Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008156.1 Hibiscus syriacus cultivar Beakdansim tig00110722_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: 820393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:6368 original size:17 final size:17
Alignment explanation
Indices: 6346--6400 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
6336 TTGAACCGGT
6346 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACTG
6363 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACTG
*
6380 TTGACCC-A-CCGACCG
1 TTGACCCGACCCGACTG
6395 TTGACC
1 TTGACC
6401 GTTTGACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
15 12 0.32
16 1 0.03
17 24 0.65
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (17 bp):
TTGACCCGACCCGACTG
Found at i:6406 original size:8 final size:7
Alignment explanation
Indices: 6390--6433 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
6380 TTGACCCACC
6390 GACCGTT
1 GACCGTT
6397 GACCGTTT
1 GACCG-TT
*
6405 GACC-AT
1 GACCGTT
6411 GACCGTT
1 GACCGTT
6418 GACCG-T
1 GACCGTT
6424 GACCGTT
1 GACCGTT
6431 GAC
1 GAC
6434 TTTCTTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 11 0.34
7 15 0.47
8 6 0.19
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:6421 original size:13 final size:13
Alignment explanation
Indices: 6396--6433 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
6386 CACCGACCGT
6396 TGACCGTTTGACCA
1 TGACCG-TTGACCA
*
6410 TGACCGTTGACCG
1 TGACCGTTGACCA
6423 TGACCGTTGAC
1 TGACCGTTGAC
6434 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (13 bp):
TGACCGTTGACCA
Found at i:8619 original size:39 final size:39
Alignment explanation
Indices: 8576--8700 Score: 105
Period size: 39 Copynumber: 3.2 Consensus size: 39
8566 TCCATAGGGT
8576 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
1 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
** ** * * *
8615 TACCTTGGGCTTAC--CCAAGGATATCCTTAGATCCGT-AGGGT-
1 TACCTTAAGCACACAACAAAGGA-AACC--A-A-CC-TAAGGATA
8656 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
1 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
8695 TACCTT
1 TACCTT
8701 GGGCCTACCC
Statistics
Matches: 62, Mismatches: 14, Indels: 20
0.65 0.15 0.21
Matches are distributed among these distances:
37 7 0.11
38 9 0.15
39 17 0.27
40 2 0.03
41 11 0.18
42 9 0.15
43 7 0.11
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (39 bp):
TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
Found at i:8679 original size:80 final size:80
Alignment explanation
Indices: 8542--8788 Score: 431
Period size: 80 Copynumber: 3.1 Consensus size: 80
8532 GGGGCCTATA
8542 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
8607 TAAGGATATACCTTG
66 TAAGGATATACCTTG
* * *
8622 GGCTTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
8687 TAAGGATATACCTTG
66 TAAGGATATACCTTG
*
8702 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAGCAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
* *
8767 TAAGAATATGCCTTAG
66 TAAGGATATACCTT-G
8783 GGCCTA
1 GGCCTA
8789 TAAGCCTATC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 150 0.96
81 7 0.04
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (80 bp):
GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
TAAGGATATACCTTG
Found at i:9619 original size:17 final size:17
Alignment explanation
Indices: 9597--9635 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9587 TCAACAGTGC
*
9597 TCAACGCGGGTCAA-CGG
1 TCAACGC-GATCAATCGG
9614 TCAACGCGATCAATCGG
1 TCAACGCGATCAATCGG
9631 TCAAC
1 TCAAC
9636 AGTCAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (17 bp):
TCAACGCGATCAATCGG
Found at i:12845 original size:21 final size:20
Alignment explanation
Indices: 12807--12845 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12797 TTCGAGTTTT
12807 TATTTAAATTTAATTTTAAA
1 TATTTAAATTTAATTTTAAA
12827 TATTTATAATATT-ATTTTA
1 TATTTA-AAT-TTAATTTTA
12846 TTTCAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTAAATTTAATTTTAAA
Found at i:12900 original size:2 final size:2
Alignment explanation
Indices: 12893--12924 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12883 TTTCCGATGC
12893 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
12925 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13026 original size:27 final size:27
Alignment explanation
Indices: 12973--13028 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
12963 AAAGTTGGGT
* *
12973 AAAATTCGTGAGATAATGGTGTGAAAA
1 AAAATTCGTGAGATAATAGTATGAAAA
* * *
13000 AAAATTCGTGAGTTAATATTATTAAAA
1 AAAATTCGTGAGATAATAGTATGAAAA
13027 AA
1 AA
13029 TTAATTACTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (27 bp):
AAAATTCGTGAGATAATAGTATGAAAA
Found at i:13397 original size:21 final size:21
Alignment explanation
Indices: 13373--13430 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
13363 TTTCATTATT
13373 ATTAATTATTAATATTAAATC
1 ATTAATTATTAATATTAAATC
* *
13394 ATTAAATATTAATAATAAATC
1 ATTAATTATTAATATTAAATC
13415 ATT-ATTA-TAATCATTA
1 ATTAATTATTAAT-ATTA
13431 CTAAATCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 6 0.19
21 22 0.69
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATTATTAATATTAAATC
Found at i:15610 original size:16 final size:16
Alignment explanation
Indices: 15589--15635 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15579 TTACTTTCCA
*
15589 ATTTCACTATACATTC
1 ATTTCACAATACATTC
*
15605 ATTTCACAATGCATTC
1 ATTTCACAATACATTC
15621 ATTTC-CAATAACATT
1 ATTTCACAAT-ACATT
15636 ATCTCACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTTCACAATACATTC
Found at i:17431 original size:25 final size:25
Alignment explanation
Indices: 17388--17438 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17378 CTATTAAGCT
*
17388 TGCCAGCTAGACTAATAGATGGTTA
1 TGCCAGCTAGACTAATAGACGGTTA
* **
17413 TGCCAGCTAGGCTTGTAGACGGTTA
1 TGCCAGCTAGACTAATAGACGGTTA
17438 T
1 T
17439 AGTTTTACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
TGCCAGCTAGACTAATAGACGGTTA
Found at i:24564 original size:107 final size:107
Alignment explanation
Indices: 24374--24586 Score: 372
Period size: 107 Copynumber: 2.0 Consensus size: 107
24364 TTAGTGTAAC
* *
24374 CCTTAAATTTGGTTTAGATGTTACAGTCAAATCATTAAAAGTCACATTAATCATCGAAGTGGTTC
1 CCTTAAATTTGGTTTAGATGTTACAGTCAAATCATTAAAAGTCACATTAATCATCGAAGTGATCC
*
24439 ATAATTTAATTCAGAAATTTAAACAGACAAAATCATATTTAT
66 ATAATTTAATTCAAAAATTTAAACAGACAAAATCATATTTAT
* *
24481 CCTTAAATTTGGTTTAGATGTTACATTCGAATCATTAAAAGTCACATTAATCATCGAAGTGATCC
1 CCTTAAATTTGGTTTAGATGTTACAGTCAAATCATTAAAAGTCACATTAATCATCGAAGTGATCC
*
24546 TTAATTTAATTCAAAAATTTAAACAGACAAAATCATATTTA
66 ATAATTTAATTCAAAAATTTAAACAGACAAAATCATATTTA
24587 CAAATAGGTT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (107 bp):
CCTTAAATTTGGTTTAGATGTTACAGTCAAATCATTAAAAGTCACATTAATCATCGAAGTGATCC
ATAATTTAATTCAAAAATTTAAACAGACAAAATCATATTTAT
Found at i:25387 original size:35 final size:34
Alignment explanation
Indices: 25337--25434 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 34
25327 TATTGTTCAA
* * *
25337 ACATCTCAAAGATAATTCAAAAATATGTGATTCGT
1 ACATCTCACATATAATTCAAAAATATGT-ATTCGG
25372 ACATCTCACATATAATTCAGAAACATAT-TATTCGG
1 ACATCTCACATATAATTCA-AAA-ATATGTATTCGG
*
25407 ACATCTCACATATAATTCAAAAACATGT
1 ACATCTCACATATAATTCAAAAATATGT
25435 TTGATAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 3 0.05
34 4 0.07
35 41 0.73
36 4 0.07
37 4 0.07
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (34 bp):
ACATCTCACATATAATTCAAAAATATGTATTCGG
Found at i:26919 original size:2 final size:2
Alignment explanation
Indices: 26912--26947 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
26902 GCTCCGTGCC
* *
26912 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26948 GAGAGATAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:26952 original size:2 final size:2
Alignment explanation
Indices: 26947--27119 Score: 319
Period size: 2 Copynumber: 86.5 Consensus size: 2
26937 ATATAGATAT
* * *
26947 AG AG AG AT AG AG AT AT AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26989 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27031 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27073 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27115 AG AG A
1 AG AG A
27120 AAGAAAAAGA
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 167 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:26954 original size:16 final size:16
Alignment explanation
Indices: 26921--26969 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
26911 CTATATATAT
* * *
26921 ATATATATATATATAG
1 ATATAGATATAGAGAG
26937 ATATAGATATAGAGAG
1 ATATAGATATAGAGAG
*
26953 ATAGAGATATAGAGAG
1 ATATAGATATAGAGAG
26969 A
1 A
26970 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (16 bp):
ATATAGATATAGAGAG
Found at i:32754 original size:16 final size:16
Alignment explanation
Indices: 32705--32754 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
32695 CCGGCACCTC
32705 AAATTTCATTAGCAAA
1 AAATTTCATTAGCAAA
*
32721 AAAATT-ATCTA--AATA
1 AAATTTCAT-TAGCAA-A
32736 AAATTTCATTAGCAAA
1 AAATTTCATTAGCAAA
32752 AAA
1 AAA
32755 AAATTCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 13 0.48
17 2 0.07
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (16 bp):
AAATTTCATTAGCAAA
Found at i:32755 original size:17 final size:17
Alignment explanation
Indices: 32705--32755 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
32695 CCGGCACCTC
32705 AAATTTCATTAGCAAAA
1 AAATTTCATTAGCAAAA
*
32722 AAA-TT-ATCTA--AATA
1 AAATTTCAT-TAGCAAAA
32736 AAATTTCATTAGCAAAA
1 AAATTTCATTAGCAAAA
32753 AAA
1 AAA
32756 AATTCATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 6 0.22
17 9 0.33
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (17 bp):
AAATTTCATTAGCAAAA
Found at i:33368 original size:32 final size:33
Alignment explanation
Indices: 33332--33405 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 33
33322 TAGGGATAAA
* * *
33332 TTTGTGTGGTAATTGGTTGCTGTTT-TTTCCCC
1 TTTGTGTAGTAATTGGTTGCTGTTTCCTCCCCC
*
33364 TTTGTGTAGTAATTGGTTGTTGTTTCCTCCCCC
1 TTTGTGTAGTAATTGGTTGCTGTTTCCTCCCCC
33397 TTTGTGTAG
1 TTTGTGTAG
33406 ATTTCTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 23 0.62
33 14 0.38
ACGTcount: A:0.08, C:0.16, G:0.24, T:0.51
Consensus pattern (33 bp):
TTTGTGTAGTAATTGGTTGCTGTTTCCTCCCCC
Found at i:42840 original size:56 final size:56
Alignment explanation
Indices: 42644--42843 Score: 195
Period size: 56 Copynumber: 3.6 Consensus size: 56
42634 CTCAGGCCTA
* * ** * * * *
42644 AAAAATAAGGACCTCGAAATTAAATATATCTATTAATTGTTACCATTAATAAACAT
1 AAAAATAGGGATCTCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
* * * * * *
42700 AAAATTAAGGGCT-TTGAAATCGAGTATATCTATCAGTTATTGCCATTAAGAAGCAT
1 AAAAAT-AGGGATCTCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
** * * *
42756 AAAAATAGATATCCCTAAATCGAGTATATCTATCAGTTGTTGCCATTAATAAGCAT
1 AAAAATAGGGATCTCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
* *
42812 AAAAATAGGGATCTCAAAATTGAATATATCTA
1 AAAAATAGGGATCTCGAAATCGAATATATCTA
42844 AAAAAAATAG
Statistics
Matches: 113, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
55 3 0.03
56 107 0.95
57 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (56 bp):
AAAAATAGGGATCTCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
Found at i:43070 original size:58 final size:58
Alignment explanation
Indices: 42980--43095 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
42970 TCATGAAGCT
42980 TCGTCTCAATCAGGAATATTGCCTGGGGATCATTAGCTTTGACAAGGCGCACAAGGCA
1 TCGTCTCAATCAGGAATATTGCCTGGGGATCATTAGCTTTGACAAGGCGCACAAGGCA
*
43038 TCGTCTCAATCAGGAATATTGCCTGGGGATCATTAGCTTTGACTAGGCGCACAAGGCA
1 TCGTCTCAATCAGGAATATTGCCTGGGGATCATTAGCTTTGACAAGGCGCACAAGGCA
43096 CCGAACTGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (58 bp):
TCGTCTCAATCAGGAATATTGCCTGGGGATCATTAGCTTTGACAAGGCGCACAAGGCA
Found at i:43637 original size:24 final size:25
Alignment explanation
Indices: 43609--43674 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 25
43599 TAAAATATAT
43609 ATATATTATATAATATA-ATTTTAA
1 ATATATTATATAATATAGATTTTAA
*
43633 ATATATATATATAATATAGTTTTTTAA
1 ATATAT-TATATAATATAG-ATTTTAA
43660 A-ATATTA-ATAATATA
1 ATATATTATATAATATA
43675 TATGTTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 14 0.37
25 13 0.34
26 4 0.11
27 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATATTATATAATATAGATTTTAA
Found at i:43656 original size:26 final size:26
Alignment explanation
Indices: 43607--43677 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
43597 TATAAAATAT
43607 ATATATATTATATAATATA-ATTTTAA
1 ATATATA-TATATAATATATATTTTAA
*
43633 ATATATATATATAATATAGTTTTTTAA
1 ATATATATATATAATATA-TATTTTAA
43660 A-ATAT-TA-ATAATATATAT
1 ATATATATATATAATATATAT
43678 GTTATATAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.05
24 8 0.20
25 13 0.32
26 11 0.27
27 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATATATATATAATATATATTTTAA
Found at i:43731 original size:23 final size:22
Alignment explanation
Indices: 43680--43737 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
43670 ATATATATGT
*
43680 TATATAGTTTTTGGAAATATATA
1 TATATAG-TTTTAGAAATATATA
43703 TGATATAGTTTTAGAAACT-TATTA
1 T-ATATAGTTTTAGAAA-TATA-TA
43727 TATATA-TTTTA
1 TATATAGTTTTA
43738 AGTAGCAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.16
23 16 0.52
24 10 0.32
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (22 bp):
TATATAGTTTTAGAAATATATA
Found at i:43756 original size:3 final size:3
Alignment explanation
Indices: 43748--43784 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
43738 AGTAGCAATG
43748 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
43785 ATTTATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43790 original size:8 final size:7
Alignment explanation
Indices: 43748--43791 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
43738 AGTAGCAATG
43748 TTATTA-
1 TTATTAT
43754 TTATTA-
1 TTATTAT
43760 TTATTA-
1 TTATTAT
43766 TTATTA-
1 TTATTAT
43772 TTATTAT
1 TTATTAT
43779 TTATTAAT
1 TTATT-AT
43787 TTATT
1 TTATT
43792 TGTTATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 24 0.67
7 5 0.14
8 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATTAT
Found at i:43858 original size:21 final size:22
Alignment explanation
Indices: 43810--43859 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
43800 TTAATTTCAG
43810 GTCAAGTCCAATAAAAGTCCAA
1 GTCAAGTCCAATAAAAGTCCAA
**
43832 -TCCAAGTCCAA-GGAAGTCCAA
1 GT-CAAGTCCAATAAAAGTCCAA
43853 GTCAAGT
1 GTCAAGT
43860 GATCCAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (22 bp):
GTCAAGTCCAATAAAAGTCCAA
Found at i:45427 original size:20 final size:20
Alignment explanation
Indices: 45382--45435 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
45372 AAGTGTGTTT
* *
45382 AAAAGTTTTGATACTTTCAC
1 AAAAGTTTCGAAACTTTCAC
*
45402 -AAAGTTTCGAAACTTTCTC
1 AAAAGTTTCGAAACTTTCAC
45421 AAAAGTTTCGAAACT
1 AAAAGTTTCGAAACT
45436 ACATGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (20 bp):
AAAAGTTTCGAAACTTTCAC
Found at i:48456 original size:17 final size:17
Alignment explanation
Indices: 48434--48468 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48424 CACGACTTAA
48434 GTCGAG-AAAAGCTATTT
1 GTCGAGTAAAAGCT-TTT
48451 GTCGAGTAAAAGCTTTT
1 GTCGAGTAAAAGCTTTT
48468 G
1 G
48469 ATTTTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (17 bp):
GTCGAGTAAAAGCTTTT
Found at i:49106 original size:18 final size:17
Alignment explanation
Indices: 49083--49126 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49073 TTTATTATAA
*
49083 AAATATATTATATAATAT
1 AAATATATTAAATAA-AT
*
49101 AAATATCTTAAATAAAT
1 AAATATATTAAATAAAT
49118 ACAATATAT
1 A-AATATAT
49127 ATAGTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATTAAATAAAT
Found at i:49164 original size:24 final size:23
Alignment explanation
Indices: 49121--49199 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
49111 AATAAATACA
49121 ATATATATAGTTTTTGAAAATAT
1 ATATATATAGTTTTTGAAAATAT
* * *
49144 ATATAATATAGTTTATAAAAATGT
1 ATAT-ATATAGTTTTTGAAAATAT
*
49168 AT-TGTAT-GATTTTTGAAAATAT
1 ATATATATAG-TTTTTGAAAATAT
49190 ATATAATATA
1 ATAT-ATATA
49200 TATTATATAG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.02
22 15 0.35
23 6 0.14
24 21 0.49
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (23 bp):
ATATATATAGTTTTTGAAAATAT
Found at i:49241 original size:22 final size:24
Alignment explanation
Indices: 49197--49253 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
49187 TATATATAAT
*
49197 ATATATTATATAGTTTTTGAAAAG
1 ATATATTATATAGGTTTTGAAAAG
49221 ATATATTATAT-GGTTTT-AAAA-
1 ATATATTATATAGGTTTTGAAAAG
49242 ACT-TATTATATA
1 A-TATATTATATA
49254 TATTTTACGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.30
22 5 0.17
23 5 0.17
24 11 0.37
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (24 bp):
ATATATTATATAGGTTTTGAAAAG
Found at i:49316 original size:17 final size:18
Alignment explanation
Indices: 49277--49328 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
49267 TGTGGTAGTA
49277 TTGTTATTATT-ATTTAATT
1 TTGTTATTATTAATTT--TT
49296 TTGTT-TTATTAATTTTT
1 TTGTTATTATTAATTTTT
*
49313 TTGTTATTTTTAATTT
1 TTGTTATTATTAATTT
49329 CAGTTCAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 14 0.47
19 9 0.30
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (18 bp):
TTGTTATTATTAATTTTT
Found at i:50122 original size:5 final size:6
Alignment explanation
Indices: 50094--50125 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
50084 CAAAAGATTT
50094 TTTATG TTTATG TTTATG TTTAT- TTTAT- TTTA
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTA
50126 AAGAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (6 bp):
TTTATG
Found at i:52155 original size:12 final size:12
Alignment explanation
Indices: 52133--52165 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
52123 AATGAAATTA
52133 AATAA-ATAAAT
1 AATAATATAAAT
52144 AATAATATAAAT
1 AATAATATAAAT
52156 AATAATATAA
1 AATAATATAA
52166 TAAAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:52156 original size:20 final size:20
Alignment explanation
Indices: 52131--52168 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52121 AAAATGAAAT
52131 TAAATAAATAA-ATAATAATA
1 TAAAT-AATAATATAATAATA
52151 TAAATAATAATATAATAA
1 TAAATAATAATATAATAA
52169 AAACAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATAATAATATAATAATA
Found at i:52227 original size:18 final size:18
Alignment explanation
Indices: 52178--52232 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
52168 AAAACAATAT
* *
52178 AATATTATATTTTTAAAA
1 AATAATATATTTTTCAAA
52196 AATAATAT-TTTTTCAAA
1 AATAATATATTTTTCAAA
* *
52213 AATTATATATGTTTCAAA
1 AATAATATATTTTTCAAA
52231 AA
1 AA
52233 AATCGTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAATATATTTTTCAAA
Found at i:52348 original size:40 final size:38
Alignment explanation
Indices: 52282--52496 Score: 128
Period size: 37 Copynumber: 5.8 Consensus size: 38
52272 TAGTTTTTCG
* *
52282 AAACTATATTATATACGTTTTC--AAAATTTGTTTCTA
1 AAACTATATAATATACGTTTTCAAAAAATGTGTTTCTA
* * *
52318 GAACTATGTATATTATACGTTTTCAAAAAATGTGTTTTTA
1 AAACTA--TATAATATACGTTTTCAAAAAATGTGTTTCTA
* * *
52358 AAACTATATAATATATGTTTTC-AAAAACGTATTT-TCA
1 AAACTATATAATATACGTTTTCAAAAAATGTGTTTCT-A
* **
52395 AAA-TCATATTATATA--TTTTCAAAAACCGAT-TTT-TA
1 AAACT-ATATAATATACGTTTTCAAAAAATG-TGTTTCTA
* * * * *
52430 GAAACTACATATTATATGCTTTC-AAAAACGT-TTTCTAA
1 -AAACTATATAATATACGTTTTCAAAAAATGTGTTTCT-A
* *
52468 AAACTATATATTATATGTTTTCAAAAAAT
1 AAACTATATAATATACGTTTTCAAAAAAT
52497 ATTTTTAAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
35 6 0.04
36 31 0.22
37 52 0.36
38 38 0.26
40 17 0.12
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (38 bp):
AAACTATATAATATACGTTTTCAAAAAATGTGTTTCTA
Found at i:52378 original size:38 final size:37
Alignment explanation
Indices: 52326--52519 Score: 193
Period size: 37 Copynumber: 5.3 Consensus size: 37
52316 TAGAACTATG
* * *
52326 TATATTATACGTTTTCAAAAAATGTGTTTTTAAAACTA
1 TATATTATATGTTTTC-AAAAACGTATTTTTAAAACTA
* *
52364 TATAATATATGTTTTCAAAAACGTATTTTCAAAA-T-
1 TATATTATATGTTTTCAAAAACGTATTTTTAAAACTA
* *
52399 CATATTATATATTTTCAAAAACCG-ATTTTTAGAAACTA
1 TATATTATATGTTTTCAAAAA-CGTATTTTTA-AAACTA
* * *
52437 CATATTATATGCTTTCAAAAACGT-TTTCTAAAAACTA
1 TATATTATATGTTTTCAAAAACGTATTT-TTAAAACTA
* *
52474 TATATTATATGTTTTCAAAAA-ATATTTTTAAAA-AA
1 TATATTATATGTTTTCAAAAACGTATTTTTAAAACTA
52509 TTATATTATAT
1 -TATATTATAT
52520 TATTATATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
35 25 0.19
36 22 0.17
37 49 0.37
38 35 0.27
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (37 bp):
TATATTATATGTTTTCAAAAACGTATTTTTAAAACTA
Found at i:52515 original size:73 final size:72
Alignment explanation
Indices: 52326--52519 Score: 212
Period size: 73 Copynumber: 2.7 Consensus size: 72
52316 TAGAACTATG
* * * * *
52326 TATATTATACGTTTTCAAAAAATGTGTTTTTAAAACTATATAATATATGTTTTCAAAAACGTATT
1 TATATTATATGTTTTCAAAAAATAT-TTTTAAAAACTATATATTATATGCTTTCAAAAACGTATT
*
52391 TTCAAAAT
65 TTAAAAAT
* * ** * *
52399 CATATTATATATTTTCAAAAACCGATTTTTAGAAACTACATATTATATGCTTTCAAAAACGT-TT
1 TATATTATATGTTTTCAAAAA-ATATTTTTAAAAACTATATATTATATGCTTTCAAAAACGTATT
52463 TCTAAAAACT
65 T-TAAAAA-T
*
52473 ATATATTATATGTTTTCAAAAAATATTTTTAAAAAAT-TATATTATAT
1 -TATATTATATGTTTTCAAAAAATATTTTTAAAAACTATATATTATAT
52520 TATTATATAT
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
72 3 0.03
73 63 0.64
74 13 0.13
75 19 0.19
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (72 bp):
TATATTATATGTTTTCAAAAAATATTTTTAAAAACTATATATTATATGCTTTCAAAAACGTATTT
TAAAAAT
Found at i:63394 original size:16 final size:17
Alignment explanation
Indices: 63375--63409 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
63365 TGTGAATCAT
63375 AAAAAT-AAAAGAAAAC
1 AAAAATGAAAAGAAAAC
*
63391 AAAAATGAAAGGAAAAC
1 AAAAATGAAAAGAAAAC
63408 AA
1 AA
63410 GTTAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAATGAAAAGAAAAC
Found at i:64555 original size:21 final size:21
Alignment explanation
Indices: 64509--64555 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
64499 AAAACAATGT
*
64509 TAAAAGAGAAAAATAAATTAA
1 TAAAAGAGAAAAATAAATGAA
* *
64530 -AAAAAAGTAAAATAAAATGAA
1 TAAAAGAGAAAAAT-AAATGAA
64551 TAAAA
1 TAAAA
64556 TATTAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 6 0.29
22 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (21 bp):
TAAAAGAGAAAAATAAATGAA
Found at i:65812 original size:16 final size:16
Alignment explanation
Indices: 65791--65837 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
65781 ATGAAATTAA
65791 ATAAATAAATAATAAT
1 ATAAATAAATAATAAT
65807 ATAAAT-AATATATAAT
1 ATAAATAAATA-ATAAT
* *
65823 AAAAACTATATAATA
1 ATAAA-TAAATAATA
65838 TTATGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 4 0.15
18 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAATAAATAATAAT
Found at i:65879 original size:26 final size:25
Alignment explanation
Indices: 65823--65877 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
65813 AATATATAAT
*
65823 AAAAACTATATAATATTATGTTTTC
1 AAAAATTATATAATATTATGTTTTC
*
65848 AAAAATTATATATTATATATG-TTTC
1 AAAAATTATATAATAT-TATGTTTTC
65873 AAAAA
1 AAAAA
65878 ATCGTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATTATATAATATTATGTTTTC
Found at i:65885 original size:39 final size:38
Alignment explanation
Indices: 65840--66155 Score: 164
Period size: 37 Copynumber: 8.3 Consensus size: 38
65830 ATATAATATT
*
65840 ATGTTTTCAAAAATTATATATTATATATGTTTCAAAAA
1 ATGTTTTCAAAAACTATATATTATATATGTTTCAAAAA
* * *
65878 ATCGTTTTGAAAAACTATATATATATATATATATAT-ATATATAT
1 AT-GTTTTCAAAAACTATATAT-TATATATGT-T-TCA-A-A-AA
* *
65922 ATATTTTC-AAAA-T-TATATTATATTTGTTTTC-AAAA
1 ATGTTTTCAAAAACTATATATTATATATG-TTTCAAAAA
* * *
65957 ATCGTTTT-TAAAACTATGTA-TATTATACGTTTTCAAAAA
1 AT-GTTTTCAAAAACTATATATTA-TATATG-TTTCAAAAA
*
65996 TATGTTTT-TAAAACTATATA--ATATATGTTTTCAAAAA
1 -ATGTTTTCAAAAACTATATATTATATATG-TTTCAAAAA
* * *
66033 CTTATTTTC-AAAAC--CATATTATATAT-TTTCAAAAA
1 -ATGTTTTCAAAAACTATATATTATATATGTTTCAAAAA
* *
66068 CTGAATTTTAAAAAACTATATA-T-TATATGCTTTCAAAAA
1 ATG--TTTTCAAAAACTATATATTATATATG-TTTCAAAAA
* * * *
66107 CT-TTTTCTAAAAACTATATATTATATGT-TTTTAACAA
1 ATGTTTTC-AAAAACTATATATTATATATGTTTCAAAAA
*
66144 ATATTTTCAAAA
1 ATGTTTTCAAAA
66156 TTTACATTAC
Statistics
Matches: 220, Mismatches: 28, Indels: 61
0.71 0.09 0.20
Matches are distributed among these distances:
34 1 0.00
35 15 0.07
36 17 0.08
37 69 0.31
38 23 0.10
39 62 0.28
40 16 0.07
41 3 0.01
42 6 0.03
43 5 0.02
44 3 0.01
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (38 bp):
ATGTTTTCAAAAACTATATATTATATATGTTTCAAAAA
Found at i:65900 original size:2 final size:2
Alignment explanation
Indices: 65893--65925 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65883 TTTGAAAAAC
65893 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 T
65926 TTTCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65958 original size:24 final size:24
Alignment explanation
Indices: 65911--65956 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
65901 TATATATATA
65911 TATATATATATATATTTTCAAAAT
1 TATATATATATATATTTTCAAAAT
* *
65935 TATAT-TATATTTGTTTTCAAAA
1 TATATATATATATATTTTCAAAA
65957 ATCGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TATATATATATATATTTTCAAAAT
Found at i:65959 original size:79 final size:78
Alignment explanation
Indices: 65829--65983 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 78
65819 TAATAAAAAC
*
65829 TATATAATATTATGTTTTCAAAAATTATATATTATATATGTTTCAAAAAATCGTTTTGAAAAACT
1 TATATAATATTATATTTTCAAAAATTATATATTATATATGTTTCAAAAAATCGTTTT-AAAAACT
65894 ATATATATATATATA
65 ATATATAT-TATATA
* *
65909 TATATATATATATATATTTTC-AAAA-T-TATATTATATTTGTTTTC-AAAAATCGTTTTTAAAA
1 TATATA-ATAT-TATATTTTCAAAAATTATATATTATATATG-TTTCAAAAAATCGTTTTAAAAA
*
65970 CTATGTATATTATA
63 CTATATATATTATA
65984 CGTTTTCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
77 4 0.06
78 13 0.19
79 24 0.35
80 11 0.16
81 8 0.12
82 8 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (78 bp):
TATATAATATTATATTTTCAAAAATTATATATTATATATGTTTCAAAAAATCGTTTTAAAAACTA
TATATATTATATA
Found at i:66046 original size:37 final size:37
Alignment explanation
Indices: 65923--66155 Score: 198
Period size: 37 Copynumber: 6.3 Consensus size: 37
65913 TATATATATA
*
65923 TATTTTCAAAA-T-TATATTATATTTGTTTTCAAAAATCG
1 TATTTTCAAAACTATATATTATA--TGTTTTCAAAAA-CT
*
65961 T-TTTT-AAAACTATGTATATTATACGTTTTCAAAAA-T
1 TATTTTCAAAACTA--TATATTATATGTTTTCAAAAACT
* * *
65997 ATGTTTTTAAAACTATATAATATATGTTTTCAAAAACT
1 -TATTTTCAAAACTATATATTATATGTTTTCAAAAACT
* *
66035 TATTTTCAAAAC--CATATTATATATTTTCAAAAACT
1 TATTTTCAAAACTATATATTATATGTTTTCAAAAACT
* * *
66070 GAATTTTAAAAAACTATATATTATATGCTTTCAAAAACT
1 -TATTTT-CAAAACTATATATTATATGTTTTCAAAAACT
* *
66109 T-TTTCTAAAAACTATATATTATATGTTTTTAACAAA--
1 TATTT-TCAAAACTATATATTATATGTTTTCAA-AAACT
66145 TATTTTCAAAA
1 TATTTTCAAAA
66156 TTTACATTAC
Statistics
Matches: 162, Mismatches: 18, Indels: 32
0.76 0.08 0.15
Matches are distributed among these distances:
35 20 0.12
36 15 0.09
37 70 0.43
38 21 0.13
39 27 0.17
40 9 0.06
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (37 bp):
TATTTTCAAAACTATATATTATATGTTTTCAAAAACT
Found at i:70730 original size:18 final size:18
Alignment explanation
Indices: 70697--70733 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70687 GTTATTTAAG
*
70697 TTGAGTTATTCGAATTAT
1 TTGAGTTATTCAAATTAT
*
70715 TTGAGTTATTTAAATTAT
1 TTGAGTTATTCAAATTAT
70733 T
1 T
70734 AATTCAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.54
Consensus pattern (18 bp):
TTGAGTTATTCAAATTAT
Found at i:71347 original size:2 final size:2
Alignment explanation
Indices: 71340--71375 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
71330 CAAATATGAA
71340 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
71376 TATGATTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72288 original size:16 final size:16
Alignment explanation
Indices: 72267--72297 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72257 TAATAAATAA
72267 ACGAACATAAACGAAT
1 ACGAACATAAACGAAT
72283 ACGAACATAAACGAA
1 ACGAACATAAACGAA
72298 CAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAT
Found at i:72396 original size:16 final size:16
Alignment explanation
Indices: 72369--72413 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
72359 TAATAAATAA
*
72369 ACGAATATAAACAAAC
1 ACGAACATAAACAAAC
*
72385 AC-ACACATAAACGAAC
1 ACGA-ACATAAACAAAC
72401 ACGAACATAAACA
1 ACGAACATAAACA
72414 TTGGAGACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.60, C:0.24, G:0.07, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:72653 original size:11 final size:11
Alignment explanation
Indices: 72634--72685 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
72624 TCGAGACTCG
* *
72634 AGCTTGATTGA
1 AGCTCGATTCA
72645 AGCTCGATTCTA
1 AGCTCGATTC-A
*
72657 AGCTCGATTCT
1 AGCTCGATTCA
72668 AGCTCGATTCA
1 AGCTCGATTCA
72679 AGCTCGA
1 AGCTCGA
72686 CATTGCCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
11 25 0.69
12 11 0.31
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:72661 original size:12 final size:12
Alignment explanation
Indices: 72644--72685 Score: 70
Period size: 11 Copynumber: 3.7 Consensus size: 12
72634 AGCTTGATTG
72644 AAGCTCGATTCT
1 AAGCTCGATTCT
72656 AAGCTCGATTCT
1 AAGCTCGATTCT
72668 -AGCTCGATTC-
1 AAGCTCGATTCT
72678 AAGCTCGA
1 AAGCTCGA
72686 CATTGCCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.59
12 12 0.41
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (12 bp):
AAGCTCGATTCT
Found at i:72665 original size:23 final size:22
Alignment explanation
Indices: 72634--72685 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
72624 TCGAGACTCG
* *
72634 AGCTTGATTGAAGCTCGATTCTA
1 AGCTCGATTCAAGCTCGATTC-A
*
72657 AGCTCGATTCTAGCTCGATTCA
1 AGCTCGATTCAAGCTCGATTCA
72679 AGCTCGA
1 AGCTCGA
72686 CATTGCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (22 bp):
AGCTCGATTCAAGCTCGATTCA
Found at i:73578 original size:24 final size:24
Alignment explanation
Indices: 73534--73619 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
73524 GATTGGGTTA
* *
73534 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAATATAAACG
73558 AACATAATCGAACGAATATAAACG
1 AACATAATCGAACGAATATAAACG
* *
73582 AACATAAACGAAC--ATAACCAAACG
1 AACATAATCGAACGAAT-A-TAAACG
*
73606 AACATAAGCGAACG
1 AACATAATCGAACG
73620 TTCATGAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.04
23 4 0.08
24 47 0.89
ACGTcount: A:0.56, C:0.19, G:0.13, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAATATAAACG
Found at i:73585 original size:34 final size:34
Alignment explanation
Indices: 73547--73618 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
73537 ATAAATGAAT
* * *
73547 GAACATAAACGAACATAATCGAACGAATATAAAC
1 GAACATAAACGAACATAACCAAACGAACATAAAC
*
73581 GAACATAAACGAACATAACCAAACGAACATAAGC
1 GAACATAAACGAACATAACCAAACGAACATAAAC
73615 GAAC
1 GAAC
73619 GTTCATGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.11
Consensus pattern (34 bp):
GAACATAAACGAACATAACCAAACGAACATAAAC
Found at i:73617 original size:10 final size:10
Alignment explanation
Indices: 73547--73598 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
73537 ATAAATGAAT
73547 GAACATAAAC
1 GAACATAAAC
73557 GAACATAATCGAAC
1 GAACAT-A---AAC
*
73571 GAATATAAAC
1 GAACATAAAC
73581 GAACATAAAC
1 GAACATAAAC
73591 GAACATAA
1 GAACATAA
73599 CCAAACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 26 0.72
11 1 0.03
13 1 0.03
14 8 0.22
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.13
Consensus pattern (10 bp):
GAACATAAAC
Found at i:74202 original size:24 final size:24
Alignment explanation
Indices: 74175--74223 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
74165 AGCACAAATA
* *
74175 GCGTATATAATTGAGAGTATAAAC
1 GCGTATATAATTAAGAATATAAAC
74199 GCGTATATAATTAAGAATATAAAC
1 GCGTATATAATTAAGAATATAAAC
74223 G
1 G
74224 TTTACTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (24 bp):
GCGTATATAATTAAGAATATAAAC
Found at i:74809 original size:41 final size:41
Alignment explanation
Indices: 74764--74946 Score: 287
Period size: 41 Copynumber: 4.5 Consensus size: 41
74754 ATTCGCGTTG
***
74764 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
74805 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
74846 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
74887 CGTTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
74928 CGTTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
74947 CTATAGTTGT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 130 0.98
42 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:74819 original size:20 final size:20
Alignment explanation
Indices: 74796--74943 Score: 118
Period size: 20 Copynumber: 7.2 Consensus size: 20
74786 AAATCGCAAC
74796 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* * *
74816 GCGATAGTCTACA-GTCGCGTT
1 GCGAT--TTTCCATTTCGCGTT
74837 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* ** **
74857 GCGATAGTTGAAAATCGCGTT
1 GCGAT-TTTCCATTTCGCGTT
*
74878 GCGATTTTCCGTTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* ** **
74898 GCGATAGTTGAAAATCGCGTT
1 GCGAT-TTTCCATTTCGCGTT
*
74919 GCGATTTTCCGTTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
74939 GCGAT
1 GCGAT
74944 AGTCTATAGT
Statistics
Matches: 94, Mismatches: 29, Indels: 10
0.71 0.22 0.08
Matches are distributed among these distances:
19 4 0.04
20 45 0.48
21 41 0.44
22 4 0.04
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
GCGATTTTCCATTTCGCGTT
Found at i:74980 original size:41 final size:41
Alignment explanation
Indices: 74764--74994 Score: 249
Period size: 41 Copynumber: 5.6 Consensus size: 41
74754 ATTCGCGTTG
***
74764 CATTTCGCGTTGCGATAGT-TGAAAATCGCAACGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTGAAAATCGCGTTGCGATTTTC
* *
74805 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTGAAAATCGCGTTGCGATTTTC
74846 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTGAAAATCGCGTTGCGATTTTC
*
74887 CGTTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTGAAAATCGCGTTGCGATTTTC
* * * *
74928 CGTTTCGCGTTGCGATAGTCT-ATAGTTGTCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTGAAAATCG-CGTTGCGATTTTC
* *
74970 CAAATT-CGTTGCGATAGTCTTAAAA
1 C-ATTTCCGTTGCGATAGTCTGAAAA
74995 AAAAGATTTT
Statistics
Matches: 169, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
40 1 0.01
41 148 0.88
42 18 0.11
43 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
CATTTCCGTTGCGATAGTCTGAAAATCGCGTTGCGATTTTC
Found at i:74980 original size:123 final size:122
Alignment explanation
Indices: 74766--74987 Score: 347
Period size: 123 Copynumber: 1.8 Consensus size: 122
74756 TCGCGTTGCA
74766 TTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
1 TTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
*
74831 CGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCG
66 CGCGTTGCGATTTTCCAATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCG
*** * *
74889 TTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCTATAGT
1 TTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
*
74954 TGTCGTTGCGATTTTCCAAATT-CGTTGCGATAGT
66 CG-CGTTGCGATTTTCC-AATTCCGTTGCGATAGT
74988 CTTAAAAAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
123 73 0.81
124 14 0.16
125 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (122 bp):
TTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGT
CGCGTTGCGATTTTCCAATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCG
Found at i:75077 original size:6 final size:6
Alignment explanation
Indices: 75066--75109 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
75056 GACACGTATT
75066 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
75110 CGAGACGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:75580 original size:5 final size:5
Alignment explanation
Indices: 75570--75600 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
75560 CGCCGTCCGT
75570 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG C
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG C
75601 GGGTCGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.42, G:0.39, T:0.19
Consensus pattern (5 bp):
CTCGG
Found at i:75628 original size:6 final size:6
Alignment explanation
Indices: 75602--75661 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
75592 CGGCTCGGCG
75602 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
75647 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
75662 AATACGTGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.28
6 39 0.72
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:75824 original size:41 final size:41
Alignment explanation
Indices: 75779--76164 Score: 331
Period size: 41 Copynumber: 9.5 Consensus size: 41
75769 ACAACTGTAG
75779 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
75820 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
75861 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
** **
75901 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* ** ** * ** **
75943 A-AATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCA
* * ** * ** *
75984 A-AATCGCAACGCG-ACTGTAGACTATCGCAATGCGAAATGCA
1 ACTATCGCAACGCGAAATG--GAAAATCGCAACGCGATTTTCA
* * * * ***
76025 AC-A-AG-AATTTGCGATTATGG-AGATCGCGTTGCGA-TTTCA
1 ACTATCGCAA--CGCGA-AATGGAAAATCGCAACGCGATTTTCA
* *
76064 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
76105 ACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
76146 ACTATCGCAATGCGAAATG
1 ACTATCGCAACGCGAAATG
76165 CAACGTGAAT
Statistics
Matches: 288, Mismatches: 42, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
39 11 0.04
40 43 0.15
41 228 0.79
42 4 0.01
43 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:75929 original size:102 final size:102
Alignment explanation
Indices: 75823--76139 Score: 448
Period size: 102 Copynumber: 3.1 Consensus size: 102
75813 ATTTTCAACT
75823 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
75888 CAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
66 CAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
75925 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
* *
75990 CAACGCGACTGTAGACTATCGCAATGCGAAATGCAACA
66 CAACGCGACTGTAGACTATCGCAACGCGAAATGGAA-A
* * * ***
76028 A--G-AATTTGCGATTATGG-AGATCGCGTTGCGA-TTTCAACTATCGCAACGCGAAATGGAAAA
1 ATCGCAA--CGCGA-AATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
**
76088 TCGCAACGCGATCTCCA-ACTATCGCAACGCGAAATGGAAA
63 TCGCAACGCGA-CTGTAGACTATCGCAACGCGAAATGGAAA
*
76128 AACGCAACGCGA
1 ATCGCAACGCGA
76140 TTTTCAACTA
Statistics
Matches: 194, Mismatches: 13, Indels: 17
0.87 0.06 0.08
Matches are distributed among these distances:
100 4 0.02
101 65 0.34
102 117 0.60
103 8 0.04
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (102 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
CAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:76161 original size:142 final size:142
Alignment explanation
Indices: 75779--76201 Score: 543
Period size: 142 Copynumber: 3.0 Consensus size: 142
75769 ACAACTGTAG
75779 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
* * * * * *
75844 TCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-AATCGCAA--CGCGACTGTAGACTA
66 TCGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACAA--G-AATTTGCGA-TATGGA-GA
*
75906 TCGCAACGCGAAATGGA
126 TCGCAACGCGAAATGCA
*
75923 A-AATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
* *
75987 TCGCAACGCGACTGT-AGACTATCGCAATGCGAAATGCAACAAGAATTTGCGATTATGGAGATCG
66 TCGCAACGCGATTTTCA-ACTATCGCAATGCGAAATGCAACAAGAATTTGCGA-TATGGAGATCG
*** * *
76051 CGTTGCG-ATTTCA
129 CAACGCGAAATGCA
* *
76064 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
* **
76129 ACGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAATTTGCGATAGTGGAGATCGC
66 TCGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACAAGAATTTGCGATA-TGGAGATCGC
*
76194 AATGCGAA
130 AACGCGAA
76202 TTAGAGATCG
Statistics
Matches: 245, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
141 8 0.03
142 129 0.53
143 105 0.43
144 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (142 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
TCGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACAAGAATTTGCGATATGGAGATCGCA
ACGCGAAATGCA
Found at i:76168 original size:21 final size:21
Alignment explanation
Indices: 75779--76168 Score: 191
Period size: 20 Copynumber: 19.1 Consensus size: 21
75769 ACAACTGTAG
*
75779 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
75800 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
75820 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
75841 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
75861 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
75882 A-AATCGCAACGCG-ACTGTA
1 ACTATCGCAACGCGAAATGCA
*
75901 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* *
75923 A-AATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
75943 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
75963 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
75984 A-AATCGCAACGCG-ACTGTA
1 ACTATCGCAACGCGAAATGCA
*
76003 GACTATCGCAATGCGAAATGCA
1 -ACTATCGCAACGCGAAATGCA
* * * *
76025 AC-A-AG-AATTTGCGATTATG-G
1 ACTATCGCAA--CGCGA-AATGCA
* *** * *
76045 A-GATCGCGTTGCG-ATTTCA
1 ACTATCGCAACGCGAAATGCA
*
76064 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
76085 A-AATCGCAACGCGATCTCCA
1 ACTATCGCAACGCGAAATGCA
*
76105 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
76126 A-AAACGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
76146 ACTATCGCAATGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
76167 AC
1 AC
76169 GTGAATTTGC
Statistics
Matches: 267, Mismatches: 82, Indels: 40
0.69 0.21 0.10
Matches are distributed among these distances:
18 3 0.01
19 10 0.04
20 138 0.52
21 108 0.40
22 8 0.03
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:77281 original size:48 final size:48
Alignment explanation
Indices: 77210--77313 Score: 149
Period size: 48 Copynumber: 2.2 Consensus size: 48
77200 TGACTTTTAT
*
77210 TATTATATATAGAACAATTAATAACAGTGA-AGAAAATTTAGACATTAA
1 TATTATATACAGAACAATTAATAACAGTGACA-AAAATTTAGACATTAA
*
77258 TATTATATACAGAA-AGATTAATAACAGTGACAAAAATTTAGACGTTAA
1 TATTATATACAGAACA-ATTAATAACAGTGACAAAAATTTAGACATTAA
*
77306 TAGTATAT
1 TATTATAT
77314 TTATTAGTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 1 0.02
48 49 0.96
49 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (48 bp):
TATTATATACAGAACAATTAATAACAGTGACAAAAATTTAGACATTAA
Found at i:83231 original size:37 final size:37
Alignment explanation
Indices: 83178--83282 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
83168 CCTTTTCGTC
*
83178 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * * *
83215 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
83252 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
83283 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:83860 original size:18 final size:17
Alignment explanation
Indices: 83837--83946 Score: 59
Period size: 18 Copynumber: 6.2 Consensus size: 17
83827 TCTTTGCATT
83837 TTTATTATTACTATTATA
1 TTTATTATTA-TATTATA
*
83855 TTTATTATTATTTTTACTA
1 TTTATTATTA-TATTA-TA
*
83874 TTATATT-TTCCT-TT-TA
1 TT-TATTATT-ATATTATA
83890 TTCTACTTATTTATATTATA
1 TT-TA-TTA-TTATATTATA
* *
83910 TAGTA-TATT-TTTTATA
1 T-TTATTATTATATTATA
83926 TTTATTATTATTATTATA
1 TTTATTATTA-TATTATA
83944 TTT
1 TTT
83947 TTACTTTCTC
Statistics
Matches: 71, Mismatches: 9, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
15 2 0.03
16 17 0.24
17 4 0.06
18 28 0.39
19 11 0.15
20 9 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (17 bp):
TTTATTATTATATTATA
Found at i:83927 original size:27 final size:27
Alignment explanation
Indices: 83897--83948 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
83887 TTATTCTACT
83897 TATTTA-TATTATATAGTATATTTTTTA
1 TATTTATTATTAT-TAGTATATTTTTTA
*
83924 TATTTATTATTATTATTATATTTTT
1 TATTTATTATTATTAGTATATTTTT
83949 ACTTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TATTTATTATTATTAGTATATTTTTTA
Found at i:83988 original size:12 final size:11
Alignment explanation
Indices: 83958--84003 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
83948 TACTTTCTCT
*
83958 TTCTTTTATTA
1 TTCTTGTATTA
83969 TTCTTGTATTA
1 TTCTTGTATTA
83980 TTACTTGTATTA
1 TT-CTTGTATTA
*
83992 TT-TTATATTA
1 TTCTTGTATTA
84002 TT
1 TT
84004 TATTTTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 11 0.34
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:84582 original size:24 final size:23
Alignment explanation
Indices: 84528--84596 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
84518 TTATTCGTAC
*
84528 TTTATTATTATTATTT-TGTTTTA
1 TTTATT-TTATTATTTCTTTTTTA
*
84551 TTTATTTTCTT-TTTCTTTTTTA
1 TTTATTTTATTATTTCTTTTTTA
*
84573 TATATATTTTATTATTTGTTTTTT
1 T-T-TATTTTATTATTTCTTTTTT
84597 TTACTTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 3 0.08
22 11 0.29
23 7 0.18
24 8 0.21
25 9 0.24
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (23 bp):
TTTATTTTATTATTTCTTTTTTA
Found at i:85762 original size:19 final size:19
Alignment explanation
Indices: 85738--85774 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
85728 ACCTTACTAA
85738 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
85757 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
85775 ATCATCTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:89149 original size:16 final size:15
Alignment explanation
Indices: 89123--89169 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
89113 AGATCCAATC
89123 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
89138 AAGAAGCAAAAAAGAA
1 AAGAA-CAAAAAAGAA
89154 AA-AA-AAACAAAGAA
1 AAGAACAAA-AAAGAA
89168 AA
1 AA
89170 AAGAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 7 0.23
16 12 0.40
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:89155 original size:21 final size:20
Alignment explanation
Indices: 89131--89200 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 20
89121 TCAAGAACAA
89131 AAAAGAAAAGAAGCAAAAAAG
1 AAAA-AAAAGAAGCAAAAAAG
*
89152 AAAAAAAAACAAAG-AAAAAAG
1 -AAAAAAAA-GAAGCAAAAAAG
* *
89173 AGAAACAAGAA-CAAAAATA-
1 AAAAAAAAGAAGCAAAAA-AG
89192 AAAAAAAAG
1 AAAAAAAAG
89201 GGACAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 14 0.36
20 7 0.18
21 11 0.28
22 7 0.18
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (20 bp):
AAAAAAAAGAAGCAAAAAAG
Found at i:89176 original size:23 final size:22
Alignment explanation
Indices: 89145--89199 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
89135 GAAAAGAAGC
89145 AAAAAAGAAAAAAAAACAAAGA
1 AAAAAAGAAAAAAAAACAAAGA
* *
89167 AAAAAGAGAAACAAGAACAAA-A
1 AAAAA-AGAAAAAAAAACAAAGA
*
89189 ATAAAA-AAAAA
1 AAAAAAGAAAAA
89200 GGGACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 10 0.36
23 13 0.46
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAACAAAGA
Found at i:89210 original size:39 final size:37
Alignment explanation
Indices: 89126--89199 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
89116 TCCAATCAAG
* *
89126 AACAAAAAAGAAAAGAAGCAAAAAAGAAAAAAAAACA
1 AACAAAAAAGAAAACAAGAAAAAAAGAAAAAAAAACA
* *
89163 AAGAAAAAAGAGAAACAAGAACAAAAATAAAAAAAAA
1 AACAAAAAAGA-AAACAAGAA-AAAAAGAAAAAAAAA
89200 GGGACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 10 0.32
38 7 0.23
39 14 0.45
ACGTcount: A:0.81, C:0.07, G:0.11, T:0.01
Consensus pattern (37 bp):
AACAAAAAAGAAAACAAGAAAAAAAGAAAAAAAAACA
Found at i:90042 original size:22 final size:22
Alignment explanation
Indices: 89968--90044 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
89958 GCTACCCTAT
* *
89968 CAAACCGTTAAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
89990 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
90012 CAAAACTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
90034 CAAACCTTTGA
1 CAAACCTTTGA
90045 CCAAACATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:91002 original size:106 final size:106
Alignment explanation
Indices: 90850--92538 Score: 2413
Period size: 106 Copynumber: 16.0 Consensus size: 106
90840 GTGGCACACA
* * * *
90850 AGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
90915 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGCACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
90956 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91021 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTAC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * **
91062 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACGATTTATCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91127 CAGAGCTAATTTCAACTTCACAACGAATGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
91168 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTGCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91233 CAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
91274 AGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * *
91339 CAGAGCTAATTTCAACTTCACAGCGAATGATATTGGACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
**
91380 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTATCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91445 CAGAGCCAATTTCAACTTTACAACGAAGGATATTAGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
91486 AGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91551 CAGAGCCAATTTCAACTTCACAACGTAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
91592 AGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91657 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
91698 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
91763 TAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
91804 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * *
91869 TAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
91910 AGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
91975 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
92016 AGACAACGCAAGTTCAACTTTACAAGGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
92081 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
92122 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
** ** *
92187 CAGAGCCAATTTCAACTTCACAGTGTCGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
92228 AGACAACGCAAGTTCAACTTCACGGCAAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * *
92293 CATAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * *
92333 AAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AA-TT-TC-A-T
1 -AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* ** *
92392 TCAGAGCCAATTTTAACTTCACAGTGAAGGATATTGGACTCG
65 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* ** * * * **
92434 AGACAACACAAGTTCAACTTCAAAATGAAGGGA-CGACTGGTTGTCAACAAATAATTTCCCGGTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATT
* * * *
92498 CCAAAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
65 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
92539 AGAACAATGC
Statistics
Matches: 1426, Mismatches: 148, Indels: 18
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 74 0.05
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 3 0.00
106 1334 0.94
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:93323 original size:37 final size:37
Alignment explanation
Indices: 93269--93373 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
93259 CCTTTTCGTC
* *
93269 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* ** *
93306 TTGGTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
93343 CTACTATGATTTAAACTCCTAAATATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
93374 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:93875 original size:12 final size:11
Alignment explanation
Indices: 93854--93893 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
93844 TTAATTTTTA
93854 ATTATTCTTGT
1 ATTATTCTTGT
93865 ATTATTACTTGT
1 ATTATT-CTTGT
* *
93877 ATTATTTTTAT
1 ATTATTCTTGT
93888 ATTATT
1 ATTATT
93894 TATTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (11 bp):
ATTATTCTTGT
Found at i:94430 original size:33 final size:31
Alignment explanation
Indices: 94361--94432 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 31
94351 TCGTCATTTA
* *
94361 ATTTATTA-ATTTATATATATTTACTTTTTT
1 ATTTATTATATATATATATATTTACTTTGTT
94391 ATTTATTATATATATATATTATTGGTACTTTGTT
1 ATTTATTATATATATATA-TATT--TACTTTGTT
94425 A-TTATTAT
1 ATTTATTAT
94433 TTTGTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 8 0.22
31 8 0.22
32 4 0.11
33 7 0.19
34 9 0.25
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (31 bp):
ATTTATTATATATATATATATTTACTTTGTT
Found at i:94436 original size:14 final size:14
Alignment explanation
Indices: 94419--94490 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
94409 TTATTGGTAC
94419 TTTGTTATTA-TTAT
1 TTTGTT-TTATTTAT
94433 TTTGTTTTATTTAT
1 TTTGTTTTATTTAT
* *
94447 TTTCTTTATCTTTAT
1 TTTGTTT-TATTTAT
* *
94462 CTT-TTTTATATAT
1 TTTGTTTTATTTAT
*
94475 ATTT-TATTATTTAT
1 -TTTGTTTTATTTAT
94489 TT
1 TT
94491 ATTTTACTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
13 10 0.21
14 29 0.62
15 8 0.17
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTGTTTTATTTAT
Found at i:94454 original size:9 final size:9
Alignment explanation
Indices: 94423--94502 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
94413 TGGTACTTTG
94423 TTATTATTATT
1 TTATT-TTA-T
*
94434 TTGTTTTAT
1 TTATTTTAT
*
94443 TTATTTTCT
1 TTATTTTAT
94452 TTATCTTTAT
1 TTAT-TTTAT
94462 CTT-TTTTAT
1 -TTATTTTAT
94471 ATATATTTTA-
1 -T-TATTTTAT
94481 TTA-TTTAT
1 TTATTTTAT
*
94489 TTATTTTAC
1 TTATTTTAT
94498 TTATT
1 TTATT
94503 ATTTTATCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
7 4 0.07
8 5 0.09
9 28 0.49
10 9 0.16
11 11 0.19
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.72
Consensus pattern (9 bp):
TTATTTTAT
Found at i:94495 original size:16 final size:16
Alignment explanation
Indices: 94474--94506 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94464 TTTTTATATA
94474 TATTTTA-TTATTTATT
1 TATTTTACTTA-TTATT
94490 TATTTTACTTATTATT
1 TATTTTACTTATTATT
94506 T
1 T
94507 TATCTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTACTTATTATT
Found at i:95689 original size:83 final size:83
Alignment explanation
Indices: 95592--95926 Score: 308
Period size: 83 Copynumber: 4.1 Consensus size: 83
95582 GATCATGCGT
*
95592 CTTTCATTTCGGATGGGATAGAACACTATAACATGGCAGAGATTGTATGAATAATAATGGAAAAT
1 CTTTCATTTCGGATGGGATAGAACACTATAACATGGCAGAGATTGTATGAATAATAATGGAAAAC
*
95657 GCTTCCCCTGGAACGCTC
66 GCTTCCCCTGGAACGCAC
* * * * *
95675 TTTTCATTTTGGATGGGAT-GAAATACTATGACATGGTAGAGA-T-TA--AATAATAATGGAAAA
1 CTTTCATTTCGGATGGGATAG-AACACTATAACATGGCAGAGATTGTATGAATAATAATGGAAAA
* *
95735 TGCTTCCCCT-GAAGTGCAC
65 CGCTTCCCCTGGAA-CGCAC
* * * * * * * * *
95754 CTTTCATTTCAGATAGGATGGAACACTATGACATGACAGAGATTCTCTAAATAATAATGGAATAC
1 CTTTCATTTCGGATGGGATAGAACACTATAACATGGCAGAGATTGTATGAATAATAATGGAAAAC
* * *
95819 GTTTCCCTTGGAACGCGC
66 GCTTCCCCTGGAACGCAC
* * * * *
95837 CTTTCATTTCGGATGAGATAGAATACTATGAA-ATTGCAGAG-TCTGTTTGAAAAATAATGGAAA
1 CTTTCATTTCGGATGGGATAGAACACTAT-AACATGGCAGAGAT-TGTATGAATAATAATGGAAA
* * * *
95900 ACGCTTCCCTTAGAATGCGC
64 ACGCTTCCCCTGGAACGCAC
95920 CTTTCAT
1 CTTTCAT
95927 GTCATAGTGT
Statistics
Matches: 205, Mismatches: 37, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
78 3 0.01
79 61 0.30
80 2 0.01
81 3 0.01
82 3 0.01
83 129 0.63
84 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (83 bp):
CTTTCATTTCGGATGGGATAGAACACTATAACATGGCAGAGATTGTATGAATAATAATGGAAAAC
GCTTCCCCTGGAACGCAC
Found at i:96081 original size:83 final size:81
Alignment explanation
Indices: 95947--96251 Score: 306
Period size: 83 Copynumber: 3.7 Consensus size: 81
95937 TTAATTTCAT
* * * * * *
95947 ATGGAATGAAACACTATAACATGAAAGAGATTATCTGAATAACAATGGAAAACACTTCCCCTGGA
1 ATGGGATG-AACACTATGACATG-GAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGA
* *
96012 ACACACCTTTCATTTCGG
64 ACGCGCCTTTCATTTCGG
* * * *
96030 ATGGGATAGAACACTATGACATGGCATAGATTCTCTGAATAATAATAGAAAACACTTCCACTAAA
1 ATGGGAT-GAACACTATGACATGG-AGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGA
96095 ACGCGCC-TTCATTTCGG
64 ACGCGCCTTTCATTTCGG
* * * *
96112 ATGAGATGGCACACTATGACATGGTAGAGATTCTCTGAATAATAATGGAAAAATACTTTCCCTAG
1 ATGGGAT-GAACACTATGACATGG-AGAGATTCTCTGAATAATAATGG-AAAACACTTCCCCTAG
* **
96177 AATGCGCCTTTCATTTAAG
63 AACGCGCCTTTCATTTCGG
* * * * *
96196 ATAGGATGAAACACTATGACTTGGTAGATAGTCTTTGAATAATAATGGAAAACACT
1 ATGGGATG-AACACTATGACATGG-AGAGATTCTCTGAATAATAATGGAAAACACT
96252 ATGACATTGC
Statistics
Matches: 184, Mismatches: 33, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
82 52 0.28
83 84 0.46
84 48 0.26
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (81 bp):
ATGGGATGAACACTATGACATGGAGAGATTCTCTGAATAATAATGGAAAACACTTCCCCTAGAAC
GCGCCTTTCATTTCGG
Found at i:96103 original size:181 final size:181
Alignment explanation
Indices: 95775--96103 Score: 419
Period size: 181 Copynumber: 1.8 Consensus size: 181
95765 GATAGGATGG
* * * * * ** * * *
95775 AACACTATGACATGACAGAGATTCTCTAAATAATAATGGAATACGTTTCCCTTGGAACGCGCCTT
1 AACACTATAACATGAAAGAGATTATCTAAATAACAATGGAAAACACTTCCCCTGGAACACACCTT
* * * * * *
95840 TCATTTCGGATGAGATAGAATACTATGAAATTGCAGAGTCTGTTTGAAAAATAATGGAAAACGCT
66 TCATTTCGGATGAGATAGAACACTATGAAATGGCAGAGTCTCTCTGAAAAATAATAGAAAACACT
* *
95905 TCCCTTAGAATGCGCCTTTCATGTCATAGTGTTTAATTTCATATGGAATGA
131 TCCCTTAAAACGCGCCTTTCATGTCATAGTGTTTAATTTCATATGGAATGA
*
95956 AACACTATAACATGAAAGAGATTATCTGAATAACAATGGAAAACACTTCCCCTGGAACACACCTT
1 AACACTATAACATGAAAGAGATTATCTAAATAACAATGGAAAACACTTCCCCTGGAACACACCTT
* * * *
96021 TCATTTCGGATGGGATAGAACACTATGACATGGCATAGAT-TCTCTGAATAATAATAGAAAACAC
66 TCATTTCGGATGAGATAGAACACTATGAAATGGCAGAG-TCTCTCTGAAAAATAATAGAAAACAC
96085 TTCCAC-TAAAACGCGCCTT
130 TTCC-CTTAAAACGCGCCTT
96104 CATTTCGGAT
Statistics
Matches: 123, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
181 121 0.98
182 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (181 bp):
AACACTATAACATGAAAGAGATTATCTAAATAACAATGGAAAACACTTCCCCTGGAACACACCTT
TCATTTCGGATGAGATAGAACACTATGAAATGGCAGAGTCTCTCTGAAAAATAATAGAAAACACT
TCCCTTAAAACGCGCCTTTCATGTCATAGTGTTTAATTTCATATGGAATGA
Found at i:97271 original size:32 final size:32
Alignment explanation
Indices: 97235--97295 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
97225 CCTTAAACAA
* *
97235 TAAATAAAAGAATACATATGCACCTAAAATAG
1 TAAATAAAAGAATACATATACACATAAAATAG
*
97267 TAAATAAAAGCATACATATACACATAAAA
1 TAAATAAAAGAATACATATACACATAAAA
97296 CATACTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.59, C:0.13, G:0.07, T:0.21
Consensus pattern (32 bp):
TAAATAAAAGAATACATATACACATAAAATAG
Found at i:98164 original size:15 final size:15
Alignment explanation
Indices: 98140--98179 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
98130 TCGTCATCCC
*
98140 CATCCCCATCCTCCT
1 CATCCTCATCCTCCT
98155 CATCCTCATCCTCCT
1 CATCCTCATCCTCCT
*
98170 CATCGTCATC
1 CATCCTCATC
98180 ATCACTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.53, G:0.03, T:0.30
Consensus pattern (15 bp):
CATCCTCATCCTCCT
Found at i:100591 original size:27 final size:27
Alignment explanation
Indices: 100561--100612 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
100551 AGAATTTGGA
* *
100561 GGGAAATCGAGGTGGGAGGGGGAAGGT
1 GGGAAATCGAGGCGAGAGGGGGAAGGT
*
100588 GGGAAATTGAGGCGAGAGGGGGAAG
1 GGGAAATCGAGGCGAGAGGGGGAAG
100613 ATGTGCCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.58, T:0.10
Consensus pattern (27 bp):
GGGAAATCGAGGCGAGAGGGGGAAGGT
Found at i:102076 original size:2 final size:2
Alignment explanation
Indices: 102069--102098 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102059 TATTATTTTA
102069 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
102099 TCTAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102372 original size:21 final size:20
Alignment explanation
Indices: 102316--102374 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
102306 TGGCAAAATT
102316 TAATAAACTAAAAATTTAGAA
1 TAATAAA-TAAAAATTTAGAA
*
102337 TAGA-ATAA-AATAATTTGAGAA
1 TA-ATA-AATAAAAATTT-AGAA
102358 TAATAAATAAAAATTTA
1 TAATAAATAAAAATTTA
102375 ATATAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
20 11 0.35
21 17 0.55
22 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATAAATAAAAATTTAGAA
Found at i:102404 original size:2 final size:2
Alignment explanation
Indices: 102397--102421 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102387 AATAAAAATA
102397 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
102422 GCAAATTGAC
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:116093 original size:16 final size:16
Alignment explanation
Indices: 116059--116117 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
116049 GGGCCTACAA
116059 AAATAAAA--AATAA-
1 AAATAAAATTAATAAT
*
116072 AAATAAAATTATTAAT
1 AAATAAAATTAATAAT
116088 AAATAATAA-TAATAAT
1 AAATAA-AATTAATAAT
116104 -AATAAAATATAATA
1 AAATAAAAT-TAATA
116118 TAATTTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.21
14 2 0.05
15 9 0.24
16 17 0.45
17 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATTAATAAT
Found at i:116115 original size:22 final size:22
Alignment explanation
Indices: 116064--116121 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
116054 TACAAAAATA
* *
116064 AAAAATAAAAATAA-AATTATT
1 AAAAATAATAATAATAATTAAT
116085 AATAAATAATAATAATAA-TAAT
1 AA-AAATAATAATAATAATTAAT
116107 AAAATATAAT-ATAAT
1 AAAA-ATAATAATAAT
116122 TTTTCTGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 9 0.28
22 21 0.66
23 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATAATAATAATAATTAAT
Found at i:116497 original size:28 final size:28
Alignment explanation
Indices: 116457--116515 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
116447 AAGTTTGGTG
** *
116457 TTTCAAGAGAAACATTTTCAAGGGTTTT
1 TTTCAAGAGAAACAACTTCAAAGGTTTT
116485 TTTCAAGAGAAACAACTTCAAAGGTTTT
1 TTTCAAGAGAAACAACTTCAAAGGTTTT
116513 TTT
1 TTT
116516 GTGTTTCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTCAAGAGAAACAACTTCAAAGGTTTT
Found at i:116523 original size:34 final size:35
Alignment explanation
Indices: 116485--116567 Score: 123
Period size: 34 Copynumber: 2.3 Consensus size: 35
116475 CAAGGGTTTT
116485 TTTCAAGAGAAACAACTTCAAAG-GTTTTTTTGTG
1 TTTCAAGAGAAACAACTTCAAAGTGTTTTTTTGTG
* *
116519 TTTCAAGAGAAACAATTTCAAAGATTTTTTTTTTGTG
1 TTTCAAGAGAAACAACTTCAAAG--TGTTTTTTTGTG
116556 TTTCAAGAGAAA
1 TTTCAAGAGAAA
116568 TTGTCTCCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 22 0.50
37 22 0.50
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (35 bp):
TTTCAAGAGAAACAACTTCAAAGTGTTTTTTTGTG
Found at i:116994 original size:106 final size:106
Alignment explanation
Indices: 116810--118224 Score: 1979
Period size: 106 Copynumber: 13.4 Consensus size: 106
116800 GCATTGTTCC
* * * ** * * *
116810 GAGTACAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGAGA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
116874 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
116916 GAGTCCAATTTCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
116981 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
117022 GAGTCCAATATCCTTCGCTGTGAGGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
117081 TCAGTC-GCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
117123 G-GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAATTTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
117187 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
117228 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAGTTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
117293 CCAGCGGTCCCTTCGTCGTGAACTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
117334 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATT-GGAAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACA
* *
117398 ACCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCTTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
117440 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTTTTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTATTGACA
*
117505 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * ** * *
117547 GAGTCCAATATCCTTCATTGTGAAGTTGGAATTGGCTTTGAAATTGGGATGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
117612 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
117653 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCAGAAATTAGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
117718 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
117759 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
117824 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
117865 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
117930 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
117971 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
118036 CCAGTGGTCCCTTCATCGTGAAGTTGAACATGCGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
118077 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAAGTGGAAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTATTGACA
*
118141 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * *
118183 GAGTCCAATTTTCTTCGCTGCAAAGTTGAAATAGACTCTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
118225 TGAAATTGGA
Statistics
Matches: 1178, Mismatches: 115, Indels: 32
0.89 0.09 0.02
Matches are distributed among these distances:
100 79 0.07
101 5 0.00
102 5 0.00
104 5 0.00
105 12 0.01
106 969 0.82
107 103 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:123535 original size:16 final size:16
Alignment explanation
Indices: 123501--123559 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
123491 GGGCCTACAA
123501 AAATAAAA--AATAA-
1 AAATAAAATTAATAAT
*
123514 AAATAAAATTATTAAT
1 AAATAAAATTAATAAT
123530 AAATAATAA-TAATAAT
1 AAATAA-AATTAATAAT
123546 -AATAAAATATAATA
1 AAATAAAAT-TAATA
123560 TAATTTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.21
14 2 0.05
15 9 0.24
16 17 0.45
17 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATTAATAAT
Found at i:123557 original size:22 final size:22
Alignment explanation
Indices: 123506--123563 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
123496 TACAAAAATA
* *
123506 AAAAATAAAAATAA-AATTATT
1 AAAAATAATAATAATAATTAAT
123527 AATAAATAATAATAATAA-TAAT
1 AA-AAATAATAATAATAATTAAT
123549 AAAATATAAT-ATAAT
1 AAAA-ATAATAATAAT
123564 TTTTCTGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 9 0.28
22 21 0.66
23 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATAATAATAATAATTAAT
Found at i:124513 original size:23 final size:23
Alignment explanation
Indices: 124477--124522 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
124467 GTTTTAATCT
*
124477 TAAAATAATTTCAAGACGATTTTA
1 TAAAATAATTTCAA-ACCATTTTA
124501 TAAAAT-ATTTCAAACCATTTTA
1 TAAAATAATTTCAAACCATTTTA
124523 AAACCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 7 0.33
24 6 0.29
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
TAAAATAATTTCAAACCATTTTA
Found at i:125993 original size:31 final size:31
Alignment explanation
Indices: 125958--126075 Score: 116
Period size: 31 Copynumber: 3.8 Consensus size: 31
125948 GAGTCGAGGG
*
125958 TTACCTATGTCTTTCGAAATATATGGACAAT
1 TTACCTATGTCTTTCGAAACATATGGACAAT
* * **
125989 TTACCTATATCCTTCGGGACATATGGAC-AT
1 TTACCTATGTCTTTCGAAACATATGGACAAT
**
126019 GTTACCTATGT-TCTTCGAAACATATGGACAGG
1 -TTACCTATGTCT-TTCGAAACATATGGACAAT
*
126051 TTACCTATGT-TCTTCGGAACATATG
1 TTACCTATGTCT-TTCGAAACATATG
126076 ATAGGTCCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
30 2 0.03
31 70 0.97
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAAACATATGGACAAT
Found at i:126055 original size:62 final size:62
Alignment explanation
Indices: 125957--126075 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
125947 AGAGTCGAGG
* * *
125957 GTTACCTATGTCTTTCGAAATATATGGACAATTTACCTATATCCTTCGGGACATATGGACAT
1 GTTACCTATGTCTTTCGAAACATATGGACAAGTTACCTATATCCTTCGGAACATATGGACAT
* * *
126019 GTTACCTATGT-TCTTCGAAACATATGGACAGGTTACCTATGTTCTTCGGAACATATG
1 GTTACCTATGTCT-TTCGAAACATATGGACAAGTTACCTATATCCTTCGGAACATATG
126076 ATAGGTCCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 1 0.02
62 49 0.98
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (62 bp):
GTTACCTATGTCTTTCGAAACATATGGACAAGTTACCTATATCCTTCGGAACATATGGACAT
Found at i:131379 original size:54 final size:54
Alignment explanation
Indices: 131297--131400 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
131287 GAATTTACAA
131297 ATACACTATAGTGTGTACCGATAAACTTATAAAGGAAAATGGAAACAATCACTG
1 ATACACTATAGTGTGTACCGATAAACTTATAAAGGAAAATGGAAACAATCACTG
*
131351 ATACACTATAGTGTGTACCGATACACTTATAAAGGAAAATGGAAACAATC
1 ATACACTATAGTGTGTACCGATAAACTTATAAAGGAAAATGGAAACAATC
131401 TTTATTTTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.24
Consensus pattern (54 bp):
ATACACTATAGTGTGTACCGATAAACTTATAAAGGAAAATGGAAACAATCACTG
Found at i:132394 original size:31 final size:30
Alignment explanation
Indices: 132355--132444 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 30
132345 AGAGTCGAGG
132355 GTTACCTATG-TCTTTCGAGACATATGGACAA
1 GTTACCTATGTTC-TTCG-GACATATGGACAA
* * * *
132386 TTTACCTATGTTCTTCGGGATATATGGTCAG
1 GTTACCTATGTTCTTC-GGACATATGGACAA
132417 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTTCTTCGG-ACATATGGA
132445 TAGGTCATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 2 0.04
31 44 0.90
32 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTTCTTCGGACATATGGACAA
Found at i:134680 original size:65 final size:65
Alignment explanation
Indices: 134605--134735 Score: 174
Period size: 65 Copynumber: 2.0 Consensus size: 65
134595 ACCCATTTAA
* *
134605 AATGCATTTTGTGAACTGATGCACAAG-CCATGCATCGATGCACTCTTGAATATTTTGAAACATC
1 AATGCATTTTGTGAACCGATGCA-AAGACCATGCATCGATGCACTCCTGAATATTTTGAAACATC
134669 G
65 G
* * * ** *
134670 AATGCATTTTGTGTACCGATGTATAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCG
1 AATGCATTTTGTGAACCGATGCAAAGACCATGCATCGATGCACTCCTGAATATTTTGAAACATCG
134735 A
1 A
134736 GTGTAATTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 2 0.04
65 55 0.96
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (65 bp):
AATGCATTTTGTGAACCGATGCAAAGACCATGCATCGATGCACTCCTGAATATTTTGAAACATCG
Found at i:134749 original size:65 final size:65
Alignment explanation
Indices: 134632--134755 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 65
134622 GATGCACAAG
* * *
134632 CCATGCATCGATGCACTCTTGAATATTTTGAAACATCGAATGCATTTTGTGTACCGATGTATAGA
1 CCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTACCGATGTATAGA
** * * *
134697 CCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCGAGTGTAATTAGTGTACCGATG
1 CCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTACCGATG
134756 CACCCCTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (65 bp):
CCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTACCGATGTATAGA
Found at i:141507 original size:23 final size:21
Alignment explanation
Indices: 141455--141516 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
141445 TTTTGGTACA
*
141455 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
141475 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
141496 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
141517 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:141524 original size:21 final size:21
Alignment explanation
Indices: 141498--141537 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
141488 CCCCCTTTGA
*
141498 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
141519 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
141538 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:144338 original size:20 final size:20
Alignment explanation
Indices: 144313--144363 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
144303 CACTTAGGGA
144313 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
144333 ACCGATTCCCCATAGGGGGT
1 ACCGATTCCCCATAGGGGGT
144353 ACCGATTCCCC
1 ACCGATTCCCC
144364 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
ACCGATTCCCCATAGGGGGT
Found at i:150314 original size:23 final size:22
Alignment explanation
Indices: 150243--150314 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
150233 GAGAGTTTAC
*
150243 CGATGAATCCCTTGAATGTGCAT
1 CGATGCAT-CCTTGAATGTGCAT
* * * *
150266 CGATACA-ACATGAAGGTGCA-
1 CGATGCATCCTTGAATGTGCAT
150286 CTGATGCATTCCTTGAATGTGCAT
1 C-GATGCA-TCCTTGAATGTGCAT
150310 CGATG
1 CGATG
150315 TACTCTGCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
23 19 0.53
24 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTGCAT
Found at i:152379 original size:65 final size:65
Alignment explanation
Indices: 152270--152403 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 65
152260 ACCCATTTCA
* *
152270 AATGCATTTTGTGAATCGATGCACAAGCCATGCATCGATACACTCTTGAAT-ATTTTGAAACATC
1 AATGCATTTTGTGAACCGATGCACAAGCCATGCATCGATACACTCCTGAATCA-TTTGAAACATC
152334 G
65 G
* * * **
152335 AATGCATTTTGTGTACCGATGTAC-AGACCATGCATCGATGCACTCCTGGCTCATTTGAAACATC
1 AATGCATTTTGTGAACCGATGCACAAG-CCATGCATCGATACACTCCTGAATCATTTGAAACATC
152399 G
65 G
152400 AATG
1 AATG
152404 TAATTAGTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
65 57 0.95
66 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (65 bp):
AATGCATTTTGTGAACCGATGCACAAGCCATGCATCGATACACTCCTGAATCATTTGAAACATCG
Found at i:152414 original size:65 final size:65
Alignment explanation
Indices: 152297--152419 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
152287 GATGCACAAG
* * *
152297 CCATGCATCGATACACTCTTGAATATTTTGAAACATCGAATGCATTTTGTGTACCGATGTACAGA
1 CCATGCATCGATACACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTACCGATGTACAGA
* ** * *
152362 CCATGCATCGATGCACTCCTGGCTCA-TTTGAAACATCGAATGTAATTAGTGTATCGAT
1 CCATGCATCGATACACTCCTGAAT-ATTTTGAAACATCGAATGCAATTAGTGTACCGAT
152420 TCACCCTAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 48 0.98
66 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (65 bp):
CCATGCATCGATACACTCCTGAATATTTTGAAACATCGAATGCAATTAGTGTACCGATGTACAGA
Done.