Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 30
Found at i:2599225 original size:18 final size:20
Alignment explanation
Indices: 2599177--2599235 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2599167 CACTGAATAT
2599177 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
2599197 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
2599216 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
2599235 T
1 T
2599236 AATCCCTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 16 0.48
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:2602129 original size:21 final size:20
Alignment explanation
Indices: 2602088--2602140 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
2602078 AGCTTCGGAT
* *
2602088 TATAAGAAATTATTTTTAAAA
1 TATAA-AAATGATTTTCAAAA
2602109 TATAAAAATGATGTTTCAAAA
1 TATAAAAATGAT-TTTCAAAA
2602130 T-TGAAAAATGA
1 TAT-AAAAATGA
2602141 AAATAAGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (20 bp):
TATAAAAATGATTTTCAAAA
Found at i:2606643 original size:2 final size:2
Alignment explanation
Indices: 2606636--2606713 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
2606626 AACTTAATAC
2606636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2606678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2606714 TTGGTTTGGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2607441 original size:65 final size:62
Alignment explanation
Indices: 2607372--2607552 Score: 215
Period size: 65 Copynumber: 2.8 Consensus size: 62
2607362 GAATAAATTG
2607372 AACATCGAATGCATTTCATGCATCGATGCACATACTATGCATCGATGCACTATGAG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACAT-CTATGCATCGATGCACTA-G-GCTATTT-TG
2607435 AA
62 -A
* * *
2607437 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CATCTATGCATCGATGCACT-AGGCTATTTTGA
* *
2607501 AACATCGAATGCATTTTATGCATCGATGCAC-TCTTAGTGCACCGATGCACTA
1 AACATCGAATGCATTTCATGCATCGATGCACATC-TA-TGCATCGATGCACTA
2607553 ATGGTCCAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 44 0.43
65 49 0.48
66 6 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (62 bp):
AACATCGAATGCATTTCATGCATCGATGCACATCTATGCATCGATGCACTAGGCTATTTTGA
Found at i:2611882 original size:21 final size:21
Alignment explanation
Indices: 2611856--2611895 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2611846 AGAGTTACTA
2611856 TATACCACGATATCATCCATG
1 TATACCACGATATCATCCATG
2611877 TATACCACGATATCATCCA
1 TATACCACGATATCATCCA
2611896 GGTACATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (21 bp):
TATACCACGATATCATCCATG
Found at i:2615614 original size:34 final size:34
Alignment explanation
Indices: 2615571--2615638 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2615561 AATTATTACT
2615571 AAATTTGAGTTATTGAACGAAATGGTCGTAAGCG
1 AAATTTGAGTTATTGAACGAAATGGTCGTAAGCG
2615605 AAATTTGAGTTATTGAACGAAATGGTCGTAAGCG
1 AAATTTGAGTTATTGAACGAAATGGTCGTAAGCG
2615639 GGTGGGGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (34 bp):
AAATTTGAGTTATTGAACGAAATGGTCGTAAGCG
Found at i:2615627 original size:19 final size:19
Alignment explanation
Indices: 2615571--2615627 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
2615561 AATTATTACT
2615571 AAATTTGAGTTATTGAACG
1 AAATTTGAGTTATTGAACG
**
2615590 AAA--TG-G-TCGT-AAGCG
1 AAATTTGAGTTATTGAA-CG
2615605 AAATTTGAGTTATTGAACG
1 AAATTTGAGTTATTGAACG
2615624 AAAT
1 AAAT
2615628 GGTCGTAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
14 2 0.07
15 7 0.25
16 1 0.04
17 4 0.14
18 1 0.04
19 11 0.39
20 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (19 bp):
AAATTTGAGTTATTGAACG
Found at i:2617255 original size:30 final size:30
Alignment explanation
Indices: 2617234--2617344 Score: 152
Period size: 30 Copynumber: 3.6 Consensus size: 30
2617224 CTAAATAGTT
*
2617234 AAAAATAGAAACTTAAAGGACTAAAATAAA
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
* *
2617264 AAAAACATAAACTTAAAGGACTAAAATAAC
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
*
2617294 AAAAACATAAACTTAAAGGACTAAAATAGAA
1 AAAAACAGAAACTTAAAGGACTAAAATA-AA
2617325 AAAAA-ATTGAAACTTAAAGG
1 AAAAACA--GAAACTTAAAGG
2617345 CCCAAACAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 56 0.77
31 6 0.08
32 11 0.15
ACGTcount: A:0.64, C:0.09, G:0.10, T:0.17
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAGGACTAAAATAAA
Found at i:2618838 original size:3 final size:3
Alignment explanation
Indices: 2618830--2618875 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
2618820 AAATGTAAAT
2618830 TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
2618874 TA
1 TA
2618876 CTTTTTTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2618853 original size:14 final size:14
Alignment explanation
Indices: 2618834--2618873 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
2618824 GTAAATTAAT
2618834 AATAATAATAATAA
1 AATAATAATAATAA
2618848 AATAATAATAAT-A
1 AATAATAATAATAA
2618861 AATAA-AATAATAA
1 AATAATAATAATAA
2618874 TACTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:2618853 original size:17 final size:18
Alignment explanation
Indices: 2618831--2618875 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2618821 AATGTAAATT
2618831 AATAATAATAAT-AATAA
1 AATAATAATAATAAATAA
2618848 AATAATAATAATAAATAA
1 AATAATAATAATAAATAA
2618866 AATAATAATA
1 AATAATAATA
2618876 CTTTTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAATAATAAATAA
Found at i:2619077 original size:19 final size:20
Alignment explanation
Indices: 2619040--2619083 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2619030 ATAATTTTCT
* *
2619040 TTAAAATTTAAATATAAAAA
1 TTAAAATTAAAACATAAAAA
2619060 TTAAAATTAAAACA-AAAAA
1 TTAAAATTAAAACATAAAAA
2619079 TTAAA
1 TTAAA
2619084 TTATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAAATTAAAACATAAAAA
Found at i:2623640 original size:60 final size:60
Alignment explanation
Indices: 2623484--2623660 Score: 164
Period size: 60 Copynumber: 2.9 Consensus size: 60
2623474 CTTACAGGAG
* * * **
2623484 ATGAAATTAGAATATTCAAAAGTTTAGATACCAATTTATAAA-G-AGGATCATA-TTTTACGG
1 ATGAAATTAGAATATTCAAAAGTTTA-AGACCAATTTA-AAATGAAAG-TCATAGTTTGACAA
* * * * *
2623544 ATGAAATTAGAATGTTCAAAAGCTTGATGACTAATTTAGAATGAAAGTCATAGTTTGA-AA
1 ATGAAATTAGAATATTCAAAAG-TTTAAGACCAATTTAAAATGAAAGTCATAGTTTGACAA
* * *
2623604 ATGAAATTAAAATATTCAAAAGTTTAACGACCAATTTAAAATGAGAGTTATAGTTTG
1 ATGAAATTAGAATATTCAAAAGTTTAA-GACCAATTTAAAATGAAAGTCATAGTTTG
2623661 GAGACATATA
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
59 5 0.05
60 80 0.85
61 9 0.10
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (60 bp):
ATGAAATTAGAATATTCAAAAGTTTAAGACCAATTTAAAATGAAAGTCATAGTTTGACAA
Found at i:2624013 original size:2 final size:2
Alignment explanation
Indices: 2624006--2624033 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2623996 CATCATCAAA
2624006 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
2624034 CCTTATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2628350 original size:6 final size:6
Alignment explanation
Indices: 2628339--2628392 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
2628329 ACTACAGAAA
* *
2628339 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGTG GGAGAG
1 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG
*
2628387 AGAGAG
1 TGAGAG
2628393 CAGACTTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
TGAGAG
Found at i:2628922 original size:16 final size:16
Alignment explanation
Indices: 2628901--2628949 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
2628891 TTTATATTTA
2628901 ATGTGCTACTCAAGTG
1 ATGTGCTACTCAAGTG
2628917 ATGTGCTACTCAAGTG
1 ATGTGCTACTCAAGTG
*
2628933 ATGGGCTACTCAAGTG
1 ATGTGCTACTCAAGTG
2628949 A
1 A
2628950 AAAATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (16 bp):
ATGTGCTACTCAAGTG
Found at i:2629014 original size:13 final size:14
Alignment explanation
Indices: 2628979--2629037 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
2628969 CAAACTAAAT
*
2628979 AATAAAAACAATTA
1 AATACAAACAATTA
*
2628993 AATAGAAAC-ATTA
1 AATACAAACAATTA
* *
2629006 ACTACAAAC-GTTA
1 AATACAAACAATTA
*
2629019 CAATGCAAACAATTA
1 -AATACAAACAATTA
2629034 AATA
1 AATA
2629038 ATAAAAACAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 14 0.40
14 18 0.51
15 3 0.09
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (14 bp):
AATACAAACAATTA
Found at i:2629085 original size:44 final size:44
Alignment explanation
Indices: 2629037--2629157 Score: 188
Period size: 44 Copynumber: 2.8 Consensus size: 44
2629027 ACAATTAAAT
* *
2629037 AATAAAAACATTAAGAAACAAAATAAATAAAATGTTCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
*
2629081 AATAAAAACATTAAGAAACGAAATAAATAAAAAGTCCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
* * *
2629125 AATAAAATCATTAAGTAATAAAATAAATAAAAA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAA
2629158 CAAGTCTATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (44 bp):
AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
Found at i:2629587 original size:21 final size:21
Alignment explanation
Indices: 2629563--2629620 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2629553 ACTCTATGGT
*
2629563 GGTGGCATCTGAAATGGATGC
1 GGTGGCATCTGAAATAGATGC
* *
2629584 GGTGGCAT-TGAAAATAGTTGT
1 GGTGGCATCTG-AAATAGATGC
*
2629605 GGTGCCATCTGAAATA
1 GGTGGCATCTGAAATA
2629621 ACTGCGGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (21 bp):
GGTGGCATCTGAAATAGATGC
Found at i:2630393 original size:16 final size:14
Alignment explanation
Indices: 2630363--2630391 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2630353 ATTTAGTGTA
2630363 AAAAAATTCATTAT
1 AAAAAATTCATTAT
2630377 AAAAAATTCATTAT
1 AAAAAATTCATTAT
2630391 A
1 A
2630392 TACTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAAATTCATTAT
Found at i:2631738 original size:27 final size:27
Alignment explanation
Indices: 2631700--2631753 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2631690 TGGAGGTGTT
2631700 GACTTGAATAAGGGTCTATTGAGAGAA
1 GACTTGAATAAGGGTCTATTGAGAGAA
2631727 GACTTGAATAAGGGTCTATTGAGAGAA
1 GACTTGAATAAGGGTCTATTGAGAGAA
2631754 AACCCGACCA
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:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (27 bp):
GACTTGAATAAGGGTCTATTGAGAGAA
Found at i:2631766 original size:27 final size:27
Alignment explanation
Indices: 2631709--2631772 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
2631699 TGACTTGAAT
* ** *
2631709 AAGGGTCTATTGAGAGAAGACTTGAAT
1 AAGGGTCTATTGAGAGAAAACCCGAAC
*
2631736 AAGGGTCTATTGAGAGAAAACCCGACC
1 AAGGGTCTATTGAGAGAAAACCCGAAC
*
2631763 AAGGGACTAT
1 AAGGGTCTAT
2631773 CGGGACCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (27 bp):
AAGGGTCTATTGAGAGAAAACCCGAAC
Found at i:2637172 original size:11 final size:11
Alignment explanation
Indices: 2637156--2637181 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2637146 TAAAGGTTAC
2637156 TCATTCCTTTT
1 TCATTCCTTTT
2637167 TCATTCCTTTT
1 TCATTCCTTTT
2637178 TCAT
1 TCAT
2637182 GTGTGGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.62
Consensus pattern (11 bp):
TCATTCCTTTT
Found at i:2640764 original size:13 final size:14
Alignment explanation
Indices: 2640746--2640782 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
2640736 AATACAAAAA
2640746 CATATCATATCA-T
1 CATATCATATCATT
2640759 CATATCATATCATT
1 CATATCATATCATT
*
2640773 CATATAATAT
1 CATATCATAT
2640783 TATATATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (14 bp):
CATATCATATCATT
Found at i:2640844 original size:18 final size:18
Alignment explanation
Indices: 2640821--2640876 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
2640811 TATATTATCA
2640821 TTATCATCATCAATAATC
1 TTATCATCATCAATAATC
* *
2640839 TTATCATTATCATTAATC
1 TTATCATCATCAATAATC
*
2640857 TTATTATCAT--ATAATC
1 TTATCATCATCAATAATC
2640873 TTAT
1 TTAT
2640877 ACTTATCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 9 0.27
18 24 0.73
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATCATCATCAATAATC
Found at i:2640862 original size:15 final size:16
Alignment explanation
Indices: 2640844--2640876 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2640834 TAATCTTATC
2640844 ATTATCAT-TAATCTT
1 ATTATCATATAATCTT
2640859 ATTATCATATAATCTT
1 ATTATCATATAATCTT
2640875 AT
1 AT
2640877 ACTTATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATCATATAATCTT
Found at i:2640876 original size:34 final size:29
Alignment explanation
Indices: 2640811--2640886 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 29
2640801 TACATACACA
2640811 TATATTATCATTATCATCATCAATAATCT
1 TATATTATCATTATCATCATCAATAATCT
*
2640840 TATCATTATCATTAATCTTATTATCATATAATCT
1 TAT-ATTATCATT-ATC--ATCATCA-ATAATCT
2640874 TATACTTATCATT
1 TATA-TTATCATT
2640887 TACACAAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 3 0.08
30 9 0.22
31 3 0.08
33 7 0.17
34 18 0.45
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTATCATTATCATCATCAATAATCT
Found at i:2641580 original size:45 final size:45
Alignment explanation
Indices: 2641530--2641807 Score: 256
Period size: 45 Copynumber: 6.2 Consensus size: 45
2641520 AATACATCAT
* * *
2641530 TATGCATTTTAAACTATAACAT-CTTTTCTGTTAATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * *
2641575 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * ** * * *
2641620 TATACATCTAAACCATAATATACTTTTTTGTTGAGAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
2641665 TATACATTTCAACTCTAGCATACTTTTTTGTTGATAATACACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
2641710 TATGCATTTCAACTCTAGTATACATTTCTGTTCATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * **
2641755 TATGCATTTCAACTCTGGCAT-CCTTTCATG-CCACTAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTC-TGTTGA-TAATGCACCCA
2641800 TATGCATT
1 TATGCATT
2641808 ATTCTTTTAT
Statistics
Matches: 198, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
44 19 0.10
45 179 0.90
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:2641798 original size:90 final size:87
Alignment explanation
Indices: 2641554--2641886 Score: 229
Period size: 90 Copynumber: 3.8 Consensus size: 87
2641544 TATAACATCT
* * * ** *
2641554 TTTCTGTTAATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCC
1 TTTCTGTT-ATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTCCATAATGCACCC
* * *
2641619 ATATACATCTAAAC-CATAATATACT
65 ATATGCAT-TTAACTC-T-ATATACA
* * * * ** ** *
2641644 TTTTTGTTGAGAATGTACCCATATACATTTCAACTCTAGCATACTTTTTTGTTGATAATACACCC
1 TTTCTGTT-ATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTCCATAATGCACCC
2641709 ATATGCATTTCAACTCTAGTATACA
65 ATATGCATTT-AACTCTA-TATACA
* * * *
2641734 TTTCTGTTCATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATG-CCACTAATGCACC
1 TTTCTGTT-ATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTCCA-TAATGCACC
* *
2641798 CATATGCA-TT-ATTCT-T-T-TA
64 CATATGCATTTAACTCTATATACA
* * * * *
2641817 -TGCTG--ATAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATG-CCAATAATGCACCC
1 TTTCTGTTATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTCC-ATAATGCACCC
*
2641878 ATGTGCATT
65 ATATGCATT
2641887 ATTCTTTTAC
Statistics
Matches: 204, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
79 56 0.27
80 2 0.01
82 4 0.02
83 1 0.00
84 1 0.00
85 1 0.00
87 4 0.02
89 5 0.02
90 129 0.63
91 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (87 bp):
TTTCTGTTATAATGCACCCATATACATTTCAACTATAGCATACTTTCATGTCCATAATGCACCCA
TATGCATTTAACTCTATATACA
Found at i:2641874 original size:79 final size:79
Alignment explanation
Indices: 2641743--2641895 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
2641733 ATTTCTGTTC
* * *
2641743 ATAATGCACCCATATGCATTTCAACTCTGGCATCCTTTCATGCCACTAATGCACCCATATGCATT
1 ATAATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
2641808 ATTCTTTTATGCTG
66 ATTCTTTTATGCTG
* * *
2641822 ATAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATGTGCATT
1 ATAATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
2641887 ATTCTTTTA
66 ATTCTTTTA
2641896 CCTTTGTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (79 bp):
ATAATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
ATTCTTTTATGCTG
Found at i:2642321 original size:20 final size:20
Alignment explanation
Indices: 2642296--2642339 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
2642286 TGACCCTTCA
2642296 GTATTGATACCCCTACTAGG
1 GTATTGATACCCCTACTAGG
2642316 GTATTGATACCCCTACTAGG
1 GTATTGATACCCCTACTAGG
2642336 GTAT
1 GTAT
2642340 CAATACCACT
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:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATTGATACCCCTACTAGG
Found at i:2642345 original size:20 final size:20
Alignment explanation
Indices: 2642302--2642346 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2642292 TTCAGTATTG
**
2642302 ATACCCCTACTAGGGTATTG
1 ATACCCCTACTAGGGTATCA
2642322 ATACCCCTACTAGGGTATCA
1 ATACCCCTACTAGGGTATCA
2642342 ATACC
1 ATACC
2642347 ACTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
ATACCCCTACTAGGGTATCA
Found at i:2642510 original size:96 final size:96
Alignment explanation
Indices: 2642342--2642527 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
2642332 TAGGGTATCA
** * * *
2642342 ATACCACTATGTTATGGTACCGATACCCCCCTTTGGTATCGATACAAAAATTACATTCGATGTTT
1 ATACCACTATACTATGGTACCGATACCCCCATATGGTATCGATACAAAAATTACATTCGATGTAT
* *
2642407 AATGGTATCT-ATACCCTTACCATAGCTGTTG
66 AACGGTAT-TGATACCCTCACCATAGCTGTTG
* * * **
2642438 ATACCACTATACTATGGTATCGATACCCCTATATGGTATCGATACCAAAATTAGGTTCGATG-AT
1 ATACCACTATACTATGGTACCGATACCCCCATATGGTATCGATACAAAAATTACATTCGATGTAT
2642502 ACACGGTATTGATACCCTCACCATAG
66 A-ACGGTATTGATACCCTCACCATAG
2642528 TATCGATACC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 3 0.04
96 73 0.96
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (96 bp):
ATACCACTATACTATGGTACCGATACCCCCATATGGTATCGATACAAAAATTACATTCGATGTAT
AACGGTATTGATACCCTCACCATAGCTGTTG
Found at i:2652167 original size:30 final size:30
Alignment explanation
Indices: 2652087--2652168 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
2652077 AATGCATTCA
* *
2652087 TGATTTTGCATGGGACTATATTCCCCATCC
1 TGATTCTGCATGGGACTATGTTCCCCATCC
* * *
2652117 TGATTCTACATGGGATTATGTTCTCCATCC
1 TGATTCTGCATGGGACTATGTTCCCCATCC
2652147 TGATTCTGCATGGGACTATGTT
1 TGATTCTGCATGGGACTATGTT
2652169 TTACGTATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (30 bp):
TGATTCTGCATGGGACTATGTTCCCCATCC
Found at i:2652362 original size:2 final size:2
Alignment explanation
Indices: 2652350--2652415 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
2652340 TTAGTATTGT
*
2652350 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2652392 TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2652416 TGATACATGT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2653497 original size:15 final size:17
Alignment explanation
Indices: 2653477--2653510 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2653467 AAAACAATAA
2653477 TTAAATA-TATTTT-TT
1 TTAAATATTATTTTATT
2653492 TTAAATATTATTTTATT
1 TTAAATATTATTTTATT
2653509 TT
1 TT
2653511 TTTAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 6 0.35
17 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTAAATATTATTTTATT
Found at i:2653984 original size:49 final size:49
Alignment explanation
Indices: 2653919--2654013 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
2653909 ACCACCCAGG
* * *
2653919 CAGGGGCGGACCTCCATGGTGTCCGGGGTATCCCAGGCAACCCCTCATC
1 CAGGGGCGGACATCCATGGTGCCCGGAGTATCCCAGGCAACCCCTCATC
*
2653968 CAGGGGCGGACATCCATGGTGCCCGGAGTATCCCAGGCAACTCCTC
1 CAGGGGCGGACATCCATGGTGCCCGGAGTATCCCAGGCAACCCCTC
2654014 CACAAGTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (49 bp):
CAGGGGCGGACATCCATGGTGCCCGGAGTATCCCAGGCAACCCCTCATC
Found at i:2654644 original size:21 final size:21
Alignment explanation
Indices: 2654596--2654646 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2654586 GTTTCCAGAT
*
2654596 TCGCAACGCAAACTTCGACTA
1 TCGCAATGCAAACTTCGACTA
*
2654617 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCAAACTTCGACTA
2654638 TCGCAATGC
1 TCGCAATGC
2654647 GAATATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (21 bp):
TCGCAATGCAAACTTCGACTA
Found at i:2654690 original size:21 final size:21
Alignment explanation
Indices: 2654664--2654732 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
2654654 TAAATCGCAA
* * *
2654664 TGCGATAGTCGAAGTTTGTGT
1 TGCGATAGTCAAAGTTCGCGT
* *
2654685 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCAAAGTTCGCGT
*
2654706 TGTGATAGTCAAAGTTCGCGT
1 TGCGATAGTCAAAGTTCGCGT
2654727 TGCGAT
1 TGCGAT
2654733 TTTCCAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (21 bp):
TGCGATAGTCAAAGTTCGCGT
Found at i:2654739 original size:42 final size:42
Alignment explanation
Indices: 2654658--2654744 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 42
2654648 AATATGTAAA
* * * *
2654658 TCGCAATGCGATAGTCGAAGTTTGTGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCAAAGTTCGCGTTGCGATAGTCCAAAT
* * **
2654700 TCGCATTGTGATAGTCAAAGTTCGCGTTGCGATTTTCCAAAT
1 TCGCAATGCGATAGTCAAAGTTCGCGTTGCGATAGTCCAAAT
2654742 TCG
1 TCG
2654745 ACTATCGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGCAATGCGATAGTCAAAGTTCGCGTTGCGATAGTCCAAAT
Found at i:2654815 original size:21 final size:21
Alignment explanation
Indices: 2654789--2654843 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2654779 GATTTACATA
*
2654789 TTCGCATTGTGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2654810 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
2654831 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
2654844 TTATTCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:2654860 original size:132 final size:132
Alignment explanation
Indices: 2654604--2654843 Score: 299
Period size: 132 Copynumber: 1.8 Consensus size: 132
2654594 ATTCGCAACG
*
2654604 CAAACTTCGACTATCGCAATGCAAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGA
1 CAAACTTCGACTATCGCAACGCAAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGA
* * ** *
2654669 TAGTCGAAGTTTGTGTTGCGATAGTCCAAGTTCGCATTGTGATAGTCAAAGTTCGCGTTGCGATT
66 TAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCAAAGTTC-CGTTGCGATT
2654734 TTC
130 TTC
* * * *
2654737 CAAA-TTCGACTATCGCAACGCGAACTTTGACTATCGCATTGCG-AT-T-TACATATTCGCATTG
1 CAAACTTCGACTATCGCAACGCAAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATG
* * *
2654798 TGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGAT
63 CGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGAT
2654844 TTATTCCAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.02
130 2 0.02
131 3 0.03
132 80 0.88
133 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (132 bp):
CAAACTTCGACTATCGCAACGCAAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGA
TAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCAAAGTTCCGTTGCGATTT
TC
Found at i:2655000 original size:5 final size:6
Alignment explanation
Indices: 2654961--2654997 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2654951 GACACGTATT
2654961 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2654998 CGAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2655579 original size:21 final size:21
Alignment explanation
Indices: 2655553--2655624 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
2655543 CAAATGCAAT
2655553 ACTATCGCAACGCGAACTTCG
1 ACTATCGCAACGCGAACTTCG
*
2655574 ACTATCGCAA--CGAA-TTTG
1 ACTATCGCAACGCGAACTTCG
*
2655592 AAATAAATCGCAACGCGAACTTCG
1 -ACT--ATCGCAACGCGAACTTCG
2655616 ACTATCGCA
1 ACTATCGCA
2655625 TTGCGATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 3 0.07
19 6 0.15
21 23 0.56
23 6 0.15
24 3 0.07
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGAACTTCG
Found at i:2655665 original size:21 final size:21
Alignment explanation
Indices: 2655639--2655692 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2655629 GATTTACATA
*
2655639 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCAAAG
2655660 TTCGCATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCAAAG
*
2655681 TTCGCGTTGCGA
1 TTCGCATTGCGA
2655693 ATCTGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCAAAG
Found at i:2666896 original size:29 final size:29
Alignment explanation
Indices: 2666853--2666935 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
2666843 CTCGCCTAAC
2666853 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
2666883 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2666912 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2666936 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:2670485 original size:12 final size:14
Alignment explanation
Indices: 2670468--2670499 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
2670458 CAGTAAACTC
2670468 ATGCTTCT-TTT-T
1 ATGCTTCTCTTTGT
2670480 ATGCTTCTCTTTGT
1 ATGCTTCTCTTTGT
2670494 ATGCTT
1 ATGCTT
2670500 GCAATGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.09, C:0.19, G:0.12, T:0.59
Consensus pattern (14 bp):
ATGCTTCTCTTTGT
Found at i:2671659 original size:29 final size:29
Alignment explanation
Indices: 2671616--2671698 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
2671606 CTCACCTAAC
2671616 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
2671646 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2671675 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2671699 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:2672780 original size:12 final size:12
Alignment explanation
Indices: 2672763--2672810 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
2672753 TCTTGATGTA
2672763 TGCGTCATGCTT
1 TGCGTCATGCTT
2672775 TGCGTCATGCTT
1 TGCGTCATGCTT
2672787 TGCGTCATGCTT
1 TGCGTCATGCTT
*
2672799 GGCGTCATGCTT
1 TGCGTCATGCTT
2672811 GAATGATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.08, C:0.25, G:0.27, T:0.40
Consensus pattern (12 bp):
TGCGTCATGCTT
Found at i:2674733 original size:14 final size:14
Alignment explanation
Indices: 2674716--2674742 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2674706 TAAAAAAAAT
2674716 TAATTTTTAAAAGG
1 TAATTTTTAAAAGG
2674730 TAATTTTTAAAAG
1 TAATTTTTAAAAG
2674743 ATCTCGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
TAATTTTTAAAAGG
Found at i:2677213 original size:12 final size:12
Alignment explanation
Indices: 2677198--2677223 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2677188 AATTGTGATG
2677198 GCGGTGAACGGA
1 GCGGTGAACGGA
2677210 GCGGTGAACGGA
1 GCGGTGAACGGA
2677222 GC
1 GC
2677224 TGATGGCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.50, T:0.08
Consensus pattern (12 bp):
GCGGTGAACGGA
Found at i:2677495 original size:3 final size:3
Alignment explanation
Indices: 2677483--2677515 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
2677473 TAAAATTATC
2677483 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
2677516 TTTAGCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2678669 original size:6 final size:6
Alignment explanation
Indices: 2678660--2678688 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2678650 GGGATGATAA
2678660 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
1 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
2678689 TTTGGTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.66, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:2678795 original size:24 final size:26
Alignment explanation
Indices: 2678768--2678828 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
2678758 ATATATATAT
*
2678768 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
2678792 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
2678816 AT-ATATATATATA
1 ATAATATAAATATA
2678829 CCCGGCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:2678810 original size:19 final size:19
Alignment explanation
Indices: 2678786--2678825 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2678776 AATAAATTTA
2678786 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
2678805 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
2678824 AT
1 AT
2678826 ATACCCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:2678861 original size:11 final size:12
Alignment explanation
Indices: 2678845--2678877 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2678835 CCGATTCCCA
2678845 ACCCAATACC-G
1 ACCCAATACCTG
2678856 ACCCAATACCTG
1 ACCCAATACCTG
*
2678868 GCCCAATACC
1 ACCCAATACC
2678878 CGTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.33, C:0.45, G:0.09, T:0.12
Consensus pattern (12 bp):
ACCCAATACCTG
Found at i:2679122 original size:20 final size:20
Alignment explanation
Indices: 2679089--2679160 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
2679079 CAGGAAGCGG
* *
2679089 ATTTTTTAAAAAAAATATAT
1 ATTTTATAATAAAAATATAT
2679109 ATTTTATAATAAAAATATTAT
1 ATTTTATAATAAAAATA-TAT
* * *
2679130 GTTTTTTAA-AAAAAAATAAT
1 ATTTTATAATAAAAATAT-AT
2679150 ATTTTA-AATAA
1 ATTTTATAATAA
2679161 CATATAGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 29 0.69
21 10 0.24
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (20 bp):
ATTTTATAATAAAAATATAT
Found at i:2683140 original size:19 final size:19
Alignment explanation
Indices: 2683087--2683145 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 19
2683077 ATATTTAATG
2683087 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
2683106 ACAAAAGAATATCAATTGTTA
1 A-AAAAG-ATATCAATTGTTA
*
2683127 AAAAAGATACCAATTGTTA
1 AAAAAGATATCAATTGTTA
2683146 CTAATTGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 13 0.35
20 10 0.27
21 14 0.38
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:2687996 original size:163 final size:164
Alignment explanation
Indices: 2687784--2688101 Score: 494
Period size: 163 Copynumber: 1.9 Consensus size: 164
2687774 TAACTCCCTT
* * * * *
2687784 TGTACCAGTGAATATATAAACCAAATCAAACCAACAAGCTTTTGATGTCTCAAAATTGTCCAAGT
1 TGTACAAGTGAATACATAAACCAAACCAAACCAACAAGATTTGGATGTCTCAAAATTGTCCAAGT
*
2687849 CCACATTATCTAGCAATAATAGGCCTCTCCTTGCTCCACTTAGTCTCTAGACAGCACGAAATGTT
66 CCACATAATCTAGCAATAATAGGCCTCTCCTTGCTCCACTTAGTCTCTAGACAGCACGAAATGTT
*
2687914 -GTTCTTCCTAATCATAATCTCTGCCTTCTCTTA
131 AGTTCTTCCTAATCATAACCTCTGCCTTCTCTTA
* *
2687947 TGTACAAGTGAATACCTAAACCAAACCTAACCAACAAGATTTGGATGTCTCAAAATTGTCCAAGT
1 TGTACAAGTGAATACATAAACCAAACCAAACCAACAAGATTTGGATGTCTCAAAATTGTCCAAGT
* * **
2688012 CCACATAATCTAGTAATAATATGCCTCTCCTTGCTCCACTTAGTCTCTAGATGGCACGAAATGTT
66 CCACATAATCTAGCAATAATAGGCCTCTCCTTGCTCCACTTAGTCTCTAGACAGCACGAAATGTT
2688077 GAAGTTCTTCCTAATCATAACCTCT
131 --AGTTCTTCCTAATCATAACCTCT
2688102 ACTATCTCCA
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
163 118 0.85
166 21 0.15
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (164 bp):
TGTACAAGTGAATACATAAACCAAACCAAACCAACAAGATTTGGATGTCTCAAAATTGTCCAAGT
CCACATAATCTAGCAATAATAGGCCTCTCCTTGCTCCACTTAGTCTCTAGACAGCACGAAATGTT
AGTTCTTCCTAATCATAACCTCTGCCTTCTCTTA
Found at i:2691114 original size:12 final size:12
Alignment explanation
Indices: 2691097--2691149 Score: 81
Period size: 12 Copynumber: 4.5 Consensus size: 12
2691087 ACATCAATTT
2691097 AGTTAGGTGAAG
1 AGTTAGGTGAAG
2691109 AGTTAGGTGAAG
1 AGTTAGGTGAAG
*
2691121 AATTAGGTGAAG
1 AGTTAGGTGAAG
*
2691133 AGTTAAGTG-AG
1 AGTTAGGTGAAG
2691144 AGTTAG
1 AGTTAG
2691150 ATATTTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
11 7 0.19
12 30 0.81
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:2698936 original size:12 final size:12
Alignment explanation
Indices: 2698919--2698962 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
2698909 ACATCAATTT
2698919 AGTTAGGTGAAA
1 AGTTAGGTGAAA
2698931 AGTTAGGTGAAGA
1 AGTTAGGTGAA-A
*
2698944 A-TTAGGTGAAG
1 AGTTAGGTGAAA
2698955 AGTTAGGT
1 AGTTAGGT
2698963 ATTTGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 1 0.03
12 26 0.90
13 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (12 bp):
AGTTAGGTGAAA
Found at i:2700676 original size:3 final size:3
Alignment explanation
Indices: 2700664--2700707 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
2700654 CCCCGAAATG
2700664 ATA A-A ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
2700708 TATTATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2700689 original size:14 final size:14
Alignment explanation
Indices: 2700672--2700707 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2700662 TGATAAAATA
2700672 ATAATAATAATAAT
1 ATAATAATAATAAT
2700686 ATAATAATAATAAT
1 ATAATAATAATAAT
2700700 AT-ATAATA
1 ATAATAATA
2700708 TATTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:2700689 original size:17 final size:17
Alignment explanation
Indices: 2700664--2700707 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
2700654 CCCCGAAATG
*
2700664 ATAAAATAATAATAATA
1 ATAATATAATAATAATA
2700681 ATAATATAATAATAATA
1 ATAATATAATAATAATA
2700698 AT-ATATAATA
1 ATAATATAATA
2700708 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATATAATAATAATA
Found at i:2700988 original size:21 final size:23
Alignment explanation
Indices: 2700964--2701012 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
2700954 ACTGAACTAT
2700964 AATATTTATATTATAAA-AAT-A
1 AATATTTATATTATAAATAATGA
*
2700985 AATATTTATATTTTAAATAATGA
1 AATATTTATATTATAAATAATGA
2701008 AATAT
1 AATAT
2701013 ACTATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATATTTATATTATAAATAATGA
Found at i:2702018 original size:3 final size:3
Alignment explanation
Indices: 2702010--2702042 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2702000 TGCCTGTCAA
2702010 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2702043 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2702511 original size:12 final size:11
Alignment explanation
Indices: 2702494--2702519 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2702484 AAGATCTATA
2702494 AATTTTTAAAT
1 AATTTTTAAAT
2702505 AATTTTTAAAT
1 AATTTTTAAAT
2702516 AATT
1 AATT
2702520 ACTCACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:2703480 original size:21 final size:20
Alignment explanation
Indices: 2703394--2703551 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
2703384 AAATGACCAA
**
2703394 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
2703413 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
2703433 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
2703453 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
2703474 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2703495 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2703515 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2703536 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2703552 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2703583 original size:20 final size:20
Alignment explanation
Indices: 2703518--2703767 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
2703508 CGATTTTCCA
* ** *
2703518 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* *
2703538 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
2703558 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
2703578 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
2703598 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
2703618 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
2703638 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
2703658 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
2703678 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
2703698 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
2703718 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
2703738 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
2703758 AAATCACAAC
1 AAATCGCAAC
2703768 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
20 194 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:2704489 original size:24 final size:24
Alignment explanation
Indices: 2704450--2704496 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2704440 AAATTTGGTC
2704450 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2704474 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2704497 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2704688 original size:12 final size:12
Alignment explanation
Indices: 2704671--2704695 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2704661 ATATAATCCT
2704671 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2704683 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2704695 G
1 G
2704696 TCACCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2707071 original size:19 final size:19
Alignment explanation
Indices: 2707031--2707128 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2707021 GATTCTCTCG
2707031 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2707051 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2707070 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2707084 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2707103 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2707122 TTGCGAT
1 TTGCGAT
2707129 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2707125 original size:52 final size:53
Alignment explanation
Indices: 2707012--2707128 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
2707002 GAAATGAAAA
2707012 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
2707065 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
2707117 TCGCATTGCGAT
1 TCGCATTGCGAT
2707129 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:2707239 original size:33 final size:33
Alignment explanation
Indices: 2707187--2707278 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
2707177 CCATTACATT
2707187 TCGCAATGCGGAAATGAAAATCGCAACAAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACAAGAGAA
*
2707221 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACAAGAGAA
2707254 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
2707279 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 48 0.84
34 9 0.16
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACAAGAGAA
Found at i:2707243 original size:19 final size:19
Alignment explanation
Indices: 2707187--2707297 Score: 125
Period size: 19 Copynumber: 6.3 Consensus size: 19
2707177 CCATTACATT
2707187 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
2707207 TCGCAA--C--AA-GAGAA
1 TCGCAATGCGAAATGAAAA
2707221 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
2707240 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
2707254 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
2707273 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
2707292 TCGCAA
1 TCGCAA
2707298 CGAGAGAATC
Statistics
Matches: 77, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.26
15 3 0.04
16 3 0.04
17 2 0.03
18 4 0.05
19 39 0.51
20 6 0.08
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:2707334 original size:19 final size:19
Alignment explanation
Indices: 2707306--2707441 Score: 166
Period size: 19 Copynumber: 7.6 Consensus size: 19
2707296 AACGAGAGAA
*
2707306 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2707325 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
2707339 TCCCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2707358 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
*
2707378 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2707394 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2707411 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2707430 TCGCATTGCGAT
1 TCGCATTGCGAT
2707442 AGTCAATTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
14 16 0.16
16 10 0.10
17 10 0.10
19 47 0.47
20 18 0.18
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2707349 original size:33 final size:33
Alignment explanation
Indices: 2707306--2707441 Score: 125
Period size: 33 Copynumber: 3.9 Consensus size: 33
2707296 AACGAGAGAA
*
2707306 TCGCAATGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTC
*
2707339 TCCCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 TCGCATTGCGATTTTCATTT-CGCATTGCGA--TTC
* * *
2707375 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-
1 ---TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTC
2707411 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGAT
2707442 AGTCAATTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
31 9 0.11
32 4 0.05
33 31 0.37
34 10 0.12
36 3 0.04
37 2 0.02
39 14 0.17
40 6 0.07
41 4 0.05
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (33 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTC
Found at i:2707374 original size:53 final size:52
Alignment explanation
Indices: 2707306--2707441 Score: 236
Period size: 53 Copynumber: 2.6 Consensus size: 52
2707296 AACGAGAGAA
*
2707306 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
* *
2707358 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
2707411 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGAT
2707442 AGTCAATTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
52 31 0.39
53 49 0.61
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
Found at i:2707567 original size:14 final size:14
Alignment explanation
Indices: 2707548--2707584 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2707538 CATCAATTAC
2707548 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2707562 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2707576 ACAAATCAA
1 ACAAATCAA
2707585 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2709585 original size:14 final size:14
Alignment explanation
Indices: 2709566--2709622 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2709556 GCGAAATGAA
*
2709566 AATCGCAACGACAG
1 AATCGCAACGAAAG
2709580 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2709597 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2709613 AATCGCAACG
1 AATCGCAACG
2709623 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2709593 original size:33 final size:33
Alignment explanation
Indices: 2709547--2709639 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2709537 GCGAAACCAA
*
2709547 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2709580 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2709613 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2709640 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2709604 original size:19 final size:19
Alignment explanation
Indices: 2709510--2709644 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2709500 TAGTTTACTT
* *
2709510 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2709530 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2709549 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2709568 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2709582 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2709601 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2709615 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2709634 TCGCAATGCGA
1 TCGCAACGCGA
2709645 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2709662 original size:19 final size:19
Alignment explanation
Indices: 2709640--2709768 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2709630 AAAATCGCAA
2709640 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2709659 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2709673 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2709692 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2709706 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2709725 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2709744 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2709764 TGCGA
1 TGCGA
2709769 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2709682 original size:33 final size:33
Alignment explanation
Indices: 2709640--2709731 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2709630 AAAATCGCAA
2709640 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2709673 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2709706 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2709732 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2709971 original size:93 final size:93
Alignment explanation
Indices: 2709812--2710378 Score: 1098
Period size: 93 Copynumber: 6.1 Consensus size: 93
2709802 TTGAATGGAT
2709812 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2709877 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2709905 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2709970 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2709998 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAACTACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2710063 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2710091 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2710156 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2710184 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2710249 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2710277 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2710342 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2710370 AAATTTACT
1 AAATTTACT
2710379 AAGCAATCTA
Statistics
Matches: 467, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 467 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2712102 original size:14 final size:14
Alignment explanation
Indices: 2712083--2712172 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2712073 TTGAAATGAA
2712083 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2712097 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2712114 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2712130 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2712149 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2712163 AATCGCAACG
1 AATCGCAACG
2712173 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2712120 original size:33 final size:33
Alignment explanation
Indices: 2712075--2712189 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2712065 TCTTTTGGTT
2712075 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2712108 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2712141 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2712174 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2712190 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2712121 original size:19 final size:18
Alignment explanation
Indices: 2712082--2712194 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2712072 GTTGAAATGA
2712082 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2712097 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2712114 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2712130 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2712147 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2712163 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2712180 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2712195 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2712225 original size:14 final size:14
Alignment explanation
Indices: 2712206--2712262 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2712196 TTTGGTTTCG
2712206 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2712220 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2712239 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2712253 CGTTGCGATT
1 CGTTGCGATT
2712263 TCATTTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2712238 original size:33 final size:33
Alignment explanation
Indices: 2712190--2712269 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2712180 AAAATCGCAA
**
2712190 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2712223 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2712256 TGCGA-TTTCATTTC
1 TGCGATTTTCATTTC
2712270 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 9 0.20
33 36 0.80
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2712272 original size:20 final size:21
Alignment explanation
Indices: 2712247--2712323 Score: 104
Period size: 20 Copynumber: 3.8 Consensus size: 21
2712237 CGCGTTGCGA
2712247 TTCTCTCGTTGCGA-TTTCAT
1 TTCTCTCGTTGCGACTTTCAT
**
2712267 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGACTTTCAT
*
2712287 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACTTTCAT
*
2712308 TTATCTCGTTGCGACT
1 TTCTCTCGTTGCGACT
2712324 CTTCTGCAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGACTTTCAT
Found at i:2712301 original size:40 final size:41
Alignment explanation
Indices: 2712246--2712322 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
2712236 TCGCGTTGCG
*
2712246 ATTCTCTCGTTGCGA-TTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
2712286 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
2712323 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:2712448 original size:33 final size:33
Alignment explanation
Indices: 2712401--2712471 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2712391 AATACTAACT
* *
2712401 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2712434 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2712467 TGAAA
1 TGAAA
2712472 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2712705 original size:22 final size:22
Alignment explanation
Indices: 2712653--2712707 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2712643 TGGTTGTGAG
**
2712653 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2712675 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2712697 GGATTTCTTCG
1 GGATTTCTTCG
2712708 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2712878 original size:20 final size:20
Alignment explanation
Indices: 2712853--2713046 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2712843 CTTTAAATAT
2712853 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2712873 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2712895 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2712914 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2712934 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2712954 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2712974 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2712994 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2713014 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2713034 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2713047 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2713040 original size:60 final size:60
Alignment explanation
Indices: 2712853--2713046 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2712843 CTTTAAATAT
**
2712853 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2712914 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2712974 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2713034 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2713047 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2713063 original size:21 final size:21
Alignment explanation
Indices: 2713033--2713115 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2713023 ATTTTCATAT
*
2713033 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2713054 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2713075 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2713096 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2713116 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2713106 original size:42 final size:43
Alignment explanation
Indices: 2713013--2713111 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2713003 ATTTATGTGT
* *
2713013 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2713054 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2713096 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2713112 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2720520 original size:16 final size:18
Alignment explanation
Indices: 2720488--2720522 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2720478 TTTACCAACG
2720488 TTTCCCTCTTTTACATTT
1 TTTCCCTCTTTTACATTT
2720506 TTTCCCT-TTTT-CATTT
1 TTTCCCTCTTTTACATTT
2720522 T
1 T
2720523 ACGGTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTCTTTTACATTT
Found at i:2720959 original size:16 final size:16
Alignment explanation
Indices: 2720935--2721005 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 16
2720925 ATATAAAAGG
* *
2720935 ATTAATAATATTAATT
1 ATTAATAATAATAAAT
*
2720951 ATTATTAATAATAAAT
1 ATTAATAATAATAAAT
*
2720967 A-T--TAATAA-CAAT
1 ATTAATAATAATAAAT
* *
2720979 ACTAATAATATTAAAT
1 ATTAATAATAATAAAT
2720995 ATTAATAATAA
1 ATTAATAATAA
2721006 CTCGTACAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.09
13 7 0.16
15 6 0.14
16 26 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATAATAATAAAT
Found at i:2720962 original size:13 final size:13
Alignment explanation
Indices: 2720953--2721005 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
2720943 TATTAATTAT
2720953 TATTAATAATAAA
1 TATTAATAATAAA
*
2720966 TATTAATAACAATA
1 TATTAATAATAA-A
* *
2720980 CTAATAATATTAAA
1 -TATTAATAATAAA
2720994 TATTAATAATAA
1 TATTAATAATAA
2721006 CTCGTACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 21 0.66
14 2 0.06
15 9 0.28
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATAATAAA
Found at i:2721328 original size:16 final size:17
Alignment explanation
Indices: 2721303--2721335 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2721293 TATTAAACAT
*
2721303 TAATTTAAAAT-TTTAA
1 TAATTAAAAATATTTAA
2721319 TAATTAAAAATATTTAA
1 TAATTAAAAATATTTAA
2721336 ATATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATTAAAAATATTTAA
Found at i:2722089 original size:29 final size:29
Alignment explanation
Indices: 2722012--2722089 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
2722002 GTTAAATTAA
* *
2722012 TTTTTTAAAGTTTGAGGTCCAAATTGATT
1 TTTTTTAAAGTTTAAGGTCTAAATTGATT
*
2722041 TTTTTAAAAGTTTAAGGTCTAAATTGATT
1 TTTTTTAAAGTTTAAGGTCTAAATTGATT
2722070 TTTTTTAAAGTTTAAGGTCT
1 TTTTTTAAAGTTTAAGGTCT
2722090 TTTTTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.50
Consensus pattern (29 bp):
TTTTTTAAAGTTTAAGGTCTAAATTGATT
Found at i:2722125 original size:24 final size:24
Alignment explanation
Indices: 2722098--2722143 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2722088 CTTTTTTTAA
*
2722098 ATAAAAATATTTTAAAT-TTAAAAT
1 ATAAAAA-ATTTAAAATGTTAAAAT
*
2722122 ATAAGAAATTTAAAATGTTAAA
1 ATAAAAAATTTAAAATGTTAAA
2722144 CGTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
ATAAAAAATTTAAAATGTTAAAAT
Found at i:2729198 original size:22 final size:19
Alignment explanation
Indices: 2729148--2729200 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
2729138 GCAAAAATGA
*
2729148 TATCGATACCGTAATAGAG
1 TATCGATACCATAATAGAG
2729167 TATCTG-TACCATAGTATAGTAG
1 TATC-GATACCATA--ATAG-AG
2729189 TATCGATACCAT
1 TATCGATACCAT
2729201 GGTAGGGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.36
20 1 0.04
21 5 0.18
22 12 0.43
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (19 bp):
TATCGATACCATAATAGAG
Found at i:2729504 original size:13 final size:15
Alignment explanation
Indices: 2729470--2729501 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2729460 GTGCATTTAA
*
2729470 TTGTGTAACTATATG
1 TTGTATAACTATATG
2729485 TTGTATAACTATATG
1 TTGTATAACTATATG
2729500 TT
1 TT
2729502 ATACTAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (15 bp):
TTGTATAACTATATG
Found at i:2729692 original size:104 final size:105
Alignment explanation
Indices: 2729576--2729850 Score: 374
Period size: 104 Copynumber: 2.6 Consensus size: 105
2729566 TGTAATTCAC
* *
2729576 GGAATTCATCATATGTTAATGAATAACCGTTTCAGCACTAAGTGTGCAATTCACGGAATTCATCA
1 GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACGGAATTCATCA
* * *
2729641 TATGTTGATGAATAACCGTTTATG-TACTAAGTGTGC-CAA
66 TATATTGATGAATAACCGTTT-CGACACTAAGTGTGCACAA
* *
2729680 GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTACAATTCACAGAATTCATCA
1 GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACGGAATTCATCA
*
2729745 TATATTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCAC
66 TATATTGATGAATAACCGTTTCGACACTAAGTGTGC-A--CAA
* * * ***
2729788 GGAATTCATCATATGTTGATGAATAACTGTTTTGGCACTATGTGTGCACCCCACGGAATTCAT
1 GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
2729851 AATGAGTTTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
103 1 0.01
104 92 0.61
108 57 0.38
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (105 bp):
GGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAATTCACGGAATTCATCA
TATATTGATGAATAACCGTTTCGACACTAAGTGTGCACAA
Found at i:2729865 original size:54 final size:54
Alignment explanation
Indices: 2729557--2729850 Score: 407
Period size: 54 Copynumber: 5.5 Consensus size: 54
2729547 ACTAAATTGA
* * *
2729557 CACTAAGTGTGTAATTCACGGAATTCATCATATGTTAATGAATAACCGTTTCAG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
**
2729611 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTATG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
2729665 TACTAAGTGTGC----CAAGGAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* * * *
2729715 CACTAAGTGTACAATTCACAGAATTCATCATATATTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
2729769 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTTGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* ***
2729823 CACTATGTGTGCACCCCACGGAATTCAT
1 CACTAAGTGTGCAATTCACGGAATTCAT
2729851 AATGAGTTTA
Statistics
Matches: 212, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.21
54 167 0.79
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (54 bp):
CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
Found at i:2732376 original size:3 final size:3
Alignment explanation
Indices: 2732368--2732432 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
2732358 AAGCCCAAAG
2732368 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2732416 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
2732433 AACCCAAAGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2737890 original size:2 final size:2
Alignment explanation
Indices: 2737885--2737918 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2737875 TAAGATAGTG
2737885 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2737919 GGTATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2741088 original size:28 final size:25
Alignment explanation
Indices: 2741036--2741094 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
2741026 TTTGTAGTAG
2741036 AAAAATAATATTTATTATAATGAAA
1 AAAAATAATATTTATTATAATGAAA
**
2741061 AAAAATAATATTTATTATAATGACG
1 AAAAATAATATTTATTATAATGAAA
2741086 AAAAATAAT
1 AAAAATAAT
2741095 GACACCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
AAAAATAATATTTATTATAATGAAA
Found at i:2741401 original size:25 final size:25
Alignment explanation
Indices: 2741369--2741417 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2741359 TAGAAATTGT
2741369 TTTATTATAATAACGAAAAATAATA
1 TTTATTATAATAACGAAAAATAATA
*
2741394 TTTATTATAATGACGAAAAATAAT
1 TTTATTATAATAACGAAAAATAAT
2741418 GACACCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
TTTATTATAATAACGAAAAATAATA
Found at i:2744205 original size:13 final size:13
Alignment explanation
Indices: 2744183--2744222 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2744173 ACGAATGAGC
*
2744183 ATAAAGGAACATA
1 ATAAACGAACATA
*
2744196 ATAAACGAACACA
1 ATAAACGAACATA
*
2744209 ATAAATGAACATA
1 ATAAACGAACATA
2744222 A
1 A
2744223 ACGAACAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (13 bp):
ATAAACGAACATA
Found at i:2744223 original size:36 final size:36
Alignment explanation
Indices: 2744160--2744229 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
2744150 TAAACGAACG
* *
2744160 TAAACGAACACAAACGAATGAGCATAAAGGAACATAA
1 TAAACGAACACAAAC-AATGAACATAAACGAACATAA
2744197 TAAACGAACACAATA-AATGAACATAAACGAACA
1 TAAACGAACACAA-ACAATGAACATAAACGAACA
2744230 ACACAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 16 0.53
37 13 0.43
38 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.13, T:0.11
Consensus pattern (36 bp):
TAAACGAACACAAACAATGAACATAAACGAACATAA
Found at i:2745235 original size:18 final size:18
Alignment explanation
Indices: 2745193--2745236 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
2745183 TAATATTGTG
*
2745193 ATTAATATCAATAGTTGA
1 ATTAATGTCAATAGTTGA
2745211 ATTAATGTCAATAGTTGA
1 ATTAATGTCAATAGTTGA
2745229 ATTAATGT
1 ATTAATGT
2745237 GATTAATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (18 bp):
ATTAATGTCAATAGTTGA
Found at i:2745242 original size:27 final size:27
Alignment explanation
Indices: 2745211--2745266 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
2745201 CAATAGTTGA
*
2745211 ATTAATGTCAATAGTTGAATTAATGTG
1 ATTAATATCAATAGTTGAATTAATGTG
* *
2745238 ATTAATATCAATATTTGAATTAATATG
1 ATTAATATCAATAGTTGAATTAATGTG
2745265 AT
1 AT
2745267 GGATATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (27 bp):
ATTAATATCAATAGTTGAATTAATGTG
Found at i:2745268 original size:107 final size:107
Alignment explanation
Indices: 2745146--2745444 Score: 481
Period size: 116 Copynumber: 2.7 Consensus size: 107
2745136 CTATTTTTTC
2745146 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATATTGTGATTAATATCAATAGTTGA
1 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATATTGTGATTAATATCAATAGTTGA
2745211 ATTAATGTCAATAGTTGAATTAATGTGATTAATATCAATATT
66 ATTAATGTCAATAGTTGAATTAATGTGATTAATATCAATATT
2745253 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATATTGTGATTAATATCAATAGTTGA
1 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATATTGTGATTAATATCAATAGTTGA
2745318 ATTAATGTGATTAACATCAATAGTTGAATTAATGTGATTAATATCAATATT
66 ATTAA--TG-------TCAATAGTTGAATTAATGTGATTAATATCAATATT
* * *
2745369 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATGAATGTGATTAATATCATTAATTG
1 TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAAT-ATTGTGATTAATATCAATAGTTG
2745434 AATTAATGTCA
65 AATTAATGTCA
2745445 TTAATATCGA
Statistics
Matches: 179, Mismatches: 3, Indels: 19
0.89 0.01 0.09
Matches are distributed among these distances:
107 70 0.39
108 3 0.02
109 2 0.01
115 2 0.01
116 76 0.42
117 26 0.15
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.43
Consensus pattern (107 bp):
TGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATATTGTGATTAATATCAATAGTTGA
ATTAATGTCAATAGTTGAATTAATGTGATTAATATCAATATT
Found at i:2745272 original size:27 final size:27
Alignment explanation
Indices: 2745218--2745272 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2745208 TGAATTAATG
* *
2745218 TCAATAGTTGAATTAATGTGATTAATA
1 TCAATAGTTGAATTAATATGATGAATA
* *
2745245 TCAATATTTGAATTAATATGATGGATA
1 TCAATAGTTGAATTAATATGATGAATA
2745272 T
1 T
2745273 TTGTTGACGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (27 bp):
TCAATAGTTGAATTAATATGATGAATA
Found at i:2745388 original size:27 final size:27
Alignment explanation
Indices: 2745296--2745382 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
2745286 ATTTTAATAT
2745296 TGTGATTAATATCAATAGTTGAATTAA
1 TGTGATTAATATCAATAGTTGAATTAA
*
2745323 TGTGATTAACATCAATAGTTGAATTAA
1 TGTGATTAATATCAATAGTTGAATTAA
*
2745350 TGTGATTAATATCAATATTTGAATTAA
1 TGTGATTAATATCAATAGTTGAATTAA
*
2745377 TATGAT
1 TGTGAT
2745383 GGATATTTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (27 bp):
TGTGATTAATATCAATAGTTGAATTAA
Found at i:2745477 original size:27 final size:26
Alignment explanation
Indices: 2745400--2745477 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
2745390 TGTTGACGCT
* *
2745400 ATATTTTAATGAATGTGATTAATATC
1 ATATTTAAATTAATGTGATTAATATC
* * *
2745426 ATTAATTGAATTAATGTCATTAATATC
1 A-TATTTAAATTAATGTGATTAATATC
*
2745453 GATATTTAAATTAATGTGATGAATA
1 -ATATTTAAATTAATGTGATTAATA
2745478 CTAATTCAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.44
Consensus pattern (26 bp):
ATATTTAAATTAATGTGATTAATATC
Done.