Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 35
Found at i:2747359 original size:31 final size:33
Alignment explanation
Indices: 2747321--2747381 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
2747311 TTCTTCTATT
*
2747321 TTTCTTTTTCTTC-TC-TTTTCTTTTTTCTGCA
1 TTTCTTTTTCTTCTTCTTTTTCATTTTTCTGCA
2747352 TTTCTTTTTCTTCTTCTTTTTCATTTTTCT
1 TTTCTTTTTCTTCTTCTTTTTCATTTTTCT
2747382 TCTTCCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 13 0.48
32 2 0.07
33 12 0.44
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (33 bp):
TTTCTTTTTCTTCTTCTTTTTCATTTTTCTGCA
Found at i:2748084 original size:6 final size:6
Alignment explanation
Indices: 2748062--2748182 Score: 124
Period size: 6 Copynumber: 19.7 Consensus size: 6
2748052 CATTTTTTTA
2748062 TTTCTT CTTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTCTT -TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* *
2748110 TTTCTT TTTCTT ATTCTT CTTT-TG TTT-TT TTTCTT TTTCTT CCTTT-TCT
1 TTTCTT TTTCTT TTTCTT -TTTCTT TTTCTT TTTCTT TTTCTT --TTTCT-T
*
2748159 TTTCTTT TCTTCTT CTTCTT TTTC
1 TTTC-TT T-TTCTT TTTCTT TTTC
2748183 AAGCATAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
5 11 0.11
6 69 0.70
7 11 0.11
8 8 0.08
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:2752328 original size:29 final size:28
Alignment explanation
Indices: 2752287--2752467 Score: 168
Period size: 29 Copynumber: 6.4 Consensus size: 28
2752277 CCGTTGACCG
*
2752287 GGTGATATTTTGGAAATTAATTTGAAAT
1 GGTGCTATTTTGGAAATTAATTTGAAAT
* * * *
2752315 GGGTGCTATATTGGGAATTAATTCGAAAAG
1 -GGTGCTATTTTGGAAATTAATTTG-AAAT
* *
2752345 GGTGCTATTTTGGGAATTTATTTGAAA-
1 GGTGCTATTTTGGAAATTAATTTGAAAT
* * *
2752372 AGTGCTATTTTGGGAATTTAATTCGAAA-
1 GGTGCTATTTT-GGAAATTAATTTGAAAT
* * *
2752400 AGTGCTATCTTGGGAATTTAATTTGAAAT
1 GGTGCTAT-TTTGGAAATTAATTTGAAAT
* *
2752429 GGTGCTATTTTGGAAATTATTTTAAAAAT
1 GGTGCTATTTTGGAAATTAATTT-GAAAT
2752458 GGTGCTATTT
1 GGTGCTATTT
2752468 CTGTAAAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 10 0.08
28 50 0.39
29 64 0.50
30 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (28 bp):
GGTGCTATTTTGGAAATTAATTTGAAAT
Found at i:2753235 original size:15 final size:15
Alignment explanation
Indices: 2753215--2753247 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2753205 TGATACGTGA
2753215 TTCCTGAATAT-TGAT
1 TTCCTG-ATATCTGAT
2753230 TTCCTGATATCTGAT
1 TTCCTGATATCTGAT
2753245 TTC
1 TTC
2753248 TGTATTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (15 bp):
TTCCTGATATCTGAT
Found at i:2753575 original size:117 final size:116
Alignment explanation
Indices: 2753372--2753648 Score: 367
Period size: 117 Copynumber: 2.4 Consensus size: 116
2753362 CTCCTCGGCT
* * * *
2753372 TTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGGAACTTACACATT
1 TTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACATT
* ** * * **
2753437 GTAGTGAGTGGAGTGATTGGATGGGGAAGTTATTACTGCAGACTCCTTTGA
66 GTAGTGAGTGAAACGACTGGATGGAGAAGTTATTACTGCAGACTCCTCAGA
* *
2753488 TGTGTGCTTAGGGTAAGTCTTTACTAGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACAT
1 T-TGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACAT
* * * *
2753553 TGTAGTGA-TGAAAACGACTGGATGGAGACGTTATTACTGTAGGCTCCTCAGC
65 TGTAGTGAGTG-AAACGACTGGATGGAGAAGTTATTACTGCAGACTCCTCAGA
2753605 TTCGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTAT
1 TT-GTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTAT
2753649 GTTTCAGGAA
Statistics
Matches: 139, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
116 4 0.03
117 135 0.97
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (116 bp):
TTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATAGTTCTGAGGAACCTACACATT
GTAGTGAGTGAAACGACTGGATGGAGAAGTTATTACTGCAGACTCCTCAGA
Found at i:2759831 original size:28 final size:29
Alignment explanation
Indices: 2759706--2759882 Score: 202
Period size: 29 Copynumber: 6.1 Consensus size: 29
2759696 ACCGGGTGAC
* *
2759706 ATTTTAGGAA-TTAATTCGAAATGGATGCT
1 ATTTTGGGAATTTAATTCGAAAAGG-TGCT
*
2759735 ATATTGGGAA-TTAATTCGAAAAGGGTGCT
1 ATTTTGGGAATTTAATTCGAAAA-GGTGCT
*
2759764 ATTTTGGGAATTT-ATTCAGAAAATGTGCT
1 ATTTTGGGAATTTAATTC-GAAAAGGTGCT
2759793 ATTTTGGGAATTTAATTCGAAAA-GTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGTGCT
**
2759821 ATTTTATGAATTTAATTCGAAAAGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGTGCT
* **
2759850 ATTTT-GGTATTTAATTTAAAAATGGTGCT
1 ATTTTGGGAATTTAATTCGAAAA-GGTGCT
2759879 ATTT
1 ATTT
2759883 CTGTAAAATG
Statistics
Matches: 131, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
28 39 0.30
29 79 0.60
30 13 0.10
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (29 bp):
ATTTTGGGAATTTAATTCGAAAAGGTGCT
Found at i:2760640 original size:14 final size:16
Alignment explanation
Indices: 2760616--2760648 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2760606 CTGAACGTGA
2760616 TTCCTGAATAT-TGAT
1 TTCCTGAATATCTGAT
2760631 TTCCTG-ATATCTGAT
1 TTCCTGAATATCTGAT
2760646 TTC
1 TTC
2760649 TGTATTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (16 bp):
TTCCTGAATATCTGAT
Found at i:2760962 original size:112 final size:109
Alignment explanation
Indices: 2760770--2761031 Score: 320
Period size: 112 Copynumber: 2.3 Consensus size: 109
2760760 CTCCTCGACT
* *
2760770 TTGTGC-TA-GGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGGGAACCTACACATG
1 TTGTGCTTAGGGTAAGTCTTTACTGGTGTGCA-G-GGG-GTATGGTTCTGAGGAACCTACACATG
* * **
2760833 TAGTGAGTTGAGTGACTGGATGG-GA-GTTATTACTGCAGACTCCTTTGC
63 TAGTGAG-TGAGCGACTGGATGGAGACGTTATTACTGCAG--GCCTCAGC
2760881 TGTGTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGGGGTATGGTTCTGAGGAACCTACACATTGT
1 T-TGTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGGGGTATGGTTCTGAGGAACCTACACA-TGT
2760946 AGTGA-TGAAAGCGACTGGATGGAGACGTTATTACTGCAGGCCTCAGC
64 AGTGAGTG--AGCGACTGGATGGAGACGTTATTACTGCAGGCCTCAGC
2760993 TTCGTGCTTAGGGT-AGTCTTTACTGGTGTGCAGGTGGGT
1 TT-GTGCTTAGGGTAAGTCTTTACTGGTGTGCAGG-GGGT
2761032 GTATGTTTCG
Statistics
Matches: 135, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
110 2 0.01
111 45 0.33
112 49 0.36
113 5 0.04
114 34 0.25
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (109 bp):
TTGTGCTTAGGGTAAGTCTTTACTGGTGTGCAGGGGGTATGGTTCTGAGGAACCTACACATGTAG
TGAGTGAGCGACTGGATGGAGACGTTATTACTGCAGGCCTCAGC
Found at i:2762335 original size:182 final size:182
Alignment explanation
Indices: 2762028--2762392 Score: 730
Period size: 182 Copynumber: 2.0 Consensus size: 182
2762018 TTCTGGAAGG
2762028 TCAGTAATATAATCTCTTGGTTTGCTTTCAAAAAGATTTATTGCACCCTGAACACTCATCTGGGG
1 TCAGTAATATAATCTCTTGGTTTGCTTTCAAAAAGATTTATTGCACCCTGAACACTCATCTGGGG
2762093 TATTAGCATTTTCTTGGGTACTTTCAACAAGGTGCTTTTTTGCTCAATTCATTTCAGTACGTTTG
66 TATTAGCATTTTCTTGGGTACTTTCAACAAGGTGCTTTTTTGCTCAATTCATTTCAGTACGTTTG
2762158 AAAAAAAATTGTGAAGAGAAAAGGTGATTGCATTTACAATTTCTTTGGGCAA
131 AAAAAAAATTGTGAAGAGAAAAGGTGATTGCATTTACAATTTCTTTGGGCAA
2762210 TCAGTAATATAATCTCTTGGTTTGCTTTCAAAAAGATTTATTGCACCCTGAACACTCATCTGGGG
1 TCAGTAATATAATCTCTTGGTTTGCTTTCAAAAAGATTTATTGCACCCTGAACACTCATCTGGGG
2762275 TATTAGCATTTTCTTGGGTACTTTCAACAAGGTGCTTTTTTGCTCAATTCATTTCAGTACGTTTG
66 TATTAGCATTTTCTTGGGTACTTTCAACAAGGTGCTTTTTTGCTCAATTCATTTCAGTACGTTTG
2762340 AAAAAAAATTGTGAAGAGAAAAGGTGATTGCATTTACAATTTCTTTGGGCAA
131 AAAAAAAATTGTGAAGAGAAAAGGTGATTGCATTTACAATTTCTTTGGGCAA
2762392 T
1 T
2762393 TCAAGGTTTA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 183 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (182 bp):
TCAGTAATATAATCTCTTGGTTTGCTTTCAAAAAGATTTATTGCACCCTGAACACTCATCTGGGG
TATTAGCATTTTCTTGGGTACTTTCAACAAGGTGCTTTTTTGCTCAATTCATTTCAGTACGTTTG
AAAAAAAATTGTGAAGAGAAAAGGTGATTGCATTTACAATTTCTTTGGGCAA
Found at i:2763694 original size:31 final size:30
Alignment explanation
Indices: 2763624--2763709 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 30
2763614 TTGACCTTTG
* * * *
2763624 AATTTTAAATAAAATAATAATTTGATCTTA
1 AATTTTATATAAAATATTAATTTAATCCTA
*
2763654 AATTCTATATAAAATATTAATTTAATCCCTA
1 AATTTTATATAAAATATTAATTTAAT-CCTA
*
2763685 AATTTTATATAAAATATAAATTTAA
1 AATTTTATATAAAATATTAATTTAA
2763710 CCTTGAGTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 22 0.46
31 26 0.54
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (30 bp):
AATTTTATATAAAATATTAATTTAATCCTA
Found at i:2771077 original size:81 final size:81
Alignment explanation
Indices: 2770942--2771103 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
2770932 TTTAAAACTG
2770942 AAAGTACAGTTTTATCAATTCTTATGTGTAATCGTGATGATGTATTCCTTAGTTGTTAATTTATT
1 AAAGTACAGTTTTATCAATTCTTATGTGTAATCGTGATGATGTATTCCTTAGTTGTTAATTTATT
2771007 GCCCATCGTACATTGA
66 GCCCATCGTACATTGA
2771023 AAAGTACAGTTTTATCAATTCTTATGTGTAATCGTGATGATGTATTCCTTAGTTGTTAATTTATT
1 AAAGTACAGTTTTATCAATTCTTATGTGTAATCGTGATGATGTATTCCTTAGTTGTTAATTTATT
2771088 GCCCATCGTACATTGA
66 GCCCATCGTACATTGA
2771104 GCAGCTATCG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (81 bp):
AAAGTACAGTTTTATCAATTCTTATGTGTAATCGTGATGATGTATTCCTTAGTTGTTAATTTATT
GCCCATCGTACATTGA
Found at i:2775244 original size:2 final size:2
Alignment explanation
Indices: 2775239--2775356 Score: 172
Period size: 2 Copynumber: 61.0 Consensus size: 2
2775229 TTTTTTAAAA
* * *
2775239 AT AT AT -T A- AT AT AT AT AT AT AT AT TT A- AT AT AC AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2775278 AC 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
2775320 AT AT AT AT AT AT AT AT AT A- 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
2775357 TTAAAAGTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
1 4 0.04
2 100 0.96
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2775610 original size:13 final size:14
Alignment explanation
Indices: 2775592--2775624 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2775582 CCATTTTCTT
2775592 AATATTAAAA-ATA
1 AATATTAAAATATA
2775605 AATATTAAAATATA
1 AATATTAAAATATA
*
2775619 ATTATT
1 AATATT
2775625 TTTCCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATTAAAATATA
Found at i:2775648 original size:15 final size:16
Alignment explanation
Indices: 2775630--2775660 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2775620 TTATTTTTCC
2775630 TAAAATT-AATTTATA
1 TAAAATTAAATTTATA
2775645 TAAAATTAAATTTATA
1 TAAAATTAAATTTATA
2775661 AATAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATTAAATTTATA
Found at i:2775662 original size:14 final size:15
Alignment explanation
Indices: 2775630--2775662 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2775620 TTATTTTTCC
*
2775630 TAAAATTAATTTATA
1 TAAAATTAAATTATA
2775645 TAAAATTAAATT-TA
1 TAAAATTAAATTATA
2775659 TAAA
1 TAAA
2775663 TAGGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTAAATTATA
Found at i:2775756 original size:3 final size:3
Alignment explanation
Indices: 2775748--2775774 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2775738 TATATGACTA
2775748 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2775775 TAAATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2775869 original size:24 final size:23
Alignment explanation
Indices: 2775842--2775888 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2775832 AAATAAAATT
2775842 AAAAC-TATAGTATTAAAATATAAA
1 AAAACTTATAGT-TTAAAA-ATAAA
*
2775866 AAAACTTGTAGTTTAAAAATAAA
1 AAAACTTATAGTTTAAAAATAAA
2775889 TGAAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAACTTATAGTTTAAAAATAAA
Found at i:2776857 original size:22 final size:22
Alignment explanation
Indices: 2776831--2776886 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
2776821 GGGCAAAGTT
*
2776831 TGGTGAGTCACCAAACCTAAAG
1 TGGTGACTCACCAAACCTAAAG
2776853 TGGTGACTCACCAAACCTAAAG
1 TGGTGACTCACCAAACCTAAAG
2776875 TGGTGACTCACC
1 TGGTGACTCACC
2776887 CTAAAGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (22 bp):
TGGTGACTCACCAAACCTAAAG
Found at i:2777207 original size:3 final size:3
Alignment explanation
Indices: 2777192--2777289 Score: 108
Period size: 3 Copynumber: 32.0 Consensus size: 3
2777182 TTTGGGCATG
* *
2777192 TAA TAA TAT TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA GTAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * *
2777237 TAAA TAA TAA TAA TAA TAG TAA TAAA TAA TTA TAA TAA TGA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
2777284 AAA TAA
1 TAA TAA
2777290 AAAACCAAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.03
3 69 0.87
4 8 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2777764 original size:122 final size:122
Alignment explanation
Indices: 2777470--2778070 Score: 893
Period size: 122 Copynumber: 4.9 Consensus size: 122
2777460 GATGACAATT
* * * * *
2777470 TATCTCATTCTGTGAT-GTAATCTAGCAAAAAGTTAAACAAATTCTTCTCATTATGAAATTCTTC
1 TATCTCCTTCTGTGATAG-AATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
*
2777534 -TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAATGTTGATGTTGATC
65 TTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTC-TTCTGGAAATGTTGATGCTGATC
* * ** * * * * *
2777593 TATTTTCTTCTGTGATAGCGTCGAGCTAAAGGTTGAACAAATTCTTCTCATTATAAACTTCTTCT
1 TATCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
* *
2777658 TCCTCTTCATATGAGTTCTTCTCATTATGAACTCTTCTGTAAATGTTGATGCTGATC
66 TCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATC
* *
2777715 TATCTCCTTCTGTGATAGAATCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-
1 TATCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
* *
2777779 TCCTTCTTTAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATC
66 TCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATC
* *
2777837 TATCTCCTTCTGTGATAGAATCATGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCT
1 TATCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
* * *
2777902 TCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATACTGATC
66 TCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATC
* *
2777959 TATCTCCTTCTGTGATAGAATCATGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTAT
1 TATCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
2778024 TCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTT
66 TCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTT
2778071 CATCCATCGA
Statistics
Matches: 436, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
121 3 0.01
122 346 0.79
123 83 0.19
124 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (122 bp):
TATCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
TCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATC
Found at i:2778195 original size:18 final size:18
Alignment explanation
Indices: 2778172--2778231 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
2778162 TATATAAAAG
2778172 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
2778190 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
2778208 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
2778226 AA-AAAT
1 AATAAAT
2778232 AAACTTGGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 4 0.10
18 38 0.90
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:2778596 original size:1 final size:1
Alignment explanation
Indices: 2778590--2778647 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2778580 TCTATTATTA
* * * * * * *
2778590 TTTTTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTCTTTTTTCTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2778648 AAAACATAAT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:2778604 original size:7 final size:7
Alignment explanation
Indices: 2778592--2778647 Score: 69
Period size: 7 Copynumber: 7.7 Consensus size: 7
2778582 TATTATTATT
2778592 TTTTTTC
1 TTTTTTC
2778599 TTTTTTTC
1 -TTTTTTC
2778607 TTTTTTC
1 TTTTTTC
2778614 TTTTTTC
1 TTTTTTC
2778621 TTTCTTT-
1 TTT-TTTC
*
2778628 TTTCTTTT
1 TTT-TTTC
2778636 TTTTTTC
1 TTTTTTC
2778643 TTTTT
1 TTTTT
2778648 AAAACATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
7 32 0.71
8 13 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:2778624 original size:18 final size:17
Alignment explanation
Indices: 2778590--2778647 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 17
2778580 TCTATTATTA
2778590 TTTTTT-TTCTTTTTTTC
1 TTTTTTCTT-TTTTTTTC
2778607 TTTTTTCTTTTTTCTTTC
1 TTTTTTCTTTTTT-TTTC
2778625 TTTTTTCTTTTTTTTTTC
1 TTTTTTC-TTTTTTTTTC
2778643 TTTTT
1 TTTTT
2778648 AAAACATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.26
18 22 0.58
19 6 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTTC
Found at i:2778646 original size:11 final size:11
Alignment explanation
Indices: 2778590--2778647 Score: 82
Period size: 11 Copynumber: 5.3 Consensus size: 11
2778580 TCTATTATTA
2778590 TTTTTTTTCTT
1 TTTTTTTTCTT
2778601 TTTTTCTTT-TT
1 TTTTT-TTTCTT
*
2778612 TCTTTTTTCTT
1 TTTTTTTTCTT
*
2778623 TCTTTTTTCTT
1 TTTTTTTTCTT
2778634 TTTTTTTTCTT
1 TTTTTTTTCTT
2778645 TTT
1 TTT
2778648 AAAACATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 3 0.07
11 37 0.86
12 3 0.07
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:2781982 original size:20 final size:22
Alignment explanation
Indices: 2781957--2781999 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
2781947 GTAAATTTAT
2781957 GAAAT-AAA-TATAAAGAATGA
1 GAAATAAAAGTATAAAGAATGA
2781977 GAAATAAAAAGTATAAAGAATGA
1 GAAAT-AAAAGTATAAAGAATGA
2782000 TTGCCATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (22 bp):
GAAATAAAAGTATAAAGAATGA
Found at i:2782774 original size:87 final size:87
Alignment explanation
Indices: 2782628--2782801 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
2782618 TGCAATCAGA
2782628 TAATCTGGGATGTGGAATTTTGCTTCCCTCAGCAATAAAGGTTATATTGACAAATTCCAAAGCTC
1 TAATCTGGGATGTGGAATTTTGCTTCCCTCAGCAATAAAGGTTATATTGACAAATTCCAAAGCTC
2782693 GGAAAGAGCACTCGAGAGCATC
66 GGAAAGAGCACTCGAGAGCATC
2782715 TAATCTGGGATGTGGAATTTTGCTTCCCTCAGCAATAAAGGTTATATTGACAAATTCCAAAGCTC
1 TAATCTGGGATGTGGAATTTTGCTTCCCTCAGCAATAAAGGTTATATTGACAAATTCCAAAGCTC
2782780 GGAAAGAGCACTCGAGAGCATC
66 GGAAAGAGCACTCGAGAGCATC
2782802 ATCATTTGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (87 bp):
TAATCTGGGATGTGGAATTTTGCTTCCCTCAGCAATAAAGGTTATATTGACAAATTCCAAAGCTC
GGAAAGAGCACTCGAGAGCATC
Found at i:2785406 original size:113 final size:113
Alignment explanation
Indices: 2785280--2785508 Score: 424
Period size: 113 Copynumber: 2.0 Consensus size: 113
2785270 CTTCATTGGA
2785280 TTTTTTTCTCTCATTCAACTCATTCAGATATGGAATTAGATGCTCAGCATTAAATTCTCCTATCT
1 TTTTTTTCTCTCATTCAACTCATTCAGATATGGAATTAGATGCTCAGCATTAAATTCTCCTATCT
2785345 TCACCTCTGACATAA-GATTTTTTACTTGAAGACGCGGGATCCACTTGT
66 TCACCTCTGACATAAGGA-TTTTTACTTGAAGACGCGGGATCCACTTGT
2785393 TTTTTTTCTCTCATTCAACTCATTCAGATATGGAATTAGATGCTCAGCATTAAATTCTCCTATCT
1 TTTTTTTCTCTCATTCAACTCATTCAGATATGGAATTAGATGCTCAGCATTAAATTCTCCTATCT
2785458 TCACCTCTGACATAAGCGGATTTTTACTTGAAGACGCGGGATCCACTTGT
66 TCACCTCTGACATAA--GGATTTTTACTTGAAGACGCGGGATCCACTTGT
2785508 T
1 T
2785509 GATTTTCATT
Statistics
Matches: 113, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
113 80 0.71
115 31 0.27
116 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (113 bp):
TTTTTTTCTCTCATTCAACTCATTCAGATATGGAATTAGATGCTCAGCATTAAATTCTCCTATCT
TCACCTCTGACATAAGGATTTTTACTTGAAGACGCGGGATCCACTTGT
Found at i:2785997 original size:15 final size:15
Alignment explanation
Indices: 2785977--2786008 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2785967 TGCAATGAAT
2785977 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2785992 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2786007 AA
1 AA
2786009 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2788695 original size:10 final size:9
Alignment explanation
Indices: 2788667--2788698 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2788657 TGCAAACAGT
2788667 AAAA-ATAA
1 AAAACATAA
2788675 AAAACATAA
1 AAAACATAA
2788684 AAAACATAA
1 AAAACATAA
2788693 AAAACA
1 AAAACA
2788699 ATGAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAACATAA
Found at i:2789899 original size:2 final size:2
Alignment explanation
Indices: 2789881--2789938 Score: 59
Period size: 2 Copynumber: 30.5 Consensus size: 2
2789871 ATTTTTAAAA
* * * *
2789881 AT AT AT -T A- AT AT CT AT AT AT TT A- AT AT AC AT AC 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
2789920 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
2789939 AGTTTTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2790268 original size:4 final size:4
Alignment explanation
Indices: 2790256--2790288 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
2790246 ATTTTTATTT
2790256 AATA GAATA AATA AATA AATA AATA AATA AATA
1 AATA -AATA AATA AATA AATA AATA AATA AATA
2790289 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:2790429 original size:23 final size:22
Alignment explanation
Indices: 2790401--2790446 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
2790391 AAATAAAATT
2790401 AAAAC-TATAGTATTAAAATATAA
1 AAAACTTATAGT-TTAAAA-ATAA
*
2790424 AAAACTTGTAGTTTAAAAATAA
1 AAAACTTATAGTTTAAAAATAA
2790446 A
1 A
2790447 TGAAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAACTTATAGTTTAAAAATAA
Found at i:2790905 original size:35 final size:35
Alignment explanation
Indices: 2790859--2790929 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
2790849 AAACGACGTA
2790859 GTTTTGGTGAGGGTATTTATACCCCCTTATAACCG
1 GTTTTGGTGAGGGTATTTATACCCCCTTATAACCG
2790894 GTTTTGGTGAGGGTATTTATACCCCCTTATAACCG
1 GTTTTGGTGAGGGTATTTATACCCCCTTATAACCG
2790929 G
1 G
2790930 CCTTTAGGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (35 bp):
GTTTTGGTGAGGGTATTTATACCCCCTTATAACCG
Found at i:2791771 original size:3 final size:3
Alignment explanation
Indices: 2791763--2791856 Score: 109
Period size: 3 Copynumber: 31.0 Consensus size: 3
2791753 GTAATAGTAT
* * *
2791763 TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA AAA TAA GTAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* * *
2791809 TAA TAA TAA TAA TAA TAG TAA TAA -ATA TAA TAA TGA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
2791854 TAA
1 TAA
2791857 AAAACCAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
2 1 0.01
3 71 0.93
4 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2792028 original size:36 final size:38
Alignment explanation
Indices: 2791954--2792040 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 38
2791944 TATTCCAATC
*
2791954 TTGATAGTTTATTTATTATAACAGAATTATGAGCAATA
1 TTGATAGTTTATTTATTATAACAGAATTATGAGAAATA
* *
2791992 TTGATAGTTTATTTA-T-TAGCAGGATTATGAGAAATA
1 TTGATAGTTTATTTATTATAACAGAATTATGAGAAATA
2792028 TTGATAGTTTATT
1 TTGATAGTTTATT
2792041 AATTGTGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 30 0.65
37 1 0.02
38 15 0.33
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (38 bp):
TTGATAGTTTATTTATTATAACAGAATTATGAGAAATA
Found at i:2793732 original size:37 final size:37
Alignment explanation
Indices: 2793690--2793767 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
2793680 TATTTATGTC
2793690 TGTTCTAATAATAATTTTGCTTGATATTATGTTTTCT
1 TGTTCTAATAATAATTTTGCTTGATATTATGTTTTCT
2793727 TGTTCTAATAATAATTTTGCTTGATATTATGTTTTCT
1 TGTTCTAATAATAATTTTGCTTGATATTATGTTTTCT
2793764 TGTT
1 TGTT
2793768 TTCACTTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (37 bp):
TGTTCTAATAATAATTTTGCTTGATATTATGTTTTCT
Found at i:2795565 original size:138 final size:140
Alignment explanation
Indices: 2795317--2795598 Score: 541
Period size: 138 Copynumber: 2.0 Consensus size: 140
2795307 CATGATCTTA
2795317 ATCCAGTGCTACCTACTTAAGGTTTAACTATTATATAGCTGAAGTAGGAGTCTCATACTTCCTTA
1 ATCCAGTGCTACCTACTTAAGGTTTAACTATTATATAGCTGAAGTAGGAGTCTCATACTTCCTTA
2795382 ATCCTTTGTTAAGGGCCTTGCCATGAGTACACCTTTAATGGGTCTCTAGCCAC-ATGA-GTAATT
66 ATCCTTTGTTAAGGGCCTTGCCATGAGTACACCTTTAATGGGTCTCTAGCCACAATGATGTAATT
2795445 ACTATACATT
131 ACTATACATT
2795455 ATCCAGTGCTACCTACTTAAGGTTTAACTATTATATAGCTGAAGTAGGAGTCTCATACTTCCTTA
1 ATCCAGTGCTACCTACTTAAGGTTTAACTATTATATAGCTGAAGTAGGAGTCTCATACTTCCTTA
2795520 ATCCTTTGTTAAGGGCCTTGCCATGAGTACACCTTTAATGGGTCTCTAGCCACAATGATTGTAAT
66 ATCCTTTGTTAAGGGCCTTGCCATGAGTACACCTTTAATGGGTCTCTAGCCACAATGA-TGTAAT
2795585 TACTATACATT
130 TACTATACATT
2795596 ATC
1 ATC
2795599 TGAATGCGAC
Statistics
Matches: 141, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
138 118 0.84
139 4 0.03
141 19 0.13
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (140 bp):
ATCCAGTGCTACCTACTTAAGGTTTAACTATTATATAGCTGAAGTAGGAGTCTCATACTTCCTTA
ATCCTTTGTTAAGGGCCTTGCCATGAGTACACCTTTAATGGGTCTCTAGCCACAATGATGTAATT
ACTATACATT
Found at i:2795619 original size:32 final size:32
Alignment explanation
Indices: 2795583--2795743 Score: 150
Period size: 32 Copynumber: 5.1 Consensus size: 32
2795573 AATGATTGTA
* *
2795583 ATTACTATACATTATCTGAATGCGACCTTGAC
1 ATTACTGTACATTATCTGAATGCAACCTTGAC
* *
2795615 ATTACTGTGCATTATCTGAATGCGACCTTGAC
1 ATTACTGTACATTATCTGAATGCAACCTTGAC
* * *
2795647 ACTACTGTGCATTATCTAAATGCAACGC-TGAC
1 ATTACTGTACATTATCTGAATGCAAC-CTTGAC
**
2795679 ATCGCTGT-CATTATCTGAATGCAA-CTCTGAC
1 ATTACTGTACATTATCTGAATGCAACCT-TGAC
** * * *
2795710 ACGA-TTTACATTATCTGAATACAACATTGAC
1 ATTACTGTACATTATCTGAATGCAACCTTGAC
2795741 ATT
1 ATT
2795744 GTTGTGTGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 40 0.37
32 63 0.59
33 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (32 bp):
ATTACTGTACATTATCTGAATGCAACCTTGAC
Found at i:2796848 original size:12 final size:12
Alignment explanation
Indices: 2796797--2796951 Score: 70
Period size: 12 Copynumber: 12.9 Consensus size: 12
2796787 CATTAGACAA
* *
2796797 TATTAATACCAG
1 TATTGATACTAG
*
2796809 TATTGATGCGT-G
1 TATTGATAC-TAG
*
2796821 TATTAATACT-G
1 TATTGATACTAG
2796832 ATATTGATACTAG
1 -TATTGATACTAG
* **
2796845 TATTGTTACGGG
1 TATTGATACTAG
*
2796857 TATTGATA-TTG
1 TATTGATACTAG
* *
2796868 GATTTGAT-GTAGG
1 TA-TTGATACTA-G
*
2796881 TATTAATACTAG
1 TATTGATACTAG
2796893 TATTGATAC-AGG
1 TATTGATACTA-G
*
2796905 TATCGATACTAG
1 TATTGATACTAG
* *
2796917 TATTGAT-GTGG
1 TATTGATACTAG
*
2796928 ATATTGAAACTAG
1 -TATTGATACTAG
*
2796941 TATCGATACTA
1 TATTGATACTA
2796952 TAGGTGCAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
11 7 0.07
12 90 0.86
13 8 0.08
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (12 bp):
TATTGATACTAG
Found at i:2796922 original size:24 final size:24
Alignment explanation
Indices: 2796833--2796949 Score: 94
Period size: 24 Copynumber: 4.9 Consensus size: 24
2796823 TTAATACTGA
* *
2796833 TATTGATACTAGTATTGTTACGGG
1 TATTGATACTAGTATTGATACAGG
* * **
2796857 TATTGATA-TTGGATTTGATGTAGG
1 TATTGATACTAGTA-TTGATACAGG
*
2796881 TATTAATACTAGTATTGATACAGG
1 TATTGATACTAGTATTGATACAGG
* **
2796905 TATCGATACTAGTATTGAT-GTGG
1 TATTGATACTAGTATTGATACAGG
* *
2796928 ATATTGAAACTAGTATCGATAC
1 -TATTGATACTAGTATTGATAC
2796950 TATAGGTGCA
Statistics
Matches: 70, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
23 5 0.07
24 62 0.89
25 3 0.04
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (24 bp):
TATTGATACTAGTATTGATACAGG
Found at i:2796923 original size:48 final size:48
Alignment explanation
Indices: 2796831--2796949 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
2796821 TATTAATACT
* * * * *
2796831 GATATTGATACTAGTATTGTTACGGGTATTGATATTGGATTTGATGTAG
1 GATATTAATACTAGTATTGATACAGGTATCGATATAGGATTTGATGT-G
*
2796880 G-TATTAATACTAGTATTGATACAGGTATCGATACTAGTA-TTGATGTG
1 GATATTAATACTAGTATTGATACAGGTATCGATA-TAGGATTTGATGTG
*
2796927 GATATTGAA-ACTAGTATCGATAC
1 GATATT-AATACTAGTATTGATAC
2796950 TATAGGTGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
47 2 0.03
48 52 0.87
49 6 0.10
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (48 bp):
GATATTAATACTAGTATTGATACAGGTATCGATATAGGATTTGATGTG
Found at i:2799853 original size:66 final size:66
Alignment explanation
Indices: 2799726--2799864 Score: 215
Period size: 66 Copynumber: 2.1 Consensus size: 66
2799716 GGGATTTCGA
* * **
2799726 GTAAAGATTGTGCACTTGAAATATTAACAAACTAAATAAGGATGATATGATTAAATCATTGTGAG
1 GTAAAGATTGTGCACTTGAAACATTAACAAACTAAATAAGGATGATATAAACAAATCATTGTGAG
2799791 T
66 T
* *
2799792 GTAAAGATTGTGCACTTGAAACATTAACAAACTAAATAAGGATGATATAAACAACTGATTGTGAG
1 GTAAAGATTGTGCACTTGAAACATTAACAAACTAAATAAGGATGATATAAACAAATCATTGTGAG
2799857 T
66 T
*
2799858 GTCAAGA
1 GTAAAGA
2799865 CAAGTATCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (66 bp):
GTAAAGATTGTGCACTTGAAACATTAACAAACTAAATAAGGATGATATAAACAAATCATTGTGAG
T
Found at i:2806040 original size:21 final size:20
Alignment explanation
Indices: 2806012--2806050 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2806002 CATTGCAGGA
* *
2806012 ATTTATGGCTTCGACAAAAG
1 ATTTATGGCCTCCACAAAAG
2806032 ATTTCATGGCCTCCACAAA
1 ATTT-ATGGCCTCCACAAA
2806051 GACCTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCCACAAAAG
Found at i:2818499 original size:46 final size:46
Alignment explanation
Indices: 2818444--2819098 Score: 871
Period size: 46 Copynumber: 14.2 Consensus size: 46
2818434 TTATTCATTA
* * * * * *
2818444 ATTTAAGTTATGGTC-TCTTTTCATGCATCAATACATCCGTTCATAC
1 ATTTTAGTTATGG-CATCCTTTCATGCCTTAATGCATCCGTTCATGC
** * * *
2818490 ATTTTAGTTATAACATACTTTCATGCCTTAATGCATCTGTTCATTC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
2818536 ATTTTAGTTATGGCATCCTTTCATGTCTTAATGCATCCATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* ** * * * *** *
2818582 ATTTTAATTATGTAATCCTATCAAGCCTTAATGTATATATTCACGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * **
2818628 ATTTTAGTTATGGAATCCTTTCATGCCTTAATGTATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * *
2818674 ATTTTAGTTATGGCATCCTTTCATACCTTAATGCATTCATTCATAC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
2818720 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
2818766 AATTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
**
2818812 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATATGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
2818858 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
2818904 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATTC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
2818950 ATTTTAGTTATGGCATCATTTCATGCCTTAATACATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * * *
2818996 ATTTTAGCTATGACATCCTTTCATGCCTTATTGCATCCATTCATGA
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
2819042 ATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCTGTTTATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
2819088 ATTTTAGTTAT
1 ATTTTAGTTAT
2819099 AAATTTGTTT
Statistics
Matches: 533, Mismatches: 75, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
45 1 0.00
46 532 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:2819572 original size:19 final size:19
Alignment explanation
Indices: 2819550--2819613 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 19
2819540 ACTATGGTAC
2819550 CGATACTCCCTTTCAGTAT
1 CGATACTCCCTTTCAGTAT
* *
2819569 CGATAATTCCCTTTGTTAGTAT
1 CGAT-ACTCCC-TT-TCAGTAT
*
2819591 CGATA--CCCTATCAGTAT
1 CGATACTCCCTTTCAGTAT
2819608 CGATAC
1 CGATAC
2819614 CACTTGCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 11 0.30
18 1 0.03
19 7 0.19
20 5 0.14
21 3 0.08
22 10 0.27
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (19 bp):
CGATACTCCCTTTCAGTAT
Found at i:2825654 original size:46 final size:46
Alignment explanation
Indices: 2825531--2825668 Score: 161
Period size: 46 Copynumber: 3.0 Consensus size: 46
2825521 TTATTCTTTA
* * * * * *
2825531 ATTTCAGTTATGG-ACTCTTTTCATGCCTCAATACTTCCGTTCATAC
1 ATTTTAGTTATGGCA-TCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
2825577 ATTTTAGTTATGTCATTCTTTCATGCCTTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
2825623 ATTTTAGTTATGGCATCCTTTCAGGCTTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
2825669 CTTATTGCTT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 76 0.99
47 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.43
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:2825684 original size:66 final size:65
Alignment explanation
Indices: 2825596--2825733 Score: 197
Period size: 66 Copynumber: 2.1 Consensus size: 65
2825586 ATGTCATTCT
* * *
2825596 TTCATGCCTTAATGCATTCGTTCATGCATTTTAGTTATGGCATCCTTTCAGGCTTTAATGCATCC
1 TTCATGCCTTAATGCATTCGTTCATGCATTTTAGTTATGGCAT-ATTTCAGACCTTAATGCATCC
2825661 G
65 G
* * *
2825662 TTCATGCCTTATTGC-TTCCGTTCATGCATTTTAGTTTTGGCATATTTCATACCTTAATGCATCC
1 TTCATGCCTTAATGCATT-CGTTCATGCATTTTAGTTATGGCATATTTCAGACCTTAATGCATCC
2825726 G
65 G
2825727 TTCATGC
1 TTCATGC
2825734 ATTTTAGTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
65 27 0.42
66 38 0.58
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (65 bp):
TTCATGCCTTAATGCATTCGTTCATGCATTTTAGTTATGGCATATTTCAGACCTTAATGCATCCG
Found at i:2825745 original size:111 final size:112
Alignment explanation
Indices: 2825550--2825779 Score: 327
Period size: 111 Copynumber: 2.1 Consensus size: 112
2825540 ATGGACTCTT
* * * *
2825550 TTCATGCCTCAATACTTCCGTTCATACATTTTAGTTATGTCATTCTTTCATGCCTTAATGCATTC
1 TTCATGCCTCAATACTTCCGTTCATACATTTTAGTTATGGCATTATTTCATACCTTAATGCATCC
* *
2825615 GTTCATGCATTTTAGTTATGGCATCCTTTCAGGCTTTAATGCATCCG
66 GTTCATGCATTTTAGTTATGGCATCCTTTCAGGCCTTAATGCATACG
* * * * *
2825662 TTCATGCCTTATTGCTTCCGTTCATGCATTTTAGTTTTGGCA-TATTTCATACCTTAATGCATCC
1 TTCATGCCTCAATACTTCCGTTCATACATTTTAGTTATGGCATTATTTCATACCTTAATGCATCC
* * *
2825726 GTTCATGCATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATATG
66 GTTCATGCATTTTAGTTATGGCATCCTTTCAGGCCTTAATGCATACG
2825773 TTCATGC
1 TTCATGC
2825780 ATTTTAGTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 68 0.65
112 36 0.35
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (112 bp):
TTCATGCCTCAATACTTCCGTTCATACATTTTAGTTATGGCATTATTTCATACCTTAATGCATCC
GTTCATGCATTTTAGTTATGGCATCCTTTCAGGCCTTAATGCATACG
Found at i:2825776 original size:46 final size:46
Alignment explanation
Indices: 2825655--2826067 Score: 585
Period size: 46 Copynumber: 9.0 Consensus size: 46
2825645 AGGCTTTAAT
* * * *
2825655 GCATCCGTTCATGCCTTATTGCTTCCGTTCATGCATTTTAGTTTTG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
* *
2825701 GCAT-ATTTCATACCTTAATGCATCCGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
* **
2825746 GCATTCTTTCATGCCTTAATGCATATGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
* * *
2825792 GCATCATTTCATGCCTTAATGCATCCATTCATGAATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
* * *
2825838 GCATCCTTTCATGACTTAATACATTCGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
*
2825884 GCATCTTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
* * * * **
2825930 GCATCCTTTTATGCCTTAATTCATCCATTCTTGCATTAAAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
** *
2825976 GCATCCTTTCATGCCTTAATGCATTTGTTCATGGATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
*
2826022 GTATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
2826068 ATTTTTTTTA
Statistics
Matches: 320, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 39 0.12
46 281 0.88
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATG
Found at i:2831771 original size:46 final size:46
Alignment explanation
Indices: 2831720--2831856 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
2831710 ATTATTCTTT
* *
2831720 AATTTTAGTTATGGGC-TCTTTTCATGCCTTAATACTTCCGTTCATA
1 AATTTTAGTTAT-GGCATCCTTTCATGCCTTAATACATCCGTTCATA
* * *
2831766 CATTTTAGTTATGTCATCCTTTCATGCCTTAATGCATCCGTTCATA
1 AATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCGTTCATA
* * *
2831812 AATTTTAGTTATGGCATCCTTTCATGCCTCAATTCATCCTTTCAT
1 AATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCGTTCAT
2831857 GCCTTAATGA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.03
46 78 0.98
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (46 bp):
AATTTTAGTTATGGCATCCTTTCATGCCTTAATACATCCGTTCATA
Found at i:2831809 original size:20 final size:20
Alignment explanation
Indices: 2831780--2831878 Score: 72
Period size: 20 Copynumber: 4.7 Consensus size: 20
2831770 TTAGTTATGT
2831780 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* ***
2831800 CATCCGTTCATAAATTTTAGTTATG
1 CATCCTTTCAT--GCCTTA---ATG
* *
2831825 GCATCCTTTCATGCCTCAATT
1 -CATCCTTTCATGCCTTAATG
2831846 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
2831866 AATCCATTCATGC
1 CATCCTTTCATGC
2831879 ATTTTAGTTA
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
20 39 0.66
21 2 0.03
22 3 0.05
24 2 0.03
25 3 0.05
26 10 0.17
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.39
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:2831861 original size:66 final size:66
Alignment explanation
Indices: 2831779--2831994 Score: 256
Period size: 66 Copynumber: 3.2 Consensus size: 66
2831769 TTTAGTTATG
* ** *
2831779 TCATCCTTTCATGCCTTAATGCATCCGTTCATAAATTTTAGTTATGGCATCCTTTCATGCCTCAA
1 TCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
2831844 T
66 T
*
2831845 TCATCCTTTCATGCCTTAATGAATCCATTCATGCATTTTAGTTATGGCAT-CTTTCATGCCTTAA
1 TCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
2831909 T
66 T
* * * *
2831910 ACACCCGTTT-ATGCATTTTAGTTATGGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCAT
1 TCATCC-TTTCATGC--CTTA---AT-GCATCCATTCATGCATTTTAGTTATGGCATCCTTTCAT
2831974 GCCTTAAT
59 GCCTTAAT
* *
2831982 GCATCCGTTCATG
1 TCATCCTTTCATG
2831995 AATTTTAATT
Statistics
Matches: 128, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
65 22 0.17
66 49 0.38
67 3 0.02
70 2 0.02
71 30 0.23
72 22 0.17
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (66 bp):
TCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAA
T
Found at i:2831901 original size:45 final size:46
Alignment explanation
Indices: 2831846--2831949 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 46
2831836 TGCCTCAATT
*
2831846 CATCCTTTCATGCCTTAATGA-ATCCATTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCCTTAAT-ACACCCATTCATGCATTTTAGTTATGG
* *
2831892 CAT-CTTTCATGCCTTAATACACCCGTTTATGCATTTTAGTTATGG
1 CATCCTTTCATGCCTTAATACACCCATTCATGCATTTTAGTTATGG
2831937 CATCCTTTCATGC
1 CATCCTTTCATGC
2831950 ATTTTAGTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.02
45 40 0.75
46 12 0.23
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (46 bp):
CATCCTTTCATGCCTTAATACACCCATTCATGCATTTTAGTTATGG
Found at i:2831986 original size:46 final size:46
Alignment explanation
Indices: 2831943--2832421 Score: 679
Period size: 46 Copynumber: 10.4 Consensus size: 46
2831933 ATGGCATCCT
*
2831943 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* * * *
2831989 TTCATGAATTTTAATTATGTCATCCTTTCATGCCTTAATGCATCTA
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* * * ** *
2832035 TTCAAGTATTTTAGTTATGGCATCCTTTTATGCCTTAAAACATTTG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
** *
2832081 TTCATGCATTTTAGTTATCACATACTTTCATGCCTTAATGCATCTG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* *
2832127 TTCATGCATTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* * * *
2832173 TTCATGAATTTTATTTATGGCATCCTTTCATGACTTAATACATCTG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* * **
2832219 TTCATGCATTTTAGTTATGGAATCTTTTCATGCCTTAATGCATCCA
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
* * ** * *
2832265 TTCATGCATTTTAGTTATGTCATCCTTTTAAACCTAAATGCATCTA
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
*
2832311 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTA
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
2832357 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
2832403 TTCATGCATTTTAGTTATG
1 TTCATGCATTTTAGTTATG
2832422 AATTTGTTTT
Statistics
Matches: 377, Mismatches: 56, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 377 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (46 bp):
TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTG
Found at i:2831987 original size:20 final size:20
Alignment explanation
Indices: 2831962--2832032 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
2831952 TTTAGTTATG
2831962 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* **
2831982 GCATCCGTTCATGAATTTTAATTAT
1 GCATCCTTTCATG--CCTT-A--AT
2832007 GTCATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
2832028 GCATC
1 GCATC
2832033 TATTCAAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 16 0.41
21 3 0.08
22 2 0.05
23 2 0.05
24 2 0.05
25 3 0.08
26 11 0.28
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2832176 original size:20 final size:20
Alignment explanation
Indices: 2832107--2832178 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
2832097 ATCACATACT
*
2832107 TTCATGCCTTAATGCATCTG
1 TTCATGCCTTAATGCATCCG
* * *
2832127 TTCATGCATTTTAGTTATGGTATCCT
1 TTCATGC--CTTA---AT-GCATCCG
2832153 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
2832173 TTCATG
1 TTCATG
2832179 AATTTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 18 0.46
21 2 0.05
22 3 0.08
24 3 0.08
25 2 0.05
26 11 0.28
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:2832360 original size:20 final size:19
Alignment explanation
Indices: 2832330--2832409 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 19
2832320 TTTAGTTATG
2832330 GCATCCTTTCATGCCTTAAT
1 GCAT-CTTTCATGCCTTAAT
*
2832350 GCATCTATTCATGCATTTTAGTTAT
1 GCATCT-TTCATGC--CTTA---AT
2832375 GGCATCCTTTCATGCCTTAAT
1 -GCAT-CTTTCATGCCTTAAT
2832396 GCATCTGTTCATGC
1 GCATCT-TTCATGC
2832410 ATTTTAGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
19 4 0.08
20 22 0.45
21 2 0.04
22 3 0.06
24 3 0.06
25 2 0.04
26 11 0.22
27 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (19 bp):
GCATCTTTCATGCCTTAAT
Found at i:2832840 original size:95 final size:95
Alignment explanation
Indices: 2832737--2832909 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 95
2832727 CCAAGCTCAT
* * *
2832737 TAGTATCGATACTACTAC-CATGGTATC-AGTGCTTCTATACTATGGTACCAATACCCCCTTTCA
1 TAGTATCGATAC-ACTACTCATAGTATCGA-TACTACTATACTATGGTACCAATACCCCCTTTCA
*
2832800 ATATCAATATCATTTCTATATTATGTATCGTA
64 ATATCAATACCATTTCTATATTATGTATCGTA
* * * *
2832832 TAGTATCGATACCCTTCTCTTAGTATCGATACTACTATACTATGGTACCAATACTCCCTTTCAAT
1 TAGTATCGATACACTACTCATAGTATCGATACTACTATACTATGGTACCAATACCCCCTTTCAAT
*
2832897 ATCGATACCATTT
66 ATCAATACCATTT
2832910 TGACATTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 3 0.04
95 63 0.94
96 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (95 bp):
TAGTATCGATACACTACTCATAGTATCGATACTACTATACTATGGTACCAATACCCCCTTTCAAT
ATCAATACCATTTCTATATTATGTATCGTA
Found at i:2857600 original size:3 final size:3
Alignment explanation
Indices: 2857594--2857632 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
2857584 TTTTTATTGA
2857594 TAT TAT TAT TAT TAT T-T TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
2857633 AAACAGGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2857610 original size:27 final size:27
Alignment explanation
Indices: 2857580--2857632 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2857570 TTTTTTATCC
*
2857580 ATTTTTTTTATTGA-TATTATTATTATT
1 ATTTTATTTATT-ATTATTATTATTATT
2857607 ATTTTATTTATTATTATTATTATTAT
1 ATTTTATTTATTATTATTATTATTAT
2857633 AAACAGGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTATTTATTATTATTATTATTATT
Found at i:2859205 original size:2 final size:2
Alignment explanation
Indices: 2859198--2859240 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2859188 AATAATTTAA
2859198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2859239 AT
1 AT
2859241 CTTTTCTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2861471 original size:14 final size:14
Alignment explanation
Indices: 2861433--2861471 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
2861423 ATTTTAAATA
*
2861433 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
2861447 TTTTACATTTGCAT
1 ATTTACATTTGCAT
2861461 ATTTACATTTG
1 ATTTACATTTG
2861472 GAATCTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:2869453 original size:113 final size:114
Alignment explanation
Indices: 2869241--2869800 Score: 712
Period size: 113 Copynumber: 5.0 Consensus size: 114
2869231 TAGCAAAGAT
* * *
2869241 TCAAATCCATCA-T-AATGGATCAACATTTC-CA-AAAAGAGTTCATAATGAGAAGAACCCATCT
1 TCAAATCCATCACTCGATGGATCAACTTTTCTCAGAAAA-AGTTCATAATGAGAAGAACTCATCT
*
2869302 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGTGCTTGTTCAACCTTTTGC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
*
2869352 TCAAATCCATCACTTGATGGATCATA-TTTTCTC-GAAAAAGTTCATAATGAGAAGAACTCATCT
1 TCAAATCCATCACTCGATGGATCA-ACTTTTCTCAGAAAAAGTTCATAATGAGAAGAACTCATCT
*
2869415 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTAC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
2869465 TCAAATCCATCACTCGATGGATCAGCTTTTCT-AGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTCGATGGATCAACTTTTCTCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
** *
2869529 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * * * ** * *
2869578 TTGAATTCATCATTTGATGGATCAACATTTC-CAGGTAGAGTTCATAATGAGAAGAACTCGTCTG
1 TCAAATCCATCACTCGATGGATCAACTTTTCTCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* ** * *
2869642 AAGAAGGAAGAAGAACTTCATAATGAGAAGAATTTGTTCAACTTTTTGT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * *
2869691 TTGAATTCATAACTCGATGGATCAACTTTT-TCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTCGATGGATCAACTTTTCTCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* **
2869755 AAGAA-G--GAAGAAGTTCATAATAAGAAGAGCTTGTTTGACCTTTTGC
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
2869801 ATGACTCTAT
Statistics
Matches: 399, Mismatches: 41, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
110 32 0.08
111 12 0.03
112 2 0.01
113 347 0.87
114 6 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (114 bp):
TCAAATCCATCACTCGATGGATCAACTTTTCTCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:2870152 original size:3 final size:3
Alignment explanation
Indices: 2870146--2870198 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
2870136 TTTTTATTGA
* *
2870146 TAT TAT TAT TAT TAT T-T TATT TAT TAT TAT TAT TAT TAA AAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
2870191 TAT TAT TA
1 TAT TAT TA
2870199 CAAACAGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2870169 original size:27 final size:26
Alignment explanation
Indices: 2870133--2870183 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
2870123 TTTTTTACCC
2870133 ATTTTTTTATTGA-TATTATTATTATT
1 ATTTTTTTATT-ATTATTATTATTATT
2870159 ATTTTATTTATTATTATTATTATTA
1 ATTTT-TTTATTATTATTATTATTA
2870184 AAATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTTTTTATTATTATTATTATTATT
Found at i:2871842 original size:2 final size:2
Alignment explanation
Indices: 2871835--2871876 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2871825 AATAATTTAA
2871835 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
2871877 CTTTTCTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2876452 original size:20 final size:20
Alignment explanation
Indices: 2876427--2876464 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2876417 TGATTCAATC
*
2876427 AGTATCGATACCGTAGGGGT
1 AGTATCGATACCGAAGGGGT
2876447 AGTATCGATACCGAAGGG
1 AGTATCGATACCGAAGGG
2876465 AAGGTATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGGT
Found at i:2876471 original size:20 final size:20
Alignment explanation
Indices: 2876427--2876478 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2876417 TGATTCAATC
* *
2876427 AGTATCGATACCGTAGGGGT
1 AGTATCGATACCGTAAGGGA
2876447 AGTATCGATACCG-AAGGGA
1 AGTATCGATACCGTAAGGGA
*
2876466 AGGTATTGATACC
1 A-GTATCGATACC
2876479 ATTTCGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (20 bp):
AGTATCGATACCGTAAGGGA
Found at i:2876986 original size:55 final size:55
Alignment explanation
Indices: 2876897--2877438 Score: 571
Period size: 55 Copynumber: 9.9 Consensus size: 55
2876887 CTAAGTGTAC
* * *
2876897 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * *
2876952 TACATGCACTATATGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAGCCA
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * ** *
2877007 TATA-GCCACTATGTGTCCAATTCCATGGAATTCATCATGAGTTGATGAATAGCCG
1 TACATG-CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * * *
2877062 TACAGGCACTATGTGTGCAATTCCAC-GAAATTTATCATTAGTTGATG---GGTCG
1 TACATGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAGTCG
* * ** *
2877114 TACAGGCACTATGTATGCAGTTCCACAGAATTCATCATGAGTTGATGAA-ATGTCA
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATA-GTCG
* * * * *
2877169 TGCATGCACTATGTGTGCAAATCCACATAATTCATCATGACTTGATGAAT-TTCCA
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGT-CG
** * * * *
2877224 TACAAACACTATGTGTACAATTCCACGGAATTCATCATGAGTTGATGAAATA-CCG
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATG-AATAGTCG
*
2877279 TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * * *
2877334 TACATGCACTATATGTGCAAAACCATAAAATTCATCATGAGTTGATGAATAGACG
1 TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * *
2877389 TACATGCACTATATGTGCAAAACCA-TGAATTTCATCATGAGTTGAAGAAT
1 TACATGCACTATGTGTGCAAATCCACAGAA-TTCATCATGAGTTGATGAAT
2877439 TACTGTATAG
Statistics
Matches: 416, Mismatches: 58, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
52 44 0.11
53 1 0.00
54 9 0.02
55 358 0.86
56 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (55 bp):
TACATGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
Found at i:2877282 original size:217 final size:218
Alignment explanation
Indices: 2876897--2877439 Score: 711
Period size: 217 Copynumber: 2.5 Consensus size: 218
2876887 CTAAGTGTAC
*
2876897 TACAAGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCATACATGCACT
1 TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACATGCACT
* * * ** *
2876962 ATATGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAGCCATATAGCCACTATGTGTCCAA
66 ATATGTGCAAATCCACATAATTCATCATGAGTTGATGAATTGCCATACAAACACTATGTGTACAA
* * *
2877027 TTCCATGGAATTCATCATGAGTTGATGAATAGCCGTACAGGCACTATGTGTGCAATTCCAC-GAA
131 TTCCACGGAATTCATCATGAGTTGATGAATAGCCGTACAAGCACTATGTGTGCAAATCCACAG-A
* * *
2877091 ATTTATCATTAGTTGATG-GGTCG
195 ATTCATCATGAGTTGATGAAGTCG
* * ** *
2877114 TACAGGCACTATGTATGCAGTTCCACAGAATTCATCATGAGTTGATGAA-ATGTCATGCATGCAC
1 TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATA-GTCATACATGCAC
* * *
2877178 TATGTGTGCAAATCCACATAATTCATCATGACTTGATGAATTTCCATACAAACACTATGTGTACA
65 TATATGTGCAAATCCACATAATTCATCATGAGTTGATGAATTGCCATACAAACACTATGTGTACA
2877243 ATTCCACGGAATTCATCATGAGTTGATGAAATA-CCGTACAAGCACTATGTGTGCAAATCCACAG
130 ATTCCACGGAATTCATCATGAGTTGATG-AATAGCCGTACAAGCACTATGTGTGCAAATCCACAG
2877307 AATTCATCATGAGTTGATGAATAGTCG
194 AATTCATCATGAGTTGATG-A-AGTCG
* * * * * * *
2877334 TACATGCACTATATGTGCAAAACCATAAAATTCATCATGAGTTGATGAATAGACGTACATGCACT
1 TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACATGCACT
* *
2877399 ATATGTGCAAA-AC-CATGAATTTCATCATGAGTTGAAGAATT
66 ATATGTGCAAATCCACAT-AA-TTCATCATGAGTTGATGAATT
2877440 ACTGTATAGG
Statistics
Matches: 281, Mismatches: 36, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
216 1 0.00
217 183 0.65
218 8 0.03
219 3 0.01
220 85 0.30
221 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (218 bp):
TACAAGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACATGCACT
ATATGTGCAAATCCACATAATTCATCATGAGTTGATGAATTGCCATACAAACACTATGTGTACAA
TTCCACGGAATTCATCATGAGTTGATGAATAGCCGTACAAGCACTATGTGTGCAAATCCACAGAA
TTCATCATGAGTTGATGAAGTCG
Found at i:2883102 original size:165 final size:170
Alignment explanation
Indices: 2882716--2883155 Score: 518
Period size: 165 Copynumber: 2.6 Consensus size: 170
2882706 CTAAGTGTAC
* * * * * * *
2882716 TACAGGCACTATTTGTGCAAATCCATAGAATTCATCATGAGTTGATGTATAGCCGTACAGACACT
1 TACAGACACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACAGGCACT
* *
2882781 ATGTATGCAAATCCACATAATTCATCATGAGTTGATG-AATAGTCGTAAATGCACTATATCTATA
66 ATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAATAGTCGTAAATGCAC--TATCTATA
* * *
2882845 TGTGCAATTCCACGAAATTCATCATGAGTTGATGAATAGTAG
129 TGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAGCAG
* * * *
2882887 TACAGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTAATGAATAGTCATACAGGCACT
1 TACAGACACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACAGGCACT
** * * * *
2882952 ATGTGTATAATTCCACAGAATTCATCATGAGTTGATGAAAT-GTTGTACA-G-AC-A-CTATGTG
66 ATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAATAGTCGTAAATGCACTATCTATATG
* **
2883012 TGAAAATCCACGAAATTCATCATGATTTGATGTGTAGCCA-
131 TGAAAATCCACGAAATTCATCATGAGTTGATGAATAG-CAG
* * *
2883052 TACAGACACT-TAGTGTGCAAAACCACAAAATTCATCTTGAGTTGATGAATAGTCATACAGGCAC
1 TACAGACACTAT-GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACAGGCAC
* *
2883116 TATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAA
65 TATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA
2883156 TTATTGTATA
Statistics
Matches: 231, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
164 1 0.00
165 128 0.55
166 2 0.01
169 2 0.01
170 1 0.00
171 94 0.41
172 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (170 bp):
TACAGACACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCATACAGGCACT
ATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAATAGTCGTAAATGCACTATCTATATG
TGAAAATCCACGAAATTCATCATGAGTTGATGAATAGCAG
Found at i:2883172 original size:55 final size:55
Alignment explanation
Indices: 2882716--2883156 Score: 458
Period size: 55 Copynumber: 7.9 Consensus size: 55
2882706 CTAAGTGTAC
* * * *
2882716 TACAGGCACTATTTGTGCAAATCCATAGAATTCATCATGAGTTGATGTATAGCCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * *
2882771 TACAGACACTATGTATGCAAATCCACATAATTCATCATGAGTTGATGAATAGTCG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* * * * *
2882826 TAAATGCACTATATCTATATGTGCAATTCCAC-GAAATTCATCATGAGTTGATGAATAGTAG
1 TACA-G-GC---A-CTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAGTCG
* * * *
2882887 TACAGGCACTATGTGTGCAATTCCACGGAATTCATCATGAGTTAATGAATAGTCA
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
** * *
2882942 TACAGGCACTATGTGTATAATTCCACAGAATTCATCATGAGTTGATGAA-ATGTTG
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATA-GTCG
* * * ** * *
2882997 TACAGACACTATGTGTGAAAATCCAC-GAAATTCATCATGATTTGATGTGTAGCCA
1 TACAGGCACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAGTCG
* * * * *
2883052 TACAGACACT-TAGTGTGCAAAACCACAAAATTCATCTTGAGTTGATGAATAGTCA
1 TACAGGCACTAT-GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
* *
2883107 TACAGGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
1 TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAT
2883157 TATTGTATAG
Statistics
Matches: 325, Mismatches: 47, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
54 3 0.01
55 268 0.82
56 5 0.02
57 2 0.01
59 1 0.00
60 2 0.01
61 44 0.14
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAGTCG
Found at i:2885528 original size:65 final size:65
Alignment explanation
Indices: 2885406--2885565 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
2885396 TGCACGAAGA
* *
2885406 GTGCATCGATACATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAG-TA
2885469 G
65 G
* * *
2885470 GTGTATCGATGCATCAAATGCATTCCATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCATAGT
*
2885533 AT
64 AG
*
2885535 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
2885566 CAATTTATTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 27 0.33
65 53 0.64
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGTAG
Found at i:2885604 original size:65 final size:64
Alignment explanation
Indices: 2885405--2885613 Score: 187
Period size: 65 Copynumber: 3.2 Consensus size: 64
2885395 GTGCACGAAG
* * *
2885405 AGTGCATCGATACATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG-CT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCTGAGTGCATCGATGCATGGACT
* * * * *
2885469 GGTGTATCGATGCATCAAATGCATTCCATGTTTTC-ATAAAACTCTGAGTGCATCGATGCAT--A
1 AGTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAAC-CTGAGTGCATCGATGCATGGA
*
2885531 GT
63 CT
* *
2885533 ATGTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGG
1 A-GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACC-TGAGTGCATCGATGCATGG
*
2885596 ATT
62 ACT
*
2885599 AGTGCATCGGTGCAT
1 AGTGCATCGATGCAT
2885614 CACTTTGAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
63 4 0.03
64 45 0.38
65 65 0.56
66 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (64 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCTGAGTGCATCGATGCATGGACT
Found at i:2888343 original size:24 final size:24
Alignment explanation
Indices: 2888316--2888373 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
2888306 TTCATGGTGT
2888316 ATCGATGCAAATTCAAAGGGATGC
1 ATCGATGCAAATTCAAAGGGATGC
2888340 ATCGATGCAAATTCAAAGGGATGC
1 ATCGATGCAAATTCAAAGGGATGC
2888364 ATCGATGCAA
1 ATCGATGCAA
2888374 TGTTAAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (24 bp):
ATCGATGCAAATTCAAAGGGATGC
Found at i:2892175 original size:22 final size:21
Alignment explanation
Indices: 2892133--2892172 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2892123 GAGCTTATTT
*
2892133 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2892154 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2892173 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2899396 original size:42 final size:44
Alignment explanation
Indices: 2899349--2899444 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
2899339 TTTGTGCTTC
* *
2899349 ATGCATCGATACA-C-TTAATAGTGCATCGATGCAT-CCTTGAAT
1 ATGCATCGATACACCATGAA-AGTGCACCGATGCATGCCTTGAAT
*
2899391 ATGCATCGATACACCATGAAGGTGCACCGATGCATGCCTTGAAT
1 ATGCATCGATACACCATGAAAGTGCACCGATGCATGCCTTGAAT
*
2899435 GTGCATCGAT
1 ATGCATCGAT
2899445 GCACAGGGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 13 0.28
43 14 0.30
44 20 0.43
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
ATGCATCGATACACCATGAAAGTGCACCGATGCATGCCTTGAAT
Found at i:2899416 original size:21 final size:22
Alignment explanation
Indices: 2899369--2899447 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 22
2899359 ACACTTAATA
2899369 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
* * * *
2899391 ATGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
2899412 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
2899435 GTGCATCGATGCA
1 GTGCATCGATGCA
2899448 CAGGGTCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 16 0.36
22 11 0.24
23 18 0.40
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:2901015 original size:21 final size:21
Alignment explanation
Indices: 2900973--2901016 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2900963 ACCCCCGGAG
* *
2900973 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGATCCTC
* *
2900994 CTAGCTCTTCTCGTGATCCTC
1 CTAGCTCTTCACGAGATCCTC
2901015 CT
1 CT
2901017 CCTCCGGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.39, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGATCCTC
Found at i:2902236 original size:65 final size:65
Alignment explanation
Indices: 2902056--2902265 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
2902046 ATTTTCAAAG
* * * * *
2902056 TGATGCACCGATGCACCA-ATCCATGCATCGATGTAC-CATGAATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACCATA-CCATGCATCGATGCACTCAGGTATT-TA-TGAAACATCGAATGC
2902118 ATT
63 ATT
* * * *
2902121 TCATGCATTGATGCA-CATACCATGCATCGATGCACTGAGGTTTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGTATTTATG-AAACATCGAATGCAT
2902185 T
65 T
* * * *
2902186 TGATGCATCGATGCACCA-GCCATGCATCGATGCTCTCTGGCTATTT-TGAAACATCGAATGCAC
1 TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGG-TATTTATGAAACATCGAATGCAT
2902249 T
65 T
*
2902250 TGATGTATCGATGCAC
1 TGATGCATCGATGCAC
2902266 TCTTACTACA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
63 2 0.02
64 48 0.40
65 65 0.54
66 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (65 bp):
TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGTATTTATGAAACATCGAATGCATT
Found at i:2907444 original size:21 final size:21
Alignment explanation
Indices: 2907386--2907444 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
2907376 TGATTTATTA
*
2907386 TTATGGATTTCAAGTTGGTTG
1 TTATGGATTTCAAGTTTGTTG
*
2907407 TTATGAATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
2907428 TTATGGATGTCATGTTT
1 TTATGGATTTCAAGTTT
2907445 ATTAGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:2913550 original size:17 final size:17
Alignment explanation
Indices: 2913528--2913579 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
2913518 TTTTATTATT
2913528 TATTTATTATTTAAATA
1 TATTTATTATTTAAATA
2913545 TATTTATTA-TTAATATA
1 TATTTATTATTTAA-ATA
* *
2913562 TATATATATATATAAATA
1 TATTTAT-TATTTAAATA
2913580 AAATATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.13
17 18 0.60
18 5 0.17
19 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTATTATTTAAATA
Found at i:2913566 original size:21 final size:21
Alignment explanation
Indices: 2913524--2913568 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2913514 TTTATTTTAT
*
2913524 TATTTATTTATTATTTAAATA
1 TATTTATTTATTATATAAATA
*
2913545 TATTTA-TTATTAATATATATA
1 TATTTATTTATT-ATATAAATA
2913566 TAT
1 TAT
2913569 ATATATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTATTTATTATATAAATA
Found at i:2916729 original size:26 final size:26
Alignment explanation
Indices: 2916693--2916751 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
2916683 AAAAGAGGTT
2916693 GGAGAAGGTTCCAAAGCAAGGGGTAA
1 GGAGAAGGTTCCAAAGCAAGGGGTAA
2916719 GGAGAAGGTTCCAAAGCAAGGGGTAA
1 GGAGAAGGTTCCAAAGCAAGGGGTAA
2916745 GGAGAAG
1 GGAGAAG
2916752 TTAACTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.41, T:0.10
Consensus pattern (26 bp):
GGAGAAGGTTCCAAAGCAAGGGGTAA
Found at i:2917756 original size:13 final size:13
Alignment explanation
Indices: 2917738--2917766 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2917728 TGGGTGAGTG
2917738 AGCTCCGAGATGT
1 AGCTCCGAGATGT
2917751 AGCTCCGAGATGT
1 AGCTCCGAGATGT
2917764 AGC
1 AGC
2917767 CCCTCAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (13 bp):
AGCTCCGAGATGT
Found at i:2922144 original size:54 final size:54
Alignment explanation
Indices: 2922086--2922677 Score: 662
Period size: 54 Copynumber: 11.0 Consensus size: 54
2922076 CATAGTGATG
* * * * *
2922086 ATACGATAGTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAATGCCT
1 ATACGATCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
* * * *
2922140 ATACGGTCGTTCATCAATATATGATGAATTTTGTGGGTTACACACTTAGTGCCT
1 ATACGATCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
* * *
2922194 ATACGGTCGTTCATCAATATATGATGAATTAT-TTGGGTTGCACACTTAGTGCCT
1 ATACGATCGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTAGTGCCT
* *
2922248 ATACGATTGTTCATCAACATATGATGAATTAT-GTGGGTTGCACACCTAGTGCCT
1 ATACGATCGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTAGTGCCT
* * * * *
2922302 ATACGGTTGTTCATCAACAAATGATGAATTTCGTGGGTTACACACTTAGTTCCT
1 ATACGATCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
* * * * * *
2922356 ACATGGTCGTTCATCAACATATAATGAATTTCGTGGGTTGTAAACTTAGTGCCT
1 ATACGATCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
* *
2922410 ATACGTTTGTTCATCAACATATGATGAA-TTCTGTGGGTTGCACACTTAGTGCCT
1 ATACGATCGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCT
* *
2922464 ATAC-AGTCGTTTATCAACATATGATGAA-TTCAGTGGGTTGCACACTTACTGCCT
1 ATACGA-TCGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCT
* * *
2922518 ATAC-AGTCGTTCATCAACATATGATGAA-TTCCTGGGTTGTACACTTAGTGTCT
1 ATACGA-TCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
* * * * * *
2922571 ATACGGTCATTCATCAACAGATGATGAA-TTCTGTAGGTTGCACGCTTAGTTCCT
1 ATACGATCGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCT
* * * * *
2922625 GTACGGTTGTTCACCAACATATGATGAA-TTCTGTGAGTTGCACACTTAGTGCC
1 ATACGATCGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCC
2922678 GATAGTACAC
Statistics
Matches: 467, Mismatches: 65, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
53 49 0.10
54 417 0.89
55 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
ATACGATCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
Found at i:2922261 original size:108 final size:107
Alignment explanation
Indices: 2922094--2922677 Score: 738
Period size: 108 Copynumber: 5.4 Consensus size: 107
2922084 TGATACGATA
* * * * *
2922094 GTTCATAAACATATTATGAATTTCATGGGTTGCACACTTAATGCCTATACGGTCGTTCATCAATA
1 GTTCATCAACATATGATGAATTT-GTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACA
* * *
2922159 TATGATGAATTTTGTGGGTTACACACTTAGTGCCTATACGGTC
65 TATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTT
* * * *
2922202 GTTCATCAATATATGATGAATTATTTGGGTTGCACACTTAGTGCCTATACGATTGTTCATCAACA
1 GTTCATCAACATATGATGAATT-TGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACA
* *
2922267 TATGATGAATTATGTGGGTTGCACACCTAGTGCCTATACGGTT
65 TATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTT
* * * * *
2922310 GTTCATCAACAAATGATGAATTTCGTGGGTTACACACTTAGTTCCTACATGGTCGTTCATCAACA
1 GTTCATCAACATATGATGAATTT-GTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACA
* * * *
2922375 TATAATGAATT-TCGTGGGTTGTAAACTTAGTGCCTATACGTTT
65 TATGATGAATTCT-GTGGGTTGCACACTTAGTGCCTATACGGTT
* *
2922418 GTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACAGTCGTTTATCAACA
1 GTTCATCAACATATGATGAATT-TGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACA
* * * *
2922483 TATGATGAATTCAGTGGGTTGCACACTTACTGCCTATACAGTC
65 TATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTT
** * * * *
2922526 GTTCATCAACATATGATGAATTCCTGGGTTGTACACTTAGTGTCTATACGGTCATTCATCAACAG
1 GTTCATCAACATATGATGAATTTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACAT
* * * *
2922591 ATGATGAATTCTGTAGGTTGCACGCTTAGTTCCTGTACGGTT
66 ATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTT
* *
2922633 GTTCACCAACATATGATGAATTCTGTGAGTTGCACACTTAGTGCC
1 GTTCATCAACATATGATGAATT-TGTGGGTTGCACACTTAGTGCC
2922678 GATAGTACAC
Statistics
Matches: 407, Mismatches: 63, Indels: 12
0.84 0.13 0.02
Matches are distributed among these distances:
107 92 0.23
108 313 0.77
109 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (107 bp):
GTTCATCAACATATGATGAATTTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACAT
ATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTT
Found at i:2922340 original size:162 final size:161
Alignment explanation
Indices: 2922086--2922677 Score: 765
Period size: 162 Copynumber: 3.7 Consensus size: 161
2922076 CATAGTGATG
* * * * *
2922086 ATACGATAGTTCATAAACATATTATGAATT-TCATGGGTTGCACACTTAATGCCTATACGGTCGT
1 ATACGATTGTTCATCAACATATGATGAATTCT-GTGGGTTGCACACTTAGTGCCTATACGGTCGT
* ** *
2922150 TCATCAATATATGATGAATTTTGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAATATA
65 TCATCAACATATGATGAATTCAGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATA
* *
2922215 TGATGAATTATTTGGGTTGCACACTTAGTGCCT
130 TGATGAATT-TCTGGGTTGTACACTTAGTGCCT
* * *
2922248 ATACGATTGTTCATCAACATATGATGAATTATGTGGGTTGCACACCTAGTGCCTATACGGTTGTT
1 ATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTT
* * * *
2922313 CATCAACAAATGATGAATTTC-GTGGGTTACACACTTAGTTCCTACATGGTCGTTCATCAACATA
66 CATCAACATATGATGAA-TTCAGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATA
* *
2922377 TAATGAATTTCGTGGGTTGTAAACTTAGTGCCT
130 TGATGAATTTC-TGGGTTGTACACTTAGTGCCT
* *
2922410 ATACGTTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACAGTCGTT
1 ATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTT
* * * *
2922475 TATCAACATATGATGAATTCAGTGGGTTGCACACTTACTGCCTATACAGTCGTTCATCAACATAT
66 CATCAACATATGATGAATTCAGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATAT
* *
2922540 GATGAATTCCTGGGTTGTACACTTAGTGTCT
131 GATGAATTTCTGGGTTGTACACTTAGTGCCT
* ** * * * * * *
2922571 ATACGGTCATTCATCAACAGATGATGAATTCTGTAGGTTGCACGCTTAGTTCCTGTACGGTTGTT
1 ATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTT
* * * *
2922636 CACCAACATATGATGAATTCTGTGAGTTGCACACTTAGTGCC
66 CATCAACATATGATGAATTCAGTGGGTTACACACTTAGTGCC
2922678 GATAGTACAC
Statistics
Matches: 376, Mismatches: 50, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
161 115 0.31
162 258 0.69
163 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (161 bp):
ATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTT
CATCAACATATGATGAATTCAGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATAT
GATGAATTTCTGGGTTGTACACTTAGTGCCT
Found at i:2924914 original size:31 final size:31
Alignment explanation
Indices: 2924876--2924968 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
2924866 TGACTTAAGG
2924876 AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
1 AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
2924907 AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
1 AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
*
2924938 AAGATGATAAGGTTGAGGTGTCTTGGCTTGA
1 AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
2924969 TAGTAATAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.26, C:0.04, G:0.35, T:0.34
Consensus pattern (31 bp):
AAGATGATAAGGTTGAGGTGTCTTGGTTTGA
Found at i:2936800 original size:20 final size:20
Alignment explanation
Indices: 2936775--2936817 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2936765 GCTGTCTAAA
2936775 CGACTGTTCAATTTCAAGGT
1 CGACTGTTCAATTTCAAGGT
2936795 CGACTGTTCAATTTCAAGGT
1 CGACTGTTCAATTTCAAGGT
2936815 CGA
1 CGA
2936818 ATGGTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
CGACTGTTCAATTTCAAGGT
Found at i:2943223 original size:31 final size:31
Alignment explanation
Indices: 2943185--2943246 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
2943175 TGACTTAAGG
2943185 AAGATGATAAGGTTGAA-GTGTCATGGTTTGA
1 AAGATGATAAGGTT-AAGGTGTCATGGTTTGA
*
2943216 AAGATGATAAGGTTAAGGTGTCTTGGTTTGA
1 AAGATGATAAGGTTAAGGTGTCATGGTTTGA
2943247 TGGTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (31 bp):
AAGATGATAAGGTTAAGGTGTCATGGTTTGA
Found at i:2952300 original size:810 final size:810
Alignment explanation
Indices: 2950704--2952637 Score: 3183
Period size: 810 Copynumber: 2.4 Consensus size: 810
2950694 TACTCAGTGT
* * * ** * * ***
2950704 CTATACGGTCGTTCATCAACATATGATGAATTTTAT-AGGTTGCACACTTAGTGCCTATACGGTC
1 CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACC
* * *** * *
2950768 ATTCATCAACATATGATGAATTCCATGGGTTACACACTTAGTGCCTATATGGTCATTCATCAACA
66 GTTTATCAACATATGATGAATTATGTGGGTTACACACTTAGTGCCTATATGATCGTTCATCAACA
* * * *
2950833 TATGATGAATTCTGTGGGTTGTACACTTAGTGCCTATATGGTCGTTCATCAACATATGATGAATT
131 TTTGATGAATTTTGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATCAACATATGATGAATT
*
2950898 TCATGGGTTGCACACTTAGTGCATATACGGTCGTTCATCAACATATGATAAATTTAGTGAGTTGC
196 TCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTAGTGAGTTGC
* * * *
2950963 ACACTTAGTGCCTATACGATCGTTTATCAACATATGATGAATTCTGTGGGCTGTACACTTAGTGC
261 ACACTTAGTGCCTATACGATCGTTTATCAACATATGATGAATTTTGTGGGTTGCACAATTAGTGC
*
2951028 CTATACGGTCATTCATCAATGTATGATGCATTCCATGGGTTGCACACTTGTGCCTATACGGTCAT
326 CTATACGGTCATTAATCAATGTATGATGCATTCCATGGGTTGCACACTTGTGCCTATACGGTCAT
* * *
2951093 TCATCAACATATGATGAATTTTGTGGGTTCACACTTGGTATCTATACGATCGTTCATCAATATAT
391 TCATCAACATATGATGAATTTTGTGGGTTCACACTTAGTAGCTATACGATCGTTCATCAACATAT
2951158 GATGAATTTTGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATCAACATATGATGAATTCTG
456 GATGAATTTTGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATCAACATATGATGAATTCTG
*
2951223 TGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
521 TGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACA
2951288 CTTAGTGCCTATACGGTCGTTCATCAACATTTGATGAATTATGTGGGTTGCACACTTAGTGCCTA
586 CTTAGTGCCTATACGGTCGTTCATCAACATTTGATGAATTATGTGGGTTGCACACTTAGTGCCTA
2951353 TATGGTCGTTCATCAACATAAGATAAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTC
651 TATGGTCGTTCATCAACATAAGATAAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTC
* * *
2951418 ATCAATATATAATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATG
716 ATCAATATATAATGAATTTCGTGGGTTGCACACTGAGTGCCTATACAGTCATTCATCAACATATG
2951483 ATGAATTCCATGGGGTTGCACACTTAGTAC
781 ATGAATTCCATGGGGTTGCACACTTAGTAC
2951513 CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACC
1 CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACC
* * *
2951578 GTTTATCAACATATGATGAATTATGTGGGTTATACATTTAGTGCCTATATGATCGTTCATCCACA
66 GTTTATCAACATATGATGAATTATGTGGGTTACACACTTAGTGCCTATATGATCGTTCATCAACA
* * *
2951643 TTTGATGAATTTTTTGGGTTGCACATTTAATGCTTATATGGTCGTTCATCAACATATGATGAATT
131 TTTGATGAATTTTGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATCAACATATGATGAATT
*
2951708 TCATGGGTTGCACACTTAATGCCTATACGGTCGTTCATCAACATATGATAAATTTAGTGAGTTGC
196 TCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTAGTGAGTTGC
*
2951773 ACACATAGTGCCTATACGATCGTTTATCAACATATGATGAATTTTGTGGGTTGCACAATTAGTGC
261 ACACTTAGTGCCTATACGATCGTTTATCAACATATGATGAATTTTGTGGGTTGCACAATTAGTGC
* *
2951838 CTATACGGTCGTTAATCAATGTATGATGCATTCCGTGGGTTGCACACTTGTGCCTATACGGTCAT
326 CTATACGGTCATTAATCAATGTATGATGCATTCCATGGGTTGCACACTTGTGCCTATACGGTCAT
2951903 TCATCAACATATGATGAATTTTGTGGGTTCACACTTAGT-GCATATACGATCGTTCATCAACATA
391 TCATCAACATATGATGAATTTTGTGGGTTCACACTTAGTAGC-TATACGATCGTTCATCAACATA
*
2951967 TGATGAATTTTGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATCAACATATGATGAATTTT
455 TGATGAATTTTGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATCAACATATGATGAATTCT
**
2952032 GTGGGTTGTACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCAC
520 GTGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCAC
* * *
2952097 ACTTAGTTCCTATACGGTCGTTCATCAATATTTGATGAATTCTGTGGGTTGCACACTTAGTGCCT
585 ACTTAGTGCCTATACGGTCGTTCATCAACATTTGATGAATTATGTGGGTTGCACACTTAGTGCCT
* * *
2952162 ATATGGTCGTTCATCAACATAAGATGAATTCTGTGGGTTGCACACTTAGTTCCTATACGTTCGTT
650 ATATGGTCGTTCATCAACATAAGATAAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTT
2952227 CATCAATATATAATGAATTTCGTGGGTTGCACACTGAGTGCCTATACAGTCATTCATCAACATAT
715 CATCAATATATAATGAATTTCGTGGGTTGCACACTGAGTGCCTATACAGTCATTCATCAACATAT
2952292 GATGAATTCCATGGGGTTGCACACTTAGTAC
780 GATGAATTCCATGGGGTTGCACACTTAGTAC
*
2952323 CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTTCACACTTAGTGCATATACAACC
1 CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACC
* *
2952388 GTTTATAAACATATGATGAATTATGTGGGTTGCACACTTAGTGCCTATATGATCGTTCATCAACA
66 GTTTATCAACATATGATGAATTATGTGGGTTACACACTTAGTGCCTATATGATCGTTCATCAACA
*
2952453 TTTGATGAATTTTGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATCAGCATATGATGAATT
131 TTTGATGAATTTTGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATCAACATATGATGAATT
* * * * *
2952518 TCATGGGTTGCACACTTAGTGCCTGTATGGTCGTTCATCAACAT-TAGATGAATTTTGTGGGTTG
196 TCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATAT-GATAAATTTAGTGAGTTG
* * * * * * * *
2952582 CACATTTAGTTCATATATGTTCGTTCATCAACATATAATAAATTTCT-TGGGTTGCA
260 CACACTTAGTGCCTATACGATCGTTTATCAACATATGATGAATTT-TGTGGGTTGCA
2952638 TACCTTTGGA
Statistics
Matches: 1043, Mismatches: 78, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
809 33 0.03
810 1009 0.97
811 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (810 bp):
CTATATGGTCGTTCATCAACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACC
GTTTATCAACATATGATGAATTATGTGGGTTACACACTTAGTGCCTATATGATCGTTCATCAACA
TTTGATGAATTTTGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATCAACATATGATGAATT
TCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTAGTGAGTTGC
ACACTTAGTGCCTATACGATCGTTTATCAACATATGATGAATTTTGTGGGTTGCACAATTAGTGC
CTATACGGTCATTAATCAATGTATGATGCATTCCATGGGTTGCACACTTGTGCCTATACGGTCAT
TCATCAACATATGATGAATTTTGTGGGTTCACACTTAGTAGCTATACGATCGTTCATCAACATAT
GATGAATTTTGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATCAACATATGATGAATTCTG
TGGGTTACACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACA
CTTAGTGCCTATACGGTCGTTCATCAACATTTGATGAATTATGTGGGTTGCACACTTAGTGCCTA
TATGGTCGTTCATCAACATAAGATAAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTC
ATCAATATATAATGAATTTCGTGGGTTGCACACTGAGTGCCTATACAGTCATTCATCAACATATG
ATGAATTCCATGGGGTTGCACACTTAGTAC
Found at i:2952635 original size:54 final size:54
Alignment explanation
Indices: 2950667--2952637 Score: 2264
Period size: 54 Copynumber: 36.5 Consensus size: 54
2950657 GTCATCCAAA
* * * * *
2950667 AACATATTATGAATTT-TGTGGGTTACATACTCAGTGTCTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2950721 AACATATGATGAATTT-TATAGGTTGCACACTTAGTGCCTATACGGTCATTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * *
2950775 AACATATGATGAATTCCATGGGTTACACACTTAGTGCCTATATGGTCATTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2950829 AACATATGATGAA-TTCTGTGGGTTGTACACTTAGTGCCTATATGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2950883 AACATATGATGAATTTCATGGGTTGCACACTTAGTGCATATACGGTCGTTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* ** * * *
2950937 AACATATGATAAATTTAGTGAGTTGCACACTTAGTGCCTATACGATCGTTTATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2950991 AACATATGATGAA-TTCTGTGGGCTGTACACTTAGTGCCTATACGGTCATTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
** * * * *
2951045 AATGTATGATGCATTCCATGGGTTGCACACTT-GTGCCTATACGGTCATTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* ** *
2951098 AACATATGATGAATTT-TGTGGGTT-CACACTTGGTATCTATACGATCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2951151 AATATATGATGAATTT-TGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
*
2951205 AACATATGATGAA-TTCTGTGGGTTACACACTTAGTGCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
2951259 AACATATGATGAA-TTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2951313 AACATTTGATGAATTAT-GTGGGTTGCACACTTAGTGCCTATATGGTCGTTCATC
1 AACATATGATGAATT-TCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2951367 AACATAAGAT-AAATTCTGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * **
2951421 AATATATAATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * *
2951475 AACATATGATGAATTCCATGGGGTTGCACACTTAGTACCTATATGGTCGTTCATC
1 AACATATGATGAATTTC-TTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * * *** *
2951530 AACATTTGATTAATTCCATGGGGTTGCACACTTAGTGCATATACAACCGTTTATC
1 AACATATGATGAATTTC-TTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* ** * * *
2951585 AACATATGATGAATTAT-GTGGGTTATACATTTAGTGCCTATATGATCGTTCATC
1 AACATATGATGAATT-TCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * * * *
2951639 CACATTTGATGAATTTTTTGGGTTGCACATTTAATGCTTATATGGTCGTTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2951693 AACATATGATGAATTTCATGGGTTGCACACTTAATGCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* ** * * * *
2951747 AACATATGATAAATTTAGTGAGTTGCACACATAGTGCCTATACGATCGTTTATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2951801 AACATATGATGAATTT-TGTGGGTTGCACAATTAGTGCCTATACGGTCGTTAATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
** * * * *
2951855 AATGTATGATGCATTCCGTGGGTTGCACACTT-GTGCCTATACGGTCATTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2951908 AACATATGATGAATTT-TGTGGGTT-CACACTTAGTGCATATACGATCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
*
2951961 AACATATGATGAATTT-TGTGGGTTGCACACTTAGTGCTTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
*
2952015 AACATATGATGAATTT-TGTGGGTTGTACACTTAGTGCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2952069 AACATATGATGAATTCCGTGGGTTGCACACTTAGTTCCTATACGGTCGTTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2952123 AATATTTGATGAA-TTCTGTGGGTTGCACACTTAGTGCCTATATGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2952177 AACATAAGATGAA-TTCTGTGGGTTGCACACTTAGTTCCTATACGTTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * * *
2952231 AATATATAATGAATTTCGTGGGTTGCACACTGAGTGCCTATACAGTCATTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * *
2952285 AACATATGATGAATTCCATGGGGTTGCACACTTAGTACCTATATGGTCGTTCATC
1 AACATATGATGAATTTC-TTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * * * *** * *
2952340 AACATTTGATTAATTCCATGGGGTTTCACACTTAGTGCATATACAACCGTTTATA
1 AACATATGATGAATTTC-TTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2952395 AACATATGATGAATTAT-GTGGGTTGCACACTTAGTGCCTATATGATCGTTCATC
1 AACATATGATGAATT-TCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * *
2952449 AACATTTGATGAATTT-TGTGGGTTGCACATTTAGTGCCTATATGGTCGTTCATC
1 AACATATGATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * *
2952503 AGCATATGATGAATTTCATGGGTTGCACACTTAGTGCCTGTATGGTCGTTCATC
1 AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* * * * *
2952557 AACAT-TAGATGAATTT-TGTGGGTTGCACATTTAGTTCATATATGTTCGTTCATC
1 AACATAT-GATGAATTTCT-TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
* *
2952611 AACATATAATAAATTTCTTGGGTTGCA
1 AACATATGATGAATTTCTTGGGTTGCA
2952638 TACCTTTGGA
Statistics
Matches: 1648, Mismatches: 236, Indels: 66
0.85 0.12 0.03
Matches are distributed among these distances:
52 15 0.01
53 172 0.10
54 1267 0.77
55 193 0.12
56 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
AACATATGATGAATTTCTTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
Found at i:2953840 original size:55 final size:55
Alignment explanation
Indices: 2953632--2953846 Score: 272
Period size: 55 Copynumber: 3.9 Consensus size: 55
2953622 CTATACAGAA
* * * * * **
2953632 ATTCATTACCTCATGATAAATTATGTGG-TTATGCACACATAGTTCCTGTACAACT
1 ATTCATCAACTCATGATGAATTATGTGGATT-TGCACACATAGTGCATGTACGGCT
* * *
2953687 ATTCATCAACTCGTGATGAATT-TCGTGGATTTGCACACATAGTGTATGTATGGCT
1 ATTCATCAACTCATGATGAATTAT-GTGGATTTGCACACATAGTGCATGTACGGCT
** *
2953742 ATTCATCAACTCATGATGAATTCCGTGGATTTGAACACATAGTGCATGTACGGCT
1 ATTCATCAACTCATGATGAATTATGTGGATTTGCACACATAGTGCATGTACGGCT
*
2953797 ATTCATCAACTCATGATGAATTATGTGGATTTGCACACATAGTGCTTGTA
1 ATTCATCAACTCATGATGAATTATGTGGATTTGCACACATAGTGCATGTA
2953847 GTACACTTAG
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
54 1 0.01
55 135 0.98
56 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTATGTGGATTTGCACACATAGTGCATGTACGGCT
Found at i:2953897 original size:2 final size:2
Alignment explanation
Indices: 2953890--2953914 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2953880 TGTTTTAACA
2953890 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2953915 ATTCCTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2962847 original size:21 final size:22
Alignment explanation
Indices: 2962803--2962844 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
2962793 AATTTTTATT
*
2962803 TTTATATTATTAAAAAATATAA
1 TTTATATTATTAAAAAATAAAA
2962825 TTTA-ATTATT-AAAAATAAAA
1 TTTATATTATTAAAAAATAAAA
2962845 ATTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 6 0.32
22 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTATATTATTAAAAAATAAAA
Found at i:2962849 original size:20 final size:21
Alignment explanation
Indices: 2962808--2962850 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2962798 TTATTTTTAT
* *
2962808 ATTATTAAAAAATATAATTTA
1 ATTATTAAAAAATAAAAATTA
2962829 ATTATT-AAAAATAAAAATTA
1 ATTATTAAAAAATAAAAATTA
2962849 AT
1 AT
2962851 ATAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTATTAAAAAATAAAAATTA
Found at i:2962907 original size:14 final size:15
Alignment explanation
Indices: 2962888--2962923 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2962878 TATAATAAAA
2962888 ATTATAAAA-ATATT
1 ATTATAAAATATATT
2962902 ATTATAAAATATATT
1 ATTATAAAATATATT
2962917 ATT-TAAA
1 ATTATAAA
2962924 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:2963211 original size:21 final size:21
Alignment explanation
Indices: 2963167--2963212 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2963157 ATGATTTTAA
*
2963167 AAAATTGAAAGTTTAACTATT
1 AAAATTGAAAGTTTAACTACT
*
2963188 AAAATTGATAGTTTAGA-TACT
1 AAAATTGAAAGTTTA-ACTACT
2963209 AAAA
1 AAAA
2963213 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (21 bp):
AAAATTGAAAGTTTAACTACT
Found at i:2969157 original size:13 final size:13
Alignment explanation
Indices: 2969139--2969180 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2969129 TGTGTCATAA
2969139 ATTTATGACGCGC
1 ATTTATGACGCGC
*
2969152 ATTTATGACACGC
1 ATTTATGACGCGC
* *
2969165 ATTTATAACGCTC
1 ATTTATGACGCGC
2969178 ATT
1 ATT
2969181 GCGCGTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:2970842 original size:2 final size:2
Alignment explanation
Indices: 2970837--2970900 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
2970827 CACACATTTA
2970837 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
2970879 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2970901 TATTAATAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2975830 original size:2 final size:2
Alignment explanation
Indices: 2975823--2975855 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2975813 TGTTACTTTA
2975823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2975856 AAAGATTGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2981734 original size:31 final size:31
Alignment explanation
Indices: 2981696--2981765 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2981686 TTTGTTTATG
2981696 ACATGATAC-ATT-TACGAGTATCTAAATGCTA
1 ACATGATACAATTATA-GA-TATCTAAATGCTA
*
2981727 ACATGATACAATTATAGATATCTAAATGCTG
1 ACATGATACAATTATAGATATCTAAATGCTA
*
2981758 AGATGATA
1 ACATGATA
2981766 TTTGAACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 28 0.80
32 5 0.14
33 2 0.06
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (31 bp):
ACATGATACAATTATAGATATCTAAATGCTA
Found at i:2982599 original size:11 final size:13
Alignment explanation
Indices: 2982570--2982607 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
2982560 AATTTTTTTC
2982570 TTATGTTATATATA
1 TTAT-TTATATATA
2982584 TTATTTATAT-TA
1 TTATTTATATATA
2982596 -TATTTATATATA
1 TTATTTATATATA
2982608 ACTTTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 4 0.17
13 6 0.26
14 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTATTTATATATA
Found at i:2985614 original size:83 final size:83
Alignment explanation
Indices: 2985463--2985616 Score: 229
Period size: 83 Copynumber: 1.9 Consensus size: 83
2985453 TGTATATCTG
* * * *
2985463 TTTAATATTTTAAATTTAAAAAATATTATTATCTGTTTAAATTTAGATATTAAAAGATGTTCAGT
1 TTTAACATTTTAAATTTAAAAAACATTATTATATGTTTAAATTTAGATATTAAAAGATGTTCAAT
2985528 TGGAGTAAAACTTTCAAA
66 TGGAGTAAAACTTTCAAA
* * *
2985546 TTTAACATTTTAAATTTAAAATACATTATTATATTTTTAAATTTAGATATTAAAAGA-GTTTTAA
1 TTTAACATTTTAAATTTAAAAAACATTATTATATGTTTAAATTTAGATATTAAAAGATG-TTCAA
2985610 TTGGAGT
65 TTGGAGT
2985617 TAATCTCTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
82 1 0.02
83 62 0.98
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (83 bp):
TTTAACATTTTAAATTTAAAAAACATTATTATATGTTTAAATTTAGATATTAAAAGATGTTCAAT
TGGAGTAAAACTTTCAAA
Found at i:2988794 original size:49 final size:49
Alignment explanation
Indices: 2988722--2988817 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
2988712 TTAAAAACAT
*
2988722 TGCTATTAAATAGTATAAGGCAGCGTTTGTCAGTAAATGCCACAATCAC
1 TGCTATTAAATAGTATAAGGCAGCGTTTGTCAGTAAACGCCACAATCAC
*
2988771 TGCTATTGAATAGTATAAGGCAGCGTTTGTCAGTAAACGCCACAATC
1 TGCTATTAAATAGTATAAGGCAGCGTTTGTCAGTAAACGCCACAATC
2988818 GAGCTGCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (49 bp):
TGCTATTAAATAGTATAAGGCAGCGTTTGTCAGTAAACGCCACAATCAC
Found at i:2990449 original size:49 final size:49
Alignment explanation
Indices: 2990369--2990466 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
2990359 CAATATCTAG
* *
2990369 CTAAAGGCTTGGCCATGGGTGACAATGACATTTTTTATGCTATTTGGGT
1 CTAAAGGCTTGGCCATGGGTGACAATAACATTGTTTATGCTATTTGGGT
* * *
2990418 CTAAAGG-TATGGCCATTGGTGGCAATAACATTGTTTATGTTATTTGGGT
1 CTAAAGGCT-TGGCCATGGGTGACAATAACATTGTTTATGCTATTTGGGT
2990467 TTTCATTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 42 0.98
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (49 bp):
CTAAAGGCTTGGCCATGGGTGACAATAACATTGTTTATGCTATTTGGGT
Found at i:2991829 original size:12 final size:12
Alignment explanation
Indices: 2991812--2991842 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2991802 TAAAATCATG
2991812 AGTACTTCGTAT
1 AGTACTTCGTAT
2991824 AGTACTTCGTAT
1 AGTACTTCGTAT
2991836 AGTACTT
1 AGTACTT
2991843 GGCTTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (12 bp):
AGTACTTCGTAT
Found at i:2994687 original size:54 final size:54
Alignment explanation
Indices: 2994601--2994928 Score: 352
Period size: 54 Copynumber: 6.1 Consensus size: 54
2994591 GCATTTTTAT
* * * * *
2994601 GTATCAGCACTAAGTATGCAACCCACATAATTCATAATAAGTTTAGGAATGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * * * * *
2994655 GTATCGGTAGTAAGTGTACAACCCACAAAATTCAAAATAAGTTTATAAACGACT
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* **
2994709 GTATTGGCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * ***
2994763 GTATCGACACTAAGTGTGCAACCGAGGGAATTCATAATAAGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * ** **
2994817 GTATTGACACTAAGTGTGCAACTGA-AAGAATTCATAATAAGTTTATGAACGATA
1 GTATCGGCACTAAGTGTGCAACCCACAA-AATTCATAATAAGTTTATGAACGACC
* * *** * *
2994871 GTATCGGCAATAAGTGTGCAACCTATGGAATTCATAATAAGTTTATGGACGACT
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
2994925 GTAT
1 GTAT
2994929 AAACAATAAG
Statistics
Matches: 231, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
54 231 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
Found at i:2994795 original size:108 final size:108
Alignment explanation
Indices: 2994607--2994928 Score: 403
Period size: 108 Copynumber: 3.0 Consensus size: 108
2994597 TTATGTATCA
* * * * * *
2994607 GCACTAAGTATGCAACCCACATAATTCATAATAAGTTTAGGAATGACCGTATCGGTAGTAAGTGT
1 GCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGCAATAAGTGT
* ** * *
2994672 ACAACCCACAAAATTCAAAATAAGTTTATAAACGACTGTATTG
66 GCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATTG
* *
2994715 GCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
1 GCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGCAATAAGTGT
* * *
2994780 GCAACCGAGGGAATTCATAATAAGTTTATGAACGACCGTATTG
66 GCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATTG
* ** * **
2994823 ACACTAAGTGTGCAACTGAAAG-AATTCATAATAAGTTTATGAACGATAGTATCGGCAATAAGTG
1 GCACTAAGTGTGCAAC-CCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGCAATAAGTG
* * *
2994887 TGCAACCTATGGAATTCATAATAAGTTTATGGACGACTGTAT
65 TGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTAT
2994929 AAACAATAAG
Statistics
Matches: 186, Mismatches: 27, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
108 184 0.99
109 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (108 bp):
GCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCGTATCGGCAATAAGTGT
GCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATTG
Found at i:2994830 original size:27 final size:27
Alignment explanation
Indices: 2994746--2994831 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
2994736 TAATTCATAA
*
2994746 TAAGTTTATGAACGACCGTATCGACAC
1 TAAGTTTATGAACGACCGTATTGACAC
* ** * * * *
2994773 TAAG--TGTGCAACCGAGGGAATTCATAA
1 TAAGTTTATG-AA-CGACCGTATTGACAC
2994800 TAAGTTTATGAACGACCGTATTGACAC
1 TAAGTTTATGAACGACCGTATTGACAC
2994827 TAAGT
1 TAAGT
2994832 GTGCAACTGA
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
25 3 0.08
26 2 0.05
27 30 0.75
28 2 0.05
29 3 0.08
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
TAAGTTTATGAACGACCGTATTGACAC
Found at i:2994887 original size:162 final size:162
Alignment explanation
Indices: 2994629--2994945 Score: 413
Period size: 162 Copynumber: 2.0 Consensus size: 162
2994619 CAACCCACAT
* ** *
2994629 AATTCATAATAAGTTTAGGAATGACCGTATCGGTAGTAAGTGTACAACCCACAAAATTCAAAATA
1 AATTCATAATAAGTTTAGGAACGACCGTATCGACACTAAGTGTACAACCCACAAAATTCAAAATA
* * *
2994694 AGTTTATAAACGACTGTATTGGCACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAAC
66 AGTTTATAAACGACTGTATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAAC
** *
2994759 GACCGTATCGACACTAAGTGTGCAACCGAGGG
131 GACCGTATAAACAATAAGTGTGCAACCGAGGG
* * * ** *
2994791 AATTCATAATAAGTTTATGAACGACCGTATTGACACTAAGTGTGCAACTGA-AAGAATTCATAAT
1 AATTCATAATAAGTTTAGGAACGACCGTATCGACACTAAGTGTACAACCCACAA-AATTCAAAAT
* * * *
2994855 AAGTTTATGAACGA-TAGTATCGGCAATAAGTGTGCAACCTATGGAATTCATAATAAGTTTATGG
65 AAGTTTATAAACGACT-GTATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGA
*
2994919 ACGACTGTATAAACAATAAGTGTGCAA
129 ACGACCGTATAAACAATAAGTGTGCAA
2994946 TCCATGAAAT
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
161 3 0.02
162 129 0.98
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (162 bp):
AATTCATAATAAGTTTAGGAACGACCGTATCGACACTAAGTGTACAACCCACAAAATTCAAAATA
AGTTTATAAACGACTGTATCGGCAATAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAAC
GACCGTATAAACAATAAGTGTGCAACCGAGGG
Found at i:2997984 original size:12 final size:12
Alignment explanation
Indices: 2997967--2997992 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2997957 TGCATCGACT
2997967 ATCGTCGGTTAA
1 ATCGTCGGTTAA
2997979 ATCGTCGGTTAA
1 ATCGTCGGTTAA
2997991 AT
1 AT
2997993 AAGGTGACAT
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:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (12 bp):
ATCGTCGGTTAA
Found at i:2999193 original size:101 final size:101
Alignment explanation
Indices: 2999052--2999253 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
2999042 TGCAGCTCTA
2999052 TGAGCTTTGGATACACGTATTTTAGTAGAGAAAGATGGTGCCTTAATTGTTGAGCTTAAGCTAAA
1 TGAGCTTTGGATACACGTATTTTAGTAGAGAAAGATGGTGCCTTAATTGTTGAGCTTAAGCTAAA
2999117 GGTGATGCTTTTGGATCGGATAAAAGAGCTACAAGG
66 GGTGATGCTTTTGGATCGGATAAAAGAGCTACAAGG
2999153 TGAGCTTTGGATACACGTATTTTAGTAGAGAAAGATGGTGCCTTAATTGTTGAGCTTAAGCTAAA
1 TGAGCTTTGGATACACGTATTTTAGTAGAGAAAGATGGTGCCTTAATTGTTGAGCTTAAGCTAAA
2999218 GGTGATGCTTTTGGATCGGATAAAAGAGCTACAAGG
66 GGTGATGCTTTTGGATCGGATAAAAGAGCTACAAGG
2999254 ACAATATAGT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (101 bp):
TGAGCTTTGGATACACGTATTTTAGTAGAGAAAGATGGTGCCTTAATTGTTGAGCTTAAGCTAAA
GGTGATGCTTTTGGATCGGATAAAAGAGCTACAAGG
Found at i:3002023 original size:54 final size:54
Alignment explanation
Indices: 3001958--3002254 Score: 418
Period size: 54 Copynumber: 5.5 Consensus size: 54
3001948 TATGTATCAG
*
3001958 CACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCGTATCGA
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
* * * * *
3002012 CACTAAATGTGCAACCCAC-GAAATTCATAATAAGTTTATTAATGATCATATCGA
1 CACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCGTATCGA
* * * * *
3002066 TATTAAGTGTGCAAGCCACGGAATTCATAATGAGTTTATGAACGACCGTATC-A
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
3002119 GCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
1 -CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
* * *
3002174 CACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGATCGTATCGG
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
* *
3002228 CACTAAGTGTGCAACCCATAAAATTCA
1 CACTAAGTGTGCAACCCACAGAATTCA
3002255 AAAAGAGCTT
Statistics
Matches: 214, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.00
54 211 0.99
55 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGA
Found at i:3002269 original size:162 final size:162
Alignment explanation
Indices: 3001951--3002269 Score: 487
Period size: 162 Copynumber: 2.0 Consensus size: 162
3001941 GCATTTTTAT
*
3001951 GTATCAGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCGTATCGACACT
1 GTATCAGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACT
* * * * *
3002016 AAATGTGCAACCCACGAAATTCATAATAAGTTTATTAATGATCATATCGATATTAAGTGTGCAAG
66 AAATGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCATATCGACACTAAGTGTGCAAC
** * * *
3002081 CCACGGAATTCATAATGAGTTTATGAACGACC
131 CCACAAAATTCAAAAAGAGCTTATGAACGACC
3002113 GTATCAGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACT
1 GTATCAGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACT
* * *
3002178 AAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGATCGTATCGGCACTAAGTGTGCAA
66 AAATGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGATCATATCGACACTAAGTGTGCAA
*
3002242 CCCATAAAATTCAAAAAGAGCTTATGAA
130 CCCACAAAATTCAAAAAGAGCTTATGAA
3002270 TGATCATATT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
161 1 0.01
162 140 0.99
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (162 bp):
GTATCAGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACT
AAATGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCATATCGACACTAAGTGTGCAAC
CCACAAAATTCAAAAAGAGCTTATGAACGACC
Found at i:3005510 original size:21 final size:21
Alignment explanation
Indices: 3005486--3005533 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3005476 AGAGAAATAT
*
3005486 AGAGAGCAGCGAGAAAAGTAG
1 AGAGAGCAGCGAGAAAAGCAG
* *
3005507 AGAGGGCAGCGAGAGAAGCAG
1 AGAGAGCAGCGAGAAAAGCAG
3005528 AGAGAG
1 AGAGAG
3005534 AAGTAGTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.44, T:0.02
Consensus pattern (21 bp):
AGAGAGCAGCGAGAAAAGCAG
Found at i:3008729 original size:83 final size:83
Alignment explanation
Indices: 3008567--3008729 Score: 247
Period size: 83 Copynumber: 2.0 Consensus size: 83
3008557 TGTATATTTG
* *
3008567 TTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGATGTTTAGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAAATATTAAAAGATGTTTAAT
*
3008632 TGGAGTAAAACTCTCATA
66 TAGAGTAAAACTCTCATA
* *
3008650 TTTAATATTTTAAATTTAAAAGATATTATTATTTGTTTAAATTTAAATATTAAAAGA-GTTTTAA
1 TTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAAATATTAAAAGATG-TTTAA
* *
3008714 TTAGAGTTAATCTCTC
65 TTAGAGTAAAACTCTC
3008730 TCGAAATTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 1 0.01
83 71 0.99
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (83 bp):
TTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAAATATTAAAAGATGTTTAAT
TAGAGTAAAACTCTCATA
Found at i:3011700 original size:65 final size:64
Alignment explanation
Indices: 3011575--3011705 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 64
3011565 ATCTGAGCTG
3011575 TTTATTGCCTCCTGGTATGTTGATGGCTCACGTCCTCTGTTAAAAGGCAGTATGCAATATTACC
1 TTTATTGCCTCCTGGTATGTTGATGGCTCACGTCCTCTGTTAAAAGGCAGTATGCAATATTACC
3011639 TTTATTGCCTCCTGGTATGTTGATGGCTCACCGTCCTCTGTTAAAAGGCAGTATGCAATATTACC
1 TTTATTGCCTCCTGGTATGTTGATGGCTCA-CGTCCTCTGTTAAAAGGCAGTATGCAATATTACC
3011704 TT
1 TT
3011706 CTATAACATA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
64 30 0.45
65 36 0.55
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (64 bp):
TTTATTGCCTCCTGGTATGTTGATGGCTCACGTCCTCTGTTAAAAGGCAGTATGCAATATTACC
Done.