Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_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: 3983240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2767352 original size:17 final size:17
Alignment explanation
Indices: 2767327--2767377 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2767317 CCGGTTTCGG
2767327 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
2767344 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
2767359 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
2767376 TT
1 TT
2767378 AATATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:2767514 original size:12 final size:12
Alignment explanation
Indices: 2767483--2767516 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2767473 TGAATTTTAA
*
2767483 GATTTTCCAAAT
1 GATTTTCTAAAT
2767495 GATTTTCTAAAT
1 GATTTTCTAAAT
2767507 GATTTTCTAA
1 GATTTTCTAA
2767517 GTATATTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (12 bp):
GATTTTCTAAAT
Found at i:2768594 original size:32 final size:33
Alignment explanation
Indices: 2768498--2768596 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
2768488 AACTCAACAT
* * * *
2768498 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
2768531 AATTCAAATACTTAAAAACTTACAAGTTCGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
2768564 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTACAAGTTCGATA
2768596 A
1 A
2768597 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 12 0.19
33 50 0.81
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTACAAGTTCGATA
Found at i:2768615 original size:21 final size:21
Alignment explanation
Indices: 2768591--2768632 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2768581 ACTTCAAGTT
2768591 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
2768612 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
2768633 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:2781604 original size:27 final size:27
Alignment explanation
Indices: 2781565--2781618 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
2781555 CTAAAAGTCA
2781565 TTGCCATAACATATTAGTTGCATTTAG
1 TTGCCATAACATATTAGTTGCATTTAG
*
2781592 TTGCCATAGCATATTAGTTGCATTTAG
1 TTGCCATAACATATTAGTTGCATTTAG
2781619 GTCATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
TTGCCATAACATATTAGTTGCATTTAG
Found at i:2791862 original size:21 final size:21
Alignment explanation
Indices: 2791837--2791880 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2791827 TTATCAGGCA
* *
2791837 ATACAATGCTTATATATATAT
1 ATACAATGCTCACATATATAT
2791858 ATACAATGCTCACATATATAT
1 ATACAATGCTCACATATATAT
2791879 AT
1 AT
2791881 CCATAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (21 bp):
ATACAATGCTCACATATATAT
Found at i:2800671 original size:12 final size:12
Alignment explanation
Indices: 2800653--2800698 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
2800643 ACTATACGGT
2800653 ATGAACAGTACC
1 ATGAACAGTACC
* *
2800665 GTGAACAGTTCC
1 ATGAACAGTACC
*
2800677 ATGAACAGTGCC
1 ATGAACAGTACC
*
2800689 ATGAGCAGTA
1 ATGAACAGTA
2800699 AAACTTTCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:2804311 original size:19 final size:19
Alignment explanation
Indices: 2804289--2804327 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2804279 TTATCAGGCA
* *
2804289 ATACAATGCTTACATGTAT
1 ATACAATGCTCACATATAT
2804308 ATACAATGCTCACATATAT
1 ATACAATGCTCACATATAT
2804327 A
1 A
2804328 CATCCATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (19 bp):
ATACAATGCTCACATATAT
Found at i:2804848 original size:4 final size:4
Alignment explanation
Indices: 2804839--2804865 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2804829 AAATGCATGT
2804839 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
2804866 CATAGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:2806940 original size:13 final size:13
Alignment explanation
Indices: 2806922--2806946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2806912 TAAACCAACG
2806922 AGAAGAAGAAAGA
1 AGAAGAAGAAAGA
2806935 AGAAGAAGAAAG
1 AGAAGAAGAAAG
2806947 CTTTCCAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAGA
Found at i:2812035 original size:23 final size:24
Alignment explanation
Indices: 2812007--2812057 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2811997 CAGCAGAAAT
*
2812007 AATAAAATAA-AAGAACAAAATAA
1 AATAAAATAAGAACAACAAAATAA
**
2812030 AAT-AAATAAGCTCAACAAAATAA
1 AATAAAATAAGAACAACAAAATAA
2812053 AATAA
1 AATAA
2812058 TACTTGCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 6 0.26
23 16 0.70
24 1 0.04
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.16
Consensus pattern (24 bp):
AATAAAATAAGAACAACAAAATAA
Found at i:2814954 original size:2 final size:2
Alignment explanation
Indices: 2814947--2814978 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2814937 TTTACATGCA
*
2814947 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2814979 TTCTAACATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2824399 original size:27 final size:27
Alignment explanation
Indices: 2824368--2824421 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2824358 ACCGTTTAAA
2824368 TATTTCACAAGCTTCAGATTTGGTTTT
1 TATTTCACAAGCTTCAGATTTGGTTTT
2824395 TATTTCACAAGCTTCAGATTTGGTTTT
1 TATTTCACAAGCTTCAGATTTGGTTTT
2824422 CATGAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (27 bp):
TATTTCACAAGCTTCAGATTTGGTTTT
Found at i:2856126 original size:19 final size:19
Alignment explanation
Indices: 2856102--2856149 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
2856092 ATGTATTTTA
2856102 TGCACCGATGCACAGGTAG
1 TGCACCGATGCACAGGTAG
2856121 TGCACCGATGCACAGGTAG
1 TGCACCGATGCACAGGTAG
*
2856140 TGCATCGATG
1 TGCACCGATG
2856150 TACCGATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (19 bp):
TGCACCGATGCACAGGTAG
Found at i:2861167 original size:2 final size:2
Alignment explanation
Indices: 2861157--2861190 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2861147 TAAAAAATAG
*
2861157 AT AT GT 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
2861191 TCACATGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2863826 original size:65 final size:64
Alignment explanation
Indices: 2863679--2863834 Score: 149
Period size: 65 Copynumber: 2.4 Consensus size: 64
2863669 GAAGGTGTAT
** * * *
2863679 CGATGCACAGGTAGTGCATCGATGCACTCTTTTAATCTAAAAACATCTAATGCAATTAGTGCAT
1 CGATGCACAGGTAGTGCATCGATGCACTCCATTAATCAAAAAACATCAAATGCAATTAGTGCAC
* * * *
2863743 CGATGCATAAGGCA-TGCATCGAATGCA-TCCCATTAAT-AAACAAACATCAAATGTATTTTA-T
1 CGATGCA-CAGGTAGTGCATCG-ATGCACT-CCATTAATCAAA-AAACATCAAATGCA-ATTAGT
2863804 GCAC
61 GCAC
*
2863808 CGATGCACAGGTAGTGCATCGTTGCAC
1 CGATGCACAGGTAGTGCATCGATGCAC
2863835 CGATAGGGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
64 25 0.34
65 45 0.62
66 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (64 bp):
CGATGCACAGGTAGTGCATCGATGCACTCCATTAATCAAAAAACATCAAATGCAATTAGTGCAC
Found at i:2864817 original size:23 final size:23
Alignment explanation
Indices: 2864741--2864818 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2864731 CCTTATGGAC
*
2864741 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
2864765 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
2864788 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
2864811 ATTATATG
1 ATTATATG
2864819 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:2869143 original size:34 final size:34
Alignment explanation
Indices: 2869105--2869172 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
2869095 TTTATTATCG
* *
2869105 AGGGTTAG-AGTGTTATGTCTATCTTATGTTATTC
1 AGGGTTAGAAG-GTAATGTCTATCTTATGTAATTC
*
2869139 AGGGTTAGAAGGTAATGTGTATCTTATGTAATTC
1 AGGGTTAGAAGGTAATGTCTATCTTATGTAATTC
2869173 TGGTCTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (34 bp):
AGGGTTAGAAGGTAATGTCTATCTTATGTAATTC
Found at i:2871563 original size:35 final size:35
Alignment explanation
Indices: 2871523--2871598 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
2871513 AAAGTAGTCC
* * *
2871523 TCAATTTCATTCTAAACCCCAATTTCTAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
2871558 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
2871593 TCAATT
1 TCAATT
2871599 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:2872148 original size:131 final size:131
Alignment explanation
Indices: 2872001--2872243 Score: 405
Period size: 131 Copynumber: 1.9 Consensus size: 131
2871991 TATAATCAAT
* ** *
2872001 TTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCA
1 TTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACA
* *
2872066 CATGATCATGACACGTGTCATTGGTGACATATGTCACCACCTAATTATTTATATATGCTATCAAC
66 CATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAAC
2872131 C
131 C
2872132 TTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACA
1 TTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACA
* * *
2872197 CATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 CATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
2872244 GAAGAAAATT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 103 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (131 bp):
TTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACA
CATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAAC
C
Found at i:2872601 original size:28 final size:27
Alignment explanation
Indices: 2872570--2872632 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
2872560 AGTTGATACA
*
2872570 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
2872598 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
2872626 ATATTTT
1 ATATTTT
2872633 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:2872733 original size:16 final size:18
Alignment explanation
Indices: 2872712--2872745 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2872702 ATTTCTTATT
2872712 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
2872728 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
2872746 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:2874563 original size:10 final size:10
Alignment explanation
Indices: 2874548--2874582 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
2874538 CGTTAAAATG
2874548 ATAAACGAAC
1 ATAAACGAAC
*
2874558 ATAAACAAAC
1 ATAAACGAAC
2874568 ATAAACGAAC
1 ATAAACGAAC
2874578 ATAAA
1 ATAAA
2874583 TTTAAACGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.06, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:2879406 original size:20 final size:20
Alignment explanation
Indices: 2879377--2879421 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2879367 ACTGTGTAGA
*
2879377 AAACAGACTGTAGAAAACAG
1 AAACAAACTGTAGAAAACAG
2879397 AAACAAACTGTAGAAAACAG
1 AAACAAACTGTAGAAAACAG
2879417 AAACA
1 AAACA
2879422 GACAAGTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.09
Consensus pattern (20 bp):
AAACAAACTGTAGAAAACAG
Found at i:2879415 original size:14 final size:15
Alignment explanation
Indices: 2879355--2879397 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 15
2879345 TCAGGATATT
2879355 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
2879371 TGTAGAAAACAGAC-
1 TGTAGAAAACAGACG
2879385 TGTAGAAAACAGA
1 TGTAGAAAACAGA
2879398 AACAAACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.16
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:2883928 original size:51 final size:51
Alignment explanation
Indices: 2883852--2883952 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
2883842 TAAGGAAAGG
*
2883852 ATAGGCTGTAAAGAAATATCGGTTTGAACAAGTTGAAATTCCTTCTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAAGCTGAAATTCCTTCTAACTA
* *
2883903 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAAGCTGAAATTCCTTCTAACT
2883953 CTCCCCCTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAAGCTGAAATTCCTTCTAACTA
Found at i:2885747 original size:14 final size:15
Alignment explanation
Indices: 2885712--2885755 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
2885702 CCTGATACCA
2885712 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
*
2885728 TGTAGAAAACGGAC-
1 TGTAGAAAACAGACG
2885742 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
2885756 AAGTCTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.16
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:2887447 original size:24 final size:24
Alignment explanation
Indices: 2887415--2887464 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2887405 TTTGGTTTAT
2887415 CTCGGTCTATTTGGGTTCAGCCTC
1 CTCGGTCTATTTGGGTTCAGCCTC
*
2887439 CTCGGTCTATTTGGGTTCCGCCTC
1 CTCGGTCTATTTGGGTTCAGCCTC
2887463 CT
1 CT
2887465 ATGGGATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.06, C:0.32, G:0.24, T:0.38
Consensus pattern (24 bp):
CTCGGTCTATTTGGGTTCAGCCTC
Found at i:2892804 original size:23 final size:23
Alignment explanation
Indices: 2892759--2892807 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2892749 TGATAGGTCG
* **
2892759 AAAATAATTTAAAAACGCCTTTT
1 AAAATAATTTAAAAAAGAATTTT
*
2892782 AAAATAATTTAAAAAATAATTTT
1 AAAATAATTTAAAAAAGAATTTT
2892805 AAA
1 AAA
2892808 GACAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAAAAGAATTTT
Found at i:2894443 original size:24 final size:23
Alignment explanation
Indices: 2894416--2894460 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2894406 GGACTTGGAC
2894416 CCACTATCTAT-AAGGAGATAGGAA
1 CCAC-ATCTATCAAGGA-ATAGGAA
*
2894440 CCACATGTATCAAGGAATAGG
1 CCACATCTATCAAGGAATAGG
2894461 GGTTGACGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (23 bp):
CCACATCTATCAAGGAATAGGAA
Found at i:2897849 original size:14 final size:14
Alignment explanation
Indices: 2897827--2897856 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2897817 TGCGAATTTA
2897827 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
*
2897841 TTTTGTTTTCTTCT
1 TTTTCTTTTCTTCT
2897855 TT
1 TT
2897857 GAGTGCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:2899963 original size:21 final size:21
Alignment explanation
Indices: 2899937--2900025 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
2899927 TCGATGGTTC
* *
2899937 TATGTAGTCCTTCGGAATATA
1 TATGTAGTCATTCGGAACATA
* *
2899958 TATGTAATCATTTGGAACATA
1 TATGTAGTCATTCGGAACATA
** * *
2899979 TATGCGGTTC-TTCGGGACACA
1 TATGTAG-TCATTCGGAACATA
* * *
2900000 TATTTAGTCATTTGGAATATA
1 TATGTAGTCATTCGGAACATA
2900021 TATGT
1 TATGT
2900026 GATCCTTAAT
Statistics
Matches: 48, Mismatches: 18, Indels: 4
0.69 0.26 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (21 bp):
TATGTAGTCATTCGGAACATA
Found at i:2900095 original size:23 final size:21
Alignment explanation
Indices: 2900038--2900095 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
2900028 TCCTTAATGA
* * *
2900038 GTGGTCTTTCGAGACATTTAT
1 GTGGTCCTTCGGGACATATAT
*
2900059 GTGGTCCTTAGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
2900080 GTGTAGTCCTTCGGGA
1 GTG--GTCCTTCGGGA
2900096 TAAGTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 20 0.67
23 10 0.33
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATATAT
Found at i:2901759 original size:20 final size:21
Alignment explanation
Indices: 2901711--2901759 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2901701 TGCTACCATG
2901711 ATATGTAAATGATATGCAAAC
1 ATATGTAAATGATATGCAAAC
*
2901732 ATA-ATAAATGA-AT-CTAAAC
1 ATATGTAAATGATATGC-AAAC
2901751 ATATGTAAA
1 ATATGTAAA
2901760 ACATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 9 0.38
20 11 0.46
21 3 0.12
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (21 bp):
ATATGTAAATGATATGCAAAC
Found at i:2904242 original size:6 final size:6
Alignment explanation
Indices: 2904231--2904260 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2904221 TGGGTTAATG
2904231 GTCAAA GTCAAA GTCAAA GGTCAAA GTCAA
1 GTCAAA GTCAAA GTCAAA -GTCAAA GTCAA
2904261 TGGGTTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
GTCAAA
Found at i:2904255 original size:13 final size:12
Alignment explanation
Indices: 2904231--2904260 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2904221 TGGGTTAATG
2904231 GTCAAAGTCAAA
1 GTCAAAGTCAAA
2904243 GTCAAAGGTCAAA
1 GTCAAA-GTCAAA
2904256 GTCAA
1 GTCAA
2904261 TGGGTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
GTCAAAGTCAAA
Found at i:2904920 original size:20 final size:20
Alignment explanation
Indices: 2904895--2904938 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
2904885 TGAAAATTTG
2904895 TCCCGAAGGACCATTGATAA
1 TCCCGAAGGACCATTGATAA
2904915 TCCCGAAGGACCATTGATAA
1 TCCCGAAGGACCATTGATAA
2904935 TCCC
1 TCCC
2904939 TCGACTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (20 bp):
TCCCGAAGGACCATTGATAA
Found at i:2923992 original size:20 final size:20
Alignment explanation
Indices: 2923963--2924004 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
2923953 ATTTCACCAC
*
2923963 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
2923983 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
2924003 AT
1 AT
2924005 TGGCTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:2925254 original size:14 final size:14
Alignment explanation
Indices: 2925235--2925289 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2925225 TGTTACACGT
*
2925235 ACGAGTTGACTCAG
1 ACGAGTTGACTCAA
*
2925249 ACGAGTTAACTCAA
1 ACGAGTTGACTCAA
* *
2925263 ACGAATTGACTTGAA
1 ACGAGTTGAC-TCAA
*
2925278 TCGAGTTGACTC
1 ACGAGTTGACTC
2925290 GGTCGGGTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (14 bp):
ACGAGTTGACTCAA
Found at i:2926714 original size:6 final size:6
Alignment explanation
Indices: 2926698--2926752 Score: 69
Period size: 6 Copynumber: 9.2 Consensus size: 6
2926688 AATGTACAAT
*
2926698 AAAAT- AAAATA AAAATA AAAATA AAAA-A ATAAATA ATAATA ATAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA A-AAATA
2926746 AAAATA A
1 AAAATA A
2926753 TTCGGACGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 7 0.16
6 30 0.68
7 7 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:2926741 original size:13 final size:13
Alignment explanation
Indices: 2926704--2926753 Score: 77
Period size: 12 Copynumber: 4.0 Consensus size: 13
2926694 CAATAAAATA
2926704 AAATAAAAATAA-
1 AAATAAAAATAAT
2926716 AAATAAAAA-AAT
1 AAATAAAAATAAT
*
2926728 AAATAATAATAAT
1 AAATAAAAATAAT
2926741 AAATAAAAATAAT
1 AAATAAAAATAAT
2926754 TCGGACGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 2 0.06
12 17 0.50
13 15 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:2926744 original size:25 final size:25
Alignment explanation
Indices: 2926698--2926749 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
2926688 AATGTACAAT
2926698 AAAATAAAATAAAAATAAAAATAAA
1 AAAATAAAATAAAAATAAAAATAAA
*
2926723 AAAAT-AAATAATAATAATAAATAAA
1 AAAATAAAATAAAAATAA-AAATAAA
2926748 AA
1 AA
2926750 TAATTCGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (25 bp):
AAAATAAAATAAAAATAAAAATAAA
Found at i:2927394 original size:121 final size:122
Alignment explanation
Indices: 2927240--2927572 Score: 447
Period size: 121 Copynumber: 2.7 Consensus size: 122
2927230 GATTGTCTGT
** *
2927240 AGATAATTTAATGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTCTTGCTACTTTCAGGTA
1 AGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTCTTGATACTTTCAGGTA
* * * * *
2927305 AATTGTTTGTTG-AGATTACATTGTTTCTTCTCGTTGAGTAAGTCGAGTCAATTTGG
66 AATTGTTTGCTGAAGATGACATTGTTTCGTCTCATTGAGGAAGTCGAGTCAATTTGG
* *
2927361 AGATAATTTGGTGTTGAAGATAACACTGCTCATCCATGTTGAAAAGTTCTT-ATACTTTCAGGTA
1 AGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTCTTGATACTTTCAGGTA
* * *
2927425 AATTGTTTGCTGAAGATGACGTTGTTTCGTCTCATTGAGGAAGTCGGGTCAATTTTG
66 AATTGTTTGCTGAAGATGACATTGTTTCGTCTCATTGAGGAAGTCGAGTCAATTTGG
* * * * *
2927482 AGATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGATGAATT-TTGGTCGCTTTCAGGT
1 AGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTCTTGAT-ACTTTCAGGT
* * *
2927546 AAATTATTTTCTGAAGATGACGTTGTT
65 AAATTGTTTGCTGAAGATGACATTGTT
2927573 CCTTTCCGTT
Statistics
Matches: 187, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
120 25 0.13
121 128 0.68
122 34 0.18
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (122 bp):
AGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTCTTGATACTTTCAGGTA
AATTGTTTGCTGAAGATGACATTGTTTCGTCTCATTGAGGAAGTCGAGTCAATTTGG
Found at i:2927875 original size:137 final size:137
Alignment explanation
Indices: 2927617--2927864 Score: 363
Period size: 137 Copynumber: 1.8 Consensus size: 137
2927607 ATTTAATGAT
* * *
2927617 AACACGATTCCTTCGCGTTGAGGAACTCTGATTGTCTGAGGATGACACTACTCCTTCGTATTGAG
1 AACACGATTCCTTCACGTTGAGGAACTCTAATTGTCTGAGGATGACACTACTCCTTCCTATTGAG
* * *
2927682 GAGATTTGGTCAGTGAACAACATTGTTCCTTCGTATTGAGGATGTCAAGATATATTTGGATAATT
66 GAGATATGGTCAGTGAACAACATTGTTCCTTCGTATTGAGGACGTCAAGACATATTTGGATAATT
2927747 TGGAGAC
131 TGGAGAC
* * *
2927754 AACACGGTTCCTTCACGTTGAGGAAGTCTAATTGTCTGAGGATGACACTGCTCCTTCACT-TTGA
1 AACACGATTCCTTCACGTTGAGGAACTCTAATTGTCTGAGGATGACACTACTCCTTC-CTATTGA
* * * *
2927818 GGAGATATGGTCGGTGGACGACATTGTTCCTTCGTGTTGAGGACGTC
65 GGAGATATGGTCAGTGAACAACATTGTTCCTTCGTATTGAGGACGTC
2927865 CAACCGTATT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 97 0.99
138 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (137 bp):
AACACGATTCCTTCACGTTGAGGAACTCTAATTGTCTGAGGATGACACTACTCCTTCCTATTGAG
GAGATATGGTCAGTGAACAACATTGTTCCTTCGTATTGAGGACGTCAAGACATATTTGGATAATT
TGGAGAC
Found at i:2930160 original size:21 final size:22
Alignment explanation
Indices: 2930133--2930182 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2930123 CACATACATG
2930133 TAATATGTGA-CAGAAGAGAAGA
1 TAATATGTGATCAGAAGAGAA-A
*
2930155 -AATATGTGATCATAAGAGAAA
1 TAATATGTGATCAGAAGAGAAA
2930176 TAATATG
1 TAATATG
2930183 AATACTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (22 bp):
TAATATGTGATCAGAAGAGAAA
Found at i:2932889 original size:23 final size:22
Alignment explanation
Indices: 2932863--2932926 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
2932853 CAGCTCATAT
2932863 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* * *
2932886 AATTGCACCGGAGTGTCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
*
2932909 AATTACACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
2932927 TATAATAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:2933062 original size:103 final size:103
Alignment explanation
Indices: 2932942--2933159 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
2932932 TAATGTCCAT
*
2932942 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
2933007 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
2933045 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
2933110 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
2933148 AAGGACCACATA
1 AAGGACCACATA
2933160 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2933632 original size:64 final size:62
Alignment explanation
Indices: 2933492--2933652 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 62
2933482 TAATGAAGGT
* * *
2933492 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * * *
2933557 ATACATTGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
2933621 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
2933653 CCTTAAACAA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 56 0.69
65 21 0.26
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:2934189 original size:11 final size:11
Alignment explanation
Indices: 2934173--2934199 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2934163 TCTCTCGATG
2934173 GAGAAGAAGAA
1 GAGAAGAAGAA
2934184 GAGAAGAAGAA
1 GAGAAGAAGAA
2934195 GAGAA
1 GAGAA
2934200 ATCTGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
GAGAAGAAGAA
Found at i:2939748 original size:23 final size:22
Alignment explanation
Indices: 2939722--2939785 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
2939712 CAGCTCATAT
2939722 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
** * *
2939745 AATTGCATCGGAGTGTCGCGTAG
1 AATTGCA-CCTAGTGCCACGTAG
2939768 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
2939786 TATAATAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:2939986 original size:96 final size:96
Alignment explanation
Indices: 2939822--2940009 Score: 349
Period size: 96 Copynumber: 2.0 Consensus size: 96
2939812 ATCATTCCTT
*
2939822 AAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCAAAG
1 AAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCAAAG
* *
2939887 AATACATATATGTCCCGAATGACCACAAATC
66 AATACATATATGTCCCAAAGGACCACAAATC
2939918 AAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCAAAG
1 AAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCAAAG
2939983 AATACATATATGTCCCAAAGGACCACA
66 AATACATATATGTCCCAAAGGACCACA
2940010 TAGACCCTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (96 bp):
AAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCAAAG
AATACATATATGTCCCAAAGGACCACAAATC
Found at i:2940427 original size:64 final size:67
Alignment explanation
Indices: 2940317--2940444 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 67
2940307 ATTTTCATCT
2940317 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
2940382 TA
66 TA
*
2940384 TTTAATGG-GG-ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
2940445 TCTTTTTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.56
65 15 0.25
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:2940462 original size:64 final size:64
Alignment explanation
Indices: 2940329--2940470 Score: 182
Period size: 64 Copynumber: 2.2 Consensus size: 64
2940319 TAATGGAGGT
* *
2940329 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
2940394 ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-
1 ATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATG
*
2940456 TA
63 GA
2940458 ATGCATCGATGCA
1 ATGCATCGATGCA
2940471 TTGCATGGCA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 43 0.62
65 22 0.32
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:2942213 original size:128 final size:128
Alignment explanation
Indices: 2941985--2942241 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
2941975 CATTGTAGCC
2941985 TTTAGGATATGACGACTCCACTAGGGATACGTTAGAGAGTCAGGTTGTAAGTCGCTTATACATTG
1 TTTAGGATATGACGACTCCACTAGGGATACGTTAGAGAGTCAGGTTGTAAGTCGCTTATACATTG
2942050 TCGTAGTGGTGGAAATTATGAGTCCGAGTCTATAGTTAGCTTATGATCCTTTTATTAAAATTT
66 TCGTAGTGGTGGAAATTATGAGTCCGAGTCTATAGTTAGCTTATGATCCTTTTATTAAAATTT
2942113 TTTAGGATATGACGACTCCACTAGGGATACGTTAGAGAGTCAGGTTGTAAGTCGCTTATACATTG
1 TTTAGGATATGACGACTCCACTAGGGATACGTTAGAGAGTCAGGTTGTAAGTCGCTTATACATTG
2942178 TCGTAGTGGTGGAAATTATGAGTCCGAGTCTATAGTTAGCTTATGATCCTTTTATTAAAATTT
66 TCGTAGTGGTGGAAATTATGAGTCCGAGTCTATAGTTAGCTTATGATCCTTTTATTAAAATTT
2942241 T
1 T
2942242 GCATTACTAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (128 bp):
TTTAGGATATGACGACTCCACTAGGGATACGTTAGAGAGTCAGGTTGTAAGTCGCTTATACATTG
TCGTAGTGGTGGAAATTATGAGTCCGAGTCTATAGTTAGCTTATGATCCTTTTATTAAAATTT
Found at i:2952917 original size:32 final size:32
Alignment explanation
Indices: 2952876--2952940 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2952866 ATTTAAAAAA
2952876 TTTAATTTTTAAAAATTAATAATTAACACATT
1 TTTAATTTTTAAAAATTAATAATTAACACATT
* *
2952908 TTTAATTTTTAGAAGTTAATAATTAACACATT
1 TTTAATTTTTAAAAATTAATAATTAACACATT
2952940 T
1 T
2952941 AATGGGAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTAATTTTTAAAAATTAATAATTAACACATT
Found at i:2957298 original size:18 final size:18
Alignment explanation
Indices: 2957255--2957299 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
2957245 GAGGTACTTC
2957255 CTTTTTTTTTCTTTGGTT
1 CTTTTTTTTTCTTTGGTT
*
2957273 TTTTTTTTTTCTTT-GTT
1 CTTTTTTTTTCTTTGGTT
2957290 CTTTATTTTT
1 CTTT-TTTTT
2957300 AACAGTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.82
Consensus pattern (18 bp):
CTTTTTTTTTCTTTGGTT
Found at i:2959810 original size:26 final size:26
Alignment explanation
Indices: 2959760--2959809 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2959750 TTTGAGCATC
*
2959760 AAATTTTTATATTTTATATTATTATT
1 AAATTTTTATAATTTATATTATTATT
2959786 AAATTTTT-TAATTTAT-TT-TTATT
1 AAATTTTTATAATTTATATTATTATT
2959809 A
1 A
2959810 TAGTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 2 0.09
25 7 0.30
26 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
AAATTTTTATAATTTATATTATTATT
Found at i:2960094 original size:22 final size:21
Alignment explanation
Indices: 2960022--2960096 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
2960012 TATTTGAAAC
* *
2960022 TTCAAATTATATACTCTAAT-A
1 TTCAAA-TATAAAATCTAATAA
* *
2960043 TTCAAACATAAAATTTAA-AA
1 TTCAAATATAAAATCTAATAA
2960063 GTTCGAAATATAAAATCTAATAA
1 -TTC-AAATATAAAATCTAATAA
2960086 TTCATAATATA
1 TTCA-AATATA
2960097 TATAATCCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
20 9 0.21
21 10 0.23
22 22 0.51
23 2 0.05
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.36
Consensus pattern (21 bp):
TTCAAATATAAAATCTAATAA
Found at i:2960861 original size:13 final size:14
Alignment explanation
Indices: 2960843--2960871 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2960833 TAAAATCGTT
2960843 ATGAGAT-TAACAC
1 ATGAGATGTAACAC
2960856 ATGAGATGTAACAC
1 ATGAGATGTAACAC
2960870 AT
1 AT
2960872 TCAATGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (14 bp):
ATGAGATGTAACAC
Found at i:2967106 original size:60 final size:60
Alignment explanation
Indices: 2967030--2967217 Score: 197
Period size: 60 Copynumber: 3.1 Consensus size: 60
2967020 TTTGGATGGA
*
2967030 TTTG-GGATGAAATTAGAAGATTTAAAAGTTTATGGATAAATTTAAAATAAGAGTCATAG
1 TTTGAGGATAAAATTAGAAGATTTAAAAGTTTATGGATAAATTTAAAATAAGAGTCATAG
* * * * * * * *
2967089 TTTGAGGATAAAATTAGAATATTCAAAAGCTTGA-GGATAAATCTAGAATGATATTCATAG
1 TTTGAGGATAAAATTAGAAGATTTAAAAG-TTTATGGATAAATTTAAAATAAGAGTCATAG
* **
2967149 TTT-AGGGATAAAATTGGAATG-TTTAAAAGTTTATGGACCAATTTAAAATGAAG-GTCATAG
1 TTTGA-GGATAAAATTAGAA-GATTTAAAAGTTTATGGATAAATTTAAAAT-AAGAGTCATAG
2967209 TTTGAGGAT
1 TTTGAGGAT
2967218 TTGTAATGCA
Statistics
Matches: 102, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
59 8 0.08
60 89 0.87
61 5 0.05
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (60 bp):
TTTGAGGATAAAATTAGAAGATTTAAAAGTTTATGGATAAATTTAAAATAAGAGTCATAG
Found at i:2968303 original size:23 final size:23
Alignment explanation
Indices: 2968274--2968338 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
2968264 GCCACATAAA
**
2968274 TGTCCCGAATA-ACCACATTGTTT
1 TGTCCCGAA-AGACCACATAATTT
2968297 TGTCCCGAAAGACCACATAATTT
1 TGTCCCGAAAGACCACATAATTT
* *
2968320 TGTCCTGAAGGACCACATA
1 TGTCCCGAAAGACCACATA
2968339 GAACCCTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (23 bp):
TGTCCCGAAAGACCACATAATTT
Found at i:2974026 original size:37 final size:37
Alignment explanation
Indices: 2973992--2974078 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
2973982 AACTGAGATT
* *
2973992 GTTTCCCTTGAAACAAAGTTTTATCTCGCTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTTATCTCGCTTGAGAAA
*
2974029 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGAAA
1 GTTTCTCTTGAAACAAAGTTTTATCTCGCTTGAGAAA
2974066 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
2974079 AATAAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAAGTTTTATCTCGCTTGAGAAA
Found at i:2974101 original size:97 final size:100
Alignment explanation
Indices: 2973987--2974246 Score: 348
Period size: 97 Copynumber: 2.6 Consensus size: 100
2973977 TAAACAACTG
* *
2973987 AGATTGTTTCCCTTGAAACAAAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTTA
1 AGATTGTTTCCTTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTTA
* *
2974052 TCTCTCTTGAGAAAGTTTCTCTTGAAAAATAAAC-
66 TCTCTCTTAAGAAAGTTTCACTTGAAAAATAAACA
* * *
2974086 A-A-TGTTTCCTTTGAAACAAAGTTTTGTCTCACTTGAGACAATTTCTCTTGAAACAAAGTTTTG
1 AGATTGTTTCCTTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTTA
* *
2974149 TCTCTCTTAAGACAGTTTCACTTGAAACATAAACAA
66 TCTCTCTTAAGAAAGTTTCACTTGAAAAATAAAC-A
* *
2974185 TTGAGATTGTTTCCTTTTGAAACAAA-TTTTGTCTAGCTTGAGAAAGTTTCTCTTGAAACAAA
1 ---AGATTGTTTCC-TTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAAA
2974247 TTATCCCTAA
Statistics
Matches: 140, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
97 86 0.61
98 1 0.01
99 1 0.01
102 1 0.01
103 1 0.01
104 39 0.28
105 11 0.08
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (100 bp):
AGATTGTTTCCTTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTTA
TCTCTCTTAAGAAAGTTTCACTTGAAAAATAAACA
Found at i:2974139 original size:37 final size:37
Alignment explanation
Indices: 2974096--2974177 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
2974086 AATGTTTCCT
* *
2974096 TTGAAACAAAGTTTTGTCTCACTTGAGACAATTTCTC
1 TTGAAACAAAGTTTTGTCTCACTTAAGACAATTTCAC
* *
2974133 TTGAAACAAAGTTTTGTCTCTCTTAAGACAGTTTCAC
1 TTGAAACAAAGTTTTGTCTCACTTAAGACAATTTCAC
2974170 TTGAAACA
1 TTGAAACA
2974178 TAAACAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGAAACAAAGTTTTGTCTCACTTAAGACAATTTCAC
Found at i:2974450 original size:139 final size:139
Alignment explanation
Indices: 2974244--2974517 Score: 372
Period size: 139 Copynumber: 2.0 Consensus size: 139
2974234 CTCTTGAAAC
*
2974244 AAATTATCCCTAAAAATGGTTGGATATCCTCATCACGTAGAAACAATGTCATCCACCGACCATAT
1 AAATTATCCCTAAAAATGGTTAGATATCCTCATCACGTAGAAACAATGTCATCCACCGACCATAT
* * *
2974309 CTCCTCATCACGTAGGTGCAACGTCATCCTTAGATAACCAGACTTCCTCATCACGCAAGAACAGT
66 CTCCTCATCACGTAGGAGCAACGTCAACATTAGATAACCAGACTTCCTCATCACGCAAGAACAGT
2974374 GTTGTTTTT
131 GTTGTTTTT
* * * *
2974383 AAATTATCCCTAAAGATGGTTAGACT-TCCTCATCACGTAGGAATAATGTCATCTACCGACC-TG
1 AAATTATCCCTAAAAATGGTTAGA-TATCCTCATCACGTAGAAACAATGTCATCCACCGACCAT-
*** * * * * *
2974446 ATCTCCTCATCACGTAGGAGCAGTTTCAACATTAGATAACCAGATTTTCTCATCACGTAGGAACC
64 ATCTCCTCATCACGTAGGAGCAACGTCAACATTAGATAACCAGACTTCCTCATCACGCAAGAACA
2974511 GTGTTGT
129 GTGTTGT
2974518 CTCCAAATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 115 0.98
140 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (139 bp):
AAATTATCCCTAAAAATGGTTAGATATCCTCATCACGTAGAAACAATGTCATCCACCGACCATAT
CTCCTCATCACGTAGGAGCAACGTCAACATTAGATAACCAGACTTCCTCATCACGCAAGAACAGT
GTTGTTTTT
Found at i:2974834 original size:3 final size:3
Alignment explanation
Indices: 2974821--2974875 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
2974811 GTCCGGGTTC
* *
2974821 TAT TTT TAT TAT TAACT TAT TAT TATT TAT TAT TAA T-T TAT TAT TAT
1 TAT TAT TAT TAT T-A-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
2974868 TAT TAT TA
1 TAT TAT TA
2974876 CTACTACTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 36 0.82
4 5 0.11
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2974850 original size:21 final size:21
Alignment explanation
Indices: 2974821--2974875 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2974811 GTCCGGGTTC
2974821 TATT-TTTATTATTAACTTAT
1 TATTATTTATTATTAACTTAT
*
2974841 TATTATTTATTATTAATTTAT
1 TATTATTTATTATTAACTTAT
2974862 TATTA-TTATTATTA
1 TATTATTTATTATTA
2974876 CTACTACTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTTATTATTAACTTAT
Found at i:2976720 original size:12 final size:11
Alignment explanation
Indices: 2976684--2976735 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
2976674 AAAATAATAA
2976684 TTTTTTTTATT
1 TTTTTTTTATT
* *
2976695 TTTTTAATTCTT
1 TTTTT-TTTATT
2976707 TTTTATTTTATT
1 TTTT-TTTTATT
*
2976719 TTTTATTTATT
1 TTTTTTTTATT
2976730 ATTTTT
1 -TTTTT
2976736 CGTTATTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 11 0.34
12 20 0.62
13 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:2976727 original size:11 final size:11
Alignment explanation
Indices: 2976684--2976734 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
2976674 AAAATAATAA
2976684 TTTTT-TTTATT
1 TTTTTATTTA-T
* *
2976695 TTTTTAATTCT
1 TTTTTATTTAT
2976706 TTTTTATTTTAT
1 TTTTTA-TTTAT
2976718 TTTTTATTTAT
1 TTTTTATTTAT
2976729 TATTTT
1 T-TTTT
2976735 TCGTTATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 18 0.55
12 15 0.45
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:2978039 original size:32 final size:32
Alignment explanation
Indices: 2977993--2978094 Score: 159
Period size: 32 Copynumber: 3.2 Consensus size: 32
2977983 CTAAGTAAGC
* * *
2977993 AACACACCATAACAAACTAATAACGAGCTAAT
1 AACAAACCATAACAAACTAATAACAAACTAAT
*
2978025 AACAAACCATAACAAACTAATAACAAACTGAT
1 AACAAACCATAACAAACTAATAACAAACTAAT
*
2978057 AACAAACCATAACAAACTGATAACAAACTAAT
1 AACAAACCATAACAAACTAATAACAAACTAAT
2978089 AACAAA
1 AACAAA
2978095 TACTAACTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.59, C:0.23, G:0.04, T:0.15
Consensus pattern (32 bp):
AACAAACCATAACAAACTAATAACAAACTAAT
Found at i:2978044 original size:21 final size:22
Alignment explanation
Indices: 2978001--2978094 Score: 129
Period size: 21 Copynumber: 4.4 Consensus size: 22
2977991 GCAACACACC
* * *
2978001 ATAACAAACTAATAACGAGCTA
1 ATAACAAACTGATAACAAACTA
*
2978023 ATAACAAAC-CATAACAAACTA
1 ATAACAAACTGATAACAAACTA
*
2978044 ATAACAAACTGATAACAAAC-C
1 ATAACAAACTGATAACAAACTA
2978065 ATAACAAACTGATAACAAACTA
1 ATAACAAACTGATAACAAACTA
2978087 ATAACAAA
1 ATAACAAA
2978095 TACTAACTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
21 38 0.59
22 26 0.41
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (22 bp):
ATAACAAACTGATAACAAACTA
Found at i:2978049 original size:11 final size:11
Alignment explanation
Indices: 2978001--2978094 Score: 120
Period size: 11 Copynumber: 8.7 Consensus size: 11
2977991 GCAACACACC
2978001 ATAACAAACTA
1 ATAACAAACTA
* *
2978012 ATAACGAGCTA
1 ATAACAAACTA
*
2978023 ATAACAAAC-C
1 ATAACAAACTA
2978033 ATAACAAACTA
1 ATAACAAACTA
*
2978044 ATAACAAACTG
1 ATAACAAACTA
*
2978055 ATAACAAAC-C
1 ATAACAAACTA
*
2978065 ATAACAAACTG
1 ATAACAAACTA
2978076 ATAACAAACTA
1 ATAACAAACTA
2978087 ATAACAAA
1 ATAACAAA
2978095 TACTAACTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
10 18 0.25
11 53 0.75
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:2978699 original size:36 final size:36
Alignment explanation
Indices: 2978202--2978698 Score: 706
Period size: 36 Copynumber: 13.8 Consensus size: 36
2978192 TACATCTTTT
* *
2978202 CGTTCGACTTGAATCGGAAGTGGCGATGCTTCCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* * *
2978238 CGTTTGATTTGAATCGGAAGTGTCGATGCCTCCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* * * * *
2978274 CGTTCGATTTGAATCTGAAATGCTGATGCCTCATTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* * * *
2978310 CGTTCGATTTGAATCGGAAGTGCTGATGTCTCATTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* *
2978346 CGTTCGACTTGAATCGGAAGTGTCGATGCCTCATTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* **
2978382 CGTTCGACTTGAATCGGAAGTGTCGATGCCTTATTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* **
2978418 CATTCGACTTGAATCGGAAGTGCCGATGCCTTATTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* *
2978454 CGTTCAACTTGAATCGGAAGTGCCGATGCCTCTTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* * *
2978490 CGTTCGACTTGAATCGGAAGTGTCGATCCCTCCTTT
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
*
2978526 CGTTCGACTTGAATCGGAAGTGCCGATGCCTTCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
* *
2978562 CGTTCGACTTGAATCGAAAGTGCTGATGCCTCCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
*
2978598 CGTTCGACTTGAATTGGAAGTGCCGATGCCTCCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
*
2978634 CGTTCGACTTGAATCGGAAGTGCCGATGCTTCCTTC
1 CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
2978670 CGTTCGACTTGAATCGGAAGTGCCGATGC
1 CGTTCGACTTGAATCGGAAGTGCCGATGC
2978699 TAACTTTACC
Statistics
Matches: 420, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 420 1.00
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (36 bp):
CGTTCGACTTGAATCGGAAGTGCCGATGCCTCCTTC
Found at i:2980051 original size:11 final size:11
Alignment explanation
Indices: 2980035--2980081 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
2980025 GCAACACACC
2980035 ATAACAAACTA
1 ATAACAAACTA
* *
2980046 ATAACAAGCTG
1 ATAACAAACTA
*
2980057 ATAACAAAC-C
1 ATAACAAACTA
*
2980067 ATAACAAATTA
1 ATAACAAACTA
2980078 ATAA
1 ATAA
2980082 TAAATACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:2980365 original size:2 final size:2
Alignment explanation
Indices: 2980315--2980355 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2980305 CATATCATTA
2980315 AT AT AT AT AT 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 AT AT A
2980356 CGTGTATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2982891 original size:24 final size:24
Alignment explanation
Indices: 2982830--2982891 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
2982820 TAAAGATCTC
*
2982830 ATCATTTATTT-GAAATAATAATT
1 ATCATTTATTTAAAAATAATAATT
* * * * *
2982853 ATTATTAATTAAAAAATTATTATT
1 ATCATTTATTTAAAAATAATAATT
2982877 ATCATTTATTTAAAA
1 ATCATTTATTTAAAA
2982892 CAATATTTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
ATCATTTATTTAAAAATAATAATT
Found at i:2989116 original size:49 final size:49
Alignment explanation
Indices: 2989011--2989118 Score: 112
Period size: 49 Copynumber: 2.2 Consensus size: 49
2989001 CTTCACACTC
* * * *
2989011 CAATTTACCTTTTCATCACGACTAGGAGGGTTGGTTAGAGACATATTAT
1 CAATTTTCCTTTTCATCACGACTAGGAGGGCTCGATAGAGACATATTAT
* **
2989060 CGTATTTTCC-TTTCATTGCGACTAGGAGGGCTCGATAG-GACATTATCTAT
1 C-AATTTTCCTTTTCATCACGACTAGGAGGGCTCGATAGAGACA-TAT-TAT
2989110 CAATTTTCC
1 CAATTTTCC
2989119 ACATATCCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
48 4 0.08
49 34 0.71
50 10 0.21
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (49 bp):
CAATTTTCCTTTTCATCACGACTAGGAGGGCTCGATAGAGACATATTAT
Found at i:2992542 original size:18 final size:18
Alignment explanation
Indices: 2992515--2992568 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
2992505 AAAAGATACC
*
2992515 AAAAGTATACCAATTTTTA
1 AAAAG-ATACCAATTGTTA
2992534 AAAAGATACCAATTGTTA
1 AAAAGATACCAATTGTTA
2992552 AAAAGATACCAATTGTT
1 AAAAGATACCAATTGTT
2992569 GGAAAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 29 0.85
19 5 0.15
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.31
Consensus pattern (18 bp):
AAAAGATACCAATTGTTA
Found at i:2995465 original size:20 final size:22
Alignment explanation
Indices: 2995440--2995479 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2995430 AGTAATATCT
2995440 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2995460 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2995480 TCTATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:3002727 original size:20 final size:20
Alignment explanation
Indices: 3002698--3002736 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3002688 AGATCCCATA
*
3002698 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
3002718 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
3002737 GTGGAGGAAT
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:3018033 original size:17 final size:18
Alignment explanation
Indices: 3017999--3018037 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3017989 AAATTTAAAA
3017999 TTTAATCTTTTCCTTTAT
1 TTTAATCTTTTCCTTTAT
* *
3018017 TTTAATTTTTTTC-TTAT
1 TTTAATCTTTTCCTTTAT
3018034 TTTA
1 TTTA
3018038 TTTGTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATCTTTTCCTTTAT
Found at i:3025408 original size:18 final size:18
Alignment explanation
Indices: 3025357--3025411 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
3025347 AAATCCAACC
*
3025357 TTTACATTTTATTTTGCT
1 TTTACATTTTATTTTGTT
3025375 TTTACATTTTATTTTGTT
1 TTTACATTTTATTTTGTT
3025393 TTTACATTTTCA-TTTGTT
1 TTTACATTTT-ATTTTGTT
3025411 T
1 T
3025412 ACACTGAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 34 0.97
19 1 0.03
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTACATTTTATTTTGTT
Found at i:3033929 original size:20 final size:19
Alignment explanation
Indices: 3033878--3033940 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
3033868 CGCAACACTT
*
3033878 GCAACTGAATTTCAATTTC
1 GCAACTGAATTTCAAATTC
3033897 GCAACTGAATTTCAAATTC
1 GCAACTGAATTTCAAATTC
*
3033916 GCAACTCGATTTTCAAATTC
1 GCAACT-GAATTTCAAATTC
3033936 GCAAC
1 GCAAC
3033941 ACGAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (19 bp):
GCAACTGAATTTCAAATTC
Found at i:3034917 original size:24 final size:24
Alignment explanation
Indices: 3034890--3034943 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
3034880 GTATTCGAAA
3034890 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
3034914 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
3034938 TTTGAT
1 TTTGAT
3034944 AATGTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:3037537 original size:20 final size:20
Alignment explanation
Indices: 3037514--3037555 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3037504 AAATCGCAAC
3037514 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
3037534 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
3037554 GC
1 GC
3037556 AAAAGTGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:3038077 original size:18 final size:18
Alignment explanation
Indices: 3038056--3038092 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3038046 GTAATTGGAG
3038056 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
*
3038074 TTTGAGTTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
3038092 T
1 T
3038093 ATATATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3038365 original size:83 final size:83
Alignment explanation
Indices: 3038221--3038391 Score: 270
Period size: 83 Copynumber: 2.1 Consensus size: 83
3038211 TCCATTGTTT
* * **
3038221 TTTTCCAACTTTAAACGCGAGGGAAATCCCGACCATTGTAATTTTTTATTAACAAGCAGGAAGAT
1 TTTTCCAACTTTAAACACGAGGGAAATCCCGACCATCGTAATTTTCGATTAACAAGCAGGAAGAT
3038286 TGGATATCCAAAGAATGC
66 TGGATATCCAAAGAATGC
* *
3038304 TTTTCCAACTTTAAACACGAGGGAAATCCCGACCATCGTAATTTTCGGTTAACAAGTAGGAAGAT
1 TTTTCCAACTTTAAACACGAGGGAAATCCCGACCATCGTAATTTTCGATTAACAAGCAGGAAGAT
*
3038369 TGGATATCCGAAGAATGC
66 TGGATATCCAAAGAATGC
*
3038387 CTTTC
1 TTTTC
3038392 GGATATTATC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (83 bp):
TTTTCCAACTTTAAACACGAGGGAAATCCCGACCATCGTAATTTTCGATTAACAAGCAGGAAGAT
TGGATATCCAAAGAATGC
Found at i:3039369 original size:64 final size:65
Alignment explanation
Indices: 3039284--3039442 Score: 232
Period size: 64 Copynumber: 2.4 Consensus size: 65
3039274 AATTTAAAAC
*
3039284 AACAAATTAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTT-ATACATC-AATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTCAT-CATCAAATT
3039347 A
65 A
* * * * *
3039348 AATAAATCGACTTTTATAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTCATCATCAAATTA
3039413 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
3039443 ATTCAATTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
64 51 0.61
65 28 0.34
66 4 0.05
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTCATCATCAAATTA
Found at i:3040822 original size:21 final size:21
Alignment explanation
Indices: 3040796--3040871 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
3040786 GTGAATCGGG
*
3040796 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGATGGGAGAGGC
**
3040817 CTCTTGAACGATGATATG-GGC
1 CTCTTGAACGATGGGA-GAGGC
* *
3040838 CTCTTGAACGATAGGAGACGC
1 CTCTTGAACGATGGGAGAGGC
3040859 CTCTTGAACGATG
1 CTCTTGAACGATG
3040872 ACAGGTGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGAGGC
Found at i:3043051 original size:20 final size:20
Alignment explanation
Indices: 3043028--3043130 Score: 172
Period size: 20 Copynumber: 5.2 Consensus size: 20
3043018 AAACTTAAAT
3043028 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
3043048 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
3043068 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
3043088 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
3043108 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
3043127 TCGC
1 TCGC
3043131 GTTGCGATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
19 8 0.10
20 72 0.90
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:3043542 original size:22 final size:21
Alignment explanation
Indices: 3043516--3043566 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 21
3043506 AATAGAGATA
3043516 GACGGATTTCGCCGGAGATGAG
1 GACGGATTTCGCCGGAGATG-G
3043538 GACGGATTTCGCCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
3043559 GAACGGAT
1 G-ACGGAT
3043567 GTCGTCGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.24, C:0.18, G:0.41, T:0.18
Consensus pattern (21 bp):
GACGGATTTCGCCGGAGATGG
Found at i:3043749 original size:20 final size:19
Alignment explanation
Indices: 3043721--3043791 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
3043711 TAAACGCGAT
*
3043721 TTGCCAATTTGACTTCTGTG
1 TTGCGAATTTGACTT-TGTG
3043741 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGAC-TTTGTG
3043761 TTGCG-ATTT-ACAAATTTGTG
1 TTGCGAATTTGAC---TTTGTG
3043781 TTGCGAATTTG
1 TTGCGAATTTG
3043792 GAAACTGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.05
19 4 0.09
20 32 0.73
21 6 0.14
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (19 bp):
TTGCGAATTTGACTTTGTG
Found at i:3046827 original size:21 final size:21
Alignment explanation
Indices: 3046798--3046844 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3046788 ATTCTGACTA
3046798 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
3046819 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
3046840 TCGCA
1 TCGCA
3046845 ATGTGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:3046870 original size:41 final size:40
Alignment explanation
Indices: 3046825--3046965 Score: 108
Period size: 41 Copynumber: 3.5 Consensus size: 40
3046815 AAATTCGCGT
*
3046825 TGCGATTTTCCTAATTCGCAATGTGAATACGTAAATCGCAA
1 TGCGA-TTACCTAATTCGCAATGTGAATACGTAAATCGCAA
* * * * * *
3046866 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGTAA
1 TGCGATTACCTAATTCGCAATGTGAA-TACGTAAATCGCAA
* * * *
3046907 TGCGATTACGTAA-TCGC-ATTTCGATTTACGT-AATCGCAT
1 TGCGATTACCTAATTCGCAATGT-GA-ATACGTAAATCGCAA
*
3046946 TGCGATTTTCCTAATTCGCA
1 TGCGA-TTACCTAATTCGCA
3046966 CTTCGATTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 11
0.74 0.15 0.10
Matches are distributed among these distances:
39 13 0.17
40 32 0.41
41 33 0.42
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (40 bp):
TGCGATTACCTAATTCGCAATGTGAATACGTAAATCGCAA
Found at i:3046937 original size:20 final size:20
Alignment explanation
Indices: 3046797--3047005 Score: 131
Period size: 20 Copynumber: 10.3 Consensus size: 20
3046787 GATTCTGACT
* **
3046797 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACGTA
* * *
3046817 ATTCGCGTTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
* * *
3046838 ATTCGCAATGTGA-ATACGTAA
1 A-TCGCATTGCGATTTACGT-A
*
3046859 ATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACGT-A
* * * *
3046879 ATCGCAATGCGAATTAGGAAA
1 ATCGCATTGCGATTTACG-TA
* *
3046900 ATCGTAATGCGA-TTACGTA
1 ATCGCATTGCGATTTACGTA
*
3046919 ATCGCATTTCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
* *
3046939 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
3046959 ATTCGCACTT-CGATTTACGTA
1 A-TCGCA-TTGCGATTTACGTA
*
3046980 ATTGCATTGCGATTTA-GTAA
1 ATCGCATTGCGATTTACGT-A
3047000 ATCGCA
1 ATCGCA
3047006 ACGAGATTCT
Statistics
Matches: 154, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.09
20 79 0.51
21 59 0.38
22 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:3047897 original size:24 final size:24
Alignment explanation
Indices: 3047865--3047918 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3047855 GTATTCAAAA
3047865 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
3047889 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
3047913 TTTGAT
1 TTTGAT
3047919 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:3048134 original size:14 final size:14
Alignment explanation
Indices: 3048109--3048144 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
3048099 GAAAAAGAAG
3048109 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
3048124 AAGAAAAATCCCCG
1 AAGAAAAATCCCCA
3048138 AAGAAAA
1 AAGAAAA
3048145 TACCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:3049983 original size:335 final size:335
Alignment explanation
Indices: 3049373--3050042 Score: 1295
Period size: 335 Copynumber: 2.0 Consensus size: 335
3049363 ATGGTCAAGA
3049373 GTACATCAACTTGGAGCAAGATATGGTTTCATGACGTCTAATAGTGCAGAATCAATCAACGCTCT
1 GTACATCAACTTGGAGCAAGATATGGTTTCATGACGTCTAATAGTGCAGAATCAATCAACGCTCT
3049438 AAGTCGTCATTCCCGGAAATTACCCATTACTATAATAATGGAGTTTTTTCGAGCCTCTATTCAAC
66 AAGTCGTCATTCCCGGAAATTACCCATTACTATAATAATGGAGTTTTTTCGAGCCTCTATTCAAC
3049503 AGTGGTACTACAAGAAAAGAAACCATGCAGGTATTATTTCTTTAAATTCGTAACTTATCATATAT
131 AGTGGTACTACAAGAAAAGAAACCATGCAGGTATTATTTCTTTAAATTCGTAACTTATCATATAT
*
3049568 TTTACTAAGTATTATTTATTTAAATTTACAGGAACATTGGAACATCGTGTTACACCATGGACAGA
196 TTGACTAAGTATTATTTATTTAAATTTACAGGAACATTGGAACATCGTGTTACACCATGGACAGA
*
3049633 AAAAATGATAACGAAACGTGTTGTAAAGTCAACGTCATGGAGAGTTGAACCATGTTCAAACACTT
261 AAAAATGATAACGAAACGTGTTGTAAAGTCAACATCATGGAGAGTTGAACCATGTTCAAACACTT
3049698 TGTTTGAAGT
326 TGTTTGAAGT
3049708 GTACATCAACTTGGAGCAAGATATGGTTTCATGACGTCTAATAGTGCAGAATCAATCAACGCTCT
1 GTACATCAACTTGGAGCAAGATATGGTTTCATGACGTCTAATAGTGCAGAATCAATCAACGCTCT
**
3049773 AAGTCGTCATTCCCGGAAATTACCCATTACTATGTTAATGGAGTTTTTTCGAGCCTCTATTCAAC
66 AAGTCGTCATTCCCGGAAATTACCCATTACTATAATAATGGAGTTTTTTCGAGCCTCTATTCAAC
3049838 AGTGGTACTACAAGAAAAGAAACCATGCAGGTATTATTTCTTTAAATTCGTAACTTATCATATAT
131 AGTGGTACTACAAGAAAAGAAACCATGCAGGTATTATTTCTTTAAATTCGTAACTTATCATATAT
3049903 TTGACTAAGTATTATTTATTTAAATTTACAGGAACATTGGAACATCGTGTTACACCATGGACAGA
196 TTGACTAAGTATTATTTATTTAAATTTACAGGAACATTGGAACATCGTGTTACACCATGGACAGA
*
3049968 AAAAATGATAACGAAACGTGTTGTGAAGTCAACATCATGGAGAGTTGAACCATGTTCAAACACTT
261 AAAAATGATAACGAAACGTGTTGTAAAGTCAACATCATGGAGAGTTGAACCATGTTCAAACACTT
3050033 TGTTTGAAGT
326 TGTTTGAAGT
3050043 ACTGGATAAT
Statistics
Matches: 330, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
335 330 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (335 bp):
GTACATCAACTTGGAGCAAGATATGGTTTCATGACGTCTAATAGTGCAGAATCAATCAACGCTCT
AAGTCGTCATTCCCGGAAATTACCCATTACTATAATAATGGAGTTTTTTCGAGCCTCTATTCAAC
AGTGGTACTACAAGAAAAGAAACCATGCAGGTATTATTTCTTTAAATTCGTAACTTATCATATAT
TTGACTAAGTATTATTTATTTAAATTTACAGGAACATTGGAACATCGTGTTACACCATGGACAGA
AAAAATGATAACGAAACGTGTTGTAAAGTCAACATCATGGAGAGTTGAACCATGTTCAAACACTT
TGTTTGAAGT
Found at i:3050788 original size:20 final size:19
Alignment explanation
Indices: 3050760--3050814 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
3050750 CAATCATCTT
*
3050760 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
3050780 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
3050799 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
3050815 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:3050824 original size:14 final size:14
Alignment explanation
Indices: 3050805--3050859 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3050795 GCGAAATGAA
3050805 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3050819 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3050838 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3050852 AATCGCAA
1 AATCGCAA
3050860 TGTGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3050829 original size:33 final size:33
Alignment explanation
Indices: 3050787--3050913 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
3050777 GGAAATGACT
3050787 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
3050820 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
3050853 ATCGCAATGTGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
3050886 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
3050914 CGAATTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:3050843 original size:19 final size:18
Alignment explanation
Indices: 3050767--3050917 Score: 92
Period size: 19 Copynumber: 8.7 Consensus size: 18
3050757 CTTAATGTCT
**
3050767 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
3050787 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
3050806 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
3050820 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
3050839 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
3050853 ATCGCAATGTGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
3050872 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
3050886 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
3050905 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
3050918 TTTAGTTTCG
Statistics
Matches: 102, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
14 27 0.26
15 5 0.05
16 5 0.05
17 5 0.05
18 5 0.05
19 46 0.45
20 9 0.09
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:3050948 original size:19 final size:19
Alignment explanation
Indices: 3050913--3051007 Score: 96
Period size: 19 Copynumber: 5.3 Consensus size: 19
3050903 AAATCGCAAC
*
3050913 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
3050932 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
3050951 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
3050965 GTGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
3050984 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
3051003 GCGAT
1 GCGAT
3051008 AGTCATTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
18 1 0.02
19 52 0.79
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:3050971 original size:33 final size:33
Alignment explanation
Indices: 3050928--3050991 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
3050918 TTTAGTTTCG
3050928 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTGT
*
3050961 CGTTGTGATTTTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
3050992 CATTTCGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
Found at i:3051013 original size:19 final size:19
Alignment explanation
Indices: 3050972--3051015 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3050962 GTTGTGATTT
* **
3050972 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
3050991 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
3051010 TCATTT
1 TCATTT
3051016 TTTCCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:3052550 original size:21 final size:21
Alignment explanation
Indices: 3052484--3052550 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3052474 GTGAATCGGG
*
3052484 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
3052504 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
3052526 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
3052547 CTCT
1 CTCT
3052551 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:3053086 original size:19 final size:19
Alignment explanation
Indices: 3053003--3053126 Score: 105
Period size: 19 Copynumber: 6.6 Consensus size: 19
3052993 TCTGGAACTT
*
3053003 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
3053024 ACTATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
* *
3053043 AAAATCCCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
3053063 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
3053082 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
3053096 AGAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
3053115 AAAATCGCAACG
1 AAAATCGCAACG
3053127 AGAGAATCGC
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 39 0.48
20 17 0.21
21 10 0.12
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:3053107 original size:33 final size:33
Alignment explanation
Indices: 3053065--3053154 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
3053055 AGAGAATGAA
**
3053065 AATCGCAACGCGAAACGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATAAAAATCGCAACGAGAG
3053098 AATCGCAACGCGAAATAAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATAAAAATCGCAACGAGAG
* *
3053131 AATCGCAATGCGAAATTAAAATCG
1 AATCGCAACGCGAAATAAAAATCG
3053155 TAACACGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATAAAAATCGCAACGAGAG
Found at i:3053232 original size:20 final size:20
Alignment explanation
Indices: 3053181--3053242 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
3053171 TCGCGTTGCG
*
3053181 ATTCTCTCGTTGCTATTTTC
1 ATTCTCTCGTTGCAATTTTC
* *
3053201 GTT-TCGCGTTGCAATTTTC
1 ATTCTCTCGTTGCAATTTTC
*
3053220 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCAATTTTC
3053240 ATT
1 ATT
3053243 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.11, C:0.23, G:0.15, T:0.52
Consensus pattern (20 bp):
ATTCTCTCGTTGCAATTTTC
Found at i:3053452 original size:94 final size:93
Alignment explanation
Indices: 3053335--3053636 Score: 532
Period size: 94 Copynumber: 3.2 Consensus size: 93
3053325 ATGGATTGCA
* *
3053335 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
3053400 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3053428 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
3053493 TTAGCAGAATTGGCAGTAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
3053522 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAAT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
3053587 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
3053616 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
3053637 TACTAACTTC
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 21 0.10
94 180 0.90
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:3053693 original size:78 final size:79
Alignment explanation
Indices: 3053546--3053698 Score: 245
Period size: 78 Copynumber: 1.9 Consensus size: 79
3053536 AAGACAAAAC
*
3053546 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAATTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAATTTAGCAGAATTGGCAGCAACCGAA
3053611 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
* *
3053628 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAATTTAGCAGAATTGGCAGCAACCGAATAA
3053692 ATTTACT
66 ATTTACT
3053699 AACCAATCTA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 41 0.60
82 27 0.40
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAATTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:3055494 original size:20 final size:19
Alignment explanation
Indices: 3055425--3055495 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
3055415 CGCAACGCGA
3055425 CGCGTTGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
*
3055444 CGCATTGCGA--TTC---T
1 CGCGTTGCGATTTTCATTT
* **
3055458 CTCGTTGCGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
3055477 CCGCGTTGCGATTTTCATT
1 -CGCGTTGCGATTTTCATT
3055496 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
14 9 0.23
16 2 0.05
17 3 0.08
19 10 0.26
20 15 0.38
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (19 bp):
CGCGTTGCGATTTTCATTT
Found at i:3057142 original size:9 final size:9
Alignment explanation
Indices: 3057108--3057141 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3057098 TATGAAAATA
*
3057108 TTATTATAT
1 TTATTTTAT
3057117 TTATTTTAT
1 TTATTTTAT
3057126 TTATTTTATT
1 TTATTTTA-T
3057136 TTATTT
1 TTATTT
3057142 AAATATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTAT
Found at i:3057155 original size:18 final size:15
Alignment explanation
Indices: 3057111--3057142 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3057101 GAAAATATTA
3057111 TTATATTTATTTTAT
1 TTATATTTATTTTAT
3057126 TTAT-TTTATTTTAT
1 TTATATTTATTTTAT
3057140 TTA
1 TTA
3057143 AATATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATATTTATTTTAT
Found at i:3059426 original size:30 final size:30
Alignment explanation
Indices: 3059367--3059438 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
3059357 TGACAGAAAA
3059367 ATAAAATCAAATCTAATTATCGTAAAAAATT
1 ATAAAATCAAATCTAATTATC-TAAAAAATT
* *
3059398 GTAAAATCAAATTTAATTAT-TAAAAAAATT
1 ATAAAATCAAATCTAATTATCT-AAAAAATT
3059428 ATAAAATCAAA
1 ATAAAATCAAA
3059439 CCAAATCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.03
30 18 0.49
31 18 0.49
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (30 bp):
ATAAAATCAAATCTAATTATCTAAAAAATT
Found at i:3061393 original size:7 final size:8
Alignment explanation
Indices: 3061366--3061392 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
3061356 TCTAATTTCG
3061366 TTTTAATT
1 TTTTAATT
3061374 TTTTAATT
1 TTTTAATT
3061382 TTTTAATT
1 TTTTAATT
3061390 TTT
1 TTT
3061393 ATATTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTAATT
Found at i:3061732 original size:2 final size:2
Alignment explanation
Indices: 3061725--3061757 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3061715 AAAGCAATTA
3061725 AT AT AT AT AT AT AT A- AT AT -T 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 A
3061758 AACACTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3067241 original size:15 final size:15
Alignment explanation
Indices: 3067221--3067251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3067211 CAACAAATAA
3067221 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
3067236 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
3067251 A
1 A
3067252 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:3072050 original size:3 final size:3
Alignment explanation
Indices: 3072034--3072068 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
3072024 ATCGAAAAAA
3072034 TAT TATT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
3072069 ATAACAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 24 0.77
4 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3072983 original size:21 final size:21
Alignment explanation
Indices: 3072954--3073002 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3072944 GTGACGAGTC
*
3072954 TGTAGCTAGAATCAAAGTTGT
1 TGTACCTAGAATCAAAGTTGT
*
3072975 TGTACCTAGAATCAATGTTGT
1 TGTACCTAGAATCAAAGTTGT
*
3072996 TATACCT
1 TGTACCT
3073003 TGGATACCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (21 bp):
TGTACCTAGAATCAAAGTTGT
Done.