Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold127
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: 4281254
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 5 of 26
Found at i:918616 original size:12 final size:13
Alignment explanation
Indices: 918573--918629 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 13
918563 TTTTAAAAAT
918573 AATATAATTATATAA
1 AATATAA-TATA-AA
918588 AAT-TAATAT-AA
1 AATATAATATAAA
918599 AA-ATAAT-TAAA
1 AATATAATATAAA
918610 AATATAATATAAA
1 AATATAATATAAA
918623 TAATATA
1 -AATATA
918630 TAAATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
10 1 0.03
11 12 0.32
12 5 0.14
13 7 0.19
14 9 0.24
15 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:918635 original size:32 final size:34
Alignment explanation
Indices: 918573--918659 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 34
918563 TTTTAAAAAT
*
918573 AATATAATTATATAAAATTAATATAAAAATA-ATTAA
1 AATAT-ATAATAT-AAA-TAATATAAAAATATATTAA
*
918609 AA-ATATAATATAAATAATATATAAATATATTAA
1 AATATATAATATAAATAATATAAAAATATATTAA
918642 AATTTATATAATATAAAT
1 AA--TATATAATATAAAT
918660 TGTTAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 12 0.27
33 10 0.22
34 6 0.13
35 2 0.04
36 15 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
AATATATAATATAAATAATATAAAAATATATTAA
Found at i:919223 original size:37 final size:37
Alignment explanation
Indices: 919173--919246 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
919163 AAACCTAAAT
*
919173 GTATTATAATCTAAATTTCACATTACAAAGTTAAAAA
1 GTATTATAATCTAAATTTCACAATACAAAGTTAAAAA
919210 GTATTATAATCTAAATTTCACAATACAAAGTTAAAAA
1 GTATTATAATCTAAATTTCACAATACAAAGTTAAAAA
919247 CTGACCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (37 bp):
GTATTATAATCTAAATTTCACAATACAAAGTTAAAAA
Found at i:925964 original size:22 final size:22
Alignment explanation
Indices: 925908--925965 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
925898 ATTTTTATAA
*
925908 ATTTT-TTATTTAAATTTAATTC
1 ATTTTATTA-TTAAATTAAATTC
* * * *
925930 AGTTTAATCTTAAATTAAATTT
1 ATTTTATTATTAAATTAAATTC
925952 ATTTTATTATTAAA
1 ATTTTATTATTAAA
925966 AATAATTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTATTATTAAATTAAATTC
Found at i:925995 original size:20 final size:20
Alignment explanation
Indices: 925942--926008 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
925932 TTTAATCTTA
925942 AATTAAA-TT-TA-TTTTAT
1 AATTAAATTTATATTTTTAT
* **
925959 TATTAAAAATA-ATTTTTAT
1 AATTAAATTTATATTTTTAT
925978 -ATTAATATTTATATTTTTAT
1 AATTAA-ATTTATATTTTTAT
925998 AATTAAATTTA
1 AATTAAATTTA
926009 AATAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 9 0.22
20 13 0.32
21 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTAAATTTATATTTTTAT
Found at i:927670 original size:2 final size:2
Alignment explanation
Indices: 927663--927689 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
927653 AAAATTGATC
927663 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
927690 AATGCTTAAT
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:930873 original size:32 final size:32
Alignment explanation
Indices: 930809--930900 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 32
930799 ATATTATAAT
**
930809 TATATTTAATATATTATAT-AATAAAAATTATA
1 TATATTT-ATATATTATATAAATTTAAATTATA
*
930841 TATATTTATTATATTATATAAATTTTAA-TATA
1 TATATTTA-TATATTATATAAATTTAAATTATA
930873 TATATTTATATTATTGA-ATAAATTTAAA
1 TATATTTATA-TATT-ATATAAATTTAAA
930901 GTTGGGTGCG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
31 3 0.06
32 43 0.83
33 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TATATTTATATATTATATAAATTTAAATTATA
Found at i:931654 original size:28 final size:29
Alignment explanation
Indices: 931590--931657 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
931580 TTTTTTATTA
* *
931590 TATTATTAATATTTATATTTATATATTTT
1 TATTATTAATATTTAAATATATATATTTT
*
931619 TATAATTAA-ATTTAAATATATAATATTTT
1 TATTATTAATATTTAAATATAT-ATATTTT
931648 T-TTATTAATA
1 TATTATTAATA
931658 AATAATACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTATTAATATTTAAATATATATATTTT
Found at i:931794 original size:69 final size:66
Alignment explanation
Indices: 931667--931794 Score: 150
Period size: 69 Copynumber: 1.9 Consensus size: 66
931657 AAATAATACT
* * * *
931667 TTAAATTAAATTAATTTAAATTTTTAAATATTTTATTTAAAATTTAATTTATATAAATTATATTT
1 TTAAATTAAATAAATTTAAATTTTTAAATAATTTATTTAAAATTTAAATTATACAAATTATATTT
931732 A
66 A
* * *
931733 TTAAATTAAATAAATAATTAAATTTTTATATAAATTTATTTCATATTTAAAATTAT-CAAATT
1 TTAAATTAAATAAAT--TTAAATTTTTAAAT-AATTTATTTAAAATTT-AAATTATACAAATT
931795 TAACCGTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 14 0.27
68 13 0.25
69 18 0.35
70 6 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (66 bp):
TTAAATTAAATAAATTTAAATTTTTAAATAATTTATTTAAAATTTAAATTATACAAATTATATTT
A
Found at i:933635 original size:35 final size:36
Alignment explanation
Indices: 933591--933659 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
933581 TTATATAAAT
* *
933591 TTTTATATAT-TTATATTAATTTTTTATTAAATTTGA
1 TTTTATATATATTAAATAAATTTTTTA-TAAATTTGA
933627 TTTT-TATATATTAAATAAATTTTTTATAAATTT
1 TTTTATATATATTAAATAAATTTTTTATAAATTT
933660 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 12 0.40
36 18 0.60
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (36 bp):
TTTTATATATATTAAATAAATTTTTTATAAATTTGA
Found at i:933700 original size:28 final size:28
Alignment explanation
Indices: 933663--933746 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 28
933653 TAAATTTTTA
933663 AAAAATATTTAAATTATTATTTAATAAT
1 AAAAATATTTAAATTATTATTTAATAAT
** * ** *
933691 AAAAATATTTTTATAAAAATTTAATTAT
1 AAAAATATTTAAATTATTATTTAATAAT
* *
933719 AAAAATATATAAA-TATTAATTAA-AAT
1 AAAAATATTTAAATTATTATTTAATAAT
933745 AA
1 AA
933747 TATTTTAATA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
26 4 0.10
27 6 0.14
28 32 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAAATATTTAAATTATTATTTAATAAT
Found at i:933708 original size:14 final size:15
Alignment explanation
Indices: 933683--933726 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
933673 AAATTATTAT
*
933683 TTAATAATAAAAATA
1 TTAATTATAAAAATA
*
933698 TT-TTTATAAAAAT-
1 TTAATTATAAAAATA
933711 TTAATTATAAAAATA
1 TTAATTATAAAAATA
933726 T
1 T
933727 ATAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.08
14 19 0.79
15 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTATAAAAATA
Found at i:933748 original size:23 final size:23
Alignment explanation
Indices: 933702--933759 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
933692 AAAATATTTT
*
933702 TATAAAAAT-TTAATTATAAAAA
1 TATATAAATATTAATTATAAAAA
933724 TATATAAATATTAATTA-AAATAA
1 TATATAAATATTAATTATAAA-AA
* *
933747 TATTTTAATATTA
1 TATATAAATATTA
933760 TGATAAACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATATAAATATTAATTATAAAAA
Found at i:933896 original size:20 final size:21
Alignment explanation
Indices: 933868--933927 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
933858 ATAATTTTAA
933868 TTTATATTA-ATTTT-TTATT
1 TTTATATTATATTTTATTATT
933887 TTTAATATTATATTTTAATTATT
1 TTT-ATATTATATTTT-ATTATT
* *
933910 TTTATATTTTATTATATT
1 TTTATATTATATTTTATT
933928 TAAAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.09
20 6 0.17
21 8 0.23
22 10 0.29
23 8 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATATTATATTTTATTATT
Found at i:933916 original size:17 final size:16
Alignment explanation
Indices: 933894--933929 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
933884 ATTTTTAATA
*
933894 TTATATTTTAATTATTT
1 TTATATTTT-ATTATAT
933911 TTATATTTTATTATAT
1 TTATATTTTATTATAT
933927 TTA
1 TTA
933930 AAATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATATTTTATTATAT
Found at i:938696 original size:55 final size:55
Alignment explanation
Indices: 938612--938716 Score: 201
Period size: 55 Copynumber: 1.9 Consensus size: 55
938602 GAATTTTCAA
*
938612 CAAAACTGACTTGCATTTTGAATGTTGAAAACTGCACTGAAATGCTCATTTGCAT
1 CAAAACTGAATTGCATTTTGAATGTTGAAAACTGCACTGAAATGCTCATTTGCAT
938667 CAAAACTGAATTGCATTTTGAATGTTGAAAACTGCACTGAAATGCTCATT
1 CAAAACTGAATTGCATTTTGAATGTTGAAAACTGCACTGAAATGCTCATT
938717 GCTATTCCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (55 bp):
CAAAACTGAATTGCATTTTGAATGTTGAAAACTGCACTGAAATGCTCATTTGCAT
Found at i:940264 original size:10 final size:10
Alignment explanation
Indices: 940249--940311 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 10
940239 ATTAAGTTAA
940249 TTTTATATAT
1 TTTTATATAT
940259 TTTTATA-AT
1 TTTTATATAT
940268 TTTT-TATAT
1 TTTTATATAT
*
940277 GATTTATAT-T
1 -TTTTATATAT
*
940287 TATT-TA-A-
1 TTTTATATAT
940294 TTTTATAT-T
1 TTTTATATAT
940303 TTTTATATA
1 TTTTATATA
940312 AATTATGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
7 3 0.07
8 6 0.15
9 18 0.44
10 11 0.27
11 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:940508 original size:28 final size:27
Alignment explanation
Indices: 940475--940546 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
940465 ATAATTTTAT
*
940475 TATTAAATTTAAAATAAATCTATTAAAA
1 TATTAAATTTAAAATAAAT-TATAAAAA
*
940503 TATT-AATTGT-ATATAAAATTATAAAAA
1 TATTAAATT-TAAAAT-AAATTATAAAAA
*
940530 TACTTAAAGTTAAAATA
1 TA-TTAAATTTAAAATA
940547 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
27 16 0.46
28 13 0.37
29 6 0.17
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (27 bp):
TATTAAATTTAAAATAAATTATAAAAA
Found at i:950982 original size:12 final size:12
Alignment explanation
Indices: 950965--950996 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
950955 CAAAGAAGCC
950965 AAAAGAAAAAAA
1 AAAAGAAAAAAA
950977 AAAAGAAAAAAA
1 AAAAGAAAAAAA
*
950989 AAGAGAAA
1 AAAAGAAA
950997 GATGCTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:952942 original size:598 final size:598
Alignment explanation
Indices: 951809--954165 Score: 4186
Period size: 598 Copynumber: 3.9 Consensus size: 598
951799 GGGCTTCTAT
951809 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
1 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
*
951874 AATCATCTTTTGTTTTTTAGTAATTATTAGTTG-TTTTCAGGAGGAAAAAAA-AAGGAATATGTA
66 AATCATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
* * *
951937 ACTACATTGAAATTTCTGTAATATACTTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
131 AATACATTGAAATTTCTGTAGTATACCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
* *
952002 ATAGATTAATGCCATAAGAGAAAGGGAATTCATGGATGATAACTTTAACTGATTTGAGGGCTACA
196 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
* *
952067 CATATTGATTAAATCCCATAATTTTAAAGATAAATTGGTTATAAGATTACAACGGTTGTTTCATA
261 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
*
952132 GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACACGAAAGAAATGGCGAAGAAAGGGGGTCATT
326 GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
*
952197 TTGTGCTGGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
391 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
952262 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
456 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
* *
952327 AGAGGTTATCTTGATTTCTGATTACTTCGAACCGTTGATGGATTTCATACTGATATTAAAAAATT
521 AGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCATACTGATATTAAAAAATT
952392 TTAAAAAATTAAA
586 TTAAAAAATTAAA
* * * *
952405 CATAAGGAGACAGATGGTTATAATTATTTGTACCATTTTCATGTTGTTTATATTTTCTTCAATAA
1 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
* *
952470 AATCATCTTTTGTTTTTTAGTAATTATTAGTTATTTTTTAGGAGGAAAAAAACAAAGAATATGTA
66 AATCATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
*
952535 AATACATTGAAATTTCTGTAGTATACCTAGAATTGAGTAGCATCTTGATTTAAGCCAAAGAAAAG
131 AATACATTGAAATTTCTGTAGTATACCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
* * *
952600 ATAGATTAACGCCATAAGGGAAAAGGAATTCATGGATGGTAACTTCAACTGATTTGAGGGCTACA
196 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
952665 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
261 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
* * *
952730 GTGCAAGAGATTGAAACAAAGGTAAGACAGGAACAGAAAAGAAATGGCGAAGAAAGGGGGTCATT
326 GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
952795 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
391 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
952860 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
456 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
*
952925 AGAGGTTATCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCATACTGATATTAAAAAATT
521 AGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCATACTGATATTAAAAAATT
952990 TTAAAAAATTAAA
586 TTAAAAAATTAAA
* *
953003 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTG-T--TTATATTTTCTCCAATCA
1 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
*
953065 AATTATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
66 AATCATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
* *
953130 AATACATTAAAATTTCTGTAGTATATCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
131 AATACATTGAAATTTCTGTAGTATACCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
953195 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
196 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
953260 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
261 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
* *
953325 GTGCAAGAGACTGAATTAAAGGTAAGGCAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
326 GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
* *
953390 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTAG-TGGTATAAAATGGAAACCTAGCTCAA
391 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGT-GTTGGTATAAAGTGGAAACCCAGCTCAA
* *
953454 ATCAATAGGCCACAAGGTTACTGCACTGGACATGACTGCTTCTGGGATTCATCCAAAGCAAGTTC
455 ATCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTC
* * *
953519 ATGAGGTTACCTTGATTTCTGATTATTTCGAATCGTTGATGGACTTCATACTGATATTAAAAAAT
520 AAGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCATACTGATATTAAAAAAT
*
953584 TTTAAAATATTAAA
585 TTTAAAAAATTAAA
*
953598 CATAAGGAGATAGATGGCTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
1 CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
* *
953663 AATCATTTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGAAGGAAAAAAACAAAGAATATGTA
66 AATCATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
*
953728 AATACATTGAAATTTCTGTAGTATATCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
131 AATACATTGAAATTTCTGTAGTATACCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
*
953793 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTGCA
196 ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
*
953858 CATATTGATTAAATCCCATAATTTTAAAGATAAATTGGTTATAAGATTACAACGGTTGTTCCATA
261 CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
* * *
953923 ATGCAAGAGACTGAATCAAAGGTAAGACAAGAATAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
326 GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
* *
953988 TTGTGCTAGTACATGGAGCCTGCCATGGAGCATGGTGTTGGTATAAAGTGGCAACCCAGCTCAAA
391 TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
954053 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
456 TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
*
954118 TGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCAT
521 AGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCAT
954166 GGCGTCTCTC
Statistics
Matches: 1680, Mismatches: 74, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
595 566 0.34
596 95 0.06
597 19 0.01
598 1000 0.60
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (598 bp):
CATAAGGAGATAGATGGTTATAATTACTTGTACCATTTTCTTGTTGCTTATATTTTCTTCAATAA
AATCATCTTTTGTTTTTTAGTAATTATTAGTTGTTTTTCAGGAGGAAAAAAACAAAGAATATGTA
AATACATTGAAATTTCTGTAGTATACCTAGAATTGACTAGCATCTTGATTTAAGCCAAAGAAAAG
ATAGATTAATGCCATAAGGGAAAGGGAATTCATGGATGATAACTTCAACTGATTTGAGGGCTACA
CATATTGATTAAATCCCATAATTTTAAAGAGAAATTGGTTATAAGATTACAACGGTTGTTCCATA
GTGCAAGAGACTGAATCAAAGGTAAGACAGGAACAGGAAAGAAATGGCGAAGAAAGGGGGTCATT
TTGTGCTAGTACATGGAGCTTGCCATGGAGCATGGTGTTGGTATAAAGTGGAAACCCAGCTCAAA
TCAATGGGCCACAAGGTTACTGCACTGGACATGGCTGCTTCTGGGATTCATCCAAAGCAAGTTCA
AGAGGTTACCTTGATTTCTGATTACTTCGAACCGTTGATGGACTTCATACTGATATTAAAAAATT
TTAAAAAATTAAA
Found at i:956750 original size:31 final size:31
Alignment explanation
Indices: 956715--956776 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
956705 GTAAAATTAA
956715 CTAGACAGATTAGTAAAGACTTAAAAAGCTT
1 CTAGACAGATTAGTAAAGACTTAAAAAGCTT
956746 CTAGACAGATTAGTAAAGACTTAAAAAGCTT
1 CTAGACAGATTAGTAAAGACTTAAAAAGCTT
956777 TGTTTTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (31 bp):
CTAGACAGATTAGTAAAGACTTAAAAAGCTT
Found at i:958675 original size:22 final size:22
Alignment explanation
Indices: 958640--958681 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
958630 TATTTTTATT
958640 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
958662 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
958682 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:960716 original size:15 final size:15
Alignment explanation
Indices: 960679--960728 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
960669 AGAAAATTAT
* *
960679 TAAATTTTTTTAAATA
1 TAAA-TTTTTAAAAAA
*
960695 TATATTTTTAAAAAA
1 TAAATTTTTAAAAAA
960710 TAAA-TTTTAAAAAA
1 TAAATTTTTAAAAAA
960724 TAAAT
1 TAAAT
960729 ATGAGTAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 14 0.48
15 12 0.41
16 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATTTTTAAAAAA
Found at i:960717 original size:14 final size:14
Alignment explanation
Indices: 960700--960728 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
960690 AAATATATAT
960700 TTTTAAAAAATAAA
1 TTTTAAAAAATAAA
960714 TTTTAAAAAATAAA
1 TTTTAAAAAATAAA
960728 T
1 T
960729 ATGAGTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTTAAAAAATAAA
Found at i:964082 original size:18 final size:19
Alignment explanation
Indices: 964043--964082 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
964033 TGACAGCGCA
964043 AAAAAGACGAGTTTTTACT
1 AAAAAGACGAGTTTTTACT
*
964062 AAAAAGATGAGTTTTTA-T
1 AAAAAGACGAGTTTTTACT
964080 AAA
1 AAA
964083 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (19 bp):
AAAAAGACGAGTTTTTACT
Found at i:968978 original size:25 final size:26
Alignment explanation
Indices: 968927--968991 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
968917 TACTTAATCT
*
968927 ATTTTATAATTATATAATATATATTA
1 ATTTTATATTTATATAATATATATTA
*
968953 ATTTTATATTTTTAT-ATAT-TAGTTA
1 ATTTTATATTTATATAATATATA-TTA
968978 ATTTT-TATTTATAT
1 ATTTTATATTTATAT
968992 TCAAAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.29
25 12 0.34
26 13 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTATATTTATATAATATATATTA
Found at i:969381 original size:13 final size:13
Alignment explanation
Indices: 969363--969389 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
969353 TTTTTTTCGT
969363 TTATTAAATTAAA
1 TTATTAAATTAAA
969376 TTATTAAATTAAA
1 TTATTAAATTAAA
969389 T
1 T
969390 AAACGAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATTAAATTAAA
Found at i:970487 original size:2 final size:2
Alignment explanation
Indices: 970480--970507 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
970470 AGATAAATAC
970480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
970508 CCATTCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:975614 original size:30 final size:31
Alignment explanation
Indices: 975580--975637 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
975570 TTATTTAATT
*
975580 TTTAAAAAATATTTATATAT-AATATTAGTA
1 TTTAAAAAATATTTAGATATAAATATTAGTA
***
975610 TTTAATTTATATTTAGATATAAATATTA
1 TTTAAAAAATATTTAGATATAAATATTA
975638 AAATATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 16 0.70
31 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTAAAAAATATTTAGATATAAATATTAGTA
Found at i:975647 original size:31 final size:30
Alignment explanation
Indices: 975588--975648 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
975578 TTTTTAAAAA
* ** *
975588 ATATTTATATATAATATTAGTATTTAATTT
1 ATATTTAGATATAATATTAAAATATAATTT
975618 ATATTTAGATATAAATATTAAAATATAATTT
1 ATATTTAGATAT-AATATTAAAATATAATTT
975649 TTTAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
ATATTTAGATATAATATTAAAATATAATTT
Found at i:980257 original size:13 final size:12
Alignment explanation
Indices: 980226--980259 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
980216 TATATTATTT
*
980226 TTAAAAATTAAA
1 TTAAATATTAAA
980238 TTAAATATTAAA
1 TTAAATATTAAA
980250 TATAAATATT
1 T-TAAATATT
980260 TTTAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAATATTAAA
Found at i:981639 original size:3 final size:3
Alignment explanation
Indices: 981631--981666 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
981621 TTTGTTATGT
981631 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
981667 AGGTTTGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:982025 original size:5 final size:5
Alignment explanation
Indices: 982015--982084 Score: 56
Period size: 5 Copynumber: 14.2 Consensus size: 5
982005 TATATTTAAA
* * *
982015 TATAT TATAT TATAT T-TAT TATAT TATTTT TATAT TAATAT T-TTT TTTAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT T-ATAT TATAT TATAT
* *
982065 TTTAT T-TTT TATAT TATAT T
1 TATAT TATAT TATAT TATAT T
982085 TAAAAATTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 10 0.19
5 35 0.65
6 9 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (5 bp):
TATAT
Found at i:982036 original size:14 final size:14
Alignment explanation
Indices: 982003--982086 Score: 75
Period size: 14 Copynumber: 6.1 Consensus size: 14
981993 ATATTTTTTA
* *
982003 ATTATATTTAAATAT
1 ATTATA-TTATATTT
982018 ATTATATTATATTT
1 ATTATATTATATTT
982032 ATTATA-T-TATTT
1 ATTATATTATATTT
982044 -TTATATTAATATTT
1 ATTATATT-ATATTT
* * *
982058 TTTTTATTTTATTT
1 ATTATATTATATTT
*
982072 TTTATATTATATTT
1 ATTATATTATATTT
982086 A
1 A
982087 AAAATTGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
11 5 0.09
12 6 0.10
13 1 0.02
14 34 0.59
15 12 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATATTATATTT
Found at i:982047 original size:20 final size:20
Alignment explanation
Indices: 982004--982070 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 20
981994 TATTTTTTAA
* *
982004 TTATATTTAAATATATTA-TA
1 TTATATTT-ATTATATTATTT
982024 TTATATTTATTATATTATTT
1 TTATATTTATTATATTATTT
*
982044 TTATA-TTA--ATATTTTTT
1 TTATATTTATTATATTATTT
982061 TTAT-TTTATT
1 TTATATTTATT
982071 TTTTATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 15 0.38
19 11 0.28
20 14 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATATTTATTATATTATTT
Found at i:982049 original size:40 final size:40
Alignment explanation
Indices: 982004--982086 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
981994 TATTTTTTAA
*
982004 TTATATTTAA-ATATATTATATTATATTTATTATATTATTT
1 TTATA-TTAATATATATTATATTATATTTATTATATTATAT
* * * * *
982044 TTATATTAATATTTTTTTTATTTTATTTTTTATATTATAT
1 TTATATTAATATATATTATATTATATTTATTATATTATAT
982084 TTA
1 TTA
982087 AAAATTGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (40 bp):
TTATATTAATATATATTATATTATATTTATTATATTATAT
Found at i:982074 original size:12 final size:12
Alignment explanation
Indices: 982019--982081 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 12
982009 TTTAAATATA
982019 TTATATTATATTT
1 TTATATTAT-TTT
982032 ATTATATTATTTT
1 -TTATATTATTTT
*
982045 TATATTAATATTTTTT
1 T-TA-T-AT-TATTTT
*
982061 TTATTTTATTTT
1 TTATATTATTTT
982073 TTATATTAT
1 TTATATTAT
982082 ATTTAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 14 0.34
13 6 0.15
14 11 0.27
15 4 0.10
16 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:982608 original size:27 final size:27
Alignment explanation
Indices: 982578--982653 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
982568 CAAGCATAGA
982578 TATATATTTAA-TTTTTT-ATAAAATTT
1 TATATATTTAATTTTTTTAAT-AAATTT
982604 T-TATATTTAAATTTTTTTAATAAATTT
1 TATATATTT-AATTTTTTTAATAAATTT
*
982631 TATTTATTT-ATTTATGTTTAATA
1 TATATATTTAATTT-T-TTTAATA
982654 TAAATAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
25 7 0.16
26 7 0.16
27 14 0.33
28 15 0.35
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (27 bp):
TATATATTTAATTTTTTTAATAAATTT
Found at i:982615 original size:14 final size:14
Alignment explanation
Indices: 982580--982619 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
982570 AGCATAGATA
982580 TATATTT-AATTTT
1 TATATTTAAATTTT
*
982593 T-TA-TAAAATTTT
1 TATATTTAAATTTT
982605 TATATTTAAATTTT
1 TATATTTAAATTTT
982619 T
1 T
982620 TTAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.05
12 9 0.41
13 3 0.14
14 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATATTTAAATTTT
Found at i:982640 original size:28 final size:26
Alignment explanation
Indices: 982580--982633 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
982570 AGCATAGATA
982580 TATATTT-AATTTTTTATAAAATTTT
1 TATATTTAAATTTTTTATAAAATTTT
*
982605 TATATTTAAATTTTTT-TAATAAATTT
1 TATATTTAAATTTTTTATAA-AATTTT
982631 TAT
1 TAT
982634 TTATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATTTAAATTTTTTATAAAATTTT
Found at i:983829 original size:18 final size:19
Alignment explanation
Indices: 983803--983838 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
983793 AATAATAAAA
*
983803 AATATTATAT-AATTTATT
1 AATAATATATAAATTTATT
983821 AATAATATATAAATTTAT
1 AATAATATATAAATTTAT
983839 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATATATAAATTTATT
Found at i:985023 original size:24 final size:24
Alignment explanation
Indices: 984990--985040 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
984980 GAGTAATTTA
984990 TTTAAATTAAAATATGTAA-ATAAT
1 TTTAAATTAAAATAT-TAATATAAT
* **
985014 TTTAATTTAATTTATTAATATAAT
1 TTTAAATTAAAATATTAATATAAT
985038 TTT
1 TTT
985041 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAATTAAAATATTAATATAAT
Found at i:991665 original size:2 final size:2
Alignment explanation
Indices: 991658--991685 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
991648 TCTTACATAC
991658 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
991686 CTATTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:992248 original size:15 final size:15
Alignment explanation
Indices: 992224--992256 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
992214 TTAAATTGGG
*
992224 AAAATTATAATAATA
1 AAAATAATAATAATA
992239 AAAATAATAATAATA
1 AAAATAATAATAATA
992254 AAA
1 AAA
992257 GGCCAATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAATAATAATA
Found at i:992546 original size:24 final size:24
Alignment explanation
Indices: 992502--992547 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
992492 ATCTAATAAT
*
992502 TTTAAATATAATATATTTAATATA
1 TTTAAATATAATATATATAATATA
*
992526 TTTATATATAAT-TGATATAATA
1 TTTAAATATAATAT-ATATAATA
992548 AAGTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTAAATATAATATATATAATATA
Found at i:992626 original size:16 final size:15
Alignment explanation
Indices: 992591--992630 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
992581 TATTTATCGT
*
992591 ATTTATATTTAAATT
1 ATTTATATTTAAATA
*
992606 TTTTATATATTAAATA
1 ATTTATAT-TTAAATA
992622 ATTTATATT
1 ATTTATATT
992631 ACATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATATTTAAATA
Found at i:992895 original size:16 final size:16
Alignment explanation
Indices: 992866--992899 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
992856 CAATAGGTAA
992866 TTTTCATTTCTTTGAT
1 TTTTCATTTCTTTGAT
* *
992882 TTTTCTTTTGTTTGAT
1 TTTTCATTTCTTTGAT
992898 TT
1 TT
992900 CTTTGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTTCATTTCTTTGAT
Found at i:993277 original size:2 final size:2
Alignment explanation
Indices: 993270--993310 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
993260 TGATACTAGA
993270 TC TC 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 TC TC T
993311 TAATTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:994177 original size:2 final size:2
Alignment explanation
Indices: 994170--994194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
994160 CAAAAACTCA
994170 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
994195 GTCCAAATGA
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:994467 original size:22 final size:22
Alignment explanation
Indices: 994433--994487 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
994423 CATAATTATA
* *
994433 TTAAAT-ATATTAAATTTTTTTT
1 TTAAATAAT-TTAAAATTATTTT
994455 TTAAATAATTTAAAATTATTTT
1 TTAAATAATTTAAAATTATTTT
**
994477 AAAAATAATTT
1 TTAAATAATTT
994488 TTTTAAGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAAATAATTTAAAATTATTTT
Found at i:995823 original size:14 final size:13
Alignment explanation
Indices: 995805--995855 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
995795 TAATTATAAA
995805 ATATATAAATATT
1 ATATATAAATATT
995818 A-ATATAAA-ATT
1 ATATATAAATATT
*
995829 GATATATTAATATT
1 -ATATATAAATATT
*
995843 ATAATATTAATAT
1 AT-ATATAAATAT
995856 AAATAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 9 0.27
14 13 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATATAAATATT
Found at i:1005476 original size:20 final size:19
Alignment explanation
Indices: 1005451--1005494 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1005441 TAAATTAATA
1005451 AATTTAATCGAATTAATTTT
1 AATTTAATCGAATT-ATTTT
**
1005471 AATTTAATTTAATTATTTT
1 AATTTAATCGAATTATTTT
1005490 AATTT
1 AATTT
1005495 TAAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAATCGAATTATTTT
Found at i:1011614 original size:28 final size:27
Alignment explanation
Indices: 1011579--1011653 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
1011569 GGTTAAATAA
1011579 TAAA-AAA-TTTAAATTTTATGATTTATT
1 TAAATAAATTTTAAATTTTAT--TTTATT
*
1011606 TAAATAAATTTTTATATTTTATTTTATT
1 TAAATAAA-TTTTAAATTTTATTTTATT
** *
1011634 TAAATATTTTTTAATTTTTA
1 TAAATAAATTTTAAATTTTA
1011654 CTTAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 14 0.35
28 15 0.38
30 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TAAATAAATTTTAAATTTTATTTTATT
Found at i:1011624 original size:22 final size:23
Alignment explanation
Indices: 1011599--1011676 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
1011589 AAATTTTATG
1011599 ATTTATTTAAATAAATTTTTATATTTT
1 ATTTATTTAAATAAATTTTTA-A---T
*
1011626 ATTTTATTTAAAT-ATTTTTTAAT
1 A-TTTATTTAAATAAATTTTTAAT
* *
1011649 TTTTACTTAAATAAATTTTTAAT
1 ATTTATTTAAATAAATTTTTAAT
1011672 ATTTA
1 ATTTA
1011677 ATATATACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 10 0.23
23 14 0.32
26 1 0.02
27 8 0.18
28 11 0.25
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTATTTAAATAAATTTTTAAT
Found at i:1011626 original size:23 final size:24
Alignment explanation
Indices: 1011588--1011669 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 24
1011578 ATAAAAAATT
*
1011588 TAAA-TTTTATGA-TTTATTTAAA
1 TAAATTTTTATAATTTTATTTAAA
**
1011610 TAAATTTTTAT-ATTTTATTTTATT
1 TAAATTTTTATAATTTTA-TTTAAA
* *
1011634 TAAATATTTTTTAATTTTTACTTAAA
1 TAAAT-TTTTATAA-TTTTATTTAAA
1011660 TAAATTTTTA
1 TAAATTTTTA
1011670 ATATTTAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 5 0.11
23 10 0.21
24 9 0.19
25 9 0.19
26 9 0.19
27 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (24 bp):
TAAATTTTTATAATTTTATTTAAA
Found at i:1011691 original size:30 final size:30
Alignment explanation
Indices: 1011643--1011723 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
1011633 TTAAATATTT
*
1011643 TTTAATTTTTACTTAAATAAATTTTTAATA
1 TTTAATTTATACTTAAATAAATTTTTAATA
* * *
1011673 TTTAATATATACTCAAATAATTTTTTAATA
1 TTTAATTTATACTTAAATAAATTTTTAATA
1011703 TTTAATTTATACTTAAATAAA
1 TTTAATTTATACTTAAATAAA
1011724 ATTTATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTAATTTATACTTAAATAAATTTTTAATA
Found at i:1011728 original size:17 final size:16
Alignment explanation
Indices: 1011715--1011754 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
1011705 TAATTTATAC
1011715 TTAAATA-AAATTTAT
1 TTAAATATAAATTTAT
1011730 TTAAATATAAA-TTAT
1 TTAAATATAAATTTAT
1011745 TTAAATATAA
1 TTAAATATAA
1011755 TAAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATATAAATTTAT
Found at i:1012621 original size:23 final size:22
Alignment explanation
Indices: 1012583--1012658 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
1012573 AACTTTTATA
*
1012583 AATTAATATTTATATTTAAATTT
1 AATTAATATTTTTATTT-AATTT
*
1012606 -ATATAATTTTTTTA-TT-ATTT
1 AAT-TAATATTTTTATTTAATTT
1012626 AATTAATATTTTTATTTTAATTT
1 AATTAATATTTTTA-TTTAATTT
1012649 AATTTAATAT
1 AA-TTAATAT
1012659 AAATAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 14 0.32
21 2 0.05
22 6 0.14
23 15 0.34
24 7 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTAATATTTTTATTTAATTT
Found at i:1013496 original size:16 final size:16
Alignment explanation
Indices: 1013473--1013597 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
1013463 TTGAAAGTTT
1013473 TTATTTAAAATAATTA
1 TTATTTAAAATAATTA
* *
1013489 TCATTT-AAATAACTA
1 TTATTTAAAATAATTA
* * *
1013504 TTGTTTATAATAATTT
1 TTATTTAAAATAATTA
**
1013520 TTATTTAGGATAATCTA
1 TTATTTAAAATAAT-TA
* *
1013537 -TATTTAAAATAACTC
1 TTATTTAAAATAATTA
* *
1013552 TTAATAAAAATAA-TA
1 TTATTTAAAATAATTA
1013567 TTATTATAAAATAATATA
1 TTATT-TAAAATAAT-TA
*
1013585 TT-TATAAAATAAT
1 TTATTTAAAATAAT
1013598 ACATTTATAG
Statistics
Matches: 82, Mismatches: 21, Indels: 12
0.71 0.18 0.10
Matches are distributed among these distances:
15 18 0.22
16 58 0.71
17 2 0.02
18 4 0.05
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (16 bp):
TTATTTAAAATAATTA
Found at i:1013598 original size:16 final size:16
Alignment explanation
Indices: 1013558--1013606 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
1013548 ACTCTTAATA
1013558 AAAATAATAT-TATTAT
1 AAAATAATATAT-TTAT
1013574 AAAATAATATATTTAT
1 AAAATAATATATTTAT
*
1013590 AAAATAATACATTTAT
1 AAAATAATATATTTAT
1013606 A
1 A
1013607 GAACACCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATAATATATTTAT
Found at i:1014493 original size:21 final size:20
Alignment explanation
Indices: 1014467--1014509 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1014457 TTTAATTTCT
1014467 TATTTATTTTTAAAATATAAA
1 TATTTATTTTTAAAA-ATAAA
*
1014488 TATTTATTTTTATAAATAAA
1 TATTTATTTTTAAAAATAAA
1014508 TA
1 TA
1014510 AATTCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTATTTTTAAAAATAAA
Found at i:1014556 original size:19 final size:19
Alignment explanation
Indices: 1014534--1014578 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
1014524 TTATTAATCA
1014534 AAATTTATATTATTTTTAT
1 AAATTTATATTATTTTTAT
1014553 AAA-TTA-A-TATTTTTAT
1 AAATTTATATTATTTTTAT
*
1014569 AAATTAATAT
1 AAATTTATAT
1014579 ATTAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 12 0.55
17 3 0.14
18 4 0.18
19 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTTATATTATTTTTAT
Found at i:1014563 original size:16 final size:16
Alignment explanation
Indices: 1014544--1014578 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1014534 AAATTTATAT
1014544 TATTTTTATAAATTAA
1 TATTTTTATAAATTAA
1014560 TATTTTTATAAATTAA
1 TATTTTTATAAATTAA
1014576 TAT
1 TAT
1014579 ATTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTTATAAATTAA
Found at i:1018606 original size:20 final size:21
Alignment explanation
Indices: 1018568--1018607 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1018558 AAAATCTTTT
1018568 TTTTAATAGTTAAAAAAATAA
1 TTTTAATAGTTAAAAAAATAA
*
1018589 TTTTAATA-TTAAATAAATA
1 TTTTAATAGTTAAAAAAATA
1018608 TTAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTAATAGTTAAAAAAATAA
Found at i:1018630 original size:27 final size:28
Alignment explanation
Indices: 1018585--1018654 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
1018575 AGTTAAAAAA
1018585 ATAATTTTAAT-ATTAAATAAATATTAA-AT
1 ATAA-TTTAATAATT-AATAAAT-TTAATAT
1018614 ATAATTT-ATAATTAATAAATTTAATAT
1 ATAATTTAATAATTAATAAATTTAATAT
*
1018641 TTAATTTAATAATT
1 ATAATTTAATAATT
1018655 CTAATTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 4 0.11
27 17 0.46
28 12 0.32
29 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATAATTTAATAATTAATAAATTTAATAT
Found at i:1018644 original size:16 final size:17
Alignment explanation
Indices: 1018586--1018650 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
1018576 GTTAAAAAAA
*
1018586 TAAT-TTTAATATTAAAT
1 TAATATTTAATA-TAATT
* *
1018603 AAATATTAAATATAATT
1 TAATATTTAATATAATT
*
1018620 T-ATAATTAATA-AATT
1 TAATATTTAATATAATT
*
1018635 TAATATTTAATTTAAT
1 TAATATTTAATATAAT
1018651 AATTCTAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 5 0.14
16 16 0.43
17 10 0.27
18 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATTTAATATAATT
Found at i:1018645 original size:20 final size:21
Alignment explanation
Indices: 1018609--1018652 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1018599 AAATAAATAT
1018609 TAAATATAATTTATAA-TTAA
1 TAAATATAATTTATAATTTAA
*
1018629 TAAATTTAATATT-TAATTTAA
1 TAAATATAAT-TTATAATTTAA
1018650 TAA
1 TAA
1018653 TTCTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAATATAATTTATAATTTAA
Found at i:1019348 original size:23 final size:22
Alignment explanation
Indices: 1019322--1019364 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1019312 TTGGTATATA
*
1019322 TTAAGTTAAATTTAATATAAAAC
1 TTAAATTAAA-TTAATATAAAAC
*
1019345 TTAAATTAAATTAATTTAAA
1 TTAAATTAAATTAATATAAA
1019365 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAATTAAATTAATATAAAAC
Found at i:1019482 original size:22 final size:23
Alignment explanation
Indices: 1019436--1019492 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
1019426 AAACAGTTTG
1019436 ATAAATTTATAA-AATAAAATAAA
1 ATAAATTTA-AATAATAAAATAAA
*
1019459 ATAAATTTAAATAA-AAAATTAA
1 ATAAATTTAAATAATAAAATAAA
*
1019481 ATATATTTAAAT
1 ATAAATTTAAAT
1019493 TATGATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAATTTAAATAATAAAATAAA
Found at i:1020118 original size:45 final size:42
Alignment explanation
Indices: 1020045--1020141 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 42
1020035 TAAATTTATT
* * *
1020045 AAAAAATAAATTATTTATTTTATTATAAATTAATTTTAAAATAA
1 AAAAAATAAATTATTTAATTTATAATAAA--AATATTAAAATAA
* *
1020089 AATAAAATAATTTAATTTAATTTA-AATAAAAATATTAAACTAA
1 AA-AAAATAAATT-ATTTAATTTATAATAAAAATATTAAAATAA
1020132 AAAAAATAAA
1 AAAAAATAAA
1020142 ACGAATGCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
42 7 0.16
43 13 0.29
44 2 0.04
45 14 0.31
46 9 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (42 bp):
AAAAAATAAATTATTTAATTTATAATAAAAATATTAAAATAA
Found at i:1021429 original size:20 final size:19
Alignment explanation
Indices: 1021406--1021450 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1021396 ATAAGCATAC
1021406 AAATAAAAATATAATATAAT
1 AAATAAAAATATAAT-TAAT
**
1021426 AAATTTAAATATAATTAAT
1 AAATAAAAATATAATTAAT
1021445 ATAATA
1 A-AATA
1021451 TATTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAAAAATATAATTAAT
Found at i:1021483 original size:33 final size:31
Alignment explanation
Indices: 1021416--1021489 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
1021406 AAATAAAAAT
* *
1021416 ATAATATAATAAATTTAAATATAATTAATATA
1 ATAATTTATTAAATTTAAATAT-ATTAATATA
*
1021448 ATATATTTATTAAATTTATAATAT-TTATATTTA
1 ATA-ATTTATTAAATTTA-AATATATTA-ATATA
1021481 ATAATTTAT
1 ATAATTTAT
1021490 ATTATTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 12 0.33
33 19 0.53
34 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
ATAATTTATTAAATTTAAATATATTAATATA
Found at i:1021498 original size:24 final size:24
Alignment explanation
Indices: 1021449--1021496 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1021439 ATTAATATAA
*
1021449 TATATTTATTAAATTTATAATATT
1 TATATTTAATAAATTTATAATATT
*
1021473 TATATTTAAT-AATTTATATTATT
1 TATATTTAATAAATTTATAATATT
1021496 T
1 T
1021497 TAACATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTAATAAATTTATAATATT
Found at i:1025437 original size:3 final size:3
Alignment explanation
Indices: 1025416--1025457 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1025406 TGCTCCTTTC
* *
1025416 TAA TAT TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1025458 AAGAGTTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1030422 original size:2 final size:2
Alignment explanation
Indices: 1030415--1030440 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1030405 AACAAATGCA
1030415 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1030441 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1030529 original size:21 final size:23
Alignment explanation
Indices: 1030490--1030537 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
1030480 TAGGCTACAA
*
1030490 AAATTATAAATATTTAAAT-AAAT
1 AAATTAT-AATATTAAAATAAAAT
1030513 AAATTAT-ATATTAAAATAAAAT
1 AAATTATAATATTAAAATAAAAT
1030535 AAA
1 AAA
1030538 AAATTCTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 7 0.30
23 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTATAATATTAAAATAAAAT
Found at i:1030753 original size:64 final size:64
Alignment explanation
Indices: 1030685--1030805 Score: 206
Period size: 64 Copynumber: 1.9 Consensus size: 64
1030675 TTTCTTTTCC
**
1030685 TTTATTCTTCTTTATGATCTCTCCCTTCAATCATTCCCTCATCTTTTTTTTTTTTTTTTTTTTG
1 TTTATTCTTCTTTATGATCTCTCCCTTCAATCATTCCCTCATCCATTTTTTTTTTTTTTTTTTG
* *
1030749 TTTATTCTTCTTTATGATCTCTCCCTTCACTCATTCTCTCATCCATTTTTTTTTTTT
1 TTTATTCTTCTTTATGATCTCTCCCTTCAATCATTCCCTCATCCATTTTTTTTTTTT
1030806 ACTTTTGTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.62
Consensus pattern (64 bp):
TTTATTCTTCTTTATGATCTCTCCCTTCAATCATTCCCTCATCCATTTTTTTTTTTTTTTTTTG
Found at i:1031517 original size:25 final size:26
Alignment explanation
Indices: 1031484--1031549 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
1031474 ATAAATATTT
1031484 TAAT-TAATATTATTAA-A-TTAATAA
1 TAATATAATATT-TTAATATTTAATAA
1031508 TAATATAATA-TTTAATATTTAATAA
1 TAATATAATATTTTAATATTTAATAA
1031533 -AATTATAATA-TTTAATA
1 TAA-TATAATATTTTAATA
1031550 AAAACATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.11
24 8 0.21
25 26 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATATAATATTTTAATATTTAATAA
Found at i:1031523 original size:32 final size:30
Alignment explanation
Indices: 1031453--1031549 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 30
1031443 TAATTATATG
**
1031453 TATTATAATATTATTAAATATATAAATATTT
1 TATT-TAATATTATTAAATATATAAATATAA
*
1031484 TAATTAATATTATTAAAT-TAATAATAATATAA
1 TATTTAATATTATTAAATAT-AT-A-AATATAA
*
1031516 TATTTAATA-T-TT-AATA-A-AATTATAA
1 TATTTAATATTATTAAATATATAAATATAA
1031541 TATTTAATA
1 TATTTAATA
1031550 AAAACATGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
25 15 0.26
26 1 0.02
28 1 0.02
29 4 0.07
30 18 0.32
31 5 0.09
32 13 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TATTTAATATTATTAAATATATAAATATAA
Found at i:1031635 original size:14 final size:14
Alignment explanation
Indices: 1031616--1031719 Score: 56
Period size: 14 Copynumber: 7.4 Consensus size: 14
1031606 AATGATATAG
1031616 TAATATTTATTTAA
1 TAATATTTATTTAA
*
1031630 TAATATTAATTTAAAA
1 TAATATTTATTT--AA
*
1031646 TAATTATATATTTAA
1 TAA-TATTTATTTAA
* *
1031661 TAA-AATTA-TAATA
1 TAATATTTATTTA-A
1031674 TAAATATTTATTTAA
1 T-AATATTTATTTAA
*
1031689 -ATTAATTT-TTTAA
1 TAAT-ATTTATTTAA
*
1031702 -AATATTTAATTAA
1 TAATATTTATTTAA
*
1031715 AAATA
1 TAATA
1031720 ATATTATAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
12 6 0.09
13 18 0.26
14 21 0.30
15 10 0.14
16 7 0.10
17 7 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATATTTATTTAA
Found at i:1031654 original size:19 final size:18
Alignment explanation
Indices: 1031623--1031670 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 18
1031613 TAGTAATATT
1031623 TATTTAATAAT-A-T-TA
1 TATTTAATAATAATTATA
1031638 -ATTTAA-AATAATTATA
1 TATTTAATAATAATTATA
1031654 TATTTAATAA-AATTATA
1 TATTTAATAATAATTATA
1031671 ATATAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 1 0.04
16 2 0.07
17 13 0.46
18 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTAATAATAATTATA
Found at i:1031695 original size:28 final size:26
Alignment explanation
Indices: 1031634--1031696 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
1031624 ATTTAATAAT
*
1031634 ATTAATTTAAAATAATTATATATTTA
1 ATTAATTTAAAATAAATATATATTTA
* * *
1031660 ATAAAATTATAATATAAATATTTATTTAA
1 AT-TAATT-TAAAATAAATATATATTT-A
1031689 ATTAATTT
1 ATTAATTT
1031697 TTTAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 2 0.07
27 5 0.17
28 19 0.66
29 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTAATTTAAAATAAATATATATTTA
Found at i:1032600 original size:18 final size:19
Alignment explanation
Indices: 1032564--1032607 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1032554 CCTCGCTTCC
1032564 TGATCTTTGCTGTTGCTCT
1 TGATCTTTGCTGTTGCTCT
1032583 TGAT-TTTGCTG-TGCCTCT
1 TGATCTTTGCTGTTG-CTCT
*
1032601 TGCTCTT
1 TGATCTT
1032608 GATTTTGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.05, C:0.23, G:0.20, T:0.52
Consensus pattern (19 bp):
TGATCTTTGCTGTTGCTCT
Found at i:1034306 original size:26 final size:25
Alignment explanation
Indices: 1034267--1034317 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
1034257 AAAAAATAAA
*
1034267 ATTTAATAATTTA-TATTATAATTAT
1 ATTTAAAAATTTATTA-TATAATTAT
1034292 ATTTAAAATATTTATTATATAATTAT
1 ATTTAAAA-ATTTATTATATAATTAT
1034318 GTTAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 14 0.61
27 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTAAAAATTTATTATATAATTAT
Found at i:1035346 original size:15 final size:16
Alignment explanation
Indices: 1035328--1035359 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1035318 TTTAAATTCT
1035328 ATTTTTTAA-AATTTA
1 ATTTTTTAATAATTTA
1035343 A-TTTTTAATAATTTA
1 ATTTTTTAATAATTTA
1035358 AT
1 AT
1035360 AATTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 3
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTTAATAATTTA
Found at i:1035970 original size:18 final size:18
Alignment explanation
Indices: 1035947--1035986 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1035937 AGTGTATAGT
*
1035947 ATTAAA-TTTATTTAAATG
1 ATTAAACTTAATTT-AATG
1035965 ATTAAACTTAATTTAATG
1 ATTAAACTTAATTTAATG
1035983 ATTA
1 ATTA
1035987 TTGCACGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
ATTAAACTTAATTTAATG
Found at i:1036262 original size:21 final size:21
Alignment explanation
Indices: 1036236--1036282 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1036226 ATATTTAATC
1036236 ATATTATTTACTTATACA-TTT
1 ATATTA-TTACTTATACATTTT
* *
1036257 ATATTATTATTTATATATTTT
1 ATATTATTACTTATACATTTT
1036278 ATATT
1 ATATT
1036283 TATATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTATTACTTATACATTTT
Found at i:1036297 original size:13 final size:13
Alignment explanation
Indices: 1036254--1036298 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1036244 TACTTATACA
1036254 TTTATATTATTATT
1 TTTATATTA-TATT
* * *
1036268 TATATATTTTATA
1 TTTATATTATATT
1036281 TTTATATTATATT
1 TTTATATTATATT
1036294 TTTAT
1 TTTAT
1036299 CGTGATTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:1036786 original size:43 final size:41
Alignment explanation
Indices: 1036696--1036791 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 41
1036686 TAAAATTTTA
* * **
1036696 AAAATATAAATTATTTATATTATATATTTTTAAATTATTAT
1 AAAATATAAATTATTTATATTATATATATATAAATTAAAAT
* *
1036737 ATAAATATAATTTTATTTATATTATATATAATATATATTAAAAT
1 A-AAATATAA-ATTATTTATATTATATAT-ATATAAATTAAAAT
*
1036781 AAAATAAAAAT
1 AAAATATAAAT
1036792 AATATACTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 9 0.20
43 24 0.55
44 10 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (41 bp):
AAAATATAAATTATTTATATTATATATATATAAATTAAAAT
Found at i:1036875 original size:17 final size:16
Alignment explanation
Indices: 1036844--1036889 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1036834 CTCAGATTAA
1036844 TAAAATAAATAATTTT
1 TAAAATAAATAATTTT
*
1036860 TAAAATCAATTAATTTT
1 TAAAAT-AAATAATTTT
*
1036877 AAAAATTAAATAA
1 TAAAA-TAAATAA
1036890 AATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAAATAATTTT
Found at i:1037668 original size:15 final size:15
Alignment explanation
Indices: 1037649--1037691 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1037639 TAAAATATAT
1037649 TATTTAATAATTTTAA
1 TATTT-ATAATTTTAA
1037665 -ATTT-TAAATTTTAA
1 TATTTAT-AATTTTAA
1037679 TATTTATAATTTT
1 TATTTATAATTTT
1037692 TTTGTCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.04
14 8 0.33
15 14 0.58
16 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTATAATTTTAA
Found at i:1037670 original size:30 final size:29
Alignment explanation
Indices: 1037634--1037691 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1037624 TTATATAATT
*
1037634 AATTTTAAAATATATTATTTAATAATTTTA
1 AATTTTAAAATATAATATTT-ATAATTTTA
* *
1037664 AATTTTAAATTTTAATATTTATAATTTT
1 AATTTTAAAATATAATATTTATAATTTT
1037692 TTTGTCTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AATTTTAAAATATAATATTTATAATTTTA
Found at i:1038143 original size:18 final size:19
Alignment explanation
Indices: 1038120--1038155 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1038110 ATTAAATATG
1038120 AATATATTTT-AATATAAA
1 AATATATTTTGAATATAAA
1038138 AATATATTTTGAATATAA
1 AATATATTTTGAATATAA
1038156 CTATCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AATATATTTTGAATATAAA
Found at i:1039011 original size:2 final size:2
Alignment explanation
Indices: 1039004--1039029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1038994 ATTAAACCCC
1039004 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1039030 GAAGACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1040420 original size:2 final size:2
Alignment explanation
Indices: 1040413--1040444 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1040403 CAACTTGAAC
*
1040413 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1040445 ACCCTTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1043335 original size:14 final size:14
Alignment explanation
Indices: 1043316--1043353 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
1043306 AACTAATCCA
1043316 AAAAAAATATAAAT
1 AAAAAAATATAAAT
1043330 -AAAAAATAATAAAT
1 AAAAAAAT-ATAAAT
1043344 AATAAAAATA
1 AA-AAAAATA
1043354 CTCTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.33
14 6 0.29
15 2 0.10
16 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAAATATAAAT
Found at i:1043360 original size:18 final size:20
Alignment explanation
Indices: 1043339--1043384 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
1043329 TAAAAAATAA
1043339 TAAATAATAAAAAT-ACTC-
1 TAAATAATAAAAATAACTCT
* *
1043357 TAAAAAAT-AATATAACTCT
1 TAAATAATAAAAATAACTCT
1043376 TAAATAATA
1 TAAATAATA
1043385 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAATAATAAAAATAACTCT
Found at i:1043863 original size:3 final size:3
Alignment explanation
Indices: 1043855--1043890 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1043845 ACATCTCGTT
1043855 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1043891 CACCACTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1049250 original size:21 final size:21
Alignment explanation
Indices: 1049229--1049272 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1049219 GATTCATTTA
*
1049229 TATTAT-TTTTTATTTAAA-T
1 TATTATATATTTATTTAAATT
1049248 TATTATATATTTATTTAAATT
1 TATTATATATTTATTTAAATT
1049269 TATT
1 TATT
1049273 CTATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTATATATTTATTTAAATT
Found at i:1056149 original size:28 final size:28
Alignment explanation
Indices: 1056118--1056189 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
1056108 TAAGATTACA
*
1056118 GATGGTACATTCTCTATGAACGCTAGAT
1 GATGGCACATTCTCTATGAACGCTAGAT
1056146 GATGGCACATTCTCTATGAACGCTAGAT
1 GATGGCACATTCTCTATGAACGCTAGAT
*
1056174 GATGGCACATTTTCTA
1 GATGGCACATTCTCTA
1056190 CCATGCATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (28 bp):
GATGGCACATTCTCTATGAACGCTAGAT
Found at i:1066286 original size:2 final size:2
Alignment explanation
Indices: 1066279--1066305 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1066269 TTTGATACAG
1066279 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1066306 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1067690 original size:18 final size:20
Alignment explanation
Indices: 1067652--1067695 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
1067642 ATTTTAAATT
*
1067652 ATATTATATAAATATAAAAA
1 ATATAATATAAATATAAAAA
1067672 ATATAATAT-AATA-AAAAA
1 ATATAATATAAATATAAAAA
1067690 ATATAA
1 ATATAA
1067696 ACATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAATATAAATATAAAAA
Found at i:1067725 original size:17 final size:17
Alignment explanation
Indices: 1067656--1067772 Score: 82
Period size: 19 Copynumber: 6.8 Consensus size: 17
1067646 TAAATTATAT
1067656 TATATAAATATA-AAAA
1 TATATAAATATATAAAA
1067672 -ATAT-AATATAATAAAAA
1 TATATAAATAT-AT-AAAA
* * *
1067689 AATATAAACATAAAATAAA
1 TATATAAATAT-ATA-AAA
1067708 TATATAAATATATAAAA
1 TATATAAATATATAAAA
* *
1067725 TTTATAAAT-TATAAAT
1 TATATAAATATATAAAA
*
1067741 TATTTATAATAT-TAAAA
1 TATATA-AATATATAAAA
1067758 TTTATATAAATATAT
1 --TATATAAATATAT
1067773 TTTTTTAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
14 5 0.06
15 5 0.06
16 10 0.13
17 22 0.28
18 13 0.16
19 24 0.30
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAAATATATAAAA
Found at i:1067745 original size:18 final size:18
Alignment explanation
Indices: 1067710--1067768 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
1067700 AAAATAAATA
1067710 TATAAATATATAAA--ATT
1 TATAAAT-TATAAATTATT
1067727 TATAAATTATAAATTATT
1 TATAAATTATAAATTATT
*
1067745 TATAATATTA-AAATT-TA
1 TATAA-ATTATAAATTATT
1067762 TATAAAT
1 TATAAAT
1067769 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 8 0.21
17 13 0.34
18 13 0.34
19 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAAATTATAAATTATT
Found at i:1067769 original size:18 final size:18
Alignment explanation
Indices: 1067708--1067770 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
1067698 ATAAAATAAA
1067708 TATATAAATATATAAAATT
1 TATATAAATAT-TAAAATT
*
1067727 TATA-AATTA-T-AAA-T
1 TATATAAATATTAAAATT
*
1067741 TATTTATAATATTAAAATT
1 TATATA-AATATTAAAATT
1067760 TATATAAATAT
1 TATATAAATAT
1067771 ATTTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 4 0.11
17 1 0.03
18 12 0.34
19 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATAAATATTAAAATT
Found at i:1069070 original size:2 final size:2
Alignment explanation
Indices: 1069063--1069094 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1069053 TCTATACATT
*
1069063 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1069095 AAATAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1076773 original size:1 final size:1
Alignment explanation
Indices: 1076767--1076792 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1076757 GCAATCAACT
1076767 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
1076793 TTTTCTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:1080753 original size:24 final size:24
Alignment explanation
Indices: 1080715--1080786 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
1080705 ACAAATATGA
1080715 TATATATTAAATATATCATATTAAT
1 TATAT-TTAAATATATCATATTAAT
*
1080740 TATATTTAAATATATTATATTATAT
1 TATATTTAAATATATCATATTA-AT
1080765 T-TA-TTAAATATATCATAATTAA
1 TATATTTAAATATATCAT-ATTAA
1080787 AAAATTATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.30
24 22 0.51
25 8 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (24 bp):
TATATTTAAATATATCATATTAAT
Found at i:1087714 original size:203 final size:204
Alignment explanation
Indices: 1087363--1087765 Score: 709
Period size: 203 Copynumber: 2.0 Consensus size: 204
1087353 ACCCACAGGG
*
1087363 TGCTTATGGTTTCAGCAGATCTTGATGTACTTGCAAGCAGTTCCTTTAAATTTGACAAAGGAAAT
1 TGCTTATGGTTTCAGCAGATC-TGATGTACATGCAAGCAGTTCCTTTAAATTTGACAAAGGAAAT
* * *
1087428 CCTTCAATATCCTAAATACATAATGCGGCATATATTTTTGCACAAAATGCATGCATGCATACATG
65 CCTTCAATATCCTAAACACATAATGCGGCATAAATTTTGGCACAAAATGCATGCATGCATACATG
*
1087493 ACTGCATATACATGTGTAACAAATAACTGTGTCCAGGGATGCTTGTAAAAGTATACACATGTTCT
130 ACTGCATATACATGTGTAACAAATAACTGTGTCCAAGGATGCTTGTAAAAGTATACACATGTTCT
1087558 AGGCCAGCGT
195 AGGCCAGCGT
1087568 TGCTTATGGTTTCAGCAGATC-GATGTACATGCAAGCAGTTCCTTTAAATTTGACAAAGGAAATC
1 TGCTTATGGTTTCAGCAGATCTGATGTACATGCAAGCAGTTCCTTTAAATTTGACAAAGGAAATC
*
1087632 CTTCAATATCCTAAACACCTAATGCGGCATAAATTTTGGCACAAAATGCATGCATGCATACATGA
66 CTTCAATATCCTAAACACATAATGCGGCATAAATTTTGGCACAAAATGCATGCATGCATACATGA
* * *
1087697 CTGCATCTACATGTGTAACAAATGACTGTGTCCAAGGATGCTTGTAAAAGTATGCACATGTTCTA
131 CTGCATATACATGTGTAACAAATAACTGTGTCCAAGGATGCTTGTAAAAGTATACACATGTTCTA
1087762 GGCC
196 GGCC
1087766 TGTTGCTGTA
Statistics
Matches: 189, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
203 168 0.89
205 21 0.11
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (204 bp):
TGCTTATGGTTTCAGCAGATCTGATGTACATGCAAGCAGTTCCTTTAAATTTGACAAAGGAAATC
CTTCAATATCCTAAACACATAATGCGGCATAAATTTTGGCACAAAATGCATGCATGCATACATGA
CTGCATATACATGTGTAACAAATAACTGTGTCCAAGGATGCTTGTAAAAGTATACACATGTTCTA
GGCCAGCGT
Found at i:1087953 original size:16 final size:16
Alignment explanation
Indices: 1087932--1087962 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1087922 CTTGGCATCT
*
1087932 TTTTCTTTTTCTTTTG
1 TTTTCTTTTTATTTTG
1087948 TTTTCTTTTTATTTT
1 TTTTCTTTTTATTTT
1087963 ATCTGTTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTCTTTTTATTTTG
Found at i:1099786 original size:12 final size:12
Alignment explanation
Indices: 1099746--1099790 Score: 53
Period size: 10 Copynumber: 4.1 Consensus size: 12
1099736 TATTGACACC
*
1099746 ATATAAATTAT-
1 ATATAAAATATA
1099757 ATA-AAAAT-TA
1 ATATAAAATATA
1099767 AT-TAAAATATA
1 ATATAAAATATA
1099778 ATATAAAATATA
1 ATATAAAATATA
1099790 A
1 A
1099791 AAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
9 1 0.03
10 11 0.38
11 7 0.24
12 10 0.34
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:1102760 original size:18 final size:17
Alignment explanation
Indices: 1102732--1102788 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
1102722 AATATTTAAA
1102732 AAATTTTATATTTTTAT
1 AAATTTTATATTTTTAT
* *
1102749 AAATTTTAATATATTAAT
1 AAATTTT-ATATTTTTAT
*
1102767 -AA-TTTATA-TTATAT
1 AAATTTTATATTTTTAT
1102781 AAATTTTA
1 AAATTTTA
1102789 AAATATTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
14 3 0.09
15 5 0.16
16 7 0.22
17 9 0.28
18 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATATTTTTAT
Found at i:1112469 original size:20 final size:19
Alignment explanation
Indices: 1112425--1112469 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
1112415 AATATTTTTG
1112425 ATTAATTAAATTAATTATT
1 ATTAATTAAATTAATTATT
1112444 AATTAATTAAATTTTAATTATT
1 -ATTAATTAAA--TTAATTATT
1112466 -TTAA
1 ATTAA
1112470 AATTAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAATTAAATTAATTATT
Found at i:1112633 original size:21 final size:22
Alignment explanation
Indices: 1112584--1112636 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
1112574 ATATTAAATT
1112584 AAAATATTTAATAGTATAAATTTA
1 AAAATATTTAATAG-AT-AATTTA
1112608 AAAATATTTAATA-AT-ATTTGA
1 AAAATATTTAATAGATAATTT-A
1112629 AAAATATT
1 AAAATATT
1112637 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.14
21 9 0.32
22 2 0.07
24 13 0.46
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATATTTAATAGATAATTTA
Found at i:1112636 original size:11 final size:10
Alignment explanation
Indices: 1112603--1112636 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1112593 AATAGTATAA
1112603 ATTTAAAAAT
1 ATTTAAAAAT
*
1112613 ATTTAATAAT
1 ATTTAAAAAT
1112623 ATTTGAAAAAT
1 ATTT-AAAAAT
1112634 ATT
1 ATT
1112637 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:1113546 original size:30 final size:29
Alignment explanation
Indices: 1113477--1113547 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
1113467 AAATATCATA
1113477 ATATAATTTATTAATAACATATAAATTTAT
1 ATATAA-TTATTAATAACATATAAATTTAT
* * *
1113507 ACATTATTATTACATCAA-ATATAAATTTTT
1 ATATAATTATTA-AT-AACATATAAATTTAT
1113537 ATATAATTATT
1 ATATAATTATT
1113548 TTAATAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 6 0.18
30 26 0.76
31 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATAATTATTAATAACATATAAATTTAT
Found at i:1114217 original size:10 final size:10
Alignment explanation
Indices: 1114204--1114264 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
1114194 TAATATTTAA
1114204 TAATTTAAAT
1 TAATTTAAAT
*
1114214 TAATTTAATT
1 TAATTTAAAT
*
1114224 TAATATTTAAT
1 TAAT-TTAAAT
**
1114235 TAATAAAAAT
1 TAATTTAAAT
1114245 T-ATTTAAATT
1 TAATTTAAA-T
1114255 TAATTATAAA
1 TAATT-TAAA
1114265 AATAAATATG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 5 0.13
10 19 0.49
11 11 0.28
12 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:1114230 original size:30 final size:31
Alignment explanation
Indices: 1114194--1114258 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1114184 CGCTTAACCA
**
1114194 TAATATTTAA-TAATTTAAATTAATTT-AATT
1 TAATATTTAATTAATAAAAATT-ATTTAAATT
1114224 TAATATTTAATTAATAAAAATTATTTAAATT
1 TAATATTTAATTAATAAAAATTATTTAAATT
1114255 TAAT
1 TAAT
1114259 TATAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATATTTAATTAATAAAAATTATTTAAATT
Found at i:1114260 original size:24 final size:24
Alignment explanation
Indices: 1114221--1114267 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1114211 AATTAATTTA
1114221 ATTTAATATTTAATTAATAAAAATT
1 ATTTAATATTTAATT-ATAAAAATT
1114246 ATTTAA-ATTTAATTATAAAAAT
1 ATTTAATATTTAATTATAAAAAT
1114268 AAATATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.36
24 8 0.36
25 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAATATTTAATTATAAAAATT
Found at i:1114270 original size:18 final size:18
Alignment explanation
Indices: 1114249--1114296 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
1114239 AAAAATTATT
*
1114249 TAAATTTAATTATAAAAA
1 TAAATTTAATTACAAAAA
*
1114267 TAAATATGAA-TACAAAAA
1 TAAAT-TTAATTACAAAAA
1114285 TAATATTTAATT
1 TAA-ATTTAATT
1114297 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAATTTAATTACAAAAA
Done.