Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002504.1 Hibiscus syriacus cultivar Beakdansim tig00005102_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 94931
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4235 original size:2 final size:2
Alignment explanation
Indices: 4228--4291 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
4218 AAAACATGTT
4228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4270 TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
4292 AAAGTAAAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10070 original size:25 final size:26
Alignment explanation
Indices: 10031--10100 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
10021 GAAAATAGAT
*
10031 AAAT-AAAAATAAATAAAATTTAGTAA
1 AAATGAAAAATAAATAAAATTT-GAAA
10057 AAA-GAAAAAT-AATAAAA-TTGAAA
1 AAATGAAAAATAAATAAAATTTGAAA
10080 AAATTGAAAAATAAATAAAAT
1 AAA-TGAAAAATAAATAAAAT
10101 AATAAAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.16
24 2 0.05
25 14 0.37
26 16 0.42
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (26 bp):
AAATGAAAAATAAATAAAATTTGAAA
Found at i:10107 original size:25 final size:25
Alignment explanation
Indices: 10002--10133 Score: 82
Period size: 25 Copynumber: 5.3 Consensus size: 25
9992 AAAGTTAATA
* *
10002 TAATAATAAT-AATAATAAAGAAAA-
1 TAATAA-AATGAAAAATAAATAAAAT
10026 TAGAT-AAAT-AAAAATAAATAAAATT
1 TA-ATAAAATGAAAAATAAATAAAA-T
* *
10051 TAGTAAAAAGAAAAAT-AATAAAAT
1 TAATAAAATGAAAAATAAATAAAAT
10075 TGAA-AAAATTGAAAAATAAATAAAA-
1 T-AATAAAA-TGAAAAATAAATAAAAT
**
10100 TAATAAAACAAAATAAT-AATAATAAT
1 TAATAAAATGAAA-AATAAATAA-AAT
*
10126 AAATAAAA
1 TAATAAAA
10134 AACAAAATAA
Statistics
Matches: 87, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
23 15 0.17
24 20 0.23
25 32 0.37
26 20 0.23
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (25 bp):
TAATAAAATGAAAAATAAATAAAAT
Found at i:10112 original size:22 final size:22
Alignment explanation
Indices: 10087--10128 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10077 AAAAAATTGA
10087 AAAATAAATAA-AATAATAAAAC
1 AAAAT-AATAATAATAATAAAAC
10109 AAAATAATAATAATAATAAA
1 AAAATAATAATAATAATAAA
10129 TAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATAATAATAATAATAAAAC
Found at i:10142 original size:22 final size:22
Alignment explanation
Indices: 10093--10143 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10083 TTGAAAAATA
* *
10093 AATAA-AATAATAAAACAAAAT
1 AATAATAATAATAAAAAAAAAC
10114 AATAATAATAATAAATAAAAAAC
1 AATAATAATAATAAA-AAAAAAC
10137 AA-AATAA
1 AATAATAA
10144 AGTGAGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 7 0.27
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAATAATAATAAAAAAAAAC
Found at i:11244 original size:22 final size:21
Alignment explanation
Indices: 11219--11259 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11209 ACCCTGAAAA
*
11219 AAATAAGTAAATAAATAAAATT
1 AAATAAAT-AATAAATAAAATT
*
11241 AAATAAATAATAATTAAAA
1 AAATAAATAATAAATAAAA
11260 ATATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAATAATAAATAAAATT
Found at i:11245 original size:14 final size:15
Alignment explanation
Indices: 11220--11292 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 15
11210 CCCTGAAAAA
*
11220 AATAAGTAAATAAAT
1 AATAATTAAATAAAT
11235 AA-AATTAAATAAAT
1 AATAATTAAATAAAT
11249 AATAATT-AA-AAAT
1 AATAATTAAATAAAT
* *
11262 ATTAA-TATAATATAT
1 AATAATTA-AATAAAT
*
11277 AATAA-TAAAAAAAT
1 AATAATTAAATAAAT
11291 AA
1 AA
11293 ATTTTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
12 1 0.02
13 8 0.17
14 24 0.50
15 15 0.31
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
AATAATTAAATAAAT
Found at i:11438 original size:38 final size:38
Alignment explanation
Indices: 11336--11693 Score: 529
Period size: 38 Copynumber: 9.6 Consensus size: 38
11326 AAAATAATTA
* *
11336 TTTTCAAAACTATATAATATAATATG--TTTTCAAAATG
1 TTTTAAAAACTATATATTAT-ATATGTATTTTCAAAATG
11373 TTTTAAAAACTATATATTATATA--TATTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
11409 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
* *
11447 TTTTAAAAACTATATATTATATATATTTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
* * *
11485 TTTTAAAAACTATATATTATATAAG-GTTTT-GAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
*
11521 TTTTAAAAACTATATATTATATAAGTATTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
*
11559 TTTTAAAAACTATATATTATATATG--TTTTCAAAAGG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
*
11595 TTTTAAAAACTATATATTATATAAGTATTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
*
11633 TTTTAAAAACTATATATTATATAAG--TTTTCAAAATG
1 TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
11669 TTTTAAAAACTATATATATATATAT
1 TTTTAAAAACTATATAT-TATATAT
11694 ATATATATAT
Statistics
Matches: 297, Mismatches: 15, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
36 129 0.43
37 32 0.11
38 136 0.46
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (38 bp):
TTTTAAAAACTATATATTATATATGTATTTTCAAAATG
Found at i:11450 original size:74 final size:72
Alignment explanation
Indices: 11336--11695 Score: 560
Period size: 74 Copynumber: 4.9 Consensus size: 72
11326 AAAATAATTA
* *
11336 TTTTCAAAACTATATAATATAATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATATTT
1 TTTTAAAAACTATATATTAT-ATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATATTT
11401 TCAAAATG
65 TCAAAATG
11409 TTTTAAAAACTATATATTATATATGTATTTTCAAAATGTTTTAAAAACTATATATTATATATATT
1 TTTTAAAAACTATATATTATATATG--TTTTCAAAATGTTTTAAAAACTATATATTATATATA--
11474 TTTTCAAAATG
62 TTTTCAAAATG
* *
11485 TTTTAAAAACTATATATTATATAAGGTTTT-GAAATGTTTTAAAAACTATATATTATATAAGTAT
1 TTTTAAAAACTATATATTATAT-ATGTTTTCAAAATGTTTTAAAAACTATATATTATAT-A-TAT
11549 TTTCAAAATG
63 TTTCAAAATG
*
11559 TTTTAAAAACTATATATTATATATGTTTTCAAAAGGTTTTAAAAACTATATATTATATAAGTATT
1 TTTTAAAAACTATATATTATATATGTTTTCAAAATGTTTTAAAAACTATATATTATAT-A-TATT
11624 TTCAAAATG
64 TTCAAAATG
*
11633 TTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATATATATATAT
1 TTTTAAAAACTATATATTATATATGTTTTCAAAATGTTTTAAAAACTATATAT-TATATATAT
11696 ATATATATAT
Statistics
Matches: 269, Mismatches: 9, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
72 5 0.02
73 27 0.10
74 190 0.71
75 10 0.04
76 35 0.13
77 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (72 bp):
TTTTAAAAACTATATATTATATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATATTTT
CAAAATG
Found at i:11686 original size:2 final size:2
Alignment explanation
Indices: 11679--11717 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11669 TTTTAAAAAC
11679 TA TA TA TA 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 TA TA TA TA T
11718 TTCAAAAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13380 original size:9 final size:9
Alignment explanation
Indices: 13348--13439 Score: 85
Period size: 10 Copynumber: 9.7 Consensus size: 9
13338 CTGCTGGAAA
13348 ACCGGTTTG
1 ACCGGTTTG
*
13357 ACCAGTTTTG
1 ACC-GGTTTG
13367 AACCGGTTTG
1 -ACCGGTTTG
*
13377 ACCGGTTCG
1 ACCGGTTTG
13386 AACCGGTTTG
1 -ACCGGTTTG
*
13396 ACCGGTCTG
1 ACCGGTTTG
13405 AACCGGTTTG
1 -ACCGGTTTG
*
13415 ACCGGTCTG
1 ACCGGTTTG
* *
13424 AATCGGGTTG
1 -ACCGGTTTG
13434 ACCGGT
1 ACCGGT
13440 CTGAATCGGG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.47
10 32 0.48
11 3 0.05
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:13390 original size:19 final size:20
Alignment explanation
Indices: 13347--13455 Score: 136
Period size: 19 Copynumber: 5.7 Consensus size: 20
13337 GCTGCTGGAA
* *
13347 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACCGGTTCTG
13367 AACCGGTTTGACCGGTTC-G
1 AACCGGTTTGACCGGTTCTG
13386 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
13405 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
* *
13424 AATCGGGTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
* *
13443 AATCGGGTTGACC
1 AACCGGTTTGACC
13456 CGACCCGACT
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
18 2 0.02
19 66 0.79
20 16 0.19
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTCTG
Found at i:13471 original size:17 final size:17
Alignment explanation
Indices: 13449--13504 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
13439 TCTGAATCGG
13449 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
13466 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
* *
13483 GTTGACCTGACCCGACC
1 GTTGACCCGACCCGACT
13500 GTTGA
1 GTTGA
13505 TCGTTGACCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.20
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:13511 original size:7 final size:7
Alignment explanation
Indices: 13496--13532 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
13486 GACCTGACCC
13496 GACCGTT
1 GACCGTT
*
13503 GATCGTT
1 GACCGTT
13510 GACCG-T
1 GACCGTT
13516 GACCGTT
1 GACCGTT
13523 GACCGTT
1 GACCGTT
13530 GAC
1 GAC
13533 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:20717 original size:9 final size:9
Alignment explanation
Indices: 20685--20738 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 9
20675 CTGCTGGAAA
20685 ACCGGTTTG
1 ACCGGTTTG
*
20694 ACCAGTTTTG
1 ACC-GGTTTG
20704 AACCGGTTTG
1 -ACCGGTTTG
*
20714 ACCGGTCTG
1 ACCGGTTTG
20723 AACCGGTTTG
1 -ACCGGTTTG
20733 ACCGGT
1 ACCGGT
20739 CTAAATCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 17 0.45
10 18 0.47
11 3 0.08
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:20726 original size:19 final size:19
Alignment explanation
Indices: 20684--20754 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
20674 GCTGCTGGAA
* *
20684 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
20704 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
20723 AACCGGTTTGACCGGTCTA
1 AACCGGTTTGACCGGTCTG
* *
20742 AATCGGGTTGACC
1 AACCGGTTTGACC
20755 CGACCCGACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 33 0.72
20 13 0.28
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:20770 original size:17 final size:17
Alignment explanation
Indices: 20748--20805 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
20738 TCTAAATCGG
20748 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
20765 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
* *
20782 GTTGACCTGACCCGACC
1 GTTGACCCGACCCGACT
20799 GTTGACC
1 GTTGACC
20806 GTGACCGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.17, C:0.40, G:0.24, T:0.19
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:20812 original size:6 final size:7
Alignment explanation
Indices: 20795--20824 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
20785 GACCTGACCC
20795 GACCGTT
1 GACCGTT
20802 GACCG-T
1 GACCGTT
20808 GACCGTT
1 GACCGTT
20815 GACCGTT
1 GACCGTT
20822 GAC
1 GAC
20825 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:20813 original size:13 final size:13
Alignment explanation
Indices: 20795--20820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20785 GACCTGACCC
20795 GACCGTTGACCGT
1 GACCGTTGACCGT
20808 GACCGTTGACCGT
1 GACCGTTGACCGT
20821 TGACTTTCTT
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:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:22236 original size:17 final size:17
Alignment explanation
Indices: 22214--22248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22204 GTATAATTTG
*
22214 TTTATAATTTCATTTTA
1 TTTATAATGTCATTTTA
*
22231 TTTATAATGTGATTTTA
1 TTTATAATGTCATTTTA
22248 T
1 T
22249 ATTGATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTATAATGTCATTTTA
Found at i:22505 original size:5 final size:5
Alignment explanation
Indices: 22495--22520 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22485 TTTGTCCGGA
22495 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
22521 ATATATATAT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:22605 original size:38 final size:35
Alignment explanation
Indices: 22526--22879 Score: 214
Period size: 37 Copynumber: 9.5 Consensus size: 35
22516 TTATTATATA
* ** *
22526 TATATATTATATAG-TTTGCAAATGATTTTCGAATAT
1 TATATAATATATAGTTTTG-AAAACATTTT-GAAAAT
22562 ATATATAATATATAGTTTTGAAAACGATTTTTGAAAAT
1 -TATATAATATATAGTTTTGAAAAC-A-TTTTGAAAAT
*
22600 GTATATATATTATATAGTTTTTTTTAAAACATTTTGAAAAT
1 -TATATA-A-TATATAG---TTTTGAAAACATTTTGAAAAT
*
22641 TATATAATATATAGTTTTTTTAAAAAACATTTTGAAAAT
1 TATATAATATATAG---TTTT-GAAAACATTTTGAAAAT
* *
22680 ATATATAATATATAGTTTTTGAAAACCTTTTAAAAACT
1 -TATATAATATATAG-TTTTGAAAACATTTTGAAAA-T
* * * *
22718 TGTATAATATGTAATTTTGAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTGAAAACATTTTGAAAA-T
*** *
22754 TATATAATATATAGTTAAAAAAAGCATTTTGAATAT
1 TATATAATATATAGTTTTGAAAA-CATTTTGAAAAT
* * * * *
22790 ATATATATATATATA-TATAT-ATATATATATAT-ATATAT
1 -TATATA-ATATATAGT-TTTGA-AAACAT-TTTGA-AAAT
* *
22828 ATATATAATATAT-GATTTTTAAAACATTTTGAAAAC
1 -TATATAATATATAG-TTTTGAAAACATTTTGAAAAT
22864 TATATAATATATAGTT
1 TATATAATATATAGTT
22880 CAAAAACTTT
Statistics
Matches: 260, Mismatches: 34, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
35 14 0.05
36 41 0.16
37 74 0.28
38 62 0.24
39 22 0.08
40 27 0.10
41 10 0.04
42 1 0.00
43 9 0.03
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTGAAAACATTTTGAAAAT
Found at i:22616 original size:40 final size:38
Alignment explanation
Indices: 22561--22806 Score: 202
Period size: 40 Copynumber: 6.4 Consensus size: 38
22551 TTTTCGAATA
22561 TATATATAATATATAG-TTTTGAAAACGATTTTTGAAAAT
1 TATATATAATATATAGTTTTTGAAAAC-A-TTTTGAAAAT
* *
22600 GTATATATATTATATAGTTTTTTTTAAAACATTTTGAAAA-
1 -TATATATAATATATAG--TTTTTGAAAACATTTTGAAAAT
*
22640 T-TATATAATATATAGTTTTTTTAAAAAACATTTTGAAAA-
1 TATATATAATATATAG--TTTTT-GAAAACATTTTGAAAAT
* * *
22679 TATATATAATATATAGTTTTTGAAAACCTTTTAAAAAC
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
* * * * *
22717 T-TGTATAATATGTA-ATTTTGAAATCATTTTGAAAAC
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
*** *
22753 T-TATATAATATATAG-TTAAAAAAAGCATTTTGAATAT
1 TATATATAATATATAGTTTTTGAAAA-CATTTTGAAAAT
22790 ATATATATATATATATA
1 -TATATATA-ATATATA
22807 TATATATATA
Statistics
Matches: 174, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
36 35 0.20
37 34 0.20
38 27 0.16
39 23 0.13
40 36 0.21
41 9 0.05
42 1 0.01
43 9 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
Found at i:22791 original size:2 final size:2
Alignment explanation
Indices: 22786--22840 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
22776 AGCATTTTGA
22786 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
22828 AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT
22841 GATTTTTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23840 original size:8 final size:8
Alignment explanation
Indices: 23789--23911 Score: 63
Period size: 8 Copynumber: 15.2 Consensus size: 8
23779 ATAATTTAAC
23789 ATTTTTTT
1 ATTTTTTT
*
23797 AATTTTTT
1 ATTTTTTT
* *
23805 CTTTGATTT
1 ATTT-TTTT
**
23814 A-TTTAAT
1 ATTTTTTT
*
23821 ATTTTTCT
1 ATTTTTTT
*
23829 ATTTTTTA
1 ATTTTTTT
23837 ATTTATTTT
1 ATTT-TTTT
*
23846 ATTATTTT
1 ATTTTTTT
23854 ATTATTTTT
1 ATT-TTTTT
*
23863 ATTTTTTCC
1 ATTTTTT-T
* **
23872 CTTGATTT
1 ATTTTTTT
23880 ATTTTTTT
1 ATTTTTTT
23888 A--TTTTT
1 ATTTTTTT
*
23894 ATGTTTTT
1 ATTTTTTT
*
23902 ATGTTTTT
1 ATTTTTTT
23910 AT
1 AT
23912 CTAATATTTT
Statistics
Matches: 85, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 6 0.07
7 2 0.02
8 57 0.67
9 20 0.24
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (8 bp):
ATTTTTTT
Found at i:23853 original size:27 final size:28
Alignment explanation
Indices: 23810--23862 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
23800 TTTTTCTTTG
23810 ATTTATTTAATATTTTT-CTATTTTTTA
1 ATTTATTTAATATTTTTACTATTTTTTA
* *
23837 ATTTATTTTAT-TATTTTATTATTTTT
1 ATTTATTTAATAT-TTTTACTATTTTT
23863 ATTTTTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 1 0.05
27 14 0.64
28 7 0.32
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (28 bp):
ATTTATTTAATATTTTTACTATTTTTTA
Found at i:23863 original size:27 final size:27
Alignment explanation
Indices: 23810--23862 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
23800 TTTTTCTTTG
23810 ATTTATTTAATATTTTTCTATTTTTTA
1 ATTTATTTAATATTTTTCTATTTTTTA
*
23837 ATTTATTTTATTATTTTAT-TATTTTT
1 ATTTA-TTTAATATTTT-TCTATTTTT
23863 ATTTTTTCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 17 0.74
29 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (27 bp):
ATTTATTTAATATTTTTCTATTTTTTA
Found at i:24960 original size:37 final size:35
Alignment explanation
Indices: 24915--25167 Score: 265
Period size: 38 Copynumber: 6.8 Consensus size: 35
24905 AAAAGTTTTC
**
24915 AAACTATATATTATATAGGTTTCAAAATGTTTTAA
1 AAACTATATATTATATAATTTTCAAAATGTTTTAA
**
24950 AAA-TCATATATTATATATATTTTCAAAATGCTTTTTTT
1 AAACT-ATATATTATATA-ATTTTCAAAATG--TTTTAA
*
24988 AAACTATATATTATATAAGTTTTTAAAATGTTTTGAA
1 AAACTATATATTATATAA-TTTTCAAAATGTTTT-AA
*
25025 AAACTATATATTATATATATTTTCAAAATGTTTAAAAA
1 AAACTATATATTATATA-ATTTTCAAAATGTTT--TAA
*
25063 AAACCATATATTATATAATTTTCAAAATGTTTTCAAA
1 AAACTATATATTATATAATTTTCAAAATGTTTT--AA
* *
25100 AAATTATATAATATATATACATTTTCAAAAATCGTTTTCA
1 AAACTATAT-AT-TATATA-ATTTTC-AAAAT-GTTTTAA
25140 AAACTATATATTATATATATTTTCAAAA
1 AAACTATATATTATATA-ATTTTCAAAA
25168 ATCATTTGCA
Statistics
Matches: 185, Mismatches: 16, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
34 1 0.01
35 15 0.08
36 14 0.08
37 59 0.32
38 62 0.34
39 9 0.05
40 15 0.08
41 5 0.03
42 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATAATTTTCAAAATGTTTTAA
Found at i:25037 original size:75 final size:73
Alignment explanation
Indices: 24910--25167 Score: 283
Period size: 75 Copynumber: 3.5 Consensus size: 73
24900 TTTTAAAAAG
* *
24910 TTTTCAAACTATATATTATAT-AGGTTTCAAAATGTTTTAAAAATCATATATTATATATATTTTC
1 TTTTAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAAT-ATATATTATATATATTTTC
24974 AAAATGCTT
65 AAAATGCTT
* *
24983 TTTTTAAACTATATATTATATAAGTTTTTAAAATGTTTTGAAAAACTATATATTATATATATTTT
1 TTTTAAAACTATATATTATATAAGTTTTCAAAATGTTTT-AAAAA-TATATATTATATATATTTT
25048 CAAAATG-TT
64 CAAAATGCTT
*** * *
25057 TAAAAAAAACCATATATTATATAA-TTTTCAAAATGTTTTCAAAAAATTATATAATATATATACA
1 T-TTTAAAACTATATATTATATAAGTTTTCAAAATGTTTT--AAAAA-TATAT-AT-TATATATA
*
25121 TTTTCAAAAAT-CGT
60 TTTTC-AAAATGCTT
*
25135 TTTCAAAACTATATATTATATATA-TTTTCAAAA
1 TTTTAAAACTATATATTATATA-AGTTTTCAAAA
25168 ATCATTTGCA
Statistics
Matches: 158, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
73 20 0.13
74 32 0.20
75 57 0.36
76 3 0.02
77 29 0.18
78 17 0.11
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (73 bp):
TTTTAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAATATATATTATATATATTTTCA
AAATGCTT
Found at i:25192 original size:37 final size:37
Alignment explanation
Indices: 24959--25196 Score: 125
Period size: 37 Copynumber: 6.3 Consensus size: 37
24949 AAAATCATAT
* ***
24959 ATTATATATATTTTC-AAAATGCTTTTTTTAAACTATA
1 ATTATATATATTTTCAAAAAT-CATTTGCAAAACTATA
* ** *
24996 TATTATATA-AGTTTT-TAAAATGTTTTGAAAAACTATA
1 -ATTATATATA-TTTTCAAAAATCATTTGCAAAACTATA
* ** *
25033 TATTATATATATTTTC-AAAAT-GTTTAAAAAAAACCATA
1 -ATTATATATATTTTCAAAAATCATTT--GCAAAACTATA
* * *
25071 TATTATATA-ATTTTC-AAAAT-GTTTTCAAAAAATTATATA
1 -ATTATATATATTTTCAAAAATCATTTGC--AAAA--CTATA
* * *
25110 ATATATATACATTTTCAAAAATCGTTTTCAAAACTATA
1 AT-TATATATATTTTCAAAAATCATTTGCAAAACTATA
25148 TATTATATATATTTTCAAAAATCATTTGC-AAACTATA
1 -ATTATATATATTTTCAAAAATCATTTGCAAAACTATA
25185 ATGTATATATAT
1 AT-TATATATAT
25197 ATATAATAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 33
0.78 0.07 0.15
Matches are distributed among these distances:
36 5 0.03
37 67 0.40
38 65 0.38
39 11 0.07
40 10 0.06
41 5 0.03
42 6 0.04
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTATATATATTTTCAAAAATCATTTGCAAAACTATA
Found at i:25744 original size:29 final size:29
Alignment explanation
Indices: 25687--25744 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
25677 GTAATAACTT
* *
25687 AAAAATATTAAACATATAAATTAATAAAA
1 AAAAATATTAAACATATAAATGAAAAAAA
25716 AAAAATATTTAAAC--ATAAATAGAAAAAAA
1 AAAAATA-TTAAACATATAAAT-GAAAAAAA
25745 TACAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (29 bp):
AAAAATATTAAACATATAAATGAAAAAAA
Found at i:26200 original size:28 final size:29
Alignment explanation
Indices: 26146--26200 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
26136 AAATATTATG
**
26146 ATATCTATAAAAAAACCCTAATTTTTCTT
1 ATATCTATAAAAAAACCCTAAAATTTCTT
26175 ATAT-TATAAAACAAACCC-AAAATTTC
1 ATATCTATAAAA-AAACCCTAAAATTTC
26201 AAATCCTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (29 bp):
ATATCTATAAAAAAACCCTAAAATTTCTT
Found at i:30411 original size:9 final size:9
Alignment explanation
Indices: 30387--30442 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
30377 GGTTCTTCCG
30387 ACCGG-TCA
1 ACCGGTTCA
30395 GACCGGTTCA
1 -ACCGGTTCA
*
30405 ACCGGTTGA
1 ACCGGTTCA
* *
30414 ACCAG-TGA
1 ACCGGTTCA
30422 ACCGGTTCA
1 ACCGGTTCA
*
30431 ACCGGTTGA
1 ACCGGTTCA
30440 ACC
1 ACC
30443 AGTGAACCGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 7 0.17
9 30 0.75
10 3 0.08
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (9 bp):
ACCGGTTCA
Found at i:30432 original size:26 final size:26
Alignment explanation
Indices: 30396--30453 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
30386 GACCGGTCAG
30396 ACCGGTTCAACCGGTTGAACCAGTGA
1 ACCGGTTCAACCGGTTGAACCAGTGA
30422 ACCGGTTCAACCGGTTGAACCAGTGA
1 ACCGGTTCAACCGGTTGAACCAGTGA
30448 ACCGGT
1 ACCGGT
30454 AGTATGACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.19
Consensus pattern (26 bp):
ACCGGTTCAACCGGTTGAACCAGTGA
Found at i:37948 original size:63 final size:63
Alignment explanation
Indices: 37846--37969 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
37836 CTAATGTGAC
* ** * * *
37846 TCTTAGGTAGGCTCTGCGGCCCTGAGATCATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCATTCTCGGGTAGGCCCT-CAGGCCCTAAAATGTGT
* *
37909 TCTTAGGTAGGCCCCACGGCCCCGAAATC-TATCTTGGGTAGGCTCTCAGGCCCTAAAATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCAT-TCTCGGGTAGGCCCTCAGGCCCTAAAATGT
37970 TCCCTTAGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCATTCTCGGGTAGGCCCTCAGGCCCTAAAATGTGT
Found at i:51548 original size:24 final size:24
Alignment explanation
Indices: 51512--51558 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
51502 TCAGAGGAGG
51512 TACATTAGGATCAGAAGTAATAGC
1 TACATTAGGATCAGAAGTAATAGC
* *
51536 TACATTAGTATCAGTAGTAATAG
1 TACATTAGGATCAGAAGTAATAG
51559 TGTTTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (24 bp):
TACATTAGGATCAGAAGTAATAGC
Found at i:58251 original size:20 final size:20
Alignment explanation
Indices: 58226--58263 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58216 TTTGGTTCAC
*
58226 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
58246 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
58264 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:58266 original size:18 final size:19
Alignment explanation
Indices: 58226--58269 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
58216 TTTGGTTCAC
*
58226 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
58246 GGAATAAAAGATTACCA-G
1 GGAATAAAAGATTACCAGG
58264 GGAATA
1 GGAATA
58270 GGATTACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:67311 original size:13 final size:13
Alignment explanation
Indices: 67286--67311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67276 GAAAATTGAC
67286 TTTTAAAATTATT
1 TTTTAAAATTATT
67299 TTTTAAAATTATT
1 TTTTAAAATTATT
67312 GTTAAAAAAT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:69940 original size:3 final size:3
Alignment explanation
Indices: 69932--69995 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
69922 TTCATTTTAA
** *
69932 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
69980 AAT ATT ATTT ATT ATT
1 ATT ATT A-TT ATT ATT
69996 TAAATATTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:70001 original size:18 final size:16
Alignment explanation
Indices: 69932--70004 Score: 76
Period size: 18 Copynumber: 4.2 Consensus size: 16
69922 TTCATTTTAA
69932 ATTATTATTATTAAA-
1 ATTATTATTATTAAAT
*
69947 ATTATTATTATTATTATT
1 ATTATTATTATTA--AAT
69965 ATTATTATTATTAGTAAT
1 ATTATTATTATTA--AAT
69983 ATTATTTATTATTTAAAT
1 ATTA-TTATTA-TTAAAT
70001 ATTA
1 ATTA
70005 CAAAGCCCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
15 13 0.26
17 1 0.02
18 27 0.54
19 6 0.12
20 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
ATTATTATTATTAAAT
Found at i:71454 original size:52 final size:55
Alignment explanation
Indices: 71371--71472 Score: 131
Period size: 53 Copynumber: 1.9 Consensus size: 55
71361 ATAATTTTAC
* * * *
71371 ATTTATTATTATTTTATTTATTTATAGTCATT-GTTTAGTTATT-TTTTAACTTA
1 ATTTATTATTATTTTATATATTTATAATCATTACTTTAATTATTGTTTTAACTTA
71424 ATTT-TTATTATTTTAATATATTTA-AATCATTACTTTAATTATTGTTTTA
1 ATTTATTATTATTTT-ATATATTTATAATCATTACTTTAATTATTGTTTTA
71473 CTATATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
52 16 0.38
53 21 0.50
54 5 0.12
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (55 bp):
ATTTATTATTATTTTATATATTTATAATCATTACTTTAATTATTGTTTTAACTTA
Found at i:76528 original size:2 final size:2
Alignment explanation
Indices: 76521--76560 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
76511 TTATCCTTTA
76521 AT AT AT AT AT AT 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 AT AT AT AT AT AT
76561 CCTTTGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79140 original size:45 final size:45
Alignment explanation
Indices: 79089--79233 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 45
79079 GAAGTGTTCT
79089 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
* * * * * * ** * ** *
79134 TTGAATT-T-GGAAGATGGATGTGCTCATAGCATCTTCTGGAAGT-GTTCT
1 TTGAATTATCTG-ATATGG-TTTGGT-AT-GAAACCAC-AGAA-TCAATCA
79182 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
79227 TTGAATT
1 TTGAATT
79234 TGGAAGATGG
Statistics
Matches: 67, Mismatches: 24, Indels: 18
0.61 0.22 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 23 0.34
46 6 0.09
47 6 0.09
48 16 0.24
49 7 0.10
50 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (45 bp):
TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
Found at i:79170 original size:93 final size:93
Alignment explanation
Indices: 78973--79303 Score: 601
Period size: 93 Copynumber: 3.6 Consensus size: 93
78963 TAAGGAGACC
* * *
78973 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
**
79037 ATCATTGAATTTGGAAGATAAATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
79065 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
79130 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
79158 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
79223 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
*
79251 CATGGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
79304 CTCTAAAGTC
Statistics
Matches: 232, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 49 0.21
93 183 0.79
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGGATGTGCT
Found at i:79344 original size:93 final size:93
Alignment explanation
Indices: 78973--79348 Score: 598
Period size: 93 Copynumber: 4.1 Consensus size: 93
78963 TAAGGAGACC
* * *
78973 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
79037 ATCATTGAATTTGGAAGATAAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
79065 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
79130 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
79158 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
79223 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* *
79251 CATGGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATG-AACTCTA-A-AGT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAAC-C-ACAGAAT
* * *
79313 CAATCATTGGATTTGAAAGATGAATTTTGCT
64 CAATCATTGAATTTGGAAGATGAA-TGTGCT
79344 CATAG
1 CATAG
79349 TAGAAATAAG
Statistics
Matches: 268, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
92 75 0.28
93 192 0.72
94 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGAATGTGCT
Found at i:82717 original size:76 final size:76
Alignment explanation
Indices: 82591--83429 Score: 1527
Period size: 76 Copynumber: 11.0 Consensus size: 76
82581 CTATTTCTCA
*
82591 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
82656 ATCCTTCGGGT
66 ATCCTTCGGGT
82667 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
82732 ATCCTTCGGGT
66 ATCCTTCGGGT
* *
82743 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
82808 AGCCTTCGGGT
66 ATCCTTCGGGT
*
82819 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
82884 ATCCTTCGGGT
66 ATCCTTCGGGT
82895 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
82960 ATCCTTCGGGT
66 ATCCTTCGGGT
82971 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83036 ATCCTTCGGGT
66 ATCCTTCGGGT
*
83047 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCTGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83112 ATCCTTCGGGT
66 ATCCTTCGGGT
* *
83123 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTGAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
83188 AACCTTCGGGT
66 ATCCTTCGGGT
*
83199 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83264 ATCCTTCGGGT
66 ATCCTTCGGGT
*
83275 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
83340 AGCCTTCGGGT
66 ATCCTTCGGGT
* *
83351 CATCTGTAAGCCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
83416 A-CCCTCAGGGT
66 ATCCTTC-GGGT
83427 CAT
1 CAT
83430 TCATAAGACC
Statistics
Matches: 741, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
75 4 0.01
76 737 0.99
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTCGGGT
Found at i:83593 original size:3 final size:3
Alignment explanation
Indices: 83585--83661 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
83575 TTCATTTTAA
**
83585 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * *
83631 ATT ATT ATT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
83662 TAAATATTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:83634 original size:37 final size:37
Alignment explanation
Indices: 83585--83661 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
83575 TTCATTTTAA
* * *
83585 ATTATTATTATTAAAATTATTATTATTATTATTTATT
1 ATTATTATTATTAAAATTAATAGTAATATTATTTATT
**
83622 ATTATTATTATTATTATTAATAGTAATATTATTTATT
1 ATTATTATTATTAAAATTAATAGTAATATTATTTATT
83659 ATT
1 ATT
83662 TAAATATTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (37 bp):
ATTATTATTATTAAAATTAATAGTAATATTATTTATT
Found at i:83667 original size:18 final size:18
Alignment explanation
Indices: 83611--83670 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
83601 TTATTATTAT
*
83611 TATTATTTATTA-TT-AT
1 TATTATTTATTATTTAAA
83627 TATTA-TTATTATTAATAGTAA
1 TATTATTTATTATT--TA--AA
83648 TATTATTTATTATTTAAA
1 TATTATTTATTATTTAAA
83666 TATTA
1 TATTA
83671 CAAAGCCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
15 6 0.17
16 6 0.17
18 8 0.22
20 2 0.06
21 6 0.17
22 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTTATTATTTAAA
Found at i:85627 original size:14 final size:15
Alignment explanation
Indices: 85608--85640 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
85598 TTAACTTATG
85608 TTTTCTTAAAAACT-
1 TTTTCTTAAAAACTC
85622 TTTTCTTAAAAACTC
1 TTTTCTTAAAAACTC
85637 TTTT
1 TTTT
85641 AAAAGATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTCTTAAAAACTC
Found at i:85907 original size:3 final size:3
Alignment explanation
Indices: 85894--85969 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
85884 GTAATATTTA
* * *
85894 AAT AAT AAAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
85940 AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85970 TTAAAATGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:93701 original size:26 final size:26
Alignment explanation
Indices: 93665--93717 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
93655 TGTTCGATTC
* * *
93665 ATTTGTGTTCACGAATAAGCTCGTTT
1 ATTTATGTTCACAAACAAGCTCGTTT
*
93691 ATTTATGTTCATAAACAAGCTCGTTT
1 ATTTATGTTCACAAACAAGCTCGTTT
93717 A
1 A
93718 ATGGATCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTTATGTTCACAAACAAGCTCGTTT
Found at i:94885 original size:2 final size:2
Alignment explanation
Indices: 94878--94907 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
94868 GAAAGGAATG
94878 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94908 AAAATGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.