Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_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: 3634043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 17
Found at i:704768 original size:20 final size:20
Alignment explanation
Indices: 704679--704751 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
704669 GCGATTCTCT
*
704679 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATATTCATTTTCG
* * *
704698 CATTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTTTCG
*
704718 CGTTGCGATATTCATATTCG
1 CGTTGCGATATTCATTTTCG
*
704738 CGTTGCGATTTTCA
1 CGTTGCGATATTCA
704752 CGTTGCGATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 11 0.25
20 33 0.75
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (20 bp):
CGTTGCGATATTCATTTTCG
Found at i:707410 original size:24 final size:24
Alignment explanation
Indices: 707359--707410 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
707349 ATCTGAGTAT
** *
707359 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
707383 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
707407 TGAC
1 TGAC
707411 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:708273 original size:20 final size:20
Alignment explanation
Indices: 708250--708302 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
708240 CGATAGTCAG
*
708250 AATCTCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
708270 AATCGCGTTGCGATTTACGT
1 AATCGCGTTGCGATTTACGT
*
708290 ATTCGCGTTGCGA
1 AATCGCGTTGCGA
708303 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
AATCGCGTTGCGATTTACGT
Found at i:708323 original size:21 final size:21
Alignment explanation
Indices: 708299--708344 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
708289 TATTCGCGTT
708299 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
708320 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
708341 GCGA
1 GCGA
708345 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:712935 original size:24 final size:24
Alignment explanation
Indices: 712891--712940 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
712881 ATAAAGAACC
*
712891 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
712915 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
712939 AA
1 AA
712941 TCAACCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:721584 original size:24 final size:24
Alignment explanation
Indices: 721557--721606 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
721547 ATAAAGAACC
*
721557 AAAATAAACTT-AAATATACCATTA
1 AAAATAAACTTCAAACA-ACCATTA
*
721581 AAAATAAAGTTCAAACAACCATTA
1 AAAATAAACTTCAAACAACCATTA
721605 AA
1 AA
721607 TCAACCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTCAAACAACCATTA
Found at i:728437 original size:21 final size:21
Alignment explanation
Indices: 728411--728458 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
728401 GTTTCCAGAT
728411 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
728432 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
728453 TCGCAA
1 TCGCAA
728459 TGAGATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:728529 original size:44 final size:40
Alignment explanation
Indices: 728466--728546 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 40
728456 CAATGAGATT
728466 TTCCAAATTCGTTGCGATAGTCCAAATTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAATT--CGTTGCGATTTA
*
728508 TTCCAAATTCGCGTTGCGATAGTCCAAGTTCGTTGCGAT
1 TTCCAAATT--CGTTGCGATAGTCCAAATTCGTTGCGAT
728547 AGTCGAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 18 0.50
44 18 0.50
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
TTCCAAATTCGTTGCGATAGTCCAAATTCGTTGCGATTTA
Found at i:728542 original size:42 final size:41
Alignment explanation
Indices: 728515--728676 Score: 263
Period size: 42 Copynumber: 3.9 Consensus size: 41
728505 TTATTCCAAA
*
728515 TTCGCGTTGCGA-TAGTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAG
*
728555 TTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
*
728597 TTCGCGTTGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAG
728639 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
1 TTCGCGTTGCGA-TTATTCCAAGTTCGTTGCGATAGTC
728677 CAAAATCGCA
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 11 0.10
42 104 0.90
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
TTCGCGTTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:728566 original size:63 final size:62
Alignment explanation
Indices: 728467--728679 Score: 229
Period size: 63 Copynumber: 3.4 Consensus size: 62
728457 AATGAGATTT
* * *
728467 TCCAAATTCGTTGCGATAGTCCAAATTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGC-TTGCGATTTATTCCAAGTTCGCGTTGCGATAG
*
728530 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAGTT--CGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGC-TTGCGATTTATTCCAAGTTCGCGTTGCGATAG
* * * * *
728591 TCGAAGTTCGCGTTGTGATTTATTCCAAGTTCG-TTGCGA--TAGTCGAAGTTCGCGTTGCGATT
1 TCCAAGTT--CGTTGCGA--TAGTCCAAGTTCGCTTGCGATTTATTCCAAGTTCGCGTTGCGA--
*
728653 TAT
60 TAG
728656 TCCAAGTTCGTTGCGATAGTCCAA
1 TCCAAGTTCGTTGCGATAGTCCAA
728680 AATCGCAACG
Statistics
Matches: 127, Mismatches: 15, Indels: 18
0.79 0.09 0.11
Matches are distributed among these distances:
61 34 0.27
63 73 0.57
65 20 0.16
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (62 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCTTGCGATTTATTCCAAGTTCGCGTTGCGATAG
Found at i:729442 original size:5 final size:5
Alignment explanation
Indices: 729428--729459 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
729418 CCGCCGCCGC
729428 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
729460 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:729467 original size:6 final size:6
Alignment explanation
Indices: 729456--729492 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
729446 TCGTCTCGTC
729456 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
729493 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:729615 original size:21 final size:21
Alignment explanation
Indices: 729589--729857 Score: 211
Period size: 21 Copynumber: 12.8 Consensus size: 21
729579 ATTTTGGACT
*
729589 ATCGCAACGAACTTAGAATAA
1 ATCGCAACGAACTTCGAATAA
*
729610 ATCGCAATGCGAACTTCGACT--
1 ATCGCAA--CGAACTTCGAATAA
*
729631 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTCGAATAA
*
729652 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTCGAATAA
*
729673 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTCGAATAA
* *
729694 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTCGAATAA
*
729715 ATCGCAATGAACTT-GAAATAA
1 ATCGCAACGAACTTCG-AATAA
*
729736 ATCGCAACACGAACTTCGACT--
1 ATCGC-A-ACGAACTTCGAATAA
* *
729757 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTCGAATAA
*
729778 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTCGAATAA
* *
729799 ATCGCAACGAACTTAGACT--
1 ATCGCAACGAACTTCGAATAA
*
729818 ATCGCAACGAA-TTTGTAATAA
1 ATCGCAACGAACTTCG-AATAA
729839 ATCGCAACGCGAACTTCGA
1 ATCGCAA--CGAACTTCGA
729858 CTATCGCAAA
Statistics
Matches: 203, Mismatches: 23, Indels: 42
0.76 0.09 0.16
Matches are distributed among these distances:
18 3 0.01
19 53 0.26
20 2 0.01
21 97 0.48
22 1 0.00
23 43 0.21
24 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTCGAATAA
Found at i:729662 original size:63 final size:62
Alignment explanation
Indices: 729589--729847 Score: 373
Period size: 63 Copynumber: 4.1 Consensus size: 62
729579 ATTTTGGACT
* *
729589 ATCGCAACGAACTTAGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
729652 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
* *
729715 ATCGCAATGAACTTGAAATAAATCGCAACACGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTG-AATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
* * *
729778 ATCGCAACGCGAACTTCGACT--ATCGCAA--CGAACTTAGACTATCGCAACGAATTTGTAATAA
1 ATCGCAA--CGAACTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
729839 ATCGCAACG
1 ATCGCAACG
729848 CGAACTTCGA
Statistics
Matches: 183, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
59 2 0.01
61 38 0.21
62 1 0.01
63 133 0.73
65 8 0.04
66 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (62 bp):
ATCGCAACGAACTTGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
Found at i:729954 original size:21 final size:19
Alignment explanation
Indices: 729582--729949 Score: 175
Period size: 21 Copynumber: 17.7 Consensus size: 19
729572 CGTTGCGATT
729582 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* *
729601 TTAGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
729624 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
729643 TTGGAATAAATCGCAACGAAC
1 TTGGACT--ATCGCAACGAAC
*
729664 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
729687 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* *
729706 TTGGAATAAATCGCAATGAAC
1 TTGGACT--ATCGCAACGAAC
* *
729727 TTGAAATAAATCGCAACACGAAC
1 TTGGACT--ATCGC-A-ACGAAC
* *
729750 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
729769 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
729792 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* *
729811 TTAGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* *
729830 TTGTAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* **
729853 TTCGACTATCGCAAATC-AGT
1 TTGGACTATCGC-AA-CGAAC
* *
729873 TTCCAGA-T-TCACAACGCGAAC
1 TT--GGACTATCGCAA--CGAAC
*
729894 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
*
729915 TTGGACTATTGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
729936 TTGGACTATCGCAA
1 TTGGACTATCGCAA
729950 TGCGATAGTC
Statistics
Matches: 276, Mismatches: 46, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
19 64 0.23
20 9 0.03
21 152 0.55
22 5 0.02
23 46 0.17
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:733567 original size:19 final size:19
Alignment explanation
Indices: 733543--733581 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
733533 GTAAAAAAAG
733543 AATAAAAAATAAT-AATAAA
1 AATAAAAAA-AATGAATAAA
*
733562 AATAAACAAAATGAATAAA
1 AATAAAAAAAATGAATAAA
733581 A
1 A
733582 TGTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
AATAAAAAAAATGAATAAA
Found at i:733769 original size:17 final size:18
Alignment explanation
Indices: 733749--733791 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
733739 AAAGATATAC
*
733749 ATAATATTAAG-AAAAAA
1 ATAATATAAAGTAAAAAA
* *
733766 ATAAAATAAAGTAAAAAT
1 ATAATATAAAGTAAAAAA
733784 ATAATATA
1 ATAATATA
733792 TATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATATAAAGTAAAAAA
Found at i:733794 original size:2 final size:2
Alignment explanation
Indices: 733782--733817 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
733772 TAAAGTAAAA
733782 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
733818 AATAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:733882 original size:39 final size:36
Alignment explanation
Indices: 733811--733896 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 36
733801 ATATATATAT
*
733811 ATATATAAATAAAAATAAAAATAGAATATTAAGAAA
1 ATATATATATAAAAATAAAAATAGAATATTAAGAAA
*
733847 ATATATATATAAAAACGTATAAAATATAATATTAAGAAA
1 ATATATATATAAAAA--TA-AAAATAGAATATTAAGAAA
*
733886 AAATATATATA
1 ATATATATATA
733897 CATAGCAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 14 0.32
38 2 0.05
39 28 0.64
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (36 bp):
ATATATATATAAAAATAAAAATAGAATATTAAGAAA
Found at i:733925 original size:2 final size:2
Alignment explanation
Indices: 733918--733961 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
733908 GAGAAAATTA
*
733918 AT AT AT AT AT AT AT AT AT AT AT AT A- AT GAT AT A- AG 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
733959 AT A
1 AT A
733962 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:733965 original size:14 final size:14
Alignment explanation
Indices: 733918--733984 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
733908 GAGAAAATTA
*
733918 ATATATATATATAT
1 ATATAAATATATAT
*
733932 ATATATATATA-AT
1 ATATAAATATATAT
733945 GATATAAGATATATAT
1 -ATATAA-ATATATAT
*
733961 A-ATAAAAATAATAT
1 ATATAAATAT-ATAT
733975 AATATAAATA
1 -ATATAAATA
733985 AAAAAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.11
14 24 0.55
15 7 0.16
16 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:733974 original size:25 final size:24
Alignment explanation
Indices: 733953--734009 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
733943 ATGATATAAG
*
733953 ATATATATAATAAAAA-TAATATAAT
1 ATATATATAAAAAAAATTAA-A-AAT
*
733978 ATAAATA-AAAAAAAATTAAAAAT
1 ATATATATAAAAAAAATTAAAAAT
734001 ATATATATA
1 ATATATATA
734010 GGAGACGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 9 0.33
24 9 0.33
25 9 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
ATATATATAAAAAAAATTAAAAAT
Found at i:736380 original size:67 final size:65
Alignment explanation
Indices: 736279--736582 Score: 225
Period size: 65 Copynumber: 4.5 Consensus size: 65
736269 ATTAAAACGA
* **
736279 TCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAA
1 TCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAA
736344 CTG
63 CTG
* *
736347 TCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTG
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTG
* * * * ** * *
736412 TCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTAT-TTCCA
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-ATTCAAAGA-TTTTGTTTCA
*
736475 AAAGAAACTG
56 AGAGAAACTG
** * *** * * * * * *
736485 TCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATCCAAATAATTTGTTTCAAGGGAAACTG
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTG
* *
736550 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
736583 CTATCTTAAG
Statistics
Matches: 188, Mismatches: 36, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
64 7 0.04
65 84 0.45
66 4 0.02
67 25 0.13
68 16 0.09
70 1 0.01
72 1 0.01
73 42 0.22
74 8 0.04
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (65 bp):
TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTG
Found at i:736430 original size:65 final size:67
Alignment explanation
Indices: 736249--736444 Score: 229
Period size: 65 Copynumber: 2.9 Consensus size: 67
736239 GGAAACGATC
** *
736249 TCAAAGATATTTGTTGTTTCATTA-AAAC-GATCTCAAGGGAAACAAAATTTTGTTTTAAGGGAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAA
736312 ATAAAT
62 ATAAAT
** *
736318 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
736383 AT
66 AT
* * * * *
736385 TCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
736445 CTGTCTCAAG
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
65 44 0.40
66 3 0.03
67 33 0.30
68 24 0.22
69 7 0.06
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAA
AT
Found at i:736445 original size:36 final size:36
Alignment explanation
Indices: 736393--736618 Score: 216
Period size: 36 Copynumber: 6.4 Consensus size: 36
736383 ATTCAAAGAT
736393 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
736429 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * ** * *
736465 CTTATTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 TTTGTTT-CAAGGGAAACTGTCTCAAGAGAGACGAAA
*** * *
736502 TTTGTTTCAAATAAAACATATC-C---A-A-A--TAA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAA
*
736531 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * *
736567 TTTGTTTCAAGGGAAACTATCTTAAGAGGGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*
736603 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
736619 TGTTTTCAAT
Statistics
Matches: 155, Mismatches: 25, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
28 3 0.02
29 17 0.11
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
36 97 0.63
37 33 0.21
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:736491 original size:138 final size:138
Alignment explanation
Indices: 736339--736610 Score: 373
Period size: 138 Copynumber: 2.0 Consensus size: 138
736329 GTGTTTCAAG
* ** * * * *
736339 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATCCAAAGAATTTGTTTCAAG
* *
736404 GGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
736469 TTTCCAAA
131 TTTCCAAA
** * * *
736477 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATCCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATCCAAAGAATTTGTTTCAAG
* * * * *
736542 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTTAAGAGGGACGAAATTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
736607 TTTC
131 TTTC
736611 AAGGGAAATG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATCCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
TTTCCAAA
Found at i:736648 original size:101 final size:101
Alignment explanation
Indices: 736427--736699 Score: 307
Period size: 102 Copynumber: 2.7 Consensus size: 101
736417 AGAGAGACGA
* * ** *
736427 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAAGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-CAAGGGAAACTATCTCAAG
* * *
736492 GGAGATGAAATTTGTTTCAAATAAAACATATCCAAAT
65 GGAGACGAAATTTATTTCAAAGAAAACATATCCAAAT
* *
736529 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTTAAGA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAG-
* * ** * *
736594 GG-GACGAAATTTATTTCAAGGGAAATGTTTTC-AAT
65 GGAGACGAAATTTATTTCAAAGAAAACATATCCAAAT
** * *
736629 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTATCTCAA
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAA
*
736694 GCGAGA
64 GGGAGA
736700 TAAAATCTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
100 5 0.03
101 68 0.47
102 71 0.49
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGG
GAGACGAAATTTATTTCAAAGAAAACATATCCAAAT
Found at i:736685 original size:37 final size:37
Alignment explanation
Indices: 736634--736705 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
736624 TCAATGTTTA
* *
736634 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAATTT
* *
736671 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAAT
736706 CTTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAATTT
Found at i:738406 original size:16 final size:17
Alignment explanation
Indices: 738381--738422 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
738371 GTTTTTTTAC
738381 TTTTTCTTTTCTCTTTG
1 TTTTTCTTTTCTCTTTG
738398 TTTTT-TTTTCTCTTT-
1 TTTTTCTTTTCTCTTTG
*
738413 TTTCTCTTTT
1 TTTTTCTTTT
738423 TGTTCTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTCTCTTTG
Found at i:738415 original size:9 final size:9
Alignment explanation
Indices: 738387--738423 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
738377 TTACTTTTTC
738387 TTTTCTCTT
1 TTTTCTCTT
*
738396 TGTT-T-TT
1 TTTTCTCTT
738403 TTTTCTCTT
1 TTTTCTCTT
738412 TTTTCTCTT
1 TTTTCTCTT
738421 TTT
1 TTT
738424 GTTCTGATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 5 0.21
8 2 0.08
9 17 0.71
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:738415 original size:25 final size:25
Alignment explanation
Indices: 738362--738421 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
738352 TTTTCTTCAA
738362 TTTTC-CTTTGTTTTTTTACTTTTTC
1 TTTTCTCTTTGTTTTTTTA-TTTTTC
738387 TTTTCTCTTTGTTTTTTT-TTCTCTT-
1 TTTTCTCTTTGTTTTTTTATT-T-TTC
738412 TTTTCTCTTT
1 TTTTCTCTTT
738422 TTGTTCTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.06
25 16 0.50
26 14 0.44
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (25 bp):
TTTTCTCTTTGTTTTTTTATTTTTC
Found at i:738424 original size:27 final size:27
Alignment explanation
Indices: 738367--738426 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
738357 TTCAATTTTC
*
738367 CTTTG-TTTTTTTACTTTTTCTTTTCT
1 CTTTGTTTTTTTTACTTTTTCTTCTCT
*
738393 CTTTGTTTTTTTTTCTCTTTT-TTCTCT
1 CTTTGTTTTTTTTACT-TTTTCTTCTCT
*
738420 TTTTGTT
1 CTTTGTT
738427 CTGATAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 20 0.69
28 4 0.14
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (27 bp):
CTTTGTTTTTTTTACTTTTTCTTCTCT
Found at i:741495 original size:11 final size:11
Alignment explanation
Indices: 741481--741513 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
741471 AAAACACGTA
741481 AAAAAAATAAT
1 AAAAAAATAAT
741492 AAAAAAATAAT
1 AAAAAAATAAT
741503 AATAAAAATAA
1 AA-AAAAATAA
741514 ACAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:741503 original size:14 final size:13
Alignment explanation
Indices: 741480--741510 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
741470 CAAAACACGT
741480 AAAAAAAATAATA
1 AAAAAAAATAATA
741493 AAAAAATAATAATA
1 AAAAAA-AATAATA
741507 AAAA
1 AAAA
741511 TAAACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAAATAATA
Found at i:741670 original size:36 final size:36
Alignment explanation
Indices: 741630--741723 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 36
741620 TAGTATTTAC
*
741630 TAAAACAAATAAAAATAATAAATATATAATATTAAG
1 TAAAACAAATAAAAATAATAAATACATAATATTAAG
* *
741666 TAAAACAAGTAAAAAATAA-AGATATACATGATATTAAG
1 TAAAACAAAT-AAAAATAATA-A-ATACATAATATTAAG
*
741704 -AAAA-AAATAAAAAAAATAAA
1 TAAAACAAATAAAAATAATAAA
741724 ATAAAGTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
34 1 0.02
35 8 0.16
36 14 0.29
37 13 0.27
38 13 0.27
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (36 bp):
TAAAACAAATAAAAATAATAAATACATAATATTAAG
Found at i:741773 original size:17 final size:16
Alignment explanation
Indices: 741710--741793 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
741700 TAAGAAAAAA
741710 ATAA-AAAAAATAAA-
1 ATAAGAAAAAATAAAT
*
741724 ATAAAGTAAAAATATAAT
1 AT-AAGAAAAAATA-AAT
* *
741742 AT-A-TATAAATAAAT
1 ATAAGAAAAAATAAAT
741756 A-AAGACAAAAATAGAAT
1 ATAAGA-AAAAATA-AAT
*
741773 ATTAAGAAAAAATATAT
1 A-TAAGAAAAAATAAAT
741790 ATAA
1 ATAA
741794 AAACGTATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
14 7 0.13
15 9 0.16
16 17 0.31
17 9 0.16
18 9 0.16
19 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (16 bp):
ATAAGAAAAAATAAAT
Found at i:741786 original size:30 final size:30
Alignment explanation
Indices: 741721--741786 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
741711 TAAAAAAAAT
* *
741721 AAAATAAAGTAAAAATATAATATATATAAA
1 AAAATAAAGCAAAAATAGAATATATATAAA
*
741751 TAAATAAAGACAAAAATAGAATAT-TA-AGAA
1 AAAATAAAG-CAAAAATAGAATATATATA-AA
741781 AAAATA
1 AAAATA
741787 TATATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 17 0.57
31 12 0.40
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAATAAAGCAAAAATAGAATATATATAAA
Found at i:741903 original size:14 final size:14
Alignment explanation
Indices: 741895--741945 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
741885 TATAAGATAT
741895 ATATAATAAAAATA
1 ATATAATAAAAATA
*
741909 ATATAATATAAATA
1 ATATAATAAAAATA
*
741923 A-ATAA-ATAAATA
1 ATATAATAAAAATA
741935 A-ATAAATAAAA
1 ATAT-AATAAAA
741946 GAGGAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 10 0.30
13 6 0.18
14 17 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:741912 original size:25 final size:25
Alignment explanation
Indices: 741866--741928 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
741856 ACATCTATAC
* *
741866 ATATATAT-ATATATAATGATATAAG
1 ATATATATAATA-AAAATAATATAAG
*
741891 ATATATATAATAAAAATAATATAAT
1 ATATATATAATAAAAATAATATAAG
*
741916 ATAAATA-AATAAA
1 ATATATATAATAAA
741929 TAAATAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 6 0.18
25 24 0.73
26 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (25 bp):
ATATATATAATAAAAATAATATAAG
Found at i:741979 original size:5 final size:4
Alignment explanation
Indices: 741904--741984 Score: 74
Period size: 4 Copynumber: 19.2 Consensus size: 4
741894 TATATAATAA
* * *
741904 AAAT AATAT AATAT AAAT AAAT AAAT AAAT AAAT AAAT AAA- AGAG GAAT
1 AAAT AA-AT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
741953 ATAGT AAAT AAAT AAAT AAATT AAATT AAAT A
1 A-AAT AAAT AAAT AAAT AAA-T AAA-T AAAT A
741985 TATATATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
3 2 0.03
4 43 0.65
5 21 0.32
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:742945 original size:24 final size:24
Alignment explanation
Indices: 742911--742965 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
742901 TTATTGTGAC
*
742911 ATGTCACGTCGGCAACCGTTAGTA
1 ATGTCATGTCGGCAACCGTTAGTA
742935 ATGTCATGTCGGCAACCGTTAGTA
1 ATGTCATGTCGGCAACCGTTAGTA
742959 ATGTCAT
1 ATGTCAT
742966 TATTTTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATGTCATGTCGGCAACCGTTAGTA
Found at i:743101 original size:20 final size:20
Alignment explanation
Indices: 743063--743102 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
743053 ATATAAAGGA
**
743063 ATCAATAAACAAATTTTTTT
1 ATCAATAAACAAAAGTTTTT
743083 ATCAATAAACAAAAGTTTTT
1 ATCAATAAACAAAAGTTTTT
743103 GATATCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (20 bp):
ATCAATAAACAAAAGTTTTT
Found at i:748340 original size:23 final size:23
Alignment explanation
Indices: 748297--748340 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
748287 ACTCAATATA
* *
748297 TAATTATAATTTAGTTGAAAATC
1 TAATTATAATTTACTTAAAAATC
*
748320 TAATTGTAATTTACTTAAAAA
1 TAATTATAATTTACTTAAAAA
748341 ACAATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (23 bp):
TAATTATAATTTACTTAAAAATC
Found at i:751717 original size:23 final size:23
Alignment explanation
Indices: 751686--751731 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
751676 ATATGCACTG
* *
751686 ATGTTGATGTATTGGTACACTCA
1 ATGTGGATGTATAGGTACACTCA
751709 ATGTGGATGTATAGGTACACTCA
1 ATGTGGATGTATAGGTACACTCA
751732 TACTAGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (23 bp):
ATGTGGATGTATAGGTACACTCA
Found at i:755126 original size:124 final size:125
Alignment explanation
Indices: 754922--755166 Score: 296
Period size: 124 Copynumber: 2.0 Consensus size: 125
754912 TCGATGTACA
* * * * * * *
754922 CAAAACTCATTGTAATTTCAATATATTCGTAGTGTACTGTTACTTGGTGCGTATCGGTACCATCG
1 CAAAACTCACTGCAATTACAATAAATTCATAGTGTACTGGTACCTGGTGCGTATCGGTACCATCG
754987 AAACACACCACAATTCCAC-GTAGTTTTTAGTATC-GATACACTATCCGTATCGATACGCC
66 AAACACACCACAATTCCACTGTAGTTTTTAGTATCAG-TACACTATCCGTATCGATACGCC
* * *
755046 CAAAACTCACTGCAATTACAATAAATTCATATTGTATTGGTACCTGGTGCTTATCGGTACCATCG
1 CAAAACTCACTGCAATTACAATAAATTCATAGTGTACTGGTACCTGGTGCGTATCGGTACCATCG
* ** * ** *
755111 AAACATATTATAATTCCACATTGTTTTTTTTAGTATCAGTACACTATCTGTATCGA
66 AAACACACCACAATTCCAC--TGTAGTTTTTAGTATCAGTACACTATCCGTATCGA
755167 ATTTAATATT
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
124 70 0.70
127 29 0.29
128 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (125 bp):
CAAAACTCACTGCAATTACAATAAATTCATAGTGTACTGGTACCTGGTGCGTATCGGTACCATCG
AAACACACCACAATTCCACTGTAGTTTTTAGTATCAGTACACTATCCGTATCGATACGCC
Found at i:755228 original size:39 final size:39
Alignment explanation
Indices: 755174--755251 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
755164 CGAATTTAAT
755174 ATTGTATCGGTACTTGGTAGGTATCAGAACATATTCAAA
1 ATTGTATCGGTACTTGGTAGGTATCAGAACATATTCAAA
755213 ATTGTATCGGTACTTGGTAGGTATCAGAACATATTCAAA
1 ATTGTATCGGTACTTGGTAGGTATCAGAACATATTCAAA
755252 TTTGAGGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (39 bp):
ATTGTATCGGTACTTGGTAGGTATCAGAACATATTCAAA
Found at i:759063 original size:23 final size:22
Alignment explanation
Indices: 759016--759064 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
759006 TTTAATTAAT
*
759016 ATTATATTTTAAATAAATTACA
1 ATTAGATTTTAAATAAATTACA
* *
759038 ATTAGATTTTGAACTAAATTATA
1 ATTAGATTTT-AAATAAATTACA
759061 ATTA
1 ATTA
759065 TATGGCCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTAGATTTTAAATAAATTACA
Found at i:763604 original size:43 final size:46
Alignment explanation
Indices: 763485--763610 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 46
763475 TATAAAATCT
** *
763485 CTTACCATTT-ATCCCATAAGCTCGCAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
763530 TTTACCATTTAAATTTCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT-AATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
763577 CTTGCCA-TT-A-TTCATAAGCTCATAAGCTTATTTT
1 CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTT
763611 CATACTTACC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 23 0.33
44 1 0.01
45 9 0.13
46 2 0.03
47 35 0.50
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (46 bp):
CTTACCATTTAATTTCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:764025 original size:21 final size:21
Alignment explanation
Indices: 764001--764042 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
763991 CATAATCAAT
764001 GCATTATAATTTCATACAGTG
1 GCATTATAATTTCATACAGTG
764022 GCATTATAATTTCATACAGTG
1 GCATTATAATTTCATACAGTG
764043 ACATCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
GCATTATAATTTCATACAGTG
Found at i:770695 original size:19 final size:19
Alignment explanation
Indices: 770671--770707 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
770661 GTTTGCTAAT
*
770671 AATGTATTTATGTATATAA
1 AATGTATGTATGTATATAA
*
770690 AATGTATGTCTGTATATA
1 AATGTATGTATGTATATA
770708 TTCTTTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (19 bp):
AATGTATGTATGTATATAA
Found at i:771570 original size:67 final size:67
Alignment explanation
Indices: 771461--771588 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
771451 TTTATTTCTG
* *
771461 ATACATTTGTATATCATTCATTTGTTTTTCTCGTCTTCTAAAATGATCAAAGACAACGTTGACGC
1 ATACATTTGTATATCATTCATTTGTTTTTATCGTCTTCTAAAATGATCAAAAACAACGTTGACGC
771526 AA
66 AA
* *
771528 ATACATTTGTATATCATTCATTTGTTTTTATCGTCTTTTAAAATGATCAAAAACAATGTTG
1 ATACATTTGTATATCATTCATTTGTTTTTATCGTCTTCTAAAATGATCAAAAACAACGTTG
771589 TCTTATGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (67 bp):
ATACATTTGTATATCATTCATTTGTTTTTATCGTCTTCTAAAATGATCAAAAACAACGTTGACGC
AA
Found at i:772556 original size:17 final size:18
Alignment explanation
Indices: 772525--772558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
772515 TATTTTAAGA
*
772525 ATTTTAAGGAGTAAGAAG
1 ATTTAAAGGAGTAAGAAG
772543 ATTTAAAGGA-TAAGAA
1 ATTTAAAGGAGTAAGAA
772559 AATTAATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (18 bp):
ATTTAAAGGAGTAAGAAG
Found at i:774395 original size:14 final size:14
Alignment explanation
Indices: 774376--774403 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
774366 ATCATAACAA
774376 AATTATATAACTAT
1 AATTATATAACTAT
774390 AATTATATAACTAT
1 AATTATATAACTAT
774404 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:777010 original size:46 final size:46
Alignment explanation
Indices: 776947--777072 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
776937 CTTTAAATGT
* * ** *
776947 ATGCGAACTAGAAATCATGTTGTTAGGTTTATTTTCTCGAACAAGC
1 ATGCGAATTAGATATCATGCGGTTAGGATTATTTTCTCGAACAAGC
776993 ATGCGAATTAGATATCATGCGGTTAGGATTATTTTCTCGAACAAGC
1 ATGCGAATTAGATATCATGCGGTTAGGATTATTTTCTCGAACAAGC
*
777039 ATGCGAATTAGATATCATACGGTTAGGATT-TTTT
1 ATGCGAATTAGATATCATGCGGTTAGGATTATTTT
777073 ATGAATAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.05
46 70 0.95
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (46 bp):
ATGCGAATTAGATATCATGCGGTTAGGATTATTTTCTCGAACAAGC
Found at i:777837 original size:13 final size:12
Alignment explanation
Indices: 777819--777859 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
777809 ATTAATACCT
777819 TTTGCATTTAGCA
1 TTTGCATTT-GCA
777832 TTTGCATTTGCA
1 TTTGCATTTGCA
777844 TTTAGCATTTGCA
1 TTT-GCATTTGCA
777857 TTT
1 TTT
777860 TCATGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:777840 original size:6 final size:6
Alignment explanation
Indices: 777819--777859 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
777809 ATTAATACCT
777819 TTTGCA TTTAGCA TTTGCA TTTGCA TTTAGCA TTTGCA TTT
1 TTTGCA TTT-GCA TTTGCA TTTGCA TTT-GCA TTTGCA TTT
777860 TCATGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 21 0.64
7 12 0.36
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
TTTGCA
Found at i:777843 original size:19 final size:19
Alignment explanation
Indices: 777819--777859 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
777809 ATTAATACCT
777819 TTTGCATTTAGCATTTGCA
1 TTTGCATTTAGCATTTGCA
777838 TTTGCATTTAGCATTTGCA
1 TTTGCATTTAGCATTTGCA
777857 TTT
1 TTT
777860 TCATGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (19 bp):
TTTGCATTTAGCATTTGCA
Found at i:783373 original size:20 final size:20
Alignment explanation
Indices: 783348--783386 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
783338 CTGTTACACA
783348 GGGGGGAATCGGTACCCTCT
1 GGGGGGAATCGGTACCCTCT
* *
783368 GGGGGGAATTGGTTCCCTC
1 GGGGGGAATCGGTACCCTC
783387 CGAGCATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCTCT
Found at i:784082 original size:15 final size:15
Alignment explanation
Indices: 784056--784103 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
784046 TTCAAACATC
*
784056 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
784072 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
784089 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
784104 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:786162 original size:20 final size:20
Alignment explanation
Indices: 786133--786170 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
786123 CCCCTTCAAA
*
786133 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
786153 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
786171 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:792354 original size:37 final size:37
Alignment explanation
Indices: 792303--792483 Score: 218
Period size: 37 Copynumber: 4.9 Consensus size: 37
792293 AGGAGATTGG
* *
792303 AGCAAAGTCAATCTTAAGCCTTCATCGAAGAGTAGCGA
1 AGCAAA-TCAATCTTAAGCCTTCACCGAAGAGTAGTGA
* **
792341 AGCAAATCAATCTTAATCCTTCACTAAAGAGTAGTGA
1 AGCAAATCAATCTTAAGCCTTCACCGAAGAGTAGTGA
* * *
792378 AGCAAGTCGATCTTAAGCCTTCACCAAAGAGTAGTGA
1 AGCAAATCAATCTTAAGCCTTCACCGAAGAGTAGTGA
* * *
792415 ATCAAATCTATCCTAAGCCTTCACCGAAGAGTAGTGA
1 AGCAAATCAATCTTAAGCCTTCACCGAAGAGTAGTGA
* * * *
792452 AGCAAATCCATTTTAAGCCTTCTCAGAAGAGT
1 AGCAAATCAATCTTAAGCCTTCACCGAAGAGT
792484 GTTGGAGCAA
Statistics
Matches: 123, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
37 117 0.95
38 6 0.05
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (37 bp):
AGCAAATCAATCTTAAGCCTTCACCGAAGAGTAGTGA
Found at i:793031 original size:55 final size:55
Alignment explanation
Indices: 792861--793792 Score: 1213
Period size: 55 Copynumber: 17.1 Consensus size: 55
792851 AAGCATTCAT
* *
792861 AAAGAGGGAGCGAACTCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* *
792916 AAAGAGGGAGCGAACCCGTTTTCAGATGATT-TTCGAGTTCTATACTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
** * *
792970 AAAGAGGGAGTTAACCTGTTAGCAGAAGATTGTTCGAGTTCTATACTCCCT-AGAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGA-AG
* *
793025 AAAGAGGGAGCAAACCCGTTAGCAGAAGATTGTTCGAGTTCTATACTCCCT-AGAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGA-AG
* * *
793080 AAAGAGGGAGCGAACCCATTTGTAGAAGATTGTTCGAGTTCTATACTCCTTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * *
793135 AAAGAGGGAGCGAACCCGGTTGCAGAAGATT-TTCGAGTTCTATATTCCTTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * * *
793189 AAAGAGGGAGTGAACCCGTTTTCAGATGATT-TTCGAGTTTTATACTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * *
793243 AAAGAGGGAGCGAACTCGGTTT-CAGAAGATTGTTCGAGTTCCATACTCCATGAAG
1 AAAGAGGGAGCGAAC-CCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* *
793298 AAAGAGGGAGCGAACCCATTTGC-GTAAGATTGTTCGAGTTCTATACTCCCTAAAG
1 AAAGAGGGAGCGAACCCGTTTGCAG-AAGATTGTTCGAGTTCTATACTCCCTGAAG
* * *
793353 AAAAAGGGAGCGAATCCGTTTGTAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * * *
793408 AAAGAGAGAGCGAACCCGGTTGCAGAAGATT-TTCGAGTTCTATATTCCTTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * * *
793462 AAATAGGGAGCGAACCCGTTTTCAGATGATT-TTCGAATTCTATACTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * * *
793516 AAAGAGGGAGTGAACTCGTTTGTAGAAGATTGTTCGAGTTCTATACTCCCTGAAA
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* *
793571 AAAGAGGGAGCGAACCCGTTAGCATAAGATTGTTCGAGTTCTATACTCCCT-AGAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGA-AG
* * * * * *
793626 AAAAAGAGAACGAACTCGTTTGTAGAAGATTGTTCGAGTTCTATCCTCCCTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
* * * *
793681 AAAGAGGGAGCTAACCCGGTTGCAGAAGATT-TTCGAGTTCTATATTCCTTGAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
** * * *
793735 AAAGAGGGAGTAAACCCGTTTTCAGAAGATTTTTCGAGTT-TCATACTCCCTAAAG
1 AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCT-ATACTCCCTGAAG
793790 AAA
1 AAA
793793 TGAGCGAACC
Statistics
Matches: 767, Mismatches: 97, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
54 286 0.37
55 478 0.62
56 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (55 bp):
AAAGAGGGAGCGAACCCGTTTGCAGAAGATTGTTCGAGTTCTATACTCCCTGAAG
Found at i:793380 original size:273 final size:271
Alignment explanation
Indices: 792861--793792 Score: 1431
Period size: 273 Copynumber: 3.4 Consensus size: 271
792851 AAGCATTCAT
* * * * *
792861 AAAGAGGGAGCGAACTCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAG
1 AAAGAGGGAGCGAACCCGGTTGCAGAAGATT-TTCGAGTTCTATATTCCTTGAAGAAAGAGGGAG
*
792926 CGAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTTAAC-CTGTT
65 CGAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTC-GTT
* *
792990 AGCAGAAGATTGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTAGCAG-AAG
129 -TCAGAAGATTGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTAGC-GTAAG
* *
793053 ATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGTAGAAGATTGTTCGAG
191 ATTGTTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAA-CCGTTTGTAGAAGATTGTTCGAG
*
793118 TTCTATACTCCTTGAAG
255 TTCTATACTCCCTGAAG
*
793135 AAAGAGGGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGT
1 AAAGAGGGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGC
* *
793200 GAACCCGTTTTCAGATGATTTTCGAGTTTTATACTCCCTGAAGAAAGAGGGAGCGAACTCGGTTT
66 GAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTC-GTTT
* * * *
793265 CAGAAGATTGTTCGAGTTCCATACTCCATGAAGAAAGAGGGAGCGAACCCATTTGCGTAAGATTG
130 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCGTAAGATTG
*
793330 TTCGAGTTCTATACTCCCTAAAGAAAAAGGGAGCGAATCCGTTTGTAGAAGATTGTTCGAGTTCT
195 TTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAA-CCGTTTGTAGAAGATTGTTCGAGTTCT
793395 ATACTCCCTGAAG
259 ATACTCCCTGAAG
* *
793408 AAAGAGAGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAATAGGGAGC
1 AAAGAGGGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGC
*
793473 GAACCCGTTTTCAGATGATTTTCGAATTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTTG
66 GAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTT-
* * *
793538 TAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTAGCATAAGATTG
130 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCGTAAGATTG
* *
793603 TTCGAGTTCTATACTCCCTAGAGAAAAAGAGAACGAACTCGTTTGTAGAAGATTGTTCGAGTTCT
195 TTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAAC-CGTTTGTAGAAGATTGTTCGAGTTCT
*
793668 ATCCTCCCTGAAG
259 ATACTCCCTGAAG
* *
793681 AAAGAGGGAGCTAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGT
1 AAAGAGGGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGC
* * *
793746 AAACCCGTTTTCAGAAGATTTTTCGAGTT-TCATACTCCCTAAAGAAA
66 GAACCCGTTTTCAGATGA-TTTTCGAGTTCT-ATACTCCCTGAAGAAA
793793 TGAGCGAACC
Statistics
Matches: 605, Mismatches: 46, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
272 6 0.01
273 542 0.90
274 57 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (271 bp):
AAAGAGGGAGCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGC
GAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACTCGTTTC
AGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTAGCGTAAGATTGT
TCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCGTTTGTAGAAGATTGTTCGAGTTCTAT
ACTCCCTGAAG
Found at i:793773 original size:219 final size:218
Alignment explanation
Indices: 792861--793785 Score: 1179
Period size: 219 Copynumber: 4.2 Consensus size: 218
792851 AAGCATTCAT
* *
792861 AAAGAGGGAGCGAACTCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAG
1 AAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAG
* * * ** * *
792926 CGAACCCGTTTTCAGATGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTTAACCTGTTA
66 CGAACCCGTTTGCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCGTTT
*
792991 GCAGAAGATTGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCAAACCC-GTTAGCAGAAGA
131 GCAGAAGATT-TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGGTT-GCAGAAGA
793054 TTGTTCGAGTTCTATACTCCCT-AGAG
193 TTGTTCGAGTTCTATACTCCCTGA-AG
* * *
793080 AAAGAGGGAGCGAACCCATTTGT-AGAAGATTGTTCGAGTTCTATACTCCTTGAAGAAAGAGGGA
1 AAAGAGGGAGCGAACCCGTTT-TCAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGA
* * * * *
793144 GCGAACCCGGTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAAGAGGGAGTGAACCCGTT
65 GCGAACCCGTTTGCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCGTT
* * * * *
793209 TTCAGATGATTTTCGAGTTTTATACTCCCTGAAGAAAGAGGGAGCGAACTCGGTTTCAGAAGATT
130 TGCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGGTTGCAGAAGATT
* *
793274 GTTCGAGTTCCATACTCCATGAAG
195 GTTCGAGTTCTATACTCCCTGAAG
* * *
793298 AAAGAGGGAGCGAACCCATTTGC-GTAAGATTGTTCGAGTTCTATACTCCCT-AAAGAAAAAGGG
1 AAAGAGGGAGCGAACCCGTTTTCAG-AAGATTGTTCGAGTTCTATACTCCCTGAAA-AAAGAGGG
* *
793361 AGCGAATCCGTTTGTAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCG
64 AGCGAACCCGTTTGCAGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCG
* * * * * * *
793426 GTTGCAGAAGATTTTCGAGTTCTATATTCCTTGAAGAAATAGGGAGCGAACCCGTTTTCAGATGA
128 TTTGCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGGTTGCAGAAGA
*
793491 TT-TTCGAATTCTATACTCCCTGAAG
193 TTGTTCGAGTTCTATACTCCCTGAAG
* *
793516 AAAGAGGGAGTGAACTCGTTTGT-AGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGA
1 AAAGAGGGAGCGAACCCGTTT-TCAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGA
* * * * *
793580 GCGAACCCGTTAGCATAAGATTGTTCGAGTTCTATACTCCCT-AGAGAAAAAGAGAACGAACTCG
65 GCGAACCCGTTTGCAGAAGATT-TTCGAGTTCTATACTCCCTGA-AGAAAGAGAGAGCGAACCCG
* * *
793644 TTTGTAGAAGATTGTTCGAGTTCTATCCTCCCTGAAGAAAGAGGGAGCTAACCCGGTTGCAGAAG
128 TTTGCAGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGGTTGCAGAAG
* *
793709 ATT-TTCGAGTTCTATATTCCTTGAAG
192 ATTGTTCGAGTTCTATACTCCCTGAAG
** *
793735 AAAGAGGGAGTAAACCCGTTTTCAGAAGATTTTTCGAGTT-TCATACTCCCT
1 AAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCT-ATACTCCCT
793786 AAAGAAATGA
Statistics
Matches: 620, Mismatches: 71, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
217 4 0.01
218 277 0.45
219 338 0.55
220 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (218 bp):
AAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAG
CGAACCCGTTTGCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCGTTT
GCAGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGGTTGCAGAAGATTG
TTCGAGTTCTATACTCCCTGAAG
Found at i:794036 original size:2 final size:2
Alignment explanation
Indices: 794029--794084 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
794019 TTGGATATTA
794029 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
794071 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
794085 TATGCAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:798352 original size:32 final size:32
Alignment explanation
Indices: 798306--798395 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
798296 ATCCAAATTG
*
798306 CTTTGGATCCTTGAACATTAGTTTCAATATTT
1 CTTTAGATCCTTGAACATTAGTTTCAATATTT
798338 CTTTAGATCCTTGAACATTAGTTTCAATATTT
1 CTTTAGATCCTTGAACATTAGTTTCAATATTT
*
798370 CTTTAGATCCTTAAACATTAGTTTCA
1 CTTTAGATCCTTGAACATTAGTTTCA
798396 GTGCCCCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.46
Consensus pattern (32 bp):
CTTTAGATCCTTGAACATTAGTTTCAATATTT
Found at i:798678 original size:20 final size:20
Alignment explanation
Indices: 798578--798695 Score: 60
Period size: 20 Copynumber: 5.7 Consensus size: 20
798568 CAAGCTTATC
*
798578 TTTC-AAATCAAAATTTTCTT
1 TTTCAAAATC-AAATTTTGTT
* *
798598 TTCCTAAATCAATGATTTTGATT
1 TTTCAAAATCAA--ATTTTG-TT
* * *
798621 TTTGAAAGCTCTAAATTTTTTT
1 TTTCAAA-ATC-AAATTTTGTT
* ***
798643 TTTCAAAGTTTCATTTTGTT
1 TTTCAAAATCAAATTTTGTT
*
798663 TTTCAAAATCAAATTTTG-C
1 TTTCAAAATCAAATTTTGTT
*
798682 TTTCAAAACCAAAT
1 TTTCAAAATCAAAT
798696 CATTTTCAAC
Statistics
Matches: 73, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
19 13 0.18
20 26 0.36
21 6 0.08
22 13 0.18
23 11 0.15
24 2 0.03
25 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTCAAAATCAAATTTTGTT
Found at i:800509 original size:21 final size:22
Alignment explanation
Indices: 800485--800525 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
800475 CTAGGACATG
* *
800485 GAGTATTGGTACTT-CTTTAAT
1 GAGTATCGATACTTCCTTTAAT
800506 GAGTATCGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
800526 TATTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:802163 original size:2 final size:2
Alignment explanation
Indices: 802156--802224 Score: 106
Period size: 2 Copynumber: 35.0 Consensus size: 2
802146 ATATTTATGA
*
802156 AT AT AT AT CGT AT -T AT A- 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
802197 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
802225 TATTGTTTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
1 2 0.03
2 59 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:803637 original size:22 final size:22
Alignment explanation
Indices: 803611--803655 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
803601 TTAATTTACT
**
803611 TTTAAATTATTATTATTATTTA
1 TTTAAATTAACATTATTATTTA
* *
803633 TTTAATTTAACATTTTTATTTA
1 TTTAAATTAACATTATTATTTA
803655 T
1 T
803656 GTATATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTAAATTAACATTATTATTTA
Found at i:803814 original size:11 final size:11
Alignment explanation
Indices: 803798--803823 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
803788 ATTTTATACA
803798 TTTTTATTTTT
1 TTTTTATTTTT
803809 TTTTTATTTTT
1 TTTTTATTTTT
803820 TTTT
1 TTTT
803824 CTTTTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:803967 original size:23 final size:24
Alignment explanation
Indices: 803941--804004 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
803931 TTTGCTTGTT
803941 TTATTTTATTTTTTATTAT-TTCA
1 TTATTTTATTTTTTATTATCTTCA
*
803964 TTATTTTATTTTATT-TTATCTTTA
1 TTATTTTATTTT-TTATTATCTTCA
803988 TTA-TTTATTTATTTATT
1 TTATTTTATTT-TTTATT
804005 TATATTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 25 0.69
24 11 0.31
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (24 bp):
TTATTTTATTTTTTATTATCTTCA
Found at i:803968 original size:8 final size:8
Alignment explanation
Indices: 803941--804018 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
803931 TTTGCTTGTT
803941 TTATTTTA
1 TTATTTTA
803949 TT-TTTTA
1 TTATTTTA
*
803956 TTATTTCA
1 TTATTTTA
803964 TTATTTTA
1 TTATTTTA
803972 TT-TTATT-
1 TTATT-TTA
803979 TTATCTTTA
1 TTAT-TTTA
803988 TTA-TTTA
1 TTATTTTA
803995 TT-TATTTA
1 TTAT-TTTA
804003 TTTATATTTA
1 -TTAT-TTTA
804013 -TATTTT
1 TTATTTT
804019 TATTTAATGT
Statistics
Matches: 59, Mismatches: 2, Indels: 19
0.74 0.03 0.24
Matches are distributed among these distances:
7 20 0.34
8 27 0.46
9 6 0.10
10 6 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:803993 original size:32 final size:31
Alignment explanation
Indices: 803939--804022 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 31
803929 ATTTTGCTTG
803939 TTTTATTTTATTTTTTATTATTTCA-TTATTTTA
1 TTTTATTTTA-TTTTTATTATTT-ATTTA-TTTA
*
803972 TTTTATTTTATCTTTATTATTTATTTATTTA
1 TTTTATTTTATTTTTATTATTTATTTATTTA
804003 TTTATATTTATATTTTTATT
1 TTT-TATTT-TATTTTTATT
804023 TAATGTGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 8 0.17
32 19 0.41
33 19 0.41
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTATTTTATTTTTATTATTTATTTATTTA
Found at i:804010 original size:18 final size:18
Alignment explanation
Indices: 803940--804037 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 18
803930 TTTTGCTTGT
803940 TTTATTT-TATTT-TTTA
1 TTTATTTATATTTATTTA
803956 -TTATTTCATTATTTTATTTTA
1 TTTATTT-A-TA-TTTA-TTTA
803977 TTTTATCTTTATTATTTATTTA
1 -TTTA--TTTA-TATTTATTTA
803999 TTTATTTATATTTATATT-
1 TTTATTTATATTTAT-TTA
* *
804017 TTTATTTA-ATGTGTTTA
1 TTTATTTATATTTATTTA
804034 TTTA
1 TTTA
804038 ATCTTTTTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
15 6 0.09
16 2 0.03
17 8 0.12
18 17 0.25
19 9 0.13
21 8 0.12
22 4 0.06
23 7 0.10
24 4 0.06
25 3 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTATTTATATTTATTTA
Found at i:804034 original size:31 final size:32
Alignment explanation
Indices: 803942--804037 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 32
803932 TTGCTTGTTT
*
803942 TATTTTATTTTTTATTATTTCAT-TATTTTATTT-
1 TATTTTA-TATTTATTATTT-ATGTA-TTTATTTA
* *
803975 TATTTTATCTTTATTATTTATTTATTTATTTA
1 TATTTTATATTTATTATTTATGTATTTATTTA
*
804007 TA-TTTATATTT-TTATTTAATGTGTTTATTTA
1 TATTTTATATTTATTATTT-ATGTATTTATTTA
804038 ATCTTTTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.11
31 28 0.50
32 15 0.27
33 7 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (32 bp):
TATTTTATATTTATTATTTATGTATTTATTTA
Found at i:804035 original size:43 final size:42
Alignment explanation
Indices: 803945--804037 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 42
803935 CTTGTTTTAT
* *
803945 TTTATTT-TTTATTATTTCATTATTTTATTTTATTTTATCTT
1 TTTATTTATTTATTATTTCATTATTTTATTTTATTTAATCTG
*
803986 TATTATTTATTTATTTATTT-A-TATTTATATTTTTATTTAATGTG
1 T-TTATTTATTTA-TTATTTCATTATTT-TA-TTTTATTTAATCTG
804030 TTTATTTA
1 TTTATTTA
804038 ATCTTTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
41 1 0.02
42 11 0.25
43 14 0.32
44 18 0.41
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (42 bp):
TTTATTTATTTATTATTTCATTATTTTATTTTATTTAATCTG
Found at i:804037 original size:4 final size:4
Alignment explanation
Indices: 803940--804024 Score: 51
Period size: 4 Copynumber: 22.0 Consensus size: 4
803930 TTTTGCTTGT
* *
803940 TTTA TTTTA TTT- TTTA -TTA TTTCA -TTA TTTTA TTTTA TTT- TATC
1 TTTA -TTTA TTTA TTTA TTTA TTT-A TTTA -TTTA -TTTA TTTA TTTA
803984 TTTA -TTA TTTA TTTA TTTA TTTA --TA TTTA TATT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
804025 ATGTGTTTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
2 2 0.03
3 14 0.21
4 35 0.53
5 15 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:804057 original size:22 final size:25
Alignment explanation
Indices: 804007--804058 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
803997 TATTTATTTA
* *
804007 TATTTATATTTTTATTTAATGTGTT
1 TATTTATATCTTTATTTAATGTGTC
804032 TATTTA-ATCTTT-TTT-ATGTGTC
1 TATTTATATCTTTATTTAATGTGTC
804054 TATTT
1 TATTT
804059 GTTTTTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 3 0.12
24 5 0.20
25 6 0.24
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (25 bp):
TATTTATATCTTTATTTAATGTGTC
Found at i:813548 original size:23 final size:23
Alignment explanation
Indices: 813522--813566 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
813512 CACCACAGCT
*
813522 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
813545 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
813567 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:815207 original size:21 final size:21
Alignment explanation
Indices: 815177--815220 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
815167 ATTCTGTCGT
* *
815177 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
815198 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
815219 TT
1 TT
815221 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:820183 original size:21 final size:21
Alignment explanation
Indices: 820153--820197 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
820143 ATTCTATCGT
* *
820153 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
820174 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
820195 TTG
1 TTG
820198 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:822364 original size:65 final size:65
Alignment explanation
Indices: 822260--822389 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 65
822250 GTGACACAAT
* * * *
822260 TTACTCGAGATTGGATTTTAAATTCACAACGAAGGATATCTAACTCAAAGCCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAAATTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAAC
* *
822325 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAAATTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAAC
822390 AATCCTTGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (65 bp):
TTACTCAAGATTGGATTTCAAATTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAAC
Found at i:822401 original size:13 final size:13
Alignment explanation
Indices: 822385--822412 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
822375 CCAATTTGGT
822385 GAAACAATCCTTG
1 GAAACAATCCTTG
822398 GAAACAATCCTTG
1 GAAACAATCCTTG
822411 GA
1 GA
822413 TTTTAACTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (13 bp):
GAAACAATCCTTG
Found at i:824579 original size:14 final size:13
Alignment explanation
Indices: 824549--824587 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
824539 CATATATGTA
*
824549 TATATATTTATTC
1 TATATTTTTATTC
*
824562 TATATTTTATATTT
1 TATATTTT-TATTC
824576 TATATTTTTATT
1 TATATTTTTATT
824588 ATTTTTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATTTTTATTC
Found at i:824756 original size:18 final size:18
Alignment explanation
Indices: 824733--824791 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
824723 TTGTTTCATT
824733 TTATTTATTTATTTTTTA
1 TTATTTATTTATTTTTTA
**
824751 TTATTTCGTTATTTTATT-
1 TTATTTATTTATTTT-TTA
824769 TTATTTTATCTTTATTTTTTA
1 TTA-TTTA--TTTATTTTTTA
824790 TT
1 TT
824792 TAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 16 0.50
19 5 0.16
20 2 0.06
21 9 0.28
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTATTTATTTTTTA
Found at i:824756 original size:23 final size:23
Alignment explanation
Indices: 824699--824792 Score: 63
Period size: 23 Copynumber: 4.1 Consensus size: 23
824689 TTCTTCCCTT
* *
824699 TTTTATTTT-GTTTATTCATTT-
1 TTTTATTTTATTTTATTTATTTA
* *
824720 TTCTTGTTTCATTTTATTTATTTA
1 TT-TTATTTTATTTTATTTATTTA
**
824744 TTTT-TTATTA-TTTCGTTATTTTA
1 TTTTATT-TTATTTTATTTA-TTTA
824767 TTTTATTTTATCTTTATTT-TTTA
1 TTTTATTTTAT-TTTATTTATTTA
824790 TTT
1 TTT
824793 AAATTTTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.04
22 13 0.23
23 32 0.57
24 4 0.07
25 5 0.09
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTATTTTATTTTATTTATTTA
Found at i:824792 original size:18 final size:18
Alignment explanation
Indices: 824740--824792 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
824730 ATTTTATTTA
824740 TTTATTTTTTATTATTTCG
1 TTTATTTTTTATT-TTTCG
*
824759 TTATTTTATTTTATTTTATC-
1 TT-TATT-TTTTATTTT-TCG
824779 TTTATTTTTTATTT
1 TTTATTTTTTATTT
824793 AAATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 7 0.24
21 9 0.31
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTATTTTTTATTTTTCG
Found at i:824819 original size:13 final size:12
Alignment explanation
Indices: 824762--824827 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 12
824752 TATTTCGTTA
*
824762 TTTTATTTTATT
1 TTTTATTTAATT
* *
824774 TTATCTTT-ATT
1 TTTTATTTAATT
824785 TTTTATTTAAATT
1 TTTTATTT-AATT
824798 TTTTATTTAATT
1 TTTTATTTAATT
*
824810 TGTTTGTTTAATCT
1 T-TTTATTTAAT-T
824824 TTTT
1 TTTT
824828 TATGTGTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.20
12 11 0.24
13 23 0.51
14 2 0.04
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTTAATT
Found at i:827842 original size:20 final size:19
Alignment explanation
Indices: 827799--827866 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
827789 GATTACTCAA
* * *
827799 TTAATTAATAAATTTTTATT
1 TTAA-TAATATATATTTAAT
827819 TTAATAATATATTAGTTTAA-
1 TTAATAATATA-TA-TTTAAT
827839 TTAATAA-A-ATATTTAAT
1 TTAATAATATATATTTAAT
827856 TTAATAATATA
1 TTAATAATATA
827867 AATAAAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 5 0.12
17 9 0.22
18 2 0.05
19 8 0.20
20 12 0.30
21 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
TTAATAATATATATTTAAT
Found at i:828001 original size:18 final size:20
Alignment explanation
Indices: 827964--828003 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
827954 CACAGAATGT
*
827964 AAGATTATCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
827984 AAGATTACCA-TG-GAATAA
1 AAGATTACCAGTGAGAATAA
828002 AA
1 AA
828004 TTATTGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:828834 original size:27 final size:21
Alignment explanation
Indices: 828767--828856 Score: 126
Period size: 21 Copynumber: 4.3 Consensus size: 21
828757 ATTTAACACC
* *
828767 TTTAGTATCTAAATTATTAAT
1 TTTAGTACCTAAACTATTAAT
828788 TTTAGTACCTAAACTATTAAT
1 TTTAGTACCTAAACTATTAAT
*
828809 TTTAGTACCTAAACTATTAGT
1 TTTAGTACCTAAACTATTAAT
* * *
828830 TTTAATACCTAAACTATCATT
1 TTTAGTACCTAAACTATTAAT
828851 TTTAGT
1 TTTAGT
828857 CCGTTTTAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATTAAT
Found at i:834060 original size:2 final size:2
Alignment explanation
Indices: 834053--834098 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
834043 CCAACTGGTC
834053 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
834095 AT AT
1 AT AT
834099 TAGGTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835856 original size:5 final size:6
Alignment explanation
Indices: 835841--835865 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
835831 TCCAAATTCT
835841 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
835866 AAATTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:841666 original size:21 final size:21
Alignment explanation
Indices: 841641--841762 Score: 95
Period size: 21 Copynumber: 5.6 Consensus size: 21
841631 GTAATTTGCA
*
841641 CCGAAGTACCACATAATTGTC
1 CCGAAGGACCACATAATTGTC
*
841662 CCGAAGGACCACATAATTTTGTA
1 CCGAAGGACCACATAA--TTGTC
* * *
841685 CTGAAGTACCACATAGGGTTG-C
1 CCGAAGGACCACATA--ATTGTC
* *
841707 ATCGAAGTG-CCACATATTTGTC
1 -CCGAAG-GACCACATAATTGTC
*
841729 CCGAAGGATCACATAATTGTC
1 CCGAAGGACCACATAATTGTC
*
841750 TCGAAGGACCACA
1 CCGAAGGACCACA
841763 GAAACCCTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
20 1 0.01
21 45 0.58
22 1 0.01
23 31 0.40
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (21 bp):
CCGAAGGACCACATAATTGTC
Found at i:842414 original size:54 final size:54
Alignment explanation
Indices: 842332--842472 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
842322 ATTTCTCTTC
* * * *
842332 AGGGTATCGATACCTCCTCATGGTACCGATATCGATATAACATTCGATGTTTCA
1 AGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCAATGTTTCA
** * *
842386 AGGGTATCGATACCTCCTCAAGGTACCGATACCAATATGGCATTCAATTTTTTA
1 AGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCAATGTTTCA
*
842440 AGGGTATCGATACCATCCTTC-AGGTATCGATAC
1 AGGGTATCGATACC-TCC-TCAAGGTACCGATAC
842473 TACCCTTACA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
54 60 0.79
55 14 0.18
56 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (54 bp):
AGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCAATGTTTCA
Found at i:842479 original size:20 final size:21
Alignment explanation
Indices: 842442--842521 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
842432 ATTTTTTAAG
* *
842442 GGTATCGATACCATCCTT-CA
1 GGTATCGATACTACCCTTACA
842462 GGTATCGATACTACCCTTACA
1 GGTATCGATACTACCCTTACA
* *
842483 -ATATCGATAC-A-TCTTCAACA
1 GGTATCGATACTACCCTT--ACA
842503 GGTATCGATACTACCCTTA
1 GGTATCGATACTACCCTTA
842522 ATAAGTTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 28 0.58
21 12 0.25
22 1 0.02
23 3 0.06
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
GGTATCGATACTACCCTTACA
Found at i:843844 original size:17 final size:17
Alignment explanation
Indices: 843822--843862 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
843812 TTATGCTGAA
843822 TCACTTGAACCTTTTCT
1 TCACTTGAACCTTTTCT
843839 TCACTTGAACCTTTTCT
1 TCACTTGAACCTTTTCT
843856 TCTACTT
1 TC-ACTT
843863 CCTTAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.49
Consensus pattern (17 bp):
TCACTTGAACCTTTTCT
Found at i:848656 original size:21 final size:22
Alignment explanation
Indices: 848631--848755 Score: 102
Period size: 21 Copynumber: 5.8 Consensus size: 22
848621 GTAATTTGCA
848631 CCGAAGTG-CCACATAATTGTC
1 CCGAAGTGACCACATAATTGTC
* *
848652 CCGAAG-GACCACATAGTTTTGC
1 CCGAAGTGACCACATAATTGT-C
848674 ACCGAAGTG-CCACATAAGGTTG-C
1 -CCGAAGTGACCACATAA--TTGTC
* *
848697 ACCGAAATG-CCACATATTTGTC
1 -CCGAAGTGACCACATAATTGTC
* *
848719 CCAAAG-GACCATATAATTGTC
1 CCGAAGTGACCACATAATTGTC
848740 CCGAA-TGACCACATAA
1 CCGAAGTGACCACATAA
848756 ACCATTGACT
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.02
21 47 0.57
22 2 0.02
23 29 0.35
24 1 0.01
25 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (22 bp):
CCGAAGTGACCACATAATTGTC
Found at i:848686 original size:23 final size:23
Alignment explanation
Indices: 848625--848712 Score: 94
Period size: 23 Copynumber: 3.9 Consensus size: 23
848615 CAGCTTGTAA
*
848625 TTTGCACCGAAGTGCCACATAAT
1 TTTGCACCGAAGTGCCACATAGT
*
848648 TGT-C-CCGAAG-GACCACATAGT
1 TTTGCACCGAAGTG-CCACATAGT
848669 TTTGCACCGAAGTGCCACATAAG-
1 TTTGCACCGAAGTGCCACAT-AGT
* *
848692 GTTGCACCGAAATGCCACATA
1 TTTGCACCGAAGTGCCACATA
848713 TTTGTCCCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.29
22 3 0.05
23 32 0.58
24 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGT
Found at i:849976 original size:19 final size:19
Alignment explanation
Indices: 849952--850001 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
849942 TAACCTAGTA
*
849952 CATCGGTACACTTGGGGTG
1 CATCGGTACACTTCGGGTG
849971 CATCGGTACACTTCGGGTG
1 CATCGGTACACTTCGGGTG
849990 CATCGGTACACT
1 CATCGGTACACT
850002 AATTACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (19 bp):
CATCGGTACACTTCGGGTG
Found at i:858798 original size:11 final size:12
Alignment explanation
Indices: 858762--858791 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
858752 TTATAAACTT
858762 GATTTTTGGCTC
1 GATTTTTGGCTC
858774 GATTTTTGGCTC
1 GATTTTTGGCTC
858786 GATTTT
1 GATTTT
858792 GGTTCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.53
Consensus pattern (12 bp):
GATTTTTGGCTC
Found at i:859153 original size:54 final size:54
Alignment explanation
Indices: 859070--859214 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
859060 GATACTTCCC
* * *
859070 TTCAAGGGTATCGATACCTCCTCATGGTACCGATACCGATATAACATTCTATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCGATGT
*
859124 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATGACATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCGATGT
* *
859178 TTTAAGGGTATCGATACCATCCTTC-AGGTATCGATAC
1 TTCAAGGGTATCGATACC-TCC-TCAAGGTACCGATAC
859215 TACCCTTACA
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
54 67 0.81
55 14 0.17
56 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATATAACATTCGATGT
Found at i:859209 original size:20 final size:21
Alignment explanation
Indices: 859184--859235 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
859174 ATGTTTTAAG
*
859184 GGTATCGATACCATCCTT-CA
1 GGTATCGATACCACCCTTACA
*
859204 GGTATCGATACTACCCTTACA
1 GGTATCGATACCACCCTTACA
859225 -GTATCGATACC
1 GGTATCGATACC
859236 TCTTCAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCACCCTTACA
Found at i:861738 original size:13 final size:13
Alignment explanation
Indices: 861720--861745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
861710 TAAAACCACA
861720 AAATATGAAATTT
1 AAATATGAAATTT
861733 AAATATGAAATTT
1 AAATATGAAATTT
861746 TTATCACATT
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATATGAAATTT
Found at i:878776 original size:19 final size:20
Alignment explanation
Indices: 878752--878796 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
878742 TCGTTTACAA
*
878752 TTTTTTG-AATTTTTGGCTT
1 TTTTTTGTAATTTTTGCCTT
**
878771 TTTTTTGTGTTTTTTGCCTT
1 TTTTTTGTAATTTTTGCCTT
878791 TTTTTT
1 TTTTTT
878797 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.04, C:0.07, G:0.13, T:0.76
Consensus pattern (20 bp):
TTTTTTGTAATTTTTGCCTT
Found at i:878800 original size:19 final size:20
Alignment explanation
Indices: 878761--878804 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
878751 ATTTTTTGAA
*
878761 TTTTTGGCTTTTTTTTGTGT
1 TTTTTGCCTTTTTTTTGTGT
878781 TTTTTGCCTTTTTTTT-TGT
1 TTTTTGCCTTTTTTTTGTGT
878800 TTTTT
1 TTTTT
878805 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.80
Consensus pattern (20 bp):
TTTTTGCCTTTTTTTTGTGT
Found at i:878814 original size:9 final size:9
Alignment explanation
Indices: 878769--878815 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
878759 AATTTTTGGC
878769 TTTTTTTTG
1 TTTTTTTTG
*
878778 TGTTTTTTG
1 TTTTTTTTG
878787 CCTTTTTTTTTG
1 ---TTTTTTTTG
878799 TTTTTTTTG
1 TTTTTTTTG
878808 TTTTTTTT
1 TTTTTTTT
878816 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 25 0.76
12 8 0.24
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:878817 original size:21 final size:21
Alignment explanation
Indices: 878761--878817 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
878751 ATTTTTTGAA
*
878761 TTTTTGGC-TTTTTTTTGTGT
1 TTTTTGCCTTTTTTTTTGTGT
*
878781 TTTTTGCCTTTTTTTTTGTTT
1 TTTTTGCCTTTTTTTTTGTGT
*
878802 TTTTTG-TTTTTTTTTT
1 TTTTTGCCTTTTTTTTT
878818 AAAAAATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.82
Consensus pattern (21 bp):
TTTTTGCCTTTTTTTTTGTGT
Found at i:879676 original size:201 final size:201
Alignment explanation
Indices: 879321--879712 Score: 730
Period size: 201 Copynumber: 2.0 Consensus size: 201
879311 CCAAGTCGCA
879321 ATGATACCAACACATAAAATAAACTCTAAGAACCCTACTTGCTACCGCCACCTTCCCCTATTCGT
1 ATGATACCAACACATAAAATAAACTCTAAGAACCCTACTTGCTACCGCCACCTTCCCCTATTCGT
*
879386 TCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGGTTTGATTCTTCAACAAGAGCAACGTTCAT
66 TCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGATTTGATTCTTCAACAAGAGCAACGTTCAT
*
879451 TAACCCGCCACCGCTTCCCTATCAATTGGTTTCAGATTTAAGCCGATTCTTGGAGAGAAACTCGT
131 TAACCCGCCACCGCTTCCCTATCAATTGGTATCAGATTTAAGCCGATTCTTGGAGAGAAACTCGT
879516 GTTGTC
196 GTTGTC
* *
879522 ATGATTCCAGCACATAAAATAAACTCTAAGAACCCTACTTGCTACCGCCACCTTCCCCTATTCGT
1 ATGATACCAACACATAAAATAAACTCTAAGAACCCTACTTGCTACCGCCACCTTCCCCTATTCGT
879587 TCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGATTTGATTCTTCAACAAGAGCAACGTTCAT
66 TCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGATTTGATTCTTCAACAAGAGCAACGTTCAT
**
879652 TAACCCGCCACCGCTTCCCTATCAATTGGTATCAGATTTGGGCCGATTCTTGGAGAGAAAC
131 TAACCCGCCACCGCTTCCCTATCAATTGGTATCAGATTTAAGCCGATTCTTGGAGAGAAAC
879713 AAGCAATCTT
Statistics
Matches: 185, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
201 185 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (201 bp):
ATGATACCAACACATAAAATAAACTCTAAGAACCCTACTTGCTACCGCCACCTTCCCCTATTCGT
TCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGATTTGATTCTTCAACAAGAGCAACGTTCAT
TAACCCGCCACCGCTTCCCTATCAATTGGTATCAGATTTAAGCCGATTCTTGGAGAGAAACTCGT
GTTGTC
Found at i:879868 original size:10 final size:10
Alignment explanation
Indices: 879853--879914 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
879843 CTATTTTTTA
879853 AAAAAAAAAC
1 AAAAAAAAAC
**
879863 AAAAAAAAGGT
1 AAAAAAAA-AC
*
879874 AAAAAAAAAGGT
1 AAAAAAAAA--C
**
879886 AAAAAAAGGC
1 AAAAAAAAAC
879896 AAAAAAAAAC
1 AAAAAAAAAC
879906 AAAAAAAAA
1 AAAAAAAAA
879915 AGCCAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 25 0.61
11 8 0.20
12 8 0.20
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:879878 original size:12 final size:12
Alignment explanation
Indices: 879863--879904 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
879853 AAAAAAAAAC
879863 AAAAAAAAGGTA
1 AAAAAAAAGGTA
879875 AAAAAAAAGGT-
1 AAAAAAAAGGTA
*
879886 -AAAAAAAGGCA
1 AAAAAAAAGGTA
879897 AAAAAAAA
1 AAAAAAAA
879905 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAAAAAGGTA
Found at i:879879 original size:22 final size:22
Alignment explanation
Indices: 879851--879913 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
879841 TCCTATTTTT
879851 TAAAAAAAAAACAAAAAAAAGG
1 TAAAAAAAAAACAAAAAAAAGG
***
879873 TAAAAAAAAAGGTAAAAAAAGG
1 TAAAAAAAAAACAAAAAAAAGG
*
879895 -CAAAAAAAAACAAAAAAAA
1 TAAAAAAAAAACAAAAAAAA
879914 AAGCCAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.81, C:0.05, G:0.10, T:0.05
Consensus pattern (22 bp):
TAAAAAAAAAACAAAAAAAAGG
Found at i:888264 original size:21 final size:20
Alignment explanation
Indices: 888240--888310 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
888230 AATTTTGGCA
* *
888240 TTTTTTGGGCATTTTTTTTG
1 TTTTTTTGGCCTTTTTTTTG
*
888260 TTTTTTTGCCTCTTTTTTTTG
1 TTTTTTTGGC-CTTTTTTTTG
*
888281 CCTTTTTTTTGCCTTTTTTGTTG
1 --TTTTTTTGGCCTTTTTT-TTG
888304 TTTTTTT
1 TTTTTTT
888311 TTTTGAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.19
21 16 0.38
22 7 0.17
23 11 0.26
ACGTcount: A:0.01, C:0.11, G:0.13, T:0.75
Consensus pattern (20 bp):
TTTTTTTGGCCTTTTTTTTG
Found at i:888276 original size:13 final size:13
Alignment explanation
Indices: 888260--888299 Score: 59
Period size: 11 Copynumber: 3.3 Consensus size: 13
888250 ATTTTTTTTG
888260 TTTTTTTGCCTCT
1 TTTTTTTGCCTCT
888273 TTTTTTTG-C-CT
1 TTTTTTTGCCTCT
888284 TTTTTTTGCCT-T
1 TTTTTTTGCCTCT
888296 TTTT
1 TTTT
888300 GTTGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.40
12 7 0.28
13 8 0.32
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTTTTGCCTCT
Found at i:888287 original size:24 final size:23
Alignment explanation
Indices: 888260--888313 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
888250 ATTTTTTTTG
*
888260 TTTTTTTGCCTCTTTTTTTTGCCT
1 TTTTTTTGCCT-TTTTTGTTGCCT
**
888284 TTTTTTTGCCTTTTTTGTTGTTT
1 TTTTTTTGCCTTTTTTGTTGCCT
888307 TTTTTTT
1 TTTTTTT
888314 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (23 bp):
TTTTTTTGCCTTTTTTGTTGCCT
Found at i:888314 original size:24 final size:25
Alignment explanation
Indices: 888255--888315 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
888245 TGGGCATTTT
*
888255 TTTTGTTTTTTTGCCTCTTTTTTTTG
1 TTTT-TTTTTTTGCCTCTTTTTGTTG
**
888281 -CCTTTTTTTTGCCT-TTTTTGTTG
1 TTTTTTTTTTTGCCTCTTTTTGTTG
888304 TTTTTTTTTTTG
1 TTTTTTTTTTTG
888316 AAAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 8 0.28
24 20 0.69
25 1 0.03
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (25 bp):
TTTTTTTTTTTGCCTCTTTTTGTTG
Found at i:889686 original size:15 final size:16
Alignment explanation
Indices: 889659--889695 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
889649 CTTTGTTATC
889659 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
889675 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
889690 TTATTT
1 TTATTT
889696 TATGCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:889822 original size:503 final size:499
Alignment explanation
Indices: 888869--889875 Score: 1522
Period size: 503 Copynumber: 2.0 Consensus size: 499
888859 TGATCAATAA
888869 TACAACAAGAGTTTTTTTTGCAAGTGCTGATTGCCTTGTACCTTCGAAGCTTCTTCTCCTGGAGT
1 TACAACAAGAGTTTTTTTTGCAAGTGCTGATTGCCTTGTACCTTCGAAGCTTCTTCTCCTGGAGT
**
888934 TCTTTCAAGTTCTTGTGAGGGAGATTAATCTTCACACTCCAATTTGCCTTTTCATCGTAACTAGG
66 TCTTTCAAGTTCTTGTGAGGGAGATTAATCTTCACACTCCAATTTGCCTTTTCATCACAACTAGG
*
888999 AGGGTTGGTTAGAGCCATATTATCGTGTTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAGGAC
131 AGGGTTGGTTAGAGCCATATTATCGTGTTTGCCTTTTCATTGCGACTAGAAGGGCTCGATAGGAC
* * *
889064 ATTATCCATCGATTTTCCACATCCATCCACGCCATCAATCATCTTTACCGTTCACTTTCATAAGG
196 ATTATCCATCGATTATCCACATCCATCCACACCATCAATCATCTTTACCGTTCACCTTCATAAGG
* **
889129 GAGATCTTTAATTTCTTGGTTATTTTCTCTATTCTTAATTCCTTTATCTTTTGTTTATCTTATTT
261 GAGATCTTTAATTTCTTGGTTATTTTCTCTATTCTTAATTCATTTATCTTTTGTTTATCTTATGC
* * * * * * * *
889194 TAATCTTGTTTCTTTTCTTGTTTCTAGCACTAAAAGAAACCCTAAAGAATCCTAGCTATTTCCGC
326 TAATCTTATTGC---TCTTGATTCCAGCACTAAAAGAAACCCTAAACAATCCTAGCGACTGCCGC
** * *
889259 CACCTTCTTCATTCATTCCTTATTGTTCTTCATCGAGTCTAGAGCTTTTCTAGATTTGATTCTTC
388 CACCTTCCCCATTCATCCCCTATTGTTCTTCATCGAGTCTAGAGCTTTTCTAGATTTGATTCTTC
889324 AACAAGAGCAACGTTCATCAATCCGCCACCGCTTCCCTATCAATTGG
453 AACAAGAGCAACGTTCATCAATCCGCCACCGCTTCCCTATCAATTGG
* *
889371 TACAACGAGAGTTTGTTTTTGCAAGTGCTGATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAG
1 TACAACAAGAGTTT-TTTTTGCAAGTGCTGATTGCCTTGTACCTTCGAAGCTTCTTCTCCTGGAG
*
889436 TTCTTTCAAGTTCTTGTGAGGGAGATTAATCTTCACACTCCAATTTGCCTTTTCATCACGACTAG
65 TTCTTTCAAGTTCTTGTGAGGGAGATTAATCTTCACACTCCAATTTGCCTTTTCATCACAACTAG
889501 GAGGGTTGGTTAGAGCCAT-TTATCGTGTTTGCCTTTTCATTGCGACTAGAAGGGCTCGATAGGA
130 GAGGGTTGGTTAGAGCCATATTATCGTGTTTGCCTTTTCATTGCGACTAGAAGGGCTCGATAGGA
* * *
889565 CACTTATCCATCTATTATCCACAAATCCATTCGCACCATCAATCATCTTTACCGTTCACCTTCAT
195 CA-TTATCCATCGATTATCCAC--ATCCATCCACACCATCAATCATCTTTACCGTTCACCTTCAT
* * * ** *
889630 AAGGGAGATCTTCTGATTTCTTTGTTATCTTATTTC-A-TCTTTCGTTTATTTATCTTTTGTTTA
257 AAGGGAGATCTT-TAATTTCTTGGTTAT-TT-TCTCTATTC-TTAATTCATTTATCTTTTGTTTA
* *
889693 TTTTATGCTAATCTTATTGC-CTTGATTCCAGTACATAAAAGAAACCCTAAACAATCCTAGCGAC
318 TCTTATGCTAATCTTATTGCTCTTGATTCCAGCAC-TAAAAGAAACCCTAAACAATCCTAGCGAC
*
889757 TGCCGCCACCTTCCCCTATTCATCCCCT-TTGTTCTTCATCGAGTCTAGAGC-TTTCTAGGTTTG
382 TGCCGCCACCTTCCCC-ATTCATCCCCTATTGTTCTTCATCGAGTCTAGAGCTTTTCTAGATTTG
*
889820 ATTCTTCAACAAGAGCAACGTTCATTAATCCGCCACCGCTTCCCTATCAATTGG
446 ATTCTTCAACAAGAGCAACGTTCATCAATCCGCCACCGCTTCCCTATCAATTGG
889874 TA
1 TA
889876 TCAGATTTGG
Statistics
Matches: 458, Mismatches: 37, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
502 59 0.13
503 224 0.49
504 62 0.14
505 58 0.13
506 15 0.03
507 37 0.08
508 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (499 bp):
TACAACAAGAGTTTTTTTTGCAAGTGCTGATTGCCTTGTACCTTCGAAGCTTCTTCTCCTGGAGT
TCTTTCAAGTTCTTGTGAGGGAGATTAATCTTCACACTCCAATTTGCCTTTTCATCACAACTAGG
AGGGTTGGTTAGAGCCATATTATCGTGTTTGCCTTTTCATTGCGACTAGAAGGGCTCGATAGGAC
ATTATCCATCGATTATCCACATCCATCCACACCATCAATCATCTTTACCGTTCACCTTCATAAGG
GAGATCTTTAATTTCTTGGTTATTTTCTCTATTCTTAATTCATTTATCTTTTGTTTATCTTATGC
TAATCTTATTGCTCTTGATTCCAGCACTAAAAGAAACCCTAAACAATCCTAGCGACTGCCGCCAC
CTTCCCCATTCATCCCCTATTGTTCTTCATCGAGTCTAGAGCTTTTCTAGATTTGATTCTTCAAC
AAGAGCAACGTTCATCAATCCGCCACCGCTTCCCTATCAATTGG
Found at i:890060 original size:9 final size:9
Alignment explanation
Indices: 890046--890091 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
890036 CTATTTTTTT
890046 CAAAAAAAA
1 CAAAAAAAA
890055 CAAAAAAAA
1 CAAAAAAAA
890064 CAAAAAAAA
1 CAAAAAAAA
*
890073 GCCAAAAAAA
1 -CAAAAAAAA
890083 CAAAAAAAA
1 CAAAAAAAA
890092 AAGCCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Done.