAAAATTATAA
* *
927619 ATAATTTAAAATT-TAA
1 TTAATATAAAATTATAA
*
927635 TTAATATAAAATAATAA
1 TTAATATAAAATTATAA
927652 T
1 T
927653 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAATATAAAATTATAA
Found at i:927902 original size:2 final size:2
Alignment explanation
Indices: 927895--927925 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
927885 TCTTTGTTAC
927895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
927926 GGAATGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:928181 original size:42 final size:42
Alignment explanation
Indices: 928109--928188 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
928099 TAAAAATTTT
* *
928109 TAAAAATTATTTTTATATTAAAATTTATAA-TTAAATTAAAA
1 TAAAAATAATTTTTATATTAAAATTGATAATTTAAATTAAAA
*
928150 TAAAAATAATTTTTTATTATTTAAA-TGATAATTTAAATT
1 TAAAAATAA-TTTTTA-TATTAAAATTGATAATTTAAATT
928189 TAATTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 8 0.24
42 11 0.33
43 14 0.42
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (42 bp):
TAAAAATAATTTTTATATTAAAATTGATAATTTAAATTAAAA
Found at i:928940 original size:5 final size:5
Alignment explanation
Indices: 928930--928959 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
928920 AAATTTATTT
928930 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
928960 AATTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:928977 original size:18 final size:17
Alignment explanation
Indices: 928930--928985 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
928920 AAATTTATTT
*
928930 TTTAATTTAATTT--AA
1 TTTAAATTAATTTAAAA
*
928945 TTTAATTTAATTTAAAA
1 TTTAAATTAATTTAAAA
*
928962 TTTAAATTATTATTAAAA
1 TTTAAATTAAT-TTAAAA
928980 TGTTAA
1 T-TTAA
928986 TAAAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.37
17 11 0.31
18 7 0.20
19 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTAATTTAAAA
Found at i:929528 original size:2 final size:2
Alignment explanation
Indices: 929523--929559 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
929513 TTAATTTATT
929523 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
929560 TTTGTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:930142 original size:12 final size:12
Alignment explanation
Indices: 930125--930161 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
930115 TGGAAGTAGA
930125 TTAAAAATTAAT
1 TTAAAAATTAAT
*
930137 TTAAAAATTAAA
1 TTAAAAATTAAT
*
930149 TTAAAATTTAAT
1 TTAAAAATTAAT
930161 T
1 T
930162 CAATTGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAAAATTAAT
Found at i:931031 original size:13 final size:13
Alignment explanation
Indices: 931010--931048 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
931000 ATATATTTGA
*
931010 AAATTTTAAATTT
1 AAATATTAAATTT
931023 AAATATTAAA-TT
1 AAATATTAAATTT
931035 AAATATTATAATTT
1 AAATATTA-AATTT
931049 GAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 10 0.43
13 11 0.48
14 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATATTAAATTT
Found at i:931166 original size:18 final size:19
Alignment explanation
Indices: 931134--931172 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
931124 TATGTTTAAA
931134 ATATTATATAAATTTTATT
1 ATATTATATAAATTTTATT
* *
931153 ATATT-TATATATTTTTTT
1 ATATTATATAAATTTTATT
931171 AT
1 AT
931173 TTTTTCAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTATATAAATTTTATT
Found at i:931621 original size:23 final size:22
Alignment explanation
Indices: 931593--931645 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 22
931583 TTATTTTACA
*
931593 ATTATATAATATATATTAATTTTT
1 ATTATATAAT-TA-AATAATTTTT
931617 -TTATAT-ATTAAATAATTTTT
1 ATTATATAATTAAATAATTTTT
931637 ATTATATAA
1 ATTATATAA
931646 AAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 3 0.12
23 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATATAATTAAATAATTTTT
Found at i:931733 original size:7 final size:7
Alignment explanation
Indices: 931723--931754 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
931713 AATAAAAATA
931723 TTTTAAT
1 TTTTAAT
931730 TTTTAAT
1 TTTTAAT
931737 TTTTAAT
1 TTTTAAT
931744 TTTTAAT
1 TTTTAAT
931751 TTTT
1 TTTT
931755 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTAAT
Found at i:931735 original size:35 final size:37
Alignment explanation
Indices: 931679--931750 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 37
931669 ATAAACATTA
931679 AAAAATATATTAAATTATTTAAATTTTAAATTTTAAT
1 AAAAATATATTAAATTATTTAAATTTTAAATTTTAAT
* * *
931716 AAAAATAT-TTTAATT-TTTAATTTTTAATTTTTAAT
1 AAAAATATATTAAATTATTTAAATTTTAAATTTTAAT
931751 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 18 0.56
36 6 0.19
37 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
AAAAATATATTAAATTATTTAAATTTTAAATTTTAAT
Found at i:934663 original size:2 final size:2
Alignment explanation
Indices: 934656--934686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
934646 TTTCTAAGTC
934656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
934687 AAGCTACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:934929 original size:2 final size:2
Alignment explanation
Indices: 934922--934950 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
934912 ATTAACTAGG
934922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
934951 TCTTTTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:935731 original size:17 final size:17
Alignment explanation
Indices: 935698--935733 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
935688 ATTTACATAT
*
935698 TTATAAAATTTAAAAAA
1 TTATAAAATTCAAAAAA
935715 TTATAAAATTCAGAAAAA
1 TTATAAAATTCA-AAAAA
935733 T
1 T
935734 AAATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
TTATAAAATTCAAAAAA
Found at i:940092 original size:19 final size:19
Alignment explanation
Indices: 940068--940105 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
940058 ACAACTTCTA
*
940068 TAATAATCAAATTGAATTT
1 TAATAATCAAATTAAATTT
940087 TAATAATCAAATTAAATTT
1 TAATAATCAAATTAAATTT
940106 AAGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATAATCAAATTAAATTT
Found at i:940718 original size:2 final size:2
Alignment explanation
Indices: 940711--940735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
940701 TCCATCTGCC
940711 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
940736 AATACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:943418 original size:18 final size:19
Alignment explanation
Indices: 943394--943436 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
943384 ATTAAATTTT
943394 TTATTTTAT-TTTATTAATA
1 TTATTTTATATTT-TTAATA
943413 -TATTTTATATTTTTAATA
1 TTATTTTATATTTTTAATA
943431 TTATTT
1 TTATTT
943437 AATTAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTATATTTTTAATA
Found at i:943599 original size:19 final size:20
Alignment explanation
Indices: 943567--943609 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
943557 ATATAACTTT
943567 TTTTAAAGATATTTAAGTTA
1 TTTTAAAGATATTTAAGTTA
*
943587 TTTTAAA-ATATTTAATTTA
1 TTTTAAAGATATTTAAGTTA
943606 TTTT
1 TTTT
943610 TTTCATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTAAAGATATTTAAGTTA
Found at i:943855 original size:1 final size:1
Alignment explanation
Indices: 943849--943876 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
943839 GTGGTCGATT
943849 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
943877 TCTTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:946016 original size:5 final size:5
Alignment explanation
Indices: 946006--946066 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
945996 AAATCAGAAT
* *
946006 ATTTA ATTTA ATTTTA ATTTA ATTTTA ATAATA A-TTA ATTTA ATTTG
1 ATTTA ATTTA A-TTTA ATTTA A-TTTA AT-TTA ATTTA ATTTA ATTTA
*
946053 ATTTG ATTTA ATTT
1 ATTTA ATTTA ATTT
946067 TTATTTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 3 0.06
5 32 0.67
6 13 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:946023 original size:11 final size:11
Alignment explanation
Indices: 946007--946051 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
945997 AATCAGAATA
946007 TTTAATTTAAT
1 TTTAATTTAAT
946018 TTTAATTTAAT
1 TTTAATTTAAT
946029 TTTAA--TAAT
1 TTTAATTTAAT
*
946038 AATTAATTTAAT
1 -TTTAATTTAAT
946050 TT
1 TT
946052 GATTTGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 4 0.14
10 4 0.14
11 17 0.59
12 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:946220 original size:22 final size:23
Alignment explanation
Indices: 946181--946226 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
946171 TAATTAAAAC
946181 TTTTTAAAAATTATAAAAATAAT
1 TTTTTAAAAATTATAAAAATAAT
*
946204 TTTTTTAAAATTA-AAAAATAAT
1 TTTTTAAAAATTATAAAAATAAT
946226 T
1 T
946227 AAACAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTTAAAAATTATAAAAATAAT
Found at i:946321 original size:22 final size:22
Alignment explanation
Indices: 946296--946338 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
946286 TTTAATTTTT
946296 TTAAAAATTAAA-ATATTATTAA
1 TTAAAAA-TAAATATATTATTAA
**
946318 TTAACTATAAATATATTATTA
1 TTAAAAATAAATATATTATTA
946339 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAATAAATATATTATTAA
Found at i:946405 original size:14 final size:14
Alignment explanation
Indices: 946379--946416 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
946369 TTCTAAATAG
*
946379 TATT-ATATATAAA
1 TATTAATATTTAAA
946392 TATTAATATTTAAA
1 TATTAATATTTAAA
946406 TATTAA-ATTTA
1 TATTAATATTTA
946417 TTAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTAATATTTAAA
Found at i:951873 original size:2 final size:2
Alignment explanation
Indices: 951866--951903 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
951856 AAAATCATTG
951866 AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
951904 TCATATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:952020 original size:2 final size:2
Alignment explanation
Indices: 952013--952044 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
952003 CTTTTTCACT
952013 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
952045 CACCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:952099 original size:22 final size:22
Alignment explanation
Indices: 952074--952137 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
952064 ATGTTTAAAA
952074 AATATTAAAATTTTTT-TATATT
1 AATATTAAAATTTTTTATA-ATT
* *
952096 AATATTTAAATATTTTATAATT
1 AATATTAAAATTTTTTATAATT
952118 AA-ATTTAAATAATTTTTTAT
1 AATA-TT-AA-AATTTTTTAT
952138 TCAAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 21 0.62
23 3 0.09
24 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATATTAAAATTTTTTATAATT
Found at i:952111 original size:21 final size:21
Alignment explanation
Indices: 952087--952143 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
952077 ATTAAAATTT
952087 TTTTATATTAATATTTAAAT-A
1 TTTTATATTAA-ATTTAAATAA
952108 TTTTATAATTAAATTTAAATAA
1 TTTTAT-ATTAAATTTAAATAA
*
952130 TTTTTTATTCAAAT
1 TTTTATATT-AAAT
952144 AATAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATATTAAATTTAAATAA
Found at i:952143 original size:22 final size:20
Alignment explanation
Indices: 952081--952143 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 20
952071 AAAAATATTA
*
952081 AAATTTTTTTATATTAATATTT
1 AAATATTTTT-TATTAA-ATTT
*
952103 AAATATTTTATAATTAAATTT
1 AAATATTTT-TTATTAAATTT
952124 AAATAATTTTTTATTCAAAT
1 AAAT-ATTTTTTATT-AAAT
952144 AATAATAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 12 0.34
22 22 0.63
23 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATATTTTTTATTAAATTT
Found at i:958188 original size:17 final size:18
Alignment explanation
Indices: 958163--958200 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
958153 AAATTTTTAT
*
958163 AAATGTAATA-AAATATA
1 AAATCTAATATAAATATA
958180 AAATCTAATATAAATATA
1 AAATCTAATATAAATATA
958198 AAA
1 AAA
958201 ATTCATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATCTAATATAAATATA
Found at i:962185 original size:231 final size:231
Alignment explanation
Indices: 961774--962219 Score: 630
Period size: 231 Copynumber: 1.9 Consensus size: 231
961764 CGATTCACCT
* * ** *
961774 CTCCTTTCTCTATGCTTTCTGCTGTCAATAGATTTTTCATAGTGAGGGCTACTGTCATCAACAGG
1 CTCCTTTCTCTATGCTTTCCGCTATCAATAGAGCTTTCATAATGAGGGCTACTGTCATCAACAGG
* * *
961839 ACTTCTATACACACTATGATAATTTCTGCCTCTACTATCACCTGACTGGCATCTGAAACTTCCAG
66 ACTTCTACACACACTATGATAATTTCTGCCTCTACTATCACCTGACTGGCATCTCAAACTCCCAG
* *
961904 ACCTCAGGGAATGGGAATCCTCATGGCGATACCTCTGAGGCTTTGATTTAGATGGAGATCTCCTT
131 ACCTCAGGGAATGGGAATCCTCATGCCGATACCTCTGAGGCTTCGATTTAGATGGAGATCTCCTT
961969 TCCCT-CTTCCAGCTCCTTTCCAACGGTGATGCATCA
196 TCCCTAC-TCCAGCTCCTTTCCAACGGTGATGCATCA
* ***
962005 CTCCTTTCTCTATGCTTTCCGCTATCAATAGAGCTTTCATAATGAGGGTTACTGTCATCAGTGGG
1 CTCCTTTCTCTATGCTTTCCGCTATCAATAGAGCTTTCATAATGAGGGCTACTGTCATCAACAGG
* * * * *
962070 GCTTCTGCACTCCCTATGATAATTTCTGCCTCTACTAT-AGCCTGACTGGCATC-CAATGCTCCC
66 ACTTCTACACACACTATGATAATTTCTGCCTCTACTATCA-CCTGACTGGCATCTCAA-ACTCCC
* *
962133 AGACCTC-GAGGAATGGGAGTCCTCATGCCGATACCTCTTAGGCTTCGATTTAGATGGAGATCTC
129 AGACCTCAG-GGAATGGGAATCCTCATGCCGATACCTCTGAGGCTTCGATTTAGATGGAGATCTC
*
962197 CTTTCCCTACTCCAGCTTCTTTC
193 CTTTCCCTACTCCAGCTCCTTTC
962220 TATGCTCGGG
Statistics
Matches: 189, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
230 4 0.02
231 184 0.97
232 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (231 bp):
CTCCTTTCTCTATGCTTTCCGCTATCAATAGAGCTTTCATAATGAGGGCTACTGTCATCAACAGG
ACTTCTACACACACTATGATAATTTCTGCCTCTACTATCACCTGACTGGCATCTCAAACTCCCAG
ACCTCAGGGAATGGGAATCCTCATGCCGATACCTCTGAGGCTTCGATTTAGATGGAGATCTCCTT
TCCCTACTCCAGCTCCTTTCCAACGGTGATGCATCA
Found at i:962990 original size:37 final size:37
Alignment explanation
Indices: 962940--963013 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
962930 ATCACTTTCA
* *
962940 CCATATAGTTAAGAAACCGAAAAC-ATGAAGTGTACTT
1 CCATATAGCTAAGAAACCGAAAACTAAG-AGTGTACTT
* *
962977 CCATATTGCTAAGAAACTGAAAACTAAGAGTGTACTT
1 CCATATAGCTAAGAAACCGAAAACTAAGAGTGTACTT
963014 TCAATGCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (37 bp):
CCATATAGCTAAGAAACCGAAAACTAAGAGTGTACTT
Found at i:970297 original size:3 final size:3
Alignment explanation
Indices: 970289--970317 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
970279 TATTTTATAT
970289 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
970318 TTCTTTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:971115 original size:28 final size:27
Alignment explanation
Indices: 971061--971116 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
971051 TATTAAGATT
**
971061 AATATTTTATAATTAAATTTAAATAAA
1 AATATTTTATAATTAAAAATAAATAAA
* *
971088 AATATTTTTATTATTAAAAATAATTAAA
1 AATA-TTTTATAATTAAAAATAAATAAA
971116 A
1 A
971117 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATATTTTATAATTAAAAATAAATAAA
Found at i:975106 original size:2 final size:2
Alignment explanation
Indices: 975101--975127 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
975091 ATATATATAT
975101 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
975128 AACTGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:980213 original size:19 final size:20
Alignment explanation
Indices: 980176--980214 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
980166 ATGTTAACAC
*
980176 TTATAATTTTTTATCTTAAA
1 TTATAATTTTTTATATTAAA
980196 TTATAATTTTTT-TATTAAA
1 TTATAATTTTTTATATTAAA
980215 AAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATAATTTTTTATATTAAA
Found at i:981507 original size:11 final size:11
Alignment explanation
Indices: 981488--981541 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
981478 AAATAATTAA
981488 AATAT-AATAT
1 AATATAAATAT
981498 AATATAAATA-
1 AATATAAATAT
*
981508 AGATATAAA-AA
1 A-ATATAAATAT
* *
981519 AATATAAAAAG
1 AATATAAATAT
981530 AATATAAATAT
1 AATATAAATAT
981541 A
1 A
981542 TAAATATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 14 0.38
11 23 0.62
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (11 bp):
AATATAAATAT
Found at i:982001 original size:16 final size:17
Alignment explanation
Indices: 981975--982006 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
981965 CTCGCGGGAT
981975 AAGTAAATAATAATAAA
1 AAGTAAATAATAATAAA
981992 AAGT-AATAATAATAA
1 AAGTAAATAATAATAA
982007 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
AAGTAAATAATAATAAA
Found at i:982990 original size:5 final size:5
Alignment explanation
Indices: 982968--983001 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
982958 CATCCTTTAT
982968 ATATA TATATA TATATA ATATA ATATA ATATA AT
1 ATATA -ATATA -ATATA ATATA ATATA ATATA AT
983002 TGTGAGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:984624 original size:25 final size:25
Alignment explanation
Indices: 984596--984643 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
984586 AGTCAACAAT
* *
984596 AATAATTTTATAAATTTAAGTTTTC
1 AATAACTTTATAAATGTAAGTTTTC
984621 AATAACTTTATAAATGTAAGTTT
1 AATAACTTTATAAATGTAAGTTT
984644 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (25 bp):
AATAACTTTATAAATGTAAGTTTTC
Found at i:984672 original size:2 final size:2
Alignment explanation
Indices: 984665--984691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
984655 TTCAAGAATA
984665 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
984692 AAGAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:985613 original size:23 final size:22
Alignment explanation
Indices: 985576--985636 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
985566 TTAATTGAGC
** * *
985576 TTTTAGTTTGGGTTTAGATTGG
1 TTTTAGTTTAAGTTTAAATAGG
985598 TTTTTAGTTTAAGTTTAAATAGG
1 -TTTTAGTTTAAGTTTAAATAGG
* *
985621 TTTAAGTTTAATTTTA
1 TTTTAGTTTAAGTTTA
985637 TATTTTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.56
Consensus pattern (22 bp):
TTTTAGTTTAAGTTTAAATAGG
Found at i:987112 original size:3 final size:3
Alignment explanation
Indices: 987106--987130 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
987096 ATTTTCATAT
987106 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
987131 AAAATAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:987839 original size:13 final size:13
Alignment explanation
Indices: 987821--987845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
987811 GCATGGAATC
987821 ATAATTAAAAATA
1 ATAATTAAAAATA
987834 ATAATTAAAAAT
1 ATAATTAAAAAT
987846 GTTAAACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATTAAAAATA
Found at i:996155 original size:5 final size:5
Alignment explanation
Indices: 996145--996169 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
996135 AGTCGGACCA
996145 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
996170 TTTTATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:1005358 original size:2 final size:2
Alignment explanation
Indices: 1005321--1005347 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1005311 ATATACAAAG
1005321 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1005348 TACGAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1006171 original size:35 final size:33
Alignment explanation
Indices: 1006111--1006175 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
1006101 AAAATTTAAG
*
1006111 AATATATTAAAAATATAATATTTTTAATATAAA
1 AATATATTAAAAATATAATAATTTTAATATAAA
1006144 AATATA-TAAAAATAATAATCAAATTTTAATAT
1 AATATATTAAAAAT-ATAAT--AATTTTAATAT
1006176 TTAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.25
33 11 0.39
35 10 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
AATATATTAAAAATATAATAATTTTAATATAAA
Found at i:1009932 original size:28 final size:28
Alignment explanation
Indices: 1009879--1009937 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
1009869 ATATATATTC
*
1009879 AAAGTTAAAACTA-TTATATTTGTTTTA
1 AAAGTAAAAACTATTTATATTTGTTTTA
* * *
1009906 AAAGTAAAAATCTATTTTTTTTTTTTTTA
1 AAAGTAAAAA-CTATTTATATTTGTTTTA
1009935 AAA
1 AAA
1009938 AAAACCCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 9 0.35
28 3 0.12
29 14 0.54
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
AAAGTAAAAACTATTTATATTTGTTTTA
Found at i:1011702 original size:104 final size:103
Alignment explanation
Indices: 1011455--1011800 Score: 327
Period size: 107 Copynumber: 3.3 Consensus size: 103
1011445 ATATTAATTT
** ** * **
1011455 ATTTAAATTAATAAATATTTAAAAATAGAGTTTACGTGATATTA-ATTTATTTTAAAATTAATAA
1 ATTTAAATTAATAAATATTTAAAAATAGAGTCCATATGATATTATA-TCACATTAAAATTAAT-A
** ** * * *
1011519 AAAAATTTATTTAAATATATAACTTTATTATTTTAAAATTTAA
64 AATTATCAATTTTAATATATAATTTTATTAATTT---ATTTAA
* * * * *
1011562 TTTTAAATTAATAAATATTTAAAAATAAAGTTCATATTATATTA-ATCCCATTAAAATTAATAAA
1 ATTTAAATTAATAAATATTTAAAAATAGAGTCCATATGATATTATATCACATTAAAATTAATAAA
* *
1011626 GTTTTCAAATTTTAATATATAATTTTATTAATTTATTCAA
66 -TTATC-AATTTTAATATATAATTTTATTAATTTATTTAA
* *
1011666 ATTTAAATTAATAAATATTTAAAAATAGAGTCCATATGATATTATATGACTTTAAAATTAATAAA
1 ATTTAAATTAATAAATATTTAAAAATAGAGTCCATATGATATTATATCACATTAAAATTAATAAA
** * * *
1011731 TTATCTTTTTTAAAAATGTAATTTTTATTAATTTATTTGA
66 TTATCAATTTT-AATATATAA-TTTTATTAATTTATTTAA
*
1011771 ATTTAAATGAACTAAATATTTAAAAATAGA
1 ATTTAAATTAA-TAAATATTTAAAAATAGA
1011801 ATCTACATAA
Statistics
Matches: 199, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
103 4 0.02
104 56 0.28
105 46 0.23
106 31 0.16
107 62 0.31
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (103 bp):
ATTTAAATTAATAAATATTTAAAAATAGAGTCCATATGATATTATATCACATTAAAATTAATAAA
TTATCAATTTTAATATATAATTTTATTAATTTATTTAA
Found at i:1012554 original size:22 final size:22
Alignment explanation
Indices: 1012515--1012566 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1012505 AATGACATGG
* *
1012515 TAGTAAATGATTGATAACATAA
1 TAGTAAATAATTGATAACACAA
1012537 TAGTAAATAATT-AGTAACACAA
1 TAGTAAATAATTGA-TAACACAA
*
1012559 TAATAAAT
1 TAGTAAAT
1012567 TTCATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (22 bp):
TAGTAAATAATTGATAACACAA
Found at i:1012723 original size:28 final size:27
Alignment explanation
Indices: 1012683--1012738 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
1012673 AATTTTAAGC
* * *
1012683 TTTATAATTATGTCAATTAAAAAATTAA
1 TTTACAATTATGTC-ATCAAAAAAATAA
1012711 TTTACAATTATGTCATCAAAAAAATAA
1 TTTACAATTATGTCATCAAAAAAATAA
1012738 T
1 T
1012739 GTCTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (27 bp):
TTTACAATTATGTCATCAAAAAAATAA
Found at i:1014529 original size:25 final size:21
Alignment explanation
Indices: 1014479--1014520 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1014469 TAAAAGATAA
1014479 ATAATTATAAAATAATAGCAT
1 ATAATTATAAAATAATAGCAT
*
1014500 ATAATGTATAACATAATAGCA
1 ATAAT-TATAAAATAATAGCA
1014521 AATGATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (21 bp):
ATAATTATAAAATAATAGCAT
Found at i:1014600 original size:25 final size:25
Alignment explanation
Indices: 1014563--1014619 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
1014553 AGTAAACACT
*
1014563 TAATAATATAATAAAAAATAATTTA
1 TAATAATATAATAAAAAATAATTGA
*
1014588 TAAT-ATATGAATAAAAAATTATTGA
1 TAATAATAT-AATAAAAAATAATTGA
1014613 TAA-AATA
1 TAATAATA
1014620 ATAGTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAATAATATAATAAAAAATAATTGA
Found at i:1017122 original size:9 final size:9
Alignment explanation
Indices: 1017108--1017137 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
1017098 TAAAATATAA
1017108 AATTAAATT
1 AATTAAATT
1017117 AATTAAATT
1 AATTAAATT
1017126 AATTAAATT
1 AATTAAATT
1017135 AAT
1 AAT
1017138 ATTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAAATT
Found at i:1017151 original size:11 final size:12
Alignment explanation
Indices: 1017135--1017181 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
1017125 TAATTAAATT
1017135 AATATTTAA-AA
1 AATATTTAATAA
1017146 AATATTTAATAA
1 AATATTTAATAA
1017158 AATA--T-A-AA
1 AATATTTAATAA
*
1017166 TATATTTAATAA
1 AATATTTAATAA
1017178 AATA
1 AATA
1017182 GATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
8 5 0.17
9 1 0.03
10 2 0.07
11 10 0.34
12 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTTAATAA
Found at i:1017419 original size:20 final size:21
Alignment explanation
Indices: 1017396--1017441 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1017386 TTTTTTTTTA
1017396 AAAAATT-A-CTTTTAAAAACT
1 AAAAATTCATCTTTTAAAAA-T
*
1017416 -AAAATTCATCTTTTAAATAT
1 AAAAATTCATCTTTTAAAAAT
1017436 AAAAAT
1 AAAAAT
1017442 ATTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 14 0.64
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTCATCTTTTAAAAAT
Found at i:1017496 original size:18 final size:21
Alignment explanation
Indices: 1017472--1017520 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 21
1017462 GATTAATTAA
1017472 AAAATTTTTA-AATTAA-ATT
1 AAAATTTTTATAATTAATATT
*
1017491 -AAA-TTTTATTATTAATATT
1 AAAATTTTTATAATTAATATT
1017510 AAAATTTTTAT
1 AAAATTTTTAT
1017521 TTATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 3 0.12
20 3 0.12
21 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATTTTTATAATTAATATT
Found at i:1017521 original size:18 final size:17
Alignment explanation
Indices: 1017472--1017521 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
1017462 GATTAATTAA
1017472 AAAATTTTTAAATTAAATT
1 AAAATTTTT--ATTAAATT
*
1017491 AAATTTTATTATTAATATT
1 AAAATTT-TTATTAA-ATT
1017510 AAAATTTTTATT
1 AAAATTTTTATT
1017522 TATTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 10 0.37
19 15 0.56
20 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAAATTTTTATTAAATT
Found at i:1017604 original size:18 final size:19
Alignment explanation
Indices: 1017581--1017618 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1017571 TTATAATTAA
*
1017581 ATTTAAA-TAAAATATATT
1 ATTTAAATTAAAAAATATT
1017599 ATTTAAATTAAAAAATATT
1 ATTTAAATTAAAAAATATT
1017618 A
1 A
1017619 GTTCGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTAAATTAAAAAATATT
Found at i:1017770 original size:18 final size:18
Alignment explanation
Indices: 1017740--1017795 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
1017730 AATATTATAT
*
1017740 TTTTATGTT-TATTAAAA
1 TTTTATATTATATTAAAA
*
1017757 TTTTATATTATATTATATA
1 TTTTATATTATATTA-AAA
*
1017776 TTTTA-ATCATATTTAAAA
1 TTTTATATTATA-TTAAAA
1017794 TT
1 TT
1017796 ATTAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 8 0.25
18 14 0.44
19 10 0.31
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTATATTATATTAAAA
Found at i:1018658 original size:25 final size:25
Alignment explanation
Indices: 1018630--1018685 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1018620 ATTTGAAAGG
1018630 AAATATTTATTA-AAAAAATTAAA-TT
1 AAATATTTA-TACAAAAAA-TAAATTT
* *
1018655 AAATTTTTATACTAAAAATAAATTT
1 AAATATTTATACAAAAAATAAATTT
1018680 AAATAT
1 AAATAT
1018686 CACATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATATTTATACAAAAAATAAATTT
Found at i:1018850 original size:22 final size:23
Alignment explanation
Indices: 1018808--1018852 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1018798 AAAAAAAGGG
1018808 ATTGTTTCCAAATGGAAACCACT
1 ATTGTTTCCAAATGGAAACCACT
*
1018831 ATTGTTTCTAAAT-GAAACCACT
1 ATTGTTTCCAAATGGAAACCACT
1018853 TTCTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (23 bp):
ATTGTTTCCAAATGGAAACCACT
Found at i:1026168 original size:15 final size:15
Alignment explanation
Indices: 1026150--1026181 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1026140 ATTATAAATT
1026150 TTTAAAATATTTTTA
1 TTTAAAATATTTTTA
1026165 TTTAAAATATTTTTA
1 TTTAAAATATTTTTA
1026180 TT
1 TT
1026182 CAATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAATATTTTTA
Found at i:1026640 original size:20 final size:21
Alignment explanation
Indices: 1026617--1026668 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
1026607 AATAATAATC
*
1026617 AAATTAAATTTAA-AATTTTT
1 AAATTAAATTTAATAATTTAT
1026637 AAATTAAATTTTAATAATTTAT
1 AAATTAAA-TTTAATAATTTAT
1026659 AAATATAAAT
1 AAAT-TAAAT
1026669 ATCCATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
21 5 0.18
22 11 0.39
23 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTAAATTTAATAATTTAT
Found at i:1028298 original size:3 final size:3
Alignment explanation
Indices: 1028290--1028320 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1028280 AATTCATTAA
1028290 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1028321 ATGTATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1028515 original size:23 final size:24
Alignment explanation
Indices: 1028463--1028515 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
1028453 TACCAACTTT
* *
1028463 ATTTTAAAAATATTTGTTTATTTTA
1 ATTTT-AAAATATTTATTTATTTAA
*
1028488 A-TTTAAATTATTTATTTA-TTAA
1 ATTTTAAAATATTTATTTATTTAA
1028510 ATTTTA
1 ATTTTA
1028516 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 3 0.12
25 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAAAATATTTATTTATTTAA
Found at i:1032764 original size:25 final size:25
Alignment explanation
Indices: 1032730--1032779 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1032720 ATGAAAAACA
1032730 ATTTTTTTCTTAGATATACATATAT
1 ATTTTTTTCTTAGATATACATATAT
1032755 ATTTTTTTCTTAGATATACATATAT
1 ATTTTTTTCTTAGATATACATATAT
1032780 CTTTGTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTTTTTCTTAGATATACATATAT
Found at i:1042484 original size:13 final size:13
Alignment explanation
Indices: 1042466--1042491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1042456 TTTATAAAAA
1042466 TTATTATATATTT
1 TTATTATATATTT
1042479 TTATTATATATTT
1 TTATTATATATTT
1042492 AAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATATATTT
Found at i:1042879 original size:6 final size:6
Alignment explanation
Indices: 1042856--1042905 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
1042846 AAATATTAAT
* *
1042856 TTTAT- TTTATA TTAATA TTTATA -TAATA TTTATA TTTATAA TTT-TA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT-A TTTATA
1042902 TTTA
1 TTTA
1042906 ATTAAAACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
5 13 0.35
6 20 0.54
7 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:1042884 original size:11 final size:11
Alignment explanation
Indices: 1042861--1042890 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
1042851 TTAATTTTAT
1042861 TTTATATTAATA
1 TTTATA-TAATA
1042873 TTTATATAATA
1 TTTATATAATA
1042884 TTTATAT
1 TTTATAT
1042891 TTATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATATAATA
Found at i:1042884 original size:17 final size:17
Alignment explanation
Indices: 1042833--1042895 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
1042823 TTTTTTATTT
* *
1042833 TATTATTATTTA-AAAA
1 TATTAATATTTATATAA
* *
1042849 TATTAAT-TTTATTTTA
1 TATTAATATTTATATAA
1042865 TATTAATATTTATATAA
1 TATTAATATTTATATAA
*
1042882 TATTTATATTTATA
1 TATTAATATTTATA
1042896 ATTTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 4 0.11
16 14 0.37
17 20 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAATATTTATATAA
Found at i:1042945 original size:21 final size:22
Alignment explanation
Indices: 1042922--1042991 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
1042912 ACTATTTTTA
1042922 TTAATTAAATAATAATTTAAAT
1 TTAATTAAATAATAATTTAAAT
* * *
1042944 TAAATAAAATCA-AATTTAAAT
1 TTAATTAAATAATAATTTAAAT
*
1042965 TTAA--AATATAATATTTTAAAT
1 TTAATTAA-ATAATAATTTAAAT
1042986 TTAATT
1 TTAATT
1042992 TAATTTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 24 0.63
22 9 0.24
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAATTAAATAATAATTTAAAT
Found at i:1043139 original size:22 final size:22
Alignment explanation
Indices: 1043114--1043158 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1043104 TAAAATATTT
*
1043114 TATATTTATATAAATTTTGATA
1 TATATTAATATAAATTTTGATA
* *
1043136 TATATTAATATATATTTTTATA
1 TATATTAATATAAATTTTGATA
1043158 T
1 T
1043159 TACATCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTAATATAAATTTTGATA
Found at i:1046095 original size:31 final size:32
Alignment explanation
Indices: 1046032--1046092 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1046022 AACTAACATT
*
1046032 AATAAAAAAATTTGAATTTTATAAATAAAATA
1 AATAAAAAAATTTAAATTTTATAAATAAAATA
*
1046064 AATAAAAATATTTAAATTTT-TATAATAAA
1 AATAAAAAAATTTAAATTTTATA-AATAAA
1046093 TAACGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
AATAAAAAAATTTAAATTTTATAAATAAAATA
Found at i:1047052 original size:11 final size:11
Alignment explanation
Indices: 1047036--1047077 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
1047026 CAAGAGATAA
1047036 AATATCTTTTT
1 AATATCTTTTT
1047047 AATATCTTTTT
1 AATATCTTTTT
*
1047058 AATATATTTTT
1 AATATCTTTTT
1047069 -AT-TCTTTTT
1 AATATCTTTTT
1047078 TCTCTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 21 0.72
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
AATATCTTTTT
Found at i:1047142 original size:23 final size:23
Alignment explanation
Indices: 1047112--1047161 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1047102 TTATTAAATT
*
1047112 TTTAAATAATAATA-ATTAATTAA
1 TTTAAATAA-AATATATTAATAAA
*
1047135 TTTAAATAAAATATTTTAATAAA
1 TTTAAATAAAATATATTAATAAA
1047158 TTTA
1 TTTA
1047162 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATAAAATATATTAATAAA
Found at i:1047470 original size:28 final size:26
Alignment explanation
Indices: 1047394--1047499 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 26
1047384 TAAAAATAAT
1047394 AATTTAAAA-ATAAATATATTTTTTATTA
1 AATTTAAAAGATAAATATA-TTTTTA--A
*
1047422 AATCTTAAAA-AAATAAT-TATTTTTAA
1 AAT-TTAAAAGATA-AATATATTTTTAA
1047448 AATATTAAATAGATAAATATATTCTAATTAA
1 AAT-TTAAA-AGATAAATATATT-T--TTAA
1047479 AATTT-AAAGATAAATATATTT
1 AATTTAAAAGATAAATATATTT
1047500 CACTTAATAG
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
26 9 0.13
27 5 0.07
28 28 0.42
29 13 0.19
30 5 0.07
31 7 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTTAAAAGATAAATATATTTTTAA
Found at i:1049269 original size:2 final size:2
Alignment explanation
Indices: 1049264--1049298 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1049254 CTTCAAGCGG
1049264 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1049299 GTGAATCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1054877 original size:2 final size:2
Alignment explanation
Indices: 1054870--1054904 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1054860 ATCGTTTTCA
1054870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1054905 GAAATATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1056011 original size:5 final size:5
Alignment explanation
Indices: 1056001--1056030 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
1055991 AAGCATATTG
1056001 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1056031 CAGCCAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Done.