Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 83 of 120
Found at i:10637400 original size:20 final size:21
Alignment explanation
Indices: 10637375--10637455 Score: 86
Period size: 20 Copynumber: 4.1 Consensus size: 21
10637365 TTGCATTATT
*
10637375 TATTAATTGTATGATTA-TAA
1 TATTAATTGCATGATTATTAA
10637395 TATTAATTGCATGATTATTAA
1 TATTAATTGCATGATTATTAA
10637416 TA-TATATT--AT-ATTATT--
1 TATTA-ATTGCATGATTATTAA
*
10637432 TATTAACTGCATGATTATTAA
1 TATTAATTGCATGATTATTAA
10637453 TAT
1 TAT
10637456 ATTTGAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
18 8 0.16
19 8 0.16
20 18 0.35
21 11 0.22
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (21 bp):
TATTAATTGCATGATTATTAA
Found at i:10637443 original size:37 final size:38
Alignment explanation
Indices: 10637395--10637474 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 38
10637385 ATGATTATAA
*
10637395 TATTAATTGCATGATTATTAATATATATT-A-TATTATT
1 TATTAACTGCATGATTATTAATATAT-TTAATTATTATT
10637432 TATTAACTGCATGATTATTAATATATTTGAATTATTATT
1 TATTAACTGCATGATTATTAATATATTT-AATTATTATT
10637471 TATT
1 TATT
10637475 TGCATGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 2 0.05
37 25 0.64
38 1 0.03
39 11 0.28
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (38 bp):
TATTAACTGCATGATTATTAATATATTTAATTATTATT
Found at i:10637485 original size:57 final size:57
Alignment explanation
Indices: 10637369--10637485 Score: 128
Period size: 57 Copynumber: 2.1 Consensus size: 57
10637359 TTTTATTTGC
* * * * *
10637369 ATTATTTATTAATTGTATGATTATAATATTAATTGCATGATTATTAATATATATTAT
1 ATTATTTATTAACTGCATGATTATAATATTAATTGAATGATTATTAATATACATGAT
* * * * *
10637426 ATTATTTATTAACTGCATGATTATTAATA-TATTTGAATTATTATTTATTTGCATGAT
1 ATTATTTATTAACTGCATGATTA-TAATATTAATTGAATGATTATTAATATACATGAT
10637483 ATT
1 ATT
10637486 TTTGCATGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
57 44 0.90
58 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (57 bp):
ATTATTTATTAACTGCATGATTATAATATTAATTGAATGATTATTAATATACATGAT
Found at i:10637636 original size:18 final size:17
Alignment explanation
Indices: 10637603--10637638 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10637593 ATAGTATTAC
10637603 ATTATATATTTTGCATG
1 ATTATATATTTTGCATG
*
10637620 ATTATTTATTATTGCATG
1 ATTATATATT-TTGCATG
10637638 A
1 A
10637639 ATCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
ATTATATATTTTGCATG
Found at i:10637645 original size:39 final size:39
Alignment explanation
Indices: 10637602--10637714 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 39
10637592 TATAGTATTA
10637602 CATTATATATT-TTGCATGATTATTTATTATTGCATGAAT
1 CATTATATATTATTGCATGATTATTTATTATTGCATG-AT
*
10637641 CATTATAATACATTATTGCATGA-TA---ATTTTTGCATGAT
1 CATTAT-AT--ATTATTGCATGATTATTTATTATTGCATGAT
*
10637679 -ATT-TATATTATTGCATGATATTTTATATTATTGCAT
1 CATTATATATTATTGCATGAT-TATT-TATTATTGCAT
10637715 TATAGTTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
33 12 0.20
35 3 0.05
36 1 0.02
37 3 0.05
38 2 0.03
39 25 0.41
40 2 0.03
42 5 0.08
43 8 0.13
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (39 bp):
CATTATATATTATTGCATGATTATTTATTATTGCATGAT
Found at i:10637705 original size:20 final size:19
Alignment explanation
Indices: 10637607--10637714 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 19
10637597 TATTACATTA
10637607 TATATT-TTGCATGAT-TAT
1 TATATTATTGCATGATAT-T
10637625 T-TATTATTGCATGAATCATT
1 TATATTATTGCATG-AT-ATT
10637645 ATAATACATTATTGCATGATA--
1 -T-AT--ATTATTGCATGATATT
10637666 -AT-TT-TTGCATGATATT
1 TATATTATTGCATGATATT
10637682 TATATTATTGCATGATATTT
1 TATATTATTGCATGATA-TT
10637702 TATATTATTGCAT
1 TATATTATTGCAT
10637715 TATAGTTTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 28
0.73 0.00 0.27
Matches are distributed among these distances:
14 10 0.13
15 2 0.03
17 6 0.08
18 12 0.16
19 12 0.16
20 16 0.21
21 2 0.03
23 2 0.03
24 2 0.03
25 11 0.15
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (19 bp):
TATATTATTGCATGATATT
Found at i:10637727 original size:53 final size:53
Alignment explanation
Indices: 10637583--10637751 Score: 161
Period size: 57 Copynumber: 3.1 Consensus size: 53
10637573 ACATATTTGA
* *
10637583 ATGAT-TTA-ATATAGTATTACATTATATATTTTGCATGATTATT-TATTATTGC
1 ATGATATTATATATATTATTGCATTATAT-TTTTGCATGATT-TTATATTATTGC
* *
10637635 ATGAATCATTATAATACATTATTGCATGATAATTTTTGCATGATATTTATATTATTGC
1 ATG-AT-ATTAT-ATATATTATTGCATTAT-ATTTTTGCATGAT-TTTATATTATTGC
* *
10637693 ATGATATT-T-TATATTATTGCATTATAGTTTTTGCAT-TTTTTTTATTTATTGC
1 ATGATATTATATATATTATTGCATTATA-TTTTTGCATGATTTTATA-TTATTGC
10637745 ATGATAT
1 ATGATAT
10637752 ATCGATATGA
Statistics
Matches: 99, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
51 5 0.05
52 19 0.19
53 25 0.25
55 4 0.04
56 3 0.03
57 28 0.28
58 15 0.15
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.53
Consensus pattern (53 bp):
ATGATATTATATATATTATTGCATTATATTTTTGCATGATTTTATATTATTGC
Found at i:10639132 original size:34 final size:34
Alignment explanation
Indices: 10639089--10639154 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10639079 ACAGAAACGT
* *
10639089 AACAAATCAAACAAGAAGTTTAGGGATTTGACCC
1 AACAAATCAAACAAAAAGTTTAGAGATTTGACCC
10639123 AACAAATCAAACAAAAAGTTTAGAGATTTGAC
1 AACAAATCAAACAAAAAGTTTAGAGATTTGAC
10639155 TTAAAATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (34 bp):
AACAAATCAAACAAAAAGTTTAGAGATTTGACCC
Found at i:10641342 original size:29 final size:30
Alignment explanation
Indices: 10641300--10641359 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
10641290 ACATTTTTTT
10641300 AATAAAATAAAAATTCATTGCCTTGATATC
1 AATAAAATAAAAATTCATTGCCTTGATATC
*
10641330 AATAAAAT-AAAATTCATTGTCTTGATATC
1 AATAAAATAAAAATTCATTGCCTTGATATC
10641359 A
1 A
10641360 TGCAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (30 bp):
AATAAAATAAAAATTCATTGCCTTGATATC
Found at i:10642097 original size:17 final size:18
Alignment explanation
Indices: 10642075--10642109 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10642065 GAATGTCAAG
10642075 CTTTT-GAACCTTTTGCT
1 CTTTTGGAACCTTTTGCT
*
10642092 CTTTTGGAACTTTTTGCT
1 CTTTTGGAACCTTTTGCT
10642110 GGTTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.11, C:0.20, G:0.14, T:0.54
Consensus pattern (18 bp):
CTTTTGGAACCTTTTGCT
Found at i:10642237 original size:84 final size:84
Alignment explanation
Indices: 10642073--10642243 Score: 209
Period size: 84 Copynumber: 2.0 Consensus size: 84
10642063 TGGAATGTCA
* * * *
10642073 AGCTTTTGAACCTTTTGCTCTTTTGGAACTTTTTGCTGGTTTCCTTTAGCACGTACCTTTCTCTC
1 AGCTTTTGAACCTTTTGCTCTTTTGGAACTCTTAGCTGGTTTCCTCTAGCAAGTACCTTTCTCTC
* *
10642138 GATAAACCTAATTCTTTCT
66 AAGAAACCTAATTCTTTCT
* * * *
10642157 AGCTTTTGACCCTTTTGCTCTTTTGGAACTCTTAGCT-GTTCTTCTCTAGCAAGTAGCTTTTTCT
1 AGCTTTTGAACCTTTTGCTCTTTTGGAACTCTTAGCTGGTT-TCCTCTAGCAAGTACCTTTCTCT
** *
10642221 CAAGAGCCCTAGTTCTTTCT
65 CAAGAAACCTAATTCTTTCT
10642241 AGC
1 AGC
10642244 CGGTTTGAGG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 3 0.04
84 70 0.96
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (84 bp):
AGCTTTTGAACCTTTTGCTCTTTTGGAACTCTTAGCTGGTTTCCTCTAGCAAGTACCTTTCTCTC
AAGAAACCTAATTCTTTCT
Found at i:10643068 original size:16 final size:15
Alignment explanation
Indices: 10643042--10643078 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
10643032 CTCTTAAATA
10643042 TTAATTAATAAATTT
1 TTAATTAATAAATTT
10643057 TTAATATAATAAATTT
1 TTAAT-TAATAAATTT
*
10643073 ATAATT
1 TTAATT
10643079 TAGATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATTAATAAATTT
Found at i:10644732 original size:15 final size:15
Alignment explanation
Indices: 10644712--10644741 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10644702 TTCTCTCTTA
10644712 TTTCATCTAAAATAT
1 TTTCATCTAAAATAT
10644727 TTTCATCTAAAATAT
1 TTTCATCTAAAATAT
10644742 CTAAAAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTCATCTAAAATAT
Found at i:10644852 original size:2 final size:2
Alignment explanation
Indices: 10644845--10644875 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10644835 GCGACGCCAG
*
10644845 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10644876 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10645812 original size:24 final size:25
Alignment explanation
Indices: 10645780--10645828 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10645770 TCTCTGTCTA
*
10645780 CATTTTAGAAT-TTTTTTCTCTTTT
1 CATTATAGAATCTTTTTTCTCTTTT
* *
10645804 CATTATAGATTCTTTTTTCTTTTTT
1 CATTATAGAATCTTTTTTCTCTTTT
10645829 TTTCATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.67
Consensus pattern (25 bp):
CATTATAGAATCTTTTTTCTCTTTT
Found at i:10651480 original size:25 final size:25
Alignment explanation
Indices: 10651452--10651532 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
10651442 ATTTGTGATT
10651452 TGATGATATAGATTAAAAACTTGAA
1 TGATGATATAGATTAAAAACTTGAA
* *** * *
10651477 TGAT-ATGTTAGATGT-ATTTCTTCTAT
1 TGATGAT-ATAGAT-TAAAAACTT-GAA
10651503 TTGATGATATAGATTAAAAACTTGAA
1 T-GATGATATAGATTAAAAACTTGAA
10651529 TGAT
1 TGAT
10651533 ATTTTAGAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
24 2 0.05
25 16 0.42
26 6 0.16
27 12 0.32
28 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (25 bp):
TGATGATATAGATTAAAAACTTGAA
Found at i:10652093 original size:42 final size:42
Alignment explanation
Indices: 10652033--10652115 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
10652023 ACATTTATGA
* *
10652033 GTAATTGTATTTCTATTCA-AGCATCATA-AATATATTATATAC
1 GTAATTGTATTGCCATTCATA-CATCATACAA-ATATTATATAC
* *
10652075 GTAATTGTCTTGCCATTCATATATCATACAAATATTATATA
1 GTAATTGTATTGCCATTCATACATCATACAAATATTATATA
10652116 AGTTTTGGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (42 bp):
GTAATTGTATTGCCATTCATACATCATACAAATATTATATAC
Found at i:10655013 original size:20 final size:20
Alignment explanation
Indices: 10654970--10655013 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
10654960 ATTGATCGAT
* *
10654970 CTATCATTTTTCAAACTGAG
1 CTATCATTTTTCAAACTAAA
* *
10654990 CTATCATTTTTTAGACTAAA
1 CTATCATTTTTCAAACTAAA
10655010 CTAT
1 CTAT
10655014 TGATTAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (20 bp):
CTATCATTTTTCAAACTAAA
Found at i:10663759 original size:3 final size:3
Alignment explanation
Indices: 10663751--10663813 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
10663741 TTATTACGAA
*
10663751 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10663799 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
10663814 TTCACCTTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10664025 original size:54 final size:55
Alignment explanation
Indices: 10663937--10664041 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 55
10663927 CTATTAAAGC
* *
10663937 TGATTTTAAGATTATCCCGACTCTATGGCAAAATC-CAAAAATCATTTCTCAAAT
1 TGATTTTAAGATTATCCAGACTCTATGGCAAAATCTAAAAAATCATTTCTCAAAT
* * * **
10663991 TGATTTTAGGATTATCCAGACTTTTTGGTGAAATCTTAAAAAATCATTTCT
1 TGATTTTAAGATTATCCAGACTCTATGGCAAAATC-TAAAAAATCATTTCT
10664042 TTTAGTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 29 0.69
56 13 0.31
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (55 bp):
TGATTTTAAGATTATCCAGACTCTATGGCAAAATCTAAAAAATCATTTCTCAAAT
Found at i:10665504 original size:3 final size:3
Alignment explanation
Indices: 10665496--10665563 Score: 55
Period size: 3 Copynumber: 22.7 Consensus size: 3
10665486 GAAAAGACAA
* * * * * * * * *
10665496 AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10665544 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
10665564 CTATTTAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (3 bp):
AAT
Found at i:10667958 original size:25 final size:25
Alignment explanation
Indices: 10667930--10667984 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
10667920 TTGTAAGGAT
10667930 TTGAAAAAGATTTTTTTTATTTTTA
1 TTGAAAAAGATTTTTTTTATTTTTA
*
10667955 TTG-AAAAGATTTTTTTTATTTTTT
1 TTGAAAAAGATTTTTTTTATTTTTA
10667979 TTGAAA
1 TTGAAA
10667985 TTTTATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (25 bp):
TTGAAAAAGATTTTTTTTATTTTTA
Found at i:10668981 original size:26 final size:26
Alignment explanation
Indices: 10668951--10669022 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
10668941 AGAATGATGA
*
10668951 TAATAATATA-ATAATAATAGTGATAT
1 TAATAATATATATAATAATACT-ATAT
*
10668977 TAATAATAGTATATCATAATACTATAT
1 TAATAATA-TATATAATAATACTATAT
10669004 T-ATAATATATACT-ATAATA
1 TAATAATATATA-TAATAATA
10669023 AAAAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 10 0.24
26 15 0.37
27 7 0.17
28 9 0.22
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (26 bp):
TAATAATATATATAATAATACTATAT
Found at i:10668982 original size:15 final size:14
Alignment explanation
Indices: 10668950--10669014 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 14
10668940 AAGAATGATG
* *
10668950 ATAATAATATAATA
1 ATAATAGTATATTA
10668964 ATAATAGTGATATTA
1 ATAATAGT-ATATTA
*
10668979 ATAATAGTATA-TC
1 ATAATAGTATATTA
*
10668992 ATAATACTATATT-
1 ATAATAGTATATTA
10669005 ATAATA-TATA
1 ATAATAGTATA
10669015 CTATAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 4 0.09
13 17 0.38
14 11 0.24
15 13 0.29
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (14 bp):
ATAATAGTATATTA
Found at i:10670085 original size:155 final size:155
Alignment explanation
Indices: 10669914--10670215 Score: 460
Period size: 155 Copynumber: 1.9 Consensus size: 155
10669904 TTCAAGCCGA
* *
10669914 CCTTTCGGGTTTTCAACTTGAACTTTTTTTTTGGATCAAGCAAAGCACTTCTTCATGGCATCAGA
1 CCTTTCGAGTTTTCAACTTGAACTTTTTTTTTGGATCAAGAAAAGCACTTCTTCATGGCATCAGA
* *
10669979 ATTAAAAGGATTAAGAAGTTCATCTTCATCCATTTCTGATAAGATTAAAGCTCCTCTCAAAAAAA
66 ATTAAAAGGATTAAGAAGTTCATCTCCATCCATTTCTGATAAAATTAAAGCTCCTCTCAAAAAAA
* *
10670044 CTTTTTTTACCACATATAGTCTCAC
131 CTCTTTTTACCAAATATAGTCTCAC
* *
10670069 CCTTTCGAGTTTTCAACTTGAACTTTTTTTTTGGATCAAGAAAAGTACTTTTTCATGGCATCAGA
1 CCTTTCGAGTTTTCAACTTGAACTTTTTTTTTGGATCAAGAAAAGCACTTCTTCATGGCATCAGA
* * * * * * * *
10670134 ATTTATAGGATTAGGAAGTTCATCTCCATCCATTTTTGATAAAATTAAGGCTTCTCTCGAAAAAG
66 ATTAAAAGGATTAAGAAGTTCATCTCCATCCATTTCTGATAAAATTAAAGCTCCTCTCAAAAAAA
10670199 CTCTTTTTACCAAATAT
131 CTCTTTTTACCAAATAT
10670216 GGTCATTCCC
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
155 131 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (155 bp):
CCTTTCGAGTTTTCAACTTGAACTTTTTTTTTGGATCAAGAAAAGCACTTCTTCATGGCATCAGA
ATTAAAAGGATTAAGAAGTTCATCTCCATCCATTTCTGATAAAATTAAAGCTCCTCTCAAAAAAA
CTCTTTTTACCAAATATAGTCTCAC
Found at i:10675517 original size:8 final size:8
Alignment explanation
Indices: 10675506--10675557 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
10675496 ATTCCAAAAT
10675506 TTTTTATA
1 TTTTTATA
10675514 TTTTTAT-
1 TTTTTATA
*
10675521 GTTTTATA
1 TTTTTATA
10675529 TTTTTTATTA
1 -TTTTTA-TA
*
10675539 TTTTTATT
1 TTTTTATA
10675547 TTTTTATA
1 TTTTTATA
10675555 TTT
1 TTT
10675558 ATTTTTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 6 0.16
8 18 0.49
9 11 0.30
10 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:10675518 original size:9 final size:9
Alignment explanation
Indices: 10675504--10675557 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
10675494 TAATTCCAAA
10675504 ATTTTTTAT
1 ATTTTTTAT
10675513 A--TTTT-T
1 ATTTTTTAT
*
10675519 ATGTTTTAT
1 ATTTTTTAT
10675528 ATTTTTTAT
1 ATTTTTTAT
10675537 -TATTTTTAT
1 AT-TTTTTAT
10675546 -TTTTTTAT
1 ATTTTTTAT
10675554 ATTT
1 ATTT
10675558 ATTTTTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 12 0.31
9 21 0.54
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:10675531 original size:24 final size:26
Alignment explanation
Indices: 10675504--10675557 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
10675494 TAATTCCAAA
10675504 ATTTTTTA-TATTTTTA-TGTTTTAT
1 ATTTTTTATTATTTTTATTGTTTTAT
*
10675528 ATTTTTTATTATTTTTATTTTTTTAT
1 ATTTTTTATTATTTTTATTGTTTTAT
10675554 ATTT
1 ATTT
10675558 ATTTTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 8 0.30
25 8 0.30
26 11 0.41
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (26 bp):
ATTTTTTATTATTTTTATTGTTTTAT
Found at i:10675548 original size:15 final size:15
Alignment explanation
Indices: 10675507--10675563 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
10675497 TTCCAAAATT
10675507 TTTTATATTTTTATGT-
1 TTTT-TATTTTTAT-TA
*
10675523 TTTATATTTTTTATTA
1 TTTTTA-TTTTTATTA
10675539 TTTTTATTTTT-TTA
1 TTTTTATTTTTATTA
*
10675553 TATTTATTTTT
1 TTTTTATTTTT
10675564 TTGTTGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.36
15 8 0.22
16 15 0.42
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTATTA
Found at i:10675564 original size:16 final size:17
Alignment explanation
Indices: 10675517--10675565 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 17
10675507 TTTTATATTT
10675517 TTATGTTTTATATTTTTTA
1 TTAT-TTTTAT-TTTTTTA
10675536 TTATTTTTATTTTTTTA
1 TTATTTTTATTTTTTTA
10675553 -TA--TTTATTTTTTT
1 TTATTTTTATTTTTTT
10675566 GTTGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.37
16 2 0.07
17 7 0.23
18 6 0.20
19 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (17 bp):
TTATTTTTATTTTTTTA
Found at i:10675803 original size:7 final size:8
Alignment explanation
Indices: 10675761--10675804 Score: 52
Period size: 8 Copynumber: 5.0 Consensus size: 8
10675751 GTAAAAATAC
10675761 TAAAAAAA
1 TAAAAAAA
10675769 TAATAAACACA
1 TAA-AAA-A-A
10675780 TAAAATAAA
1 TAAAA-AAA
10675789 TAAAAAAA
1 TAAAAAAA
10675797 TAAAAAAA
1 TAAAAAAA
10675805 ACCAAAGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 14 0.44
9 9 0.28
10 4 0.12
11 5 0.16
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:10676874 original size:41 final size:41
Alignment explanation
Indices: 10676820--10677294 Score: 515
Period size: 42 Copynumber: 11.5 Consensus size: 41
10676810 GAAAAACATA
*
10676820 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAAAAAAT
1 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAATAAAT
* * * * **
10676861 TGCTCTTCCAAACAGAGGTATCACAACTTTTAAAAA-AAAT
1 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAATAAAT
* * * *
10676901 TACTCTTCTAAATAGAGGCACCACAACTTTGAAAAAGTAAAT
1 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAA-TAAAT
* * *
10676943 TGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAATAAAT
* ** *
10676984 TGCTTCTCTAAACAGAGGCACCATGACTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAATAAAT
* * *
10677025 TGCTCATCTAAATAGAGGCACTACAACTTTGGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAATAAAT
** *
10677067 TGCTCCTCTAAATTGAGGCACCATAACTTTGGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAATAAAT
* * *
10677109 TGCTCCTCTAAACAGAGGCAACACAACTTTGGATAAATATAT
1 TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAATAAAT
* * *
10677151 TGCTCCTCTAAACAAAGACACCACAACTTTGAAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAATAAAT
* * ** *
10677193 TGCTCTTCTAAACAGAGGCAACATGACTTTAGAAAAA-AAAT
1 TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAATAAAT
* * *
10677234 TGCTCCTCTAAACAAAGGCAACACAATTTTGG-AAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACAA-CTTGGAAAAATAAAT
*
10677275 TACTCCTCTAAACAGAGGCA
1 TGCTCCTCTAAACAGAGGCA
10677295 TCATGACTTT
Statistics
Matches: 370, Mismatches: 59, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
40 38 0.10
41 143 0.39
42 189 0.51
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (41 bp):
TGCTCCTCTAAACAGAGGCACCACAACTTGGAAAAATAAAT
Found at i:10677139 original size:84 final size:84
Alignment explanation
Indices: 10676803--10677294 Score: 590
Period size: 84 Copynumber: 5.9 Consensus size: 84
10676793 AGGCTCAATG
* * *
10676803 ACTTTGAGAAAAACATA-TGCTCCTCTAAACAGAGGCACCACAAC-TTGGAAAAAAAAATTGCTC
1 ACTTTG-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTC
* * * *
10676866 TTCCAAACAGAGGTATCACA
65 CTCTAAACAGAGGCAACACA
* * * *
10676886 ACTTT-TAAAAA-AAATTACTCTTCTAAATAGAGGCACCACAACTTT-GAAAAAGTAAATTGCTC
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAA-TAAATTGCTC
*
10676948 CTCTAAATAGAGGCAACACA
65 CTCTAAACAGAGGCAACACA
* ** *
10676968 ACTTT-GAAAAATAAATTGCTTCTCTAAACAGAGGCACCATGACTTT-GAAAAATAAATTGCTCA
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTCC
*
10677031 TCTAAATAGAGGC-ACTACA
66 TCTAAACAGAGGCAAC-ACA
** *
10677050 ACTTTGGAAAAATAAATTGCTCCTCTAAATTGAGGCACCATAACTTTGGAAAAATAAATTGCTCC
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTCC
10677115 TCTAAACAGAGGCAACACA
66 TCTAAACAGAGGCAACACA
* * * * * *
10677134 ACTTTGGATAAATATATTGCTCCTCTAAACAAAGACACCACAACTTTGAAAAAATAAATTGCTCT
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTCC
**
10677199 TCTAAACAGAGGCAACATG
66 TCTAAACAGAGGCAACACA
* * * * *
10677218 ACTTTAGAAAAA-AAATTGCTCCTCTAAACAAAGGCAACACAATTTTGG-AAAATAAATTACTCC
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTCC
10677281 TCTAAACAGAGGCA
66 TCTAAACAGAGGCA
10677295 TCATGACTTT
Statistics
Matches: 356, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 37 0.10
82 94 0.26
83 107 0.30
84 114 0.32
85 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (84 bp):
ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTGCTCC
TCTAAACAGAGGCAACACA
Found at i:10678746 original size:9 final size:9
Alignment explanation
Indices: 10678732--10678807 Score: 85
Period size: 8 Copynumber: 9.0 Consensus size: 9
10678722 AGTCTTCCTT
10678732 TTTTTTTCA
1 TTTTTTTCA
10678741 -TTTTTT-A
1 TTTTTTTCA
10678748 TTTTTTCTCA
1 TTTTTT-TCA
10678758 TTTTTTTC-
1 TTTTTTTCA
10678766 -TTTTTT-A
1 TTTTTTTCA
10678773 TTTTTTT-A
1 TTTTTTTCA
10678781 TTTTTTTCA
1 TTTTTTTCA
10678790 TTTTTTTC-
1 TTTTTTTCA
10678798 TCTTTTTTCA
1 T-TTTTTTCA
10678808 AGCATAGTAC
Statistics
Matches: 59, Mismatches: 0, Indels: 15
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.12
8 26 0.44
9 19 0.32
10 7 0.12
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:10678753 original size:17 final size:16
Alignment explanation
Indices: 10678730--10678807 Score: 95
Period size: 17 Copynumber: 4.7 Consensus size: 16
10678720 TGAGTCTTCC
10678730 TTTTTTTTTCATTTTT
1 TTTTTTTTTCATTTTT
*
10678746 TATTTTTTCTCATTTTT
1 T-TTTTTTTTCATTTTT
*
10678763 TTCTTTTTT-ATTTTT
1 TTTTTTTTTCATTTTT
10678778 TTATTTTTTTCATTTTT
1 TT-TTTTTTTCATTTTT
10678795 TTCTCTTTTTTCA
1 TT-T-TTTTTTCA
10678808 AGCATAGTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
15 8 0.15
16 13 0.25
17 24 0.45
18 8 0.15
ACGTcount: A:0.09, C:0.10, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTCATTTTT
Found at i:10678776 original size:32 final size:33
Alignment explanation
Indices: 10678733--10678804 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
10678723 GTCTTCCTTT
10678733 TTTTTTCA-TTTTTTATTTTTTCTCATTTTTTTC
1 TTTTTTCATTTTTTTATTTTTT-TCATTTTTTTC
10678766 TTTTTT-ATTTTTTTATTTTTTTCATTTTTTTC
1 TTTTTTCATTTTTTTATTTTTTTCATTTTTTTC
10678798 TCTTTTT
1 T-TTTTT
10678805 TCAAGCATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 13 0.35
33 24 0.65
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTTTTCATTTTTTTATTTTTTTCATTTTTTTC
Found at i:10688688 original size:24 final size:24
Alignment explanation
Indices: 10688661--10688711 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
10688651 AAGATTTGAA
10688661 AAAGAATTTTTTT-TATTTTTATTG
1 AAAGAATTTTTTTATATTTTT-TTG
*
10688685 AAAGGATTTTTTTATATTTTTTTG
1 AAAGAATTTTTTTATATTTTTTTG
10688709 AAA
1 AAA
10688712 TTTTATTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (24 bp):
AAAGAATTTTTTTATATTTTTTTG
Found at i:10689234 original size:10 final size:11
Alignment explanation
Indices: 10689220--10689258 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
10689210 CTAGAAAAAC
10689220 CCAAATTTCTT
1 CCAAATTTCTT
10689231 -CAAATTT-TT
1 CCAAATTTCTT
*
10689240 CCAAATTTCTC
1 CCAAATTTCTT
10689251 CCAAATTT
1 CCAAATTT
10689259 GCCTAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.56
11 9 0.36
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.44
Consensus pattern (11 bp):
CCAAATTTCTT
Found at i:10689723 original size:3 final size:3
Alignment explanation
Indices: 10689715--10689828 Score: 65
Period size: 3 Copynumber: 39.3 Consensus size: 3
10689705 TATAAATATA
* * * * * * * *
10689715 AAT AAT AAT AAT AAT GAT GAT GAT GAT GAT GAT GAT GAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
10689762 AAT AAT -AT AAT GAT GAT GAT GAT AAT AAT -AT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
10689807 AAT AAT AGT GAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
10689829 GTATATCATA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
2 8 0.08
3 89 0.92
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10689765 original size:8 final size:8
Alignment explanation
Indices: 10689752--10689867 Score: 60
Period size: 8 Copynumber: 13.9 Consensus size: 8
10689742 GATGATGATG
10689752 ATAATAAT
1 ATAATAAT
10689760 ATAATAAT
1 ATAATAAT
*
10689768 ATAATGAT
1 ATAATAAT
* *
10689776 GATGATGAT
1 -ATAATAAT
10689785 AATAAT-AT
1 -ATAATAAT
10689793 AATAATAAT
1 -ATAATAAT
10689802 ATAATAAT
1 ATAATAAT
* *
10689810 AATAGTGAT
1 -ATAATAAT
10689819 ATTAATAAT
1 A-TAATAAT
10689828 AGT-AT-AT
1 A-TAATAAT
10689835 CATAATACTAT
1 -ATAATA--AT
*
10689846 ATTATAAT
1 ATAATAAT
*
10689854 AT-ATACT
1 ATAATAAT
10689861 ATAATAA
1 ATAATAA
10689868 AAAATACAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
7 9 0.10
8 44 0.51
9 26 0.30
10 5 0.06
11 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:10689768 original size:11 final size:11
Alignment explanation
Indices: 10689760--10689813 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
10689750 TGATAATAAT
10689760 ATAATAATATA
1 ATAATAATATA
* * *
10689771 ATGATGATGATG
1 ATAATAAT-ATA
10689783 ATAATAATATA
1 ATAATAATATA
10689794 ATAATAATATA
1 ATAATAATATA
10689805 ATAATAATA
1 ATAATAATA
10689814 GTGATATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
11 28 0.78
12 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (11 bp):
ATAATAATATA
Found at i:10689778 original size:31 final size:31
Alignment explanation
Indices: 10689740--10689799 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
10689730 GATGATGATG
10689740 ATGATGATGATGATAATAATATAATAATATA
1 ATGATGATGATGATAATAATATAATAATATA
10689771 ATGATGATGATGATAATAATATAATAATA
1 ATGATGATGATGATAATAATATAATAATA
10689800 ATATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (31 bp):
ATGATGATGATGATAATAATATAATAATATA
Found at i:10689779 original size:34 final size:35
Alignment explanation
Indices: 10689715--10689828 Score: 135
Period size: 34 Copynumber: 3.3 Consensus size: 35
10689705 TATAAATATA
* *
10689715 AATAATAATAATAATGATGATGATGATGATGATGAT
1 AATAATAATAATAATAAT-ATAATGATGATGATGAT
*
10689751 GATAATAAT-ATAATAATATAATGATGATGATGAT
1 AATAATAATAATAATAATATAATGATGATGATGAT
* *
10689785 AATAAT-ATAATAATAATATAATAATAAT-AGTGAT
1 AATAATAATAATAATAATATAATGATGATGA-TGAT
*
10689819 ATTAATAATA
1 AATAATAATA
10689829 GTATATCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
33 3 0.04
34 47 0.69
35 10 0.15
36 8 0.12
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (35 bp):
AATAATAATAATAATAATATAATGATGATGATGAT
Found at i:10694498 original size:34 final size:34
Alignment explanation
Indices: 10694455--10694524 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
10694445 AATTGTTATT
10694455 AGAAAGATGTATGCTCTAACCTTATAATGCATTC
1 AGAAAGATGTATGCTCTAACCTTATAATGCATTC
10694489 AGAAAGATGTATGCTCTAACCTTATAATGCATTC
1 AGAAAGATGTATGCTCTAACCTTATAATGCATTC
10694523 AG
1 AG
10694525 CATACACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (34 bp):
AGAAAGATGTATGCTCTAACCTTATAATGCATTC
Found at i:10698523 original size:22 final size:22
Alignment explanation
Indices: 10698498--10698797 Score: 96
Period size: 22 Copynumber: 13.8 Consensus size: 22
10698488 ATTACTAGCA
10698498 ATTTACTATTAAATTATCAATG
1 ATTTACTATTAAATTATCAATG
* * *
10698520 ATTTACTATTATATTTTTATAT-
1 ATTTACTATTAAATTATCA-ATG
* * * * *
10698542 ATTTATTATTATGA-GATCATTA
1 ATTTACTATTA-AATTATCAATG
* * * * *
10698564 ATTTACTATTTAATTTTTACTT
1 ATTTACTATTAAATTATCAATG
* **
10698586 ATTTA-TCACTAAATTATTTATG
1 ATTTACT-ATTAAATTATCAATG
* * * * *
10698608 ATTCACTACTAAGTTATTACTG
1 ATTTACTATTAAATTATCAATG
10698630 ATTTA-TATTAAATTATGC-ATG
1 ATTTACTATTAAATTAT-CAATG
* *
10698651 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAATTATCAATG
* ** * *
10698673 ATTAACTATTATGTTATCGATA
1 ATTTACTATTAAATTATCAATG
* * *
10698695 AATTATTATTAAGTT-T--ATAG
1 ATTTACTATTAAATTATCAAT-G
* * * * *
10698715 ATTTATTTTTAAGTTTTCAATA
1 ATTTACTATTAAATTATCAATG
* * *
10698737 AATAACTATTAAATTATCAATT
1 ATTTACTATTAAATTATCAATG
* *
10698759 ATTTACTATTAATTTAT-AATTA
1 ATTTACTATTAAATTATCAA-TG
* *
10698781 ATTTACCACTAAATTAT
1 ATTTACTATTAAATTAT
10698798 TTATTATTTG
Statistics
Matches: 203, Mismatches: 61, Indels: 28
0.70 0.21 0.10
Matches are distributed among these distances:
19 2 0.01
20 13 0.06
21 24 0.12
22 158 0.78
23 6 0.03
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:10698552 original size:44 final size:44
Alignment explanation
Indices: 10698498--10698661 Score: 124
Period size: 44 Copynumber: 3.8 Consensus size: 44
10698488 ATTACTAGCA
*
10698498 ATTTACTATTAAATTATCAATGATTTACTATTATATTTTTA-TAT
1 ATTTATTATTAAATTATCAATGATTTACTATTATATTTTTACT-T
* * * *
10698542 ATTTATTATTATGA-GATCATTAATTTACTATT-TAATTTTTACTT
1 ATTTATTATTA-AATTATCAATGATTTACTATTAT-ATTTTTACTT
* * ** * * * *
10698586 ATTTATCACTAAATTATTTATGATTCACTACTA-AGTTATTACTG
1 ATTTATTATTAAATTATCAATGATTTACTATTATA-TTTTTACTT
10698630 ATTTA-TATTAAATTATGC-ATGATTTACTATTA
1 ATTTATTATTAAATTAT-CAATGATTTACTATTA
10698662 AGTTATCATT
Statistics
Matches: 91, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
43 24 0.26
44 65 0.71
45 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.52
Consensus pattern (44 bp):
ATTTATTATTAAATTATCAATGATTTACTATTATATTTTTACTT
Found at i:10698652 original size:43 final size:44
Alignment explanation
Indices: 10698580--10698667 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 44
10698570 TATTTAATTT
* **
10698580 TTACTTATTTATCACTAAATTATTTATGATTCACTACTAAGTTA
1 TTACTGATTTATCACTAAATTATGCATGATTCACTACTAAGTTA
* * *
10698624 TTACTGATTTAT-ATTAAATTATGCATGATTTACTATTAAGTTA
1 TTACTGATTTATCACTAAATTATGCATGATTCACTACTAAGTTA
10698667 T
1 T
10698668 CATTGATTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (44 bp):
TTACTGATTTATCACTAAATTATGCATGATTCACTACTAAGTTA
Found at i:10698806 original size:22 final size:21
Alignment explanation
Indices: 10698746--10698806 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
10698736 AAATAACTAT
* *
10698746 TAAATTATCAATTATTTACTAT
1 TAAATTAT-AATTATTTACCAC
*
10698768 TAATTTATAATTAATTTACCAC
1 TAAATTATAATT-ATTTACCAC
*
10698790 TAAATTATTTATTATTT
1 TAAATTA-TAATTATTT
10698807 GCTACTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.12
22 24 0.75
23 4 0.12
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTATAATTATTTACCAC
Found at i:10698876 original size:22 final size:21
Alignment explanation
Indices: 10698838--10698904 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
10698828 CTAAATTGAA
*
10698838 ACTAATTTACTGATAAATTATT
1 ACTAATTTA-TTATAAATTATT
* *
10698860 ACTAATTTATTATTAAACTATC
1 ACTAATTTATTA-TAAATTATT
* *
10698882 ATTAATTTATTACTAAGTTATT
1 ACTAATTTATTA-TAAATTATT
10698904 A
1 A
10698905 ATAGTCAACT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (21 bp):
ACTAATTTATTATAAATTATT
Found at i:10699036 original size:22 final size:22
Alignment explanation
Indices: 10698967--10699037 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
10698957 AATACTATAC
*
10698967 TATTATGTATTTATAATTATAT
1 TATTATGTATTTATAATTGTAT
* * * *
10698989 TATAATTTATTTATCATTAG-AG
1 TATTATGTATTTATAATT-GTAT
* *
10699011 TATTATGCATTTATTATTGTAT
1 TATTATGTATTTATAATTGTAT
10699033 TATTA
1 TATTA
10699038 CTAATTTACT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (22 bp):
TATTATGTATTTATAATTGTAT
Found at i:10699286 original size:21 final size:21
Alignment explanation
Indices: 10699236--10699279 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10699226 AATCACAATA
10699236 TATACTAGATGATATAATTCG
1 TATACTAGATGATATAATTCG
10699257 TATACTAGATGATATAATTCG
1 TATACTAGATGATATAATTCG
10699278 TA
1 TA
10699280 AGGTAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
TATACTAGATGATATAATTCG
Found at i:10699657 original size:15 final size:15
Alignment explanation
Indices: 10699637--10699667 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10699627 GTAGTAACTT
10699637 TGTCTTATGATTCTA
1 TGTCTTATGATTCTA
10699652 TGTCTTATGATTCTA
1 TGTCTTATGATTCTA
10699667 T
1 T
10699668 CTTTAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (15 bp):
TGTCTTATGATTCTA
Found at i:10700414 original size:17 final size:17
Alignment explanation
Indices: 10700369--10700403 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10700359 AATTGGGTAT
10700369 AAATAAAATTTTTACTC
1 AAATAAAATTTTTACTC
10700386 AAATAAAATTTTTACTC
1 AAATAAAATTTTTACTC
10700403 A
1 A
10700404 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATAAAATTTTTACTC
Found at i:10701167 original size:14 final size:14
Alignment explanation
Indices: 10701148--10701187 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10701138 TATAGCAACA
10701148 TTAAAAATTTTTAT
1 TTAAAAATTTTTAT
10701162 TTAAAAA-TTTTAT
1 TTAAAAATTTTTAT
*
10701175 TATACAAATTTTT
1 T-TAAAAATTTTT
10701188 GTTATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 12 0.52
15 4 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAAAATTTTTAT
Found at i:10701187 original size:15 final size:14
Alignment explanation
Indices: 10701147--10701193 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
10701137 ATATAGCAAC
10701147 ATTA-AAAATTTTT
1 ATTATAAAATTTTT
*
10701160 ATT-TAAAAATTTT
1 ATTATAAAATTTTT
10701173 ATTATACAAATTTTT
1 ATTATA-AAATTTTT
*
10701188 GTTATA
1 ATTATA
10701194 TAAAAATACT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 14 0.50
14 2 0.07
15 12 0.43
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
ATTATAAAATTTTT
Found at i:10702417 original size:18 final size:17
Alignment explanation
Indices: 10702394--10702445 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
10702384 TAGCACTTTT
10702394 AATCTAATTATATAAAAA
1 AATCTAATTA-ATAAAAA
*
10702412 AATCT-ACTAATAAAAA
1 AATCTAATTAATAAAAA
* *
10702428 AATTTATTTAAATAAAAA
1 AATCTAATT-AATAAAAA
10702446 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AATCTAATTAATAAAAA
Found at i:10702444 original size:16 final size:16
Alignment explanation
Indices: 10702425--10702457 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10702415 CTACTAATAA
*
10702425 AAAAATTTATTTAAAT
1 AAAAATTTATTAAAAT
10702441 AAAAATTTATTAAAAT
1 AAAAATTTATTAAAAT
10702457 A
1 A
10702458 TTTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAATTTATTAAAAT
Found at i:10702460 original size:12 final size:12
Alignment explanation
Indices: 10702440--10702473 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
10702430 TTTATTTAAA
10702440 TAAAA-ATTTAT
1 TAAAATATTTAT
10702451 TAAAATATTTAT
1 TAAAATATTTAT
10702463 TAAAAATATTT
1 T-AAAATATTT
10702474 TAGTCAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 7 0.33
13 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAAATATTTAT
Found at i:10702802 original size:32 final size:32
Alignment explanation
Indices: 10702766--10702826 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10702756 ATATGAATAC
*
10702766 ATTTTGTTATTTATAT-ATCTT-TATTTATTTAT
1 ATTTTGTT-TGTATATAAT-TTATATTTATTTAT
10702798 ATTTTGTTTGTATATAATTTATATTTATT
1 ATTTTGTTTGTATATAATTTATATTTATT
10702827 CATTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (32 bp):
ATTTTGTTTGTATATAATTTATATTTATTTAT
Found at i:10704530 original size:2 final size:2
Alignment explanation
Indices: 10704517--10704559 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
10704507 TGTATGTATT
* * * *
10704517 TA TA TA TT TA TA TA GA TA TA TA TA TA TA TA CA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10704559 T
1 T
10704560 GTCAATAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10710155 original size:50 final size:50
Alignment explanation
Indices: 10710078--10710246 Score: 148
Period size: 52 Copynumber: 3.3 Consensus size: 50
10710068 ATTGAATGGA
* * * * *
10710078 AAAAAATTTTGTATTACCAA-TGAATTTCATCACTAATTATTCAGTGAAAAT
1 AAAAAATTTTGAATTATCAACAG-ATTTCGTCA-TAATTAGTCAGTGAAAAT
* *
10710129 -AAAAATTTTGAATTATCAACAGATTTCGTCAGTAATTCGTCACT-AAAAGTT
1 AAAAAATTTTGAATTATCAACAGATTTCGTCA-TAATTAGTCAGTGAAAA--T
* ** *
10710180 AAAAAATTATGAATTATTGACAGATTTCGTCGATAATTAGTC-GTTGAAACT
1 AAAAAATTTTGAATTATCAACAGATTTCGTC-ATAATTAGTCAG-TGAAAAT
10710231 AAAAAATTTTGAATTA
1 AAAAAATTTTGAATTA
10710247 CCGATAGAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
49 4 0.04
50 34 0.35
51 18 0.19
52 36 0.38
53 4 0.04
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (50 bp):
AAAAAATTTTGAATTATCAACAGATTTCGTCATAATTAGTCAGTGAAAAT
Found at i:10710676 original size:21 final size:21
Alignment explanation
Indices: 10710644--10710686 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10710634 AAATAGACAT
*
10710644 TTATGTGATTGTATTGGAAAA
1 TTATGTGATTGTATTGAAAAA
*
10710665 TTATGT-ATTTGTGTTGAAAAA
1 TTATGTGA-TTGTATTGAAAAA
10710686 T
1 T
10710687 AAAATCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTATGTGATTGTATTGAAAAA
Found at i:10710758 original size:13 final size:13
Alignment explanation
Indices: 10710742--10710767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10710732 TTTATGTTAA
10710742 AAATTTTGTGTTG
1 AAATTTTGTGTTG
10710755 AAATTTTGTGTTG
1 AAATTTTGTGTTG
10710768 TTGGACTGAA
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
AAATTTTGTGTTG
Found at i:10712728 original size:3 final size:3
Alignment explanation
Indices: 10712722--10712758 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
10712712 TTATTACTAG
*
10712722 TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10712759 CATTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:10712776 original size:6 final size:6
Alignment explanation
Indices: 10712767--10712839 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
10712757 AACATTATAA
* * *
10712767 AAAAAT AAAAA- AATAACAT AAAAAT CAACAT AAAAATT AAAAAT CAAAAAG
1 AAAAAT AAAAAT AA-AA-AT AAAAAT AAAAAT AAAAA-T AAAAAT -AAAAAT
* *
10712818 AAAAAT AAAAAG AAAAAG AAAA
1 AAAAAT AAAAAT AAAAAT AAAA
10712840 GAAAAAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
5 2 0.04
6 37 0.67
7 14 0.25
8 2 0.04
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:10712796 original size:12 final size:11
Alignment explanation
Indices: 10712731--10712803 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 11
10712721 GTAATAATAT
10712731 AAAATAACAATA
1 AAAATAAC-ATA
*
10712743 ATAAT-A-ATA
1 AAAATAACATA
*
10712752 ATAATAACATTA
1 AAAATAACA-TA
* * *
10712764 TAAAAAAATAAA
1 -AAAATAACATA
10712776 AAAATAACATA
1 AAAATAACATA
10712787 AAAATCAACATA
1 AAAAT-AACATA
10712799 AAAAT
1 AAAAT
10712804 TAAAAATCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.17
10 1 0.02
11 15 0.31
12 18 0.38
13 6 0.12
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAATAACATA
Found at i:10712821 original size:19 final size:19
Alignment explanation
Indices: 10712767--10712839 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
10712757 AACATTATAA
10712767 AAAAAT-AAAAA-AATAACAT
1 AAAAATCAAAAAGAA-AA-AT
* *
10712786 AAAAATCAACATA-AAAATT
1 AAAAATCAA-AAAGAAAAAT
10712805 AAAAATCAAAAAGAAAAAT
1 AAAAATCAAAAAGAAAAAT
*
10712824 AAAAA-GAAAAAGAAAA
1 AAAAATCAAAAAGAAAA
10712840 GAAAAAAACC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.26
19 26 0.57
20 4 0.09
21 4 0.09
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.12
Consensus pattern (19 bp):
AAAAATCAAAAAGAAAAAT
Found at i:10712845 original size:6 final size:6
Alignment explanation
Indices: 10712812--10712845 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10712802 ATTAAAAATC
*
10712812 AAAAAG AAAAAT AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
10712846 AACCTGCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:10712846 original size:12 final size:11
Alignment explanation
Indices: 10712812--10712847 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
10712802 ATTAAAAATC
10712812 AAAAAGAAAAA
1 AAAAAGAAAAA
10712823 TAAAAAGAAAAA
1 -AAAAAGAAAAA
*
10712835 GAAAAGAAAAA
1 AAAAAGAAAAA
10712846 AA
1 AA
10712848 CCTGCGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:10713937 original size:39 final size:39
Alignment explanation
Indices: 10713877--10714116 Score: 213
Period size: 39 Copynumber: 6.3 Consensus size: 39
10713867 AGAGGCTATA
** * * * *
10713877 AAACTTTAAATTTAAAAAGCTCATTTCACTAGAGGCAAC
1 AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
* * *
10713916 AAACTTTAAATCCAAATAGCTCTTTTAACCAAAGGCAAT
1 AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
* * * *
10713955 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAAC
1 AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
*
10713994 GAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
1 AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
*** * ** * *
10714033 AAACTTTAAATGTTGAAAAGCTCCTTTGACCTGAGGCTAT
1 AAACTTTAAAT-CCAAAAAGCTCCTTTAACCAAAGGCAAC
* *
10714073 AAAATTTAAAT------AGCTCCTTTAACCAAAGGCAAT
1 AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
10714106 AAACTTTAAAT
1 AAACTTTAAAT
10714117 TAAAGATCTA
Statistics
Matches: 165, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
33 28 0.17
39 107 0.65
40 30 0.18
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (39 bp):
AAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAAC
Found at i:10714006 original size:78 final size:76
Alignment explanation
Indices: 10713877--10714117 Score: 258
Period size: 78 Copynumber: 3.2 Consensus size: 76
10713867 AGAGGCTATA
* * * * *
10713877 AAACTTTAAATTTAAAAAGCTCATTTCACTAGAGGCAACAAACTTTAAATCCAAATAGCTCTTTT
1 AAACTTTAAA-TTCAAAAGCTCCTTTAACCAGAGGCAAC-AACTTTAAATCCAAATAGCTCCTTT
10713942 AACCAAAGGCAAT
64 AACCAAAGGCAAT
* *
10713955 AAACTTTAAATTCAAAAGGCTCCTCTAACCAGAGGCAACGAACTTTAAATCCAAAAAGCTCCTTT
1 AAACTTTAAATTCAAAA-GCTCCTTTAACCAGAGGCAAC-AACTTTAAATCCAAATAGCTCCTTT
*
10714020 AACCAAAGGCAAC
64 AACCAAAGGCAAT
* * * * * **
10714033 AAACTTTAAATGTTGAAAAGCTCCTTTGACCTGAGG---CTA--TAAAATTTAAATAGCTCCTTT
1 AAACTTTAAA--TTCAAAAGCTCCTTTAACCAGAGGCAACAACTTTAAATCCAAATAGCTCCTTT
10714093 AACCAAAGGCAAT
64 AACCAAAGGCAAT
10714106 AAACTTTAAATT
1 AAACTTTAAATT
10714118 AAAGATCTAA
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
71 2 0.01
73 39 0.28
75 1 0.01
76 1 0.01
77 6 0.04
78 72 0.51
79 14 0.10
80 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (76 bp):
AAACTTTAAATTCAAAAGCTCCTTTAACCAGAGGCAACAACTTTAAATCCAAATAGCTCCTTTAA
CCAAAGGCAAT
Found at i:10714081 original size:118 final size:118
Alignment explanation
Indices: 10713851--10714083 Score: 274
Period size: 118 Copynumber: 2.0 Consensus size: 118
10713841 AGAAAATTTG
** * * *
10713851 AAAGGCTCCTCTAAACAGAGGCTATAAAACTTTAAATTTAAAAAGCTCATTTCACTAGAGGCAAC
1 AAAGGCTCCTCTAAACAGAGGCTATAAAACTTTAAATCCAAAAAGCTCATTTAACCAAAGGCAAC
* *
10713916 AAACTTTAAATCCAAATAGCTCTTTTAACCAAAGGCAATAAACTTTAAATTCA
66 AAACTTTAAATCCAAATAGCTCCTTTAACCAAAGGCAATAAAATTTAAATTCA
* * *
10713969 AAAGGCTCCTCTAACCAGAGGC-A-ACGAACTTTAAATCCAAAAAGCTCCTTTAACCAAAGGCAA
1 AAAGGCTCCTCTAAACAGAGGCTATA-AAACTTTAAATCCAAAAAGCTCATTTAACCAAAGGCAA
** * ** *
10714032 CAAACTTTAAATGTTGAAA-AGCTCCTTTGACCTGAGGCTATAAAATTTAAAT
65 CAAACTTTAAA--TCCAAATAGCTCCTTTAACCAAAGGCAATAAAATTTAAAT
10714084 AGCTCCTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
116 1 0.01
117 43 0.45
118 48 0.50
119 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.26
Consensus pattern (118 bp):
AAAGGCTCCTCTAAACAGAGGCTATAAAACTTTAAATCCAAAAAGCTCATTTAACCAAAGGCAAC
AAACTTTAAATCCAAATAGCTCCTTTAACCAAAGGCAATAAAATTTAAATTCA
Found at i:10714108 original size:33 final size:33
Alignment explanation
Indices: 10714051--10714116 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10714041 AATGTTGAAA
* ** *
10714051 AGCTCCTTTGACCTGAGGCTATAAAATTTAAAT
1 AGCTCCTTTAACCAAAGGCAATAAAATTTAAAT
*
10714084 AGCTCCTTTAACCAAAGGCAATAAACTTTAAAT
1 AGCTCCTTTAACCAAAGGCAATAAAATTTAAAT
10714117 TAAAGATCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (33 bp):
AGCTCCTTTAACCAAAGGCAATAAAATTTAAAT
Found at i:10714110 original size:73 final size:73
Alignment explanation
Indices: 10713929--10714117 Score: 211
Period size: 73 Copynumber: 2.5 Consensus size: 73
10713919 CTTTAAATCC
*
10713929 AAATAGCTCTTTTAACCAAAGGCAATAAACTTTAAA-TTCAAAAGGCTCCTCTAACCAGAGGCAA
1 AAATAGCTCCTTTAACCAAAGGCAATAAACTTTAAATTTCAAAAGGCTCCTCTAACCAGAGGCAA
* *
10713993 CGAACTTT
66 CAAAATTT
* * * * *
10714001 AAATCCAAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTGAAAA-GCTCCTTTGACCT
1 AAAT------AGCTCCTTTAACCAAAGGCAATAAACTTTAAAT-TTCAAAAGGCTCCTCTAACCA
* *
10714065 GAGGCTATAAAATTT
59 GAGGCAACAAAATTT
10714080 AAATAGCTCCTTTAACCAAAGGCAATAAACTTTAAATT
1 AAATAGCTCCTTTAACCAAAGGCAATAAACTTTAAATT
10714118 AAAGATCTAA
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
72 5 0.05
73 32 0.33
78 30 0.31
79 25 0.26
80 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (73 bp):
AAATAGCTCCTTTAACCAAAGGCAATAAACTTTAAATTTCAAAAGGCTCCTCTAACCAGAGGCAA
CAAAATTT
Found at i:10714313 original size:41 final size:39
Alignment explanation
Indices: 10714208--10714333 Score: 135
Period size: 39 Copynumber: 3.2 Consensus size: 39
10714198 GCTCTTGAAA
* * *
10714208 TTAAAAAGCTCATCTGATCACAGGTAATAAACTTTAAAT
1 TTAAAAAGCTCCTCTGATCAAAGGCAATAAACTTTAAAT
* * * * *
10714247 TTAAAAGGCTCCTTTGATCAGAGGCAACAAACTTTATAT
1 TTAAAAAGCTCCTCTGATCAAAGGCAATAAACTTTAAAT
* *
10714286 GTTAAAAAAGCTCCTCTGATAAAAGGCAATTAACTTTAAAT
1 -TT-AAAAAGCTCCTCTGATCAAAGGCAATAAACTTTAAAT
*
10714327 TCAAAAA
1 TTAAAAA
10714334 TCTAAGAGGC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 37 0.53
40 3 0.04
41 30 0.43
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (39 bp):
TTAAAAAGCTCCTCTGATCAAAGGCAATAAACTTTAAAT
Found at i:10726745 original size:25 final size:25
Alignment explanation
Indices: 10726717--10726773 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
10726707 ATAAAATAAC
* *
10726717 AATAATAATAATAA-CATCATAAAAA
1 AATAA-AATAACAATCAACATAAAAA
*
10726742 AATAACATAACAATCAACATAAAAA
1 AATAAAATAACAATCAACATAAAAA
10726767 AATAAAA
1 AATAAAA
10726774 ATCAAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (25 bp):
AATAAAATAACAATCAACATAAAAA
Found at i:10726782 original size:13 final size:13
Alignment explanation
Indices: 10726764--10726813 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
10726754 ATCAACATAA
10726764 AAAAATAAAAATC-
1 AAAAATAAAAA-CG
*
10726777 AAAAATCAAAACG
1 AAAAATAAAAACG
10726790 AAAAATAAAAA-G
1 AAAAATAAAAACG
*
10726802 AAAAAGAAAAAC
1 AAAAATAAAAAC
10726814 CTACGAAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (13 bp):
AAAAATAAAAACG
Found at i:10726783 original size:27 final size:25
Alignment explanation
Indices: 10726717--10726785 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
10726707 ATAAAATAAC
* *
10726717 AATAATAATAATAA-CATCATAAAAA
1 AATAA-AATAAAAATCAACATAAAAA
* *
10726742 AATAACATAACAATCAACATAAAAA
1 AATAAAATAAAAATCAACATAAAAA
10726767 AATAAAAATCAAAAATCAA
1 AAT-AAAAT-AAAAATCAA
10726786 AACGAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.17
25 18 0.50
26 4 0.11
27 8 0.22
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.19
Consensus pattern (25 bp):
AATAAAATAAAAATCAACATAAAAA
Found at i:10731913 original size:95 final size:94
Alignment explanation
Indices: 10731746--10731938 Score: 226
Period size: 95 Copynumber: 2.0 Consensus size: 94
10731736 TGTGAAAGAT
* * * *
10731746 GAAAACTATTACGGATTTTGCATTATGATTTTGATTGAGTATTGTGATTCATGATGAAGTAGATA
1 GAAAACTATTACGGATTTTGCATTATGATTTAGATTGAGTATTATGATTCATGATGAAATAAATA
** **
10731811 GTATAGTAATTGAAAGTGTAGTTGTTGTAA
66 GTATAGTAATT-AAAGCATAGTCATTGTAA
** * * * *
10731841 GAAAACTATTGTGTATTTTGCATTGTGATTCTAG-TTGTGTATTATGATTCTTGATGAAATAAAT
1 GAAAACTATTACGGATTTTGCATTATGATT-TAGATTGAGTATTATGATTCATGATGAAATAAAT
*
10731905 AGTGTAGTAATTAAAGCATAGTCATTGTAA
65 AGTATAGTAATTAAAGCATAGTCATTGTAA
10731935 GAAA
1 GAAA
10731939 TTCAATATTG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
94 18 0.22
95 62 0.76
96 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (94 bp):
GAAAACTATTACGGATTTTGCATTATGATTTAGATTGAGTATTATGATTCATGATGAAATAAATA
GTATAGTAATTAAAGCATAGTCATTGTAA
Found at i:10732213 original size:159 final size:158
Alignment explanation
Indices: 10731841--10732551 Score: 603
Period size: 159 Copynumber: 4.5 Consensus size: 158
10731831 GTTGTTGTAA
* * * * * * * * *
10731841 GAAAACTATTGT-GTATTTTGCATTGTGATTCTAGTTGTGTATTATGATTCTTGATGAAATAAAT
1 GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTCTTATGATTGTTGATGAAGTAGAT
* ** * * * * * * *
10731905 AGTGTAGTAATTAAAGCATAGTCATTGTAAGAAATTCAATATTGAATTAGATAATGTTTTGT-GT
66 AGTGTAGTAATTAAAGCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTACT
* * * *
10731969 GTATTAAGATAAGATCAATGTTGTGAAATGT
131 -TATTGAGATGA-AT-AATTTTGTGAAAGGT
* * * * * ** ** * ** * *
10732000 TAAAATTATT-ACGTATTTTATTTTAAGATTCTGACTGTGTATTGTGA-TGTTGATGAAGTAGAT
1 GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTCTTATGATTGTTGATGAAGTAGAT
* * ** *
10732063 GGTGAAGTAATCGCAAGCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTGC
66 AGTGTAGTAAT-TAAAGCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTAC
*
10732128 TTATTGAGATGTAATGATTTTGTGAAAGGT
130 TTATTGAGATG-AATAATTTTGTGAAAGGT
* * *
10732158 GAAAACTGTTGTCA-ATCTTGCTTTGTGATTTTGGTTGTGTCTTATAATTGTTGATGAAGTAGAT
1 GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTCTTATGATTGTTGATGAAGTAGAT
* * * * *
10732222 AGTGTAGTAATTAAATGTCTAAACATTATAGGAAATTTAGTATTGAACTGTATAGTCTTTTGTAC
66 AGTGTAGTAATTAAA-GCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTAC
* *
10732287 TTATTGAGATGCAATCACTTTGTGAAAGGT
130 TTATTGAGATG-AATAATTTTGTGAAAGGT
* * * * * *
10732317 GAAAACTATT-ACATATTTTGCTTTGTGATTCTAGTTGCG-CATTATGATTGCTGATGAAGTAGA
1 GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTC-TTATGATTGTTGATGAAGTAGA
* * * * *
10732380 TAGTGTAGAAATTAAAACCTAAACATTGTAGGAAATTCAATATTGAACTAGATAGTATATTGTAC
65 TAGTGTAGTAATTAAAGCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTAC
* *
10732445 GTATTGAGATGAGATTAATATTGTTG-AAGGT
130 TTATTGAGATGA-A-TAATTTTG-TGAAAGGT
* * * **
10732476 GAAAATTATTGT-ATATATTGCTTTGTGATTTTGGTTGTATATTATGATTGTTGACAAAGTAGAT
1 GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTCTTATGATTGTTGATGAAGTAGAT
**
10732540 AGCATAGTAATT
66 AGTGTAGTAATT
10732552 GTAATCCATG
Statistics
Matches: 439, Mismatches: 99, Indels: 28
0.78 0.17 0.05
Matches are distributed among these distances:
157 1 0.00
158 119 0.27
159 315 0.72
160 4 0.01
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (158 bp):
GAAAACTATTGTCATATATTGCTTTGTGATTTTGGTTGTGTCTTATGATTGTTGATGAAGTAGAT
AGTGTAGTAATTAAAGCCTAAACATTGTAGGAAATTCAGTATTGAACTATATAGTATTTTGTACT
TATTGAGATGAATAATTTTGTGAAAGGT
Found at i:10733667 original size:12 final size:12
Alignment explanation
Indices: 10733630--10733671 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
10733620 ATTATCAATT
10733630 AATTATTGATG-
1 AATTATTGATGA
* * *
10733641 AATTTTTTATAA
1 AATTATTGATGA
10733653 AATTATTGATGA
1 AATTATTGATGA
10733665 AATTATT
1 AATTATT
10733672 ATCAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
AATTATTGATGA
Found at i:10733673 original size:23 final size:23
Alignment explanation
Indices: 10733630--10733673 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10733620 ATTATCAATT
* *
10733630 AATTATTGATGAATTTTTTATAA
1 AATTATTGATGAAATTATTATAA
10733653 AATTATTGATGAAATTATTAT
1 AATTATTGATGAAATTATTAT
10733674 CAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AATTATTGATGAAATTATTATAA
Found at i:10733691 original size:16 final size:17
Alignment explanation
Indices: 10733664--10733695 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10733654 ATTATTGATG
10733664 AAATTATTATCAATAAA
1 AAATTATTATCAATAAA
10733681 AAATT-TTATCAATAA
1 AAATTATTATCAATAA
10733696 TTACTTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTATTATCAATAAA
Found at i:10737376 original size:17 final size:19
Alignment explanation
Indices: 10737356--10737390 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
10737346 TTATAATTTA
10737356 AATTTTTA-ATT-TATATT
1 AATTTTTATATTATATATT
10737373 AATTTTTATATTATATAT
1 AATTTTTATATTATATAT
10737391 AGATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTTATATTATATATT
Found at i:10739363 original size:20 final size:20
Alignment explanation
Indices: 10739338--10739400 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
10739328 TTAATTTATT
10739338 TTTAAAACTATATTTAAATC
1 TTTAAAACTATATTTAAATC
*
10739358 TTTAAAACT-CA--T-AA--
1 TTTAAAACTATATTTAAATC
*
10739372 TTTAAAATTATATTTAAATC
1 TTTAAAACTATATTTAAATC
10739392 TTTAAAACT
1 TTTAAAACT
10739401 CATAAGATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
14 8 0.24
15 1 0.03
16 2 0.06
17 2 0.06
18 2 0.06
19 1 0.03
20 17 0.52
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAAACTATATTTAAATC
Found at i:10739376 original size:34 final size:34
Alignment explanation
Indices: 10739338--10739405 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10739328 TTAATTTATT
10739338 TTTAAAACTATATTTAAATCTTTAAAACTCATAA
1 TTTAAAACTATATTTAAATCTTTAAAACTCATAA
*
10739372 TTTAAAATTATATTTAAATCTTTAAAACTCATAA
1 TTTAAAACTATATTTAAATCTTTAAAACTCATAA
10739406 GATAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTAAAACTATATTTAAATCTTTAAAACTCATAA
Found at i:10741765 original size:3 final size:3
Alignment explanation
Indices: 10741744--10741786 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
10741734 TCCTCTTTCT
* * *
10741744 CTC CTT CTC CTT CTT CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
10741787 CTATCCCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (3 bp):
CTC
Found at i:10743280 original size:20 final size:20
Alignment explanation
Indices: 10743255--10743295 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10743245 TTATTAATTA
10743255 AAATATTAAAAAATACTTTT
1 AAATATTAAAAAATACTTTT
* *
10743275 AAATATTTAAATATACTTTT
1 AAATATTAAAAAATACTTTT
10743295 A
1 A
10743296 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATATTAAAAAATACTTTT
Found at i:10747245 original size:44 final size:44
Alignment explanation
Indices: 10747195--10747286 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
10747185 GCATCCTAGA
*
10747195 TATGTAATTAACAACTTATATACACATTATAAGATAGCTGATGT
1 TATGTAATTAACAACTTATATACACATTATAAGATAGCTGATGC
10747239 TATGTAATTAACAACTTATATACACATTATAAGATAGCTGATGC
1 TATGTAATTAACAACTTATATACACATTATAAGATAGCTGATGC
10747283 TATG
1 TATG
10747287 CAAAGAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (44 bp):
TATGTAATTAACAACTTATATACACATTATAAGATAGCTGATGC
Found at i:10748199 original size:62 final size:59
Alignment explanation
Indices: 10748128--10748283 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 59
10748118 ACAAAAATGT
* *
10748128 CTTAAATAATTTTCTTTAAATAAATATTAGAGATTATTTAAGGTTTTTTTGACTAAGAACGC
1 CTTAAATAA-TATCTTTAAA-AAATATTAGAGATTATTTAAGGCTTTTTTGACTAA-AACGC
* * ** *
10748190 CTTAAATAATATCTTTCAAAAAAT-TGAAGAGTATTATTTATGGCTTTTTTGGTTAAAATGC
1 CTTAAATAATATCTTT-AAAAAATAT-TAGAG-ATTATTTAAGGCTTTTTTGACTAAAACGC
*
10748251 CTTAAATAATCTCTTTTAAAAAA-ATTAGAGATT
1 CTTAAATAATATC-TTTAAAAAATATTAGAGATT
10748284 TTCAAATAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
59 3 0.04
60 5 0.06
61 37 0.46
62 35 0.44
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (59 bp):
CTTAAATAATATCTTTAAAAAATATTAGAGATTATTTAAGGCTTTTTTGACTAAAACGC
Found at i:10750209 original size:13 final size:12
Alignment explanation
Indices: 10750181--10750208 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10750171 TAAATTTGAA
10750181 TTTTAAATAATT
1 TTTTAAATAATT
10750193 TTTTAAATAATT
1 TTTTAAATAATT
10750205 TTTT
1 TTTT
10750209 TTACATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTAAATAATT
Found at i:10751432 original size:2 final size:2
Alignment explanation
Indices: 10751425--10751457 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10751415 CAGATCACGC
10751425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10751458 GTATGTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10761049 original size:21 final size:22
Alignment explanation
Indices: 10761011--10761052 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10761001 TGAATTACAT
10761011 TTTTAAAGAAACAGAAAAAGGA
1 TTTTAAAGAAACAGAAAAAGGA
10761033 TTTTAAAGAAA-AGAAAAAGG
1 TTTTAAAGAAACAGAAAAAGG
10761053 GAAGATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.60, C:0.02, G:0.19, T:0.19
Consensus pattern (22 bp):
TTTTAAAGAAACAGAAAAAGGA
Found at i:10761791 original size:2 final size:2
Alignment explanation
Indices: 10761784--10761829 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
10761774 ACCTGGCACC
* *
10761784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10761826 TA TA
1 TA TA
10761830 CACACGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10763267 original size:23 final size:23
Alignment explanation
Indices: 10763239--10763299 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
10763229 GAACAATTGA
* *
10763239 AACTATTTATTTTTAAGAGACTT
1 AACTATTTATTTTTAACAAACTT
* * *
10763262 ATCTATCTATTTTAAACAAACTT
1 AACTATTTATTTTTAACAAACTT
*
10763285 AACTATTTATCTTTA
1 AACTATTTATTTTTA
10763300 TTTTTTTCTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (23 bp):
AACTATTTATTTTTAACAAACTT
Found at i:10775114 original size:15 final size:15
Alignment explanation
Indices: 10775094--10775122 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10775084 AAAGATTTAT
10775094 TTATCATTTTTATTA
1 TTATCATTTTTATTA
10775109 TTATCATTTTTATT
1 TTATCATTTTTATT
10775123 TGTTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATCATTTTTATTA
Found at i:10776471 original size:23 final size:23
Alignment explanation
Indices: 10776417--10776485 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
10776407 TAGCTTCTGT
*
10776417 TTCCTCTCTGTGTATTTTCTCTCTGA
1 TTCCTCTCTGAGT-TTTTCT-T-TGA
*
10776443 TCCCTCTCTGAGTTTTTCTTTGA
1 TTCCTCTCTGAGTTTTTCTTTGA
*
10776466 TTCCTCTCTGA-TTTTCCTTT
1 TTCCTCTCTGAGTTTTTCTTT
10776486 ATGTTTCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.21
23 13 0.33
24 1 0.03
25 6 0.15
26 11 0.28
ACGTcount: A:0.07, C:0.28, G:0.10, T:0.55
Consensus pattern (23 bp):
TTCCTCTCTGAGTTTTTCTTTGA
Found at i:10776704 original size:7 final size:7
Alignment explanation
Indices: 10776687--10776724 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
10776677 TGAAAATAAT
10776687 AAAATTAA
1 AAAATT-A
10776695 AAAATT-
1 AAAATTA
10776701 AAAATTA
1 AAAATTA
10776708 AAAATTA
1 AAAATTA
*
10776715 AAAACTA
1 AAAATTA
10776722 AAA
1 AAA
10776725 TTGGGCCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.21
7 16 0.57
8 6 0.21
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:10776718 original size:14 final size:13
Alignment explanation
Indices: 10776686--10776717 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
10776676 ATGAAAATAA
10776686 TAAAATTAAAAAAT
1 TAAAATT-AAAAAT
10776700 TAAAATTAAAAAT
1 TAAAATTAAAAAT
10776713 TAAAA
1 TAAAA
10776718 ACTAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATTAAAAAT
Found at i:10777025 original size:41 final size:41
Alignment explanation
Indices: 10776975--10777228 Score: 282
Period size: 41 Copynumber: 6.2 Consensus size: 41
10776965 ACATACTTAA
* ** *
10776975 AAAATAAATGGCTCCTCTGAATAGGGGCAACGAACTTTCAG
1 AAAATAAATGGCTCATCTGAATAAAGGCAACGAACTTTGAG
* * * *
10777016 AAAATAAATGACT-ACTCTAAACAGAA-GCAATGAACTTTGAG
1 AAAATAAATGGCTCA-TCTGAATA-AAGGCAACGAACTTTGAG
* * *
10777057 AAAATAAATGGCTCTTCTGAATAAAGACAACGAACTTTGAA
1 AAAATAAATGGCTCATCTGAATAAAGGCAACGAACTTTGAG
* * *
10777098 AAAATAAATGGCT-ATTCTAAATAAAGGCAACGATCTTTGAA
1 AAAATAAATGGCTCA-TCTGAATAAAGGCAACGAACTTTGAG
* * *
10777139 AAAATAAATGGCTCATCTGAATAGAGGCAATGGACTTTGA-
1 AAAATAAATGGCTCATCTGAATAAAGGCAACGAACTTTGAG
* *
10777179 AAAAAAAATGACTCATCTGAATAAAGGCAACGAACTTTGAG
1 AAAATAAATGGCTCATCTGAATAAAGGCAACGAACTTTGAG
10777220 AAAATAAAT
1 AAAATAAAT
10777229 TACTTCTTGA
Statistics
Matches: 176, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
40 37 0.21
41 138 0.78
42 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATAAATGGCTCATCTGAATAAAGGCAACGAACTTTGAG
Found at i:10777088 original size:82 final size:81
Alignment explanation
Indices: 10776975--10777228 Score: 314
Period size: 82 Copynumber: 3.1 Consensus size: 81
10776965 ACATACTTAA
* * * *
10776975 AAAATAAATGGCTCCTCTGAATAGGGGCAACGAACTTTCAGAAAATAAATGACTACTCTAAACAG
1 AAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTGA-AAAATAAATGACTACTCTAAATA-
*
10777040 AA-GCAATGAACTTTGAG
64 AAGGCAACGAACTTTGAG
* * * * *
10777057 AAAATAAATGGCTCTTCTGAATAAAGACAACGAACTTTGAAAAAATAAATGGCTATTCTAAATAA
1 AAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTG-AAAAATAAATGACTACTCTAAATAA
* *
10777122 AGGCAACGATCTTTGAA
65 AGGCAACGAACTTTGAG
* * * *
10777139 AAAATAAATGGCTCATCTGAATAGAGGCAATGGACTTTGAAAAAAAAATGACT-CATCTGAATAA
1 AAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTGAAAAATAAATGACTAC-TCTAAATAA
10777203 AGGCAACGAACTTTGAG
65 AGGCAACGAACTTTGAG
10777220 AAAATAAAT
1 AAAATAAAT
10777229 TACTTCTTGA
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
81 46 0.31
82 100 0.68
83 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (81 bp):
AAAATAAATGGCTCATCTGAATAGAGGCAACGAACTTTGAAAAATAAATGACTACTCTAAATAAA
GGCAACGAACTTTGAG
Found at i:10777696 original size:21 final size:22
Alignment explanation
Indices: 10777655--10777710 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
10777645 GGTTTCATTC
10777655 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCATTTTGAAA
* *
10777677 CTCAAAGATTTTCA-TTTGAATT
1 CTCAAAGATTCTCATTTTGAA-A
*
10777699 CTCAAAAATTCT
1 CTCAAAGATTCT
10777711 TATCAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTTGAAA
Found at i:10778864 original size:19 final size:19
Alignment explanation
Indices: 10778842--10778936 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
10778832 TCCTTTGATA
**
10778842 TTTTTTTTAATTTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
10778861 TTTTTTTT-CTTTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
** *
10778879 ACTTTTTT-CATTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
***
10778897 ATCCATTTTCCTTTTTTTTC
1 -TTTTTTTTCCTTTTTTTTC
*
10778917 TTTTTTTTTCTTTTTTTTC
1 TTTTTTTTCCTTTTTTTTC
10778936 T
1 T
10778937 CATCTTTCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
18 24 0.39
19 29 0.47
20 9 0.15
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTTCCTTTTTTTTC
Found at i:10778936 original size:9 final size:9
Alignment explanation
Indices: 10778842--10778936 Score: 91
Period size: 9 Copynumber: 10.1 Consensus size: 9
10778832 TCCTTTGATA
*
10778842 TTTTTTTTAA
1 TTTTTTTT-C
10778852 TTTTTTTTC
1 TTTTTTTTC
10778861 TTTTTTTTC
1 TTTTTTTTC
10778870 TTTTTTTTC
1 TTTTTTTTC
**
10778879 ACTTTTTTC
1 TTTTTTTTC
*
10778888 ATTTTTTTC
1 TTTTTTTTC
** *
10778897 ATCCATTTTCC
1 -T-TTTTTTTC
10778908 TTTTTTTTC
1 TTTTTTTTC
10778917 TTTTTTTTTC
1 -TTTTTTTTC
10778927 TTTTTTTTC
1 TTTTTTTTC
10778936 T
1 T
10778937 CATCTTTCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
9 48 0.68
10 18 0.25
11 5 0.07
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10778945 original size:48 final size:47
Alignment explanation
Indices: 10778855--10778951 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 47
10778845 TTTTTAATTT
* * *
10778855 TTTTTCTTTTTTTTCTTTTTTTTCACTTTTTTCATTTTTTTCATCCA
1 TTTTCCTTTTTTTTCTTTTTTTTCACTTTTTTCATATCTTTCATCCA
**
10778902 TTTTCCTTTTTTTTCTTTTTTTTTCTTTTTTTTC-TCATCTTTCATCCA
1 TTTTCCTTTTTTTTC-TTTTTTTTCACTTTTTTCAT-ATCTTTCATCCA
10778950 TT
1 TT
10778952 GTTGATATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 15 0.35
48 28 0.65
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (47 bp):
TTTTCCTTTTTTTTCTTTTTTTTCACTTTTTTCATATCTTTCATCCA
Found at i:10783951 original size:51 final size:51
Alignment explanation
Indices: 10783891--10783990 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
10783881 ATTATTATGA
** *
10783891 AAATGATGCATAAAATGATATGATATAATAATGCTTAAAACATGAGGATAG
1 AAATGATGCATAAAATGATACAACATAATAATGCTTAAAACATGAGGATAG
* * *
10783942 AAATGATGCATAGAATGATGCAACATGATAATGCTTAAAACATGAGGAT
1 AAATGATGCATAAAATGATACAACATAATAATGCTTAAAACATGAGGAT
10783991 GCGTGTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (51 bp):
AAATGATGCATAAAATGATACAACATAATAATGCTTAAAACATGAGGATAG
Found at i:10786282 original size:20 final size:22
Alignment explanation
Indices: 10786257--10786301 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
10786247 ATTTTTCAGA
10786257 AAAAAAATTT-CAAAAATT-CT
1 AAAAAAATTTCCAAAAATTCCT
*
10786277 AAAAAAATTTCCACAAATTCCT
1 AAAAAAATTTCCAAAAATTCCT
10786299 AAA
1 AAA
10786302 GCTATTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAAATTTCCAAAAATTCCT
Found at i:10786607 original size:7 final size:7
Alignment explanation
Indices: 10786595--10786670 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
10786585 AAAATAAAAC
10786595 AAAAATA
1 AAAAATA
10786602 AAAAATA
1 AAAAATA
*
10786609 AAAAAGA
1 AAAAATA
*
10786616 CGAAAATA
1 -AAAAATA
10786624 ATAAAATA
1 A-AAAATA
10786632 ATAAAATTA
1 A-AAAA-TA
10786641 AAAAAT-
1 AAAAATA
* *
10786647 TAAATTA
1 AAAAATA
*
10786654 AAAATTA
1 AAAAATA
*
10786661 AAAACTA
1 AAAAATA
10786668 AAA
1 AAA
10786671 TTGGGCCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
6 4 0.07
7 29 0.51
8 21 0.37
9 3 0.05
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (7 bp):
AAAAATA
Found at i:10786653 original size:13 final size:13
Alignment explanation
Indices: 10786625--10786662 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
10786615 ACGAAAATAA
*
10786625 TAAAATAATAAAAT
1 TAAAA-AATTAAAT
10786639 TAAAAAATTAAAT
1 TAAAAAATTAAAT
10786652 T-AAAAATTAAA
1 TAAAAAATTAAA
10786663 AACTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAAATTAAAT
Found at i:10786671 original size:20 final size:20
Alignment explanation
Indices: 10786618--10786672 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
10786608 AAAAAAGACG
*
10786618 AAAATAATAAAATAATAAAATT
1 AAAA-AATAAAATTA-AAAATT
*
10786640 AAAAAATTAAATTAAAAATT
1 AAAAAATAAAATTAAAAATT
*
10786660 AAAAACTAAAATT
1 AAAAAATAAAATT
10786673 GGGCCAGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 8 0.28
22 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAATAAAATTAAAAATT
Found at i:10792114 original size:12 final size:12
Alignment explanation
Indices: 10792099--10792143 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
10792089 AGACAAAAAT
*
10792099 GAAGAAGGAGGA
1 GAAGAAGAAGGA
**
10792111 GAAGAAGAATAA
1 GAAGAAGAAGGA
*
10792123 GAAGGAGAAGGA
1 GAAGAAGAAGGA
10792135 GAAGAAGAA
1 GAAGAAGAA
10792144 ACGAACATAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (12 bp):
GAAGAAGAAGGA
Found at i:10792126 original size:21 final size:21
Alignment explanation
Indices: 10792100--10792140 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10792090 GACAAAAATG
*
10792100 AAGAAGGAGGAGAAGAAGAAT
1 AAGAAGGAGAAGAAGAAGAAT
*
10792121 AAGAAGGAGAAGGAGAAGAA
1 AAGAAGGAGAAGAAGAAGAA
10792141 GAAACGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (21 bp):
AAGAAGGAGAAGAAGAAGAAT
Found at i:10792130 original size:18 final size:18
Alignment explanation
Indices: 10792099--10792143 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10792089 AGACAAAAAT
*
10792099 GAAGAAGGAGGAGAAGAA
1 GAAGAAGAAGGAGAAGAA
* *
10792117 GAATAAGAAGGAGAAGGA
1 GAAGAAGAAGGAGAAGAA
10792135 GAAGAAGAA
1 GAAGAAGAA
10792144 ACGAACATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAGGAGAAGAA
Found at i:10795265 original size:63 final size:63
Alignment explanation
Indices: 10795179--10795298 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
10795169 TATTCAATAT
* *
10795179 GTTTTTGGCCAAAAATACATTGAATAA--TCCCTAAAAATTTTTTGTAAGAGGATTATTGAAAAC
1 GTTTTTAGCCAAAAATACATTGAATAACCTCCAT-AAAATTTTTTGTAA-AGGATTATTGAAAAC
* * * *
10795242 GTTTTTAGCCAGAAATGCTTTGAATAACCTCCATTAAATTTTTTGTAAAGGATTATT
1 GTTTTTAGCCAAAAATACATTGAATAACCTCCATAAAATTTTTTGTAAAGGATTATT
10795299 TAAGACATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 32 0.65
64 13 0.27
65 4 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (63 bp):
GTTTTTAGCCAAAAATACATTGAATAACCTCCATAAAATTTTTTGTAAAGGATTATTGAAAAC
Found at i:10795766 original size:186 final size:184
Alignment explanation
Indices: 10795545--10795951 Score: 448
Period size: 186 Copynumber: 2.2 Consensus size: 184
10795535 TTGAAATTTA
* * * * *
10795545 AAAATTATTCAAGGTAATTTTGCCTATAAAATGCCTTGAATAATCCCCTCATAAAATTTAATAGG
1 AAAATTATTCAAGGCATTTTTGCCTAGAAAATGCCTTGAATAATCCACTCATAAAATTAAATAGG
* * ** * *
10795610 GTTATT-AAAGATGTTT-TTAGCAAAAAATGCCTCCAATAATCCTCTTTAATTTTT-TTGAGGTG
66 GTTATTCAAA-ACGTTTCTGA-CAAAAAACACCTCCAATAATCCCCTTCAATTTTTATT-AGG-G
* * * *
10795672 G-TTATTCAATGCATTTTTGGCAACAAAT-GCTTTAAATAATTCCC-TCTAATTTTGTATTG
127 GAGTATTCAAGGCATTTTTGGC--CAAATACCTTT-AATAATCCCCTTC-AATTTTGTATTG
* * * *
10795731 AAAATTATTCAAGGCATTTTTTCTTAGAAAATGCCTTGAATAATCTACTCATAAAATTAAATTGG
1 AAAATTATTCAAGGCATTTTTGCCTAGAAAATGCCTTGAATAATCCACTCATAAAATTAAATAGG
* *
10795796 GTTATTCAAAACGTTTCTGACTAAAAACACCTTCAATAATCCCCTTCAATTTTTATTAGGGGAGT
66 GTTATTCAAAACGTTTCTGACAAAAAACACCTCCAATAATCCCCTTCAATTTTTATTAGGGGAGT
* * * *
10795861 ATTGAAGGCGTTTTTGGCCAAATACCTTTAATACTCCCCTTCAATTTTTTATTG
131 ATTCAAGGCATTTTTGGCCAAATACCTTTAATAATCCCCTTCAATTTTGTATTG
* * *
10795915 AAGATTATTCAAGGCATTTGTGCCAAGAAAATGCCTT
1 AAAATTATTCAAGGCATTTTTGCCTAGAAAATGCCTT
10795952 AAATGATCAT
Statistics
Matches: 185, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
184 56 0.30
185 8 0.04
186 114 0.62
187 7 0.04
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (184 bp):
AAAATTATTCAAGGCATTTTTGCCTAGAAAATGCCTTGAATAATCCACTCATAAAATTAAATAGG
GTTATTCAAAACGTTTCTGACAAAAAACACCTCCAATAATCCCCTTCAATTTTTATTAGGGGAGT
ATTCAAGGCATTTTTGGCCAAATACCTTTAATAATCCCCTTCAATTTTGTATTG
Found at i:10799463 original size:23 final size:25
Alignment explanation
Indices: 10799427--10799473 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
10799417 ACTATGAATT
*
10799427 ATATTTTAGAA-TTTAA-ATTATGA
1 ATATTGTAGAATTTTAATATTATGA
*
10799450 ATATTGTAGTATTTTAATATTATG
1 ATATTGTAGAATTTTAATATTATG
10799474 CCACACATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 5 0.25
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (25 bp):
ATATTGTAGAATTTTAATATTATGA
Found at i:10803997 original size:143 final size:142
Alignment explanation
Indices: 10803791--10804071 Score: 365
Period size: 142 Copynumber: 2.0 Consensus size: 142
10803781 ATAAAAAGGG
* ** * **
10803791 AATATTGAAGGTGTTTTTAGTCCAAAATGACTTGAATGATCTTCTCTATAAATTTTTTAAGGATT
1 AATATTGAAGGTGTTTTTAGGCCAAAAACACTTAAATGATCCCCTCTATAAATTTTTTAAGGATT
* *
10803856 ATTCAAGGTGATTTTAGCCAAAATTACCTTGAATAATCTC-TTCATAAAAATGGAAG-GAGATTA
66 ATTCAAGGTGATTTT-GCCAAAATCACCTTGAATAAT-TCATTCATAAAAATGAAAGAG-GATTA
*
10803919 TTCAAGGCGTTAGGA
128 TTCAAAGCGTTAGGA
10803934 AATATTGAAGGTGTTTTT-GGCCAAAAACACCTTAAAT-AGTCCCCTCTATAAAATTTTTT-AGG
1 AATATTGAAGGTGTTTTTAGGCCAAAAACA-CTTAAATGA-TCCCCTCTAT-AAATTTTTTAAGG
* *
10803996 ATTATTCAAGGTGATTTTGGCAAAATCACTTTGAATAATTCATTCATAAAAATGAAAGAGGATTA
63 ATTATTCAAGGTGATTTTGCCAAAATCACCTTGAATAATTCATTCATAAAAATGAAAGAGGATTA
*
10804061 TTTAAAGCGTT
128 TTCAAAGCGTT
10804072 TTTTTTTATC
Statistics
Matches: 121, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
141 2 0.02
142 56 0.46
143 54 0.45
144 9 0.07
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (142 bp):
AATATTGAAGGTGTTTTTAGGCCAAAAACACTTAAATGATCCCCTCTATAAATTTTTTAAGGATT
ATTCAAGGTGATTTTGCCAAAATCACCTTGAATAATTCATTCATAAAAATGAAAGAGGATTATTC
AAAGCGTTAGGA
Found at i:10804265 original size:23 final size:22
Alignment explanation
Indices: 10804239--10804283 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
10804229 ATAAAAATAA
*
10804239 GAGATTATAATTATTATTCTAAG
1 GAGATTATAATAATTATT-TAAG
*
10804262 GAGATTATAGTAATTATTTAAG
1 GAGATTATAATAATTATTTAAG
10804284 ATTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
GAGATTATAATAATTATTTAAG
Found at i:10804620 original size:29 final size:29
Alignment explanation
Indices: 10804572--10804629 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10804562 GGTTCTTACA
* * *
10804572 TTTTAAAACAATAAAGATATTAATTTAAT
1 TTTTAAAACAATAAAAATATAAAATTAAT
10804601 TTTTAAAA-AATAAATAATATAAAATTAAT
1 TTTTAAAACAATAAA-AATATAAAATTAAT
10804630 GAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTTAAAACAATAAAAATATAAAATTAAT
Found at i:10806140 original size:15 final size:16
Alignment explanation
Indices: 10806117--10806150 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10806107 TTCGATCAAA
10806117 TTTTATAAAATT-AAT
1 TTTTATAAAATTAAAT
*
10806132 TTTTTTAAAATTAAAT
1 TTTTATAAAATTAAAT
10806148 TTT
1 TTT
10806151 AAGACGAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTATAAAATTAAAT
Done.