Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 27
Found at i:2714780 original size:54 final size:56
Alignment explanation
Indices: 2714702--2714868 Score: 211
Period size: 54 Copynumber: 3.0 Consensus size: 56
2714692 TTATTTCTTT
* *
2714702 ATTCAAGATTCTCGAGGAAATAAATTTAACAATTTATTTCCTTACAAAG-TAGAATC
1 ATTCAAGATTCTC-AAGAAATAAATTAAACAATTTATTTCCTTACAAAGTTAGAATC
2714758 ATT-AAGATTCTCAAGAAATAAATTCAAACAA-TTATTTCC-TA-AAAGTTA-AATC
1 ATTCAAGATTCTCAAGAAATAAATT-AAACAATTTATTTCCTTACAAAGTTAGAATC
* * *
2714810 ATTCAAGATTCTCAAGGAAATAAATTCAATAATTTATTTACATTACAAAGTTAGAATC
1 ATTCAAGATTCTCAA-GAAATAAATTAAACAATTTATTT-CCTTACAAAGTTAGAATC
2714868 A
1 A
2714869 ACCCAAGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
52 11 0.11
53 19 0.20
54 35 0.36
55 15 0.15
56 5 0.05
57 7 0.07
58 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (56 bp):
ATTCAAGATTCTCAAGAAATAAATTAAACAATTTATTTCCTTACAAAGTTAGAATC
Found at i:2714935 original size:57 final size:57
Alignment explanation
Indices: 2714860--2714975 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
2714850 CATTACAAAG
**
2714860 TTAGAATCAACCCAAGATTCTACGATGAAATAAATCTAGTGATTTATTTCTTTATAT
1 TTAGAATCAACAAAAGATTCTACGATGAAATAAATCTAGTGATTTATTTCTTTATAT
2714917 TTAGAATCAACAAAAGATTCTACGATGAAATAAATCTAGTGATTTATTTCTTTATAT
1 TTAGAATCAACAAAAGATTCTACGATGAAATAAATCTAGTGATTTATTTCTTTATAT
2714974 TT
1 TT
2714976 TGTTAACAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (57 bp):
TTAGAATCAACAAAAGATTCTACGATGAAATAAATCTAGTGATTTATTTCTTTATAT
Found at i:2715167 original size:45 final size:45
Alignment explanation
Indices: 2715107--2715231 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
2715097 CAAGGAACCC
* * * *
2715107 TTTGATTTTAATTTTTGCAATCCAATAATCGAAATGAAATAATTA
1 TTTGATTTTACTTTTTGCAATCCAATAATCAAAAGGAAATAATCA
* *
2715152 TTTGATTTTACTTTTTGCAA-CACAATAATCAAAAGGAACTAATCC
1 TTTGATTTTACTTTTTGCAATC-CAATAATCAAAAGGAAATAATCA
2715197 TTTGATTTTAC-TTTTGACAATCCAATAATCAAAAG
1 TTTGATTTTACTTTTTG-CAATCCAATAATCAAAAG
2715232 CCTTATATTA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 6 0.08
45 64 0.90
46 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (45 bp):
TTTGATTTTACTTTTTGCAATCCAATAATCAAAAGGAAATAATCA
Found at i:2716615 original size:320 final size:320
Alignment explanation
Indices: 2716033--2716672 Score: 1244
Period size: 320 Copynumber: 2.0 Consensus size: 320
2716023 ATTCGTGTAC
2716033 ATGAATCAAGAATAAAACAAACACAATTAATAACATGGAAAATATTCGATTAAATAATCTGAATA
1 ATGAATCAAGAATAAAACAAACACAATTAATAACATGGAAAATATTCGATTAAATAATCTGAATA
2716098 GAAAATCATAAATATATGAATAGTAATAAGTTGAGGCCTACAATTACGCAGTTTTCTTAAGACAG
66 GAAAATCATAAATATATGAATAGTAATAAGTTGAGGCCTACAATTACGCAGTTTTCTTAAGACAG
*
2716163 ATTTTTGGCTACTCCTTGTTGCTTGAGATATTTGGTCGTTTGTCTCCCAGGATACAACAACGAGA
131 ATTTTTGGCTACTCCTTGTTGCTTGAGACATTTGGTCGTTTGTCTCCCAGGATACAACAACGAGA
2716228 TGATCAGCGCACAGTAGCACAACTACCGAGATCACGAACTATTCCTTGTCTTCGCCTATCACCAA
196 TGATCAGCGCACAGTAGCACAACTACCGAGATCACGAACTATTCCTTGTCTTCGCCTATCACCAA
2716293 AAACTAAAGAAAAAAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA
261 AAACTAAAGAAAAAAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA
2716353 ATGAATCAAGAATAAAACAAACACAATTAATAACATGGAAAATATTCGATTAAATAATCTGAATA
1 ATGAATCAAGAATAAAACAAACACAATTAATAACATGGAAAATATTCGATTAAATAATCTGAATA
2716418 GAAAATCATAAATATATGAATAGTAATAAGTTGAGGCCTACAATTACGCAGTTTTCTTAAGACAG
66 GAAAATCATAAATATATGAATAGTAATAAGTTGAGGCCTACAATTACGCAGTTTTCTTAAGACAG
*
2716483 ATTTTTGGCTACTCCTTGTTGCTTGAGACATTTGGTTGTTTGTCTCCCAGGATACAACAACGAGA
131 ATTTTTGGCTACTCCTTGTTGCTTGAGACATTTGGTCGTTTGTCTCCCAGGATACAACAACGAGA
*
2716548 TGATCAGCGCACAGTAGTACAACTACCGAGATCACGAACTATTCCTTGTCTTCGCCTATCACCAA
196 TGATCAGCGCACAGTAGCACAACTACCGAGATCACGAACTATTCCTTGTCTTCGCCTATCACCAA
*
2716613 AAACTAAAGAAAAGAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA
261 AAACTAAAGAAAAAAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA
2716673 TTAGTAGGTT
Statistics
Matches: 316, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
320 316 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (320 bp):
ATGAATCAAGAATAAAACAAACACAATTAATAACATGGAAAATATTCGATTAAATAATCTGAATA
GAAAATCATAAATATATGAATAGTAATAAGTTGAGGCCTACAATTACGCAGTTTTCTTAAGACAG
ATTTTTGGCTACTCCTTGTTGCTTGAGACATTTGGTCGTTTGTCTCCCAGGATACAACAACGAGA
TGATCAGCGCACAGTAGCACAACTACCGAGATCACGAACTATTCCTTGTCTTCGCCTATCACCAA
AAACTAAAGAAAAAAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA
Found at i:2716750 original size:82 final size:81
Alignment explanation
Indices: 2716613--2716776 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 81
2716603 CTATCACCAA
2716613 AAACTAAAGAAAAGAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAATTAGT
1 AAACTAAAGAAAAGAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAA-TAGT
* *
2716678 AGGTTAACGCGGTATTT
65 AGGTTAACACGATATTT
* * *
2716695 AAACTAAAGAAAATAATTCCTTTGAATTGGTTTTTGAGTTGTTTTTTAATTGTGTTTAAATAGTA
1 AAACTAAAGAAAAGAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAATAGTA
2716760 GGTTAACACGATATTT
66 GGTTAACACGATATTT
2716776 A
1 A
2716777 TAAGGAGTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 20 0.26
82 57 0.74
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.43
Consensus pattern (81 bp):
AAACTAAAGAAAAGAATTCATTTGAATTGGTTTTTGAGTTGTTTTTGAATTGTGTTTAAATAGTA
GGTTAACACGATATTT
Found at i:2719421 original size:40 final size:40
Alignment explanation
Indices: 2719377--2719486 Score: 202
Period size: 40 Copynumber: 2.8 Consensus size: 40
2719367 AGGACACTAA
* *
2719377 GTGTACATGGTGGGCACAACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
2719417 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
2719457 GTGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCACGACCTTATGTGTA
2719487 GCACTATAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
Found at i:2719684 original size:47 final size:45
Alignment explanation
Indices: 2719591--2719761 Score: 247
Period size: 47 Copynumber: 3.8 Consensus size: 45
2719581 GTAAGTATGC
*
2719591 AAATAAGCTTACGAGCTTAT-GAAT-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
*
2719634 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATGTTGATA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGATA
* *
2719681 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGATA
*
2719728 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
2719762 AAGATTTTAT
Statistics
Matches: 119, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
43 20 0.17
44 3 0.03
45 10 0.08
46 1 0.01
47 85 0.71
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:2720877 original size:23 final size:23
Alignment explanation
Indices: 2720847--2720900 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
2720837 TCAAGTAAAA
*
2720847 CATTTTCCGAAAAATGTTTTCCT
1 CATTTTCCGAAAAACGTTTTCCT
2720870 CATTTTCCGAAAAACGTTTTCCT
1 CATTTTCCGAAAAACGTTTTCCT
2720893 CATTTTCC
1 CATTTTCC
2720901 AATGTTTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (23 bp):
CATTTTCCGAAAAACGTTTTCCT
Found at i:2721173 original size:27 final size:26
Alignment explanation
Indices: 2721129--2721230 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
2721119 TATTTAAAAT
*
2721129 ATATTTATTAATATTTATAATAATATA
1 ATATTTTTTAATA-TTATAATAATATA
2721156 ATATTTTTGTAATATTATAAT-ATAATA
1 ATATTTTT-TAATATTATAATAAT-ATA
* * * *
2721183 ATTATATTATAATAATATAA-AATATT
1 A-TATTTTTTAATATTATAATAATATA
2721209 ATA-TTTTT-AT-TT-TAATAATATA
1 ATATTTTTTAATATTATAATAATATA
2721231 TAATTAATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
21 3 0.05
22 6 0.10
23 2 0.03
24 3 0.05
25 2 0.03
26 5 0.08
27 30 0.49
28 10 0.16
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
ATATTTTTTAATATTATAATAATATA
Found at i:2721266 original size:22 final size:22
Alignment explanation
Indices: 2721199--2721267 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
2721189 TTATAATAAT
2721199 ATAAAATATTATATT-TTTATT-
1 ATAAAAT-TTATATTATTTATTA
* * * *
2721220 TTAATAATATATAATTAATTGTTA
1 ATAA-AATTTAT-ATTATTTATTA
2721244 ATAAAATTTATATTATTTATTA
1 ATAAAATTTATATTATTTATTA
2721266 AT
1 AT
2721268 TTCATATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
21 6 0.17
22 17 0.47
23 10 0.28
24 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
ATAAAATTTATATTATTTATTA
Found at i:2721322 original size:27 final size:27
Alignment explanation
Indices: 2721273--2721327 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
2721263 TTAATTTCAT
2721273 ATGAATAATATTTTTAAATTA-TTAATA
1 ATGAATAATATTTTT-AATTATTTAATA
2721300 ATGAATAATATTATTT-ATGTATTTAATA
1 ATGAATAATATT-TTTAAT-TATTTAATA
2721328 TTAATCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.08
27 14 0.56
28 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
ATGAATAATATTTTTAATTATTTAATA
Found at i:2723333 original size:24 final size:24
Alignment explanation
Indices: 2723289--2723334 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2723279 TCTGAGATTT
* *
2723289 CGTCTGCTTCTCCGGCGTCTCTCC
1 CGTCTGCTTCACCGGCCTCTCTCC
2723313 CGTCT-CTTCACCGGTCCTCTCT
1 CGTCTGCTTCACCGG-CCTCTCT
2723335 TATTATTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.02, C:0.46, G:0.17, T:0.35
Consensus pattern (24 bp):
CGTCTGCTTCACCGGCCTCTCTCC
Found at i:2728427 original size:19 final size:20
Alignment explanation
Indices: 2728403--2728459 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
2728393 TCTTAAAAAC
2728403 TTTTATTTCTTAAATTA-TT
1 TTTTATTTCTTAAATTACTT
**
2728422 TTTTATTAATTAAATTACTT
1 TTTTATTTCTTAAATTACTT
*
2728442 TTTAATGTTCTTAGAATT
1 TTTTAT-TTCTTA-AATT
2728460 TTGCGTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 15 0.50
20 7 0.23
21 4 0.13
22 4 0.13
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTATTTCTTAAATTACTT
Found at i:2732049 original size:2 final size:2
Alignment explanation
Indices: 2732044--2732068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2732034 TATATATATA
2732044 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2732069 ATCACAAGGA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2733513 original size:20 final size:20
Alignment explanation
Indices: 2733488--2733532 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2733478 AAAGTATTTT
2733488 ATATAAAAATATAAATAATA
1 ATATAAAAATATAAATAATA
** * *
2733508 ATATAATCATATTAATATTA
1 ATATAAAAATATAAATAATA
2733528 ATATA
1 ATATA
2733533 CTTTAACTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAAATATAAATAATA
Found at i:2734262 original size:19 final size:19
Alignment explanation
Indices: 2734238--2734280 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
2734228 AGATTCTCAA
2734238 ATATATTTTAGTTAAGAAT
1 ATATATTTTAGTTAAGAAT
2734257 ATATATTTTAGTTAAGAAT
1 ATATATTTTAGTTAAGAAT
2734276 ATATA
1 ATATA
2734281 ACAAAACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (19 bp):
ATATATTTTAGTTAAGAAT
Found at i:2749785 original size:19 final size:19
Alignment explanation
Indices: 2749758--2749814 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
2749748 AAATAACCAA
*
2749758 CAAAATCGCAACGCG-ATC
1 CAAATTCGCAACGCGAATC
2749776 TCAAATTCGCAACGCGAAATC
1 -CAAATTCGCAACGCG-AATC
*
2749797 CAAATTCGCAACGGGAAT
1 CAAATTCGCAACGCGAAT
2749815 AGTTAAATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.50
20 14 0.41
21 3 0.09
ACGTcount: A:0.39, C:0.28, G:0.18, T:0.16
Consensus pattern (19 bp):
CAAATTCGCAACGCGAATC
Found at i:2749825 original size:20 final size:20
Alignment explanation
Indices: 2749760--2749914 Score: 108
Period size: 20 Copynumber: 7.8 Consensus size: 20
2749750 ATAACCAACA
* *
2749760 AAATCGCAACGCG-AT-CTC
1 AAATCGCAACGCGAATAGTT
*
2749778 AAATTCGCAACGCGAA-A-TCC
1 AAA-TCGCAACGCGAATAGT-T
*
2749798 AAATTCGCAACGGGAATAGTT
1 AAA-TCGCAACGCGAATAGTT
**
2749819 AAATCGCAACGATAATA-TGT
1 AAATCGCAACGCGAATAGT-T
*
2749839 AAATCGCAATGCGAATA-TGT
1 AAATCGCAACGCGAATAGT-T
* *
2749859 AAATCGCAACGC-AAAAGTC
1 AAATCGCAACGCGAATAGTT
* *
2749878 AAATTCACAACGCGAATAGGT
1 AAA-TCGCAACGCGAATAGTT
2749899 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
2749915 TTATTTTTCA
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
18 3 0.03
19 18 0.16
20 79 0.71
21 11 0.10
22 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATAGTT
Found at i:2749829 original size:40 final size:39
Alignment explanation
Indices: 2749782--2749913 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
2749772 GATCTCAAAT
*
2749782 TCGCAACGCGAAATCCAAATTCGCAACGGGAATAGTTAAA
1 TCGCAACGCGAAAT-CAAATTCGCAACGCGAATAGTTAAA
** * *
2749822 TCGCAACGATAATATGTAAA-TCGCAATGCGAATA-TGTAAA
1 TCGCAACGCGAA-AT-CAAATTCGCAACGCGAATAGT-TAAA
* * *
2749862 TCGCAACGCAAAAGTCAAATTCACAACGCGAATAGGTAAA
1 TCGCAACGCGAAA-TCAAATTCGCAACGCGAATAGTTAAA
2749902 TCGCAACGCGAA
1 TCGCAACGCGAA
2749914 TTTATTTTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
39 5 0.07
40 64 0.86
41 5 0.07
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (39 bp):
TCGCAACGCGAAATCAAATTCGCAACGCGAATAGTTAAA
Found at i:2749866 original size:60 final size:60
Alignment explanation
Indices: 2749782--2749914 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
2749772 GATCTCAAAT
** * * * * * *
2749782 TCGCAACGCGAA-ATCCAAATTCGCAACGGGAATAGTTAAA-TCGCAACGATAATATGTAAA
1 TCGCAACGCGAATATGTAAA-TCGCAAC-GCAAAAGTCAAATTCACAACGAGAATAGGTAAA
* *
2749842 TCGCAATGCGAATATGTAAATCGCAACGCAAAAGTCAAATTCACAACGCGAATAGGTAAA
1 TCGCAACGCGAATATGTAAATCGCAACGCAAAAGTCAAATTCACAACGAGAATAGGTAAA
2749902 TCGCAACGCGAAT
1 TCGCAACGCGAAT
2749915 TTATTTTTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 9 0.15
60 46 0.77
61 5 0.08
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (60 bp):
TCGCAACGCGAATATGTAAATCGCAACGCAAAAGTCAAATTCACAACGAGAATAGGTAAA
Found at i:2749982 original size:20 final size:21
Alignment explanation
Indices: 2749942--2750017 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 21
2749932 AGTTTCCTTT
* * *
2749942 TCGCAACAAG-ATCTACTAAA
1 TCGCAACAAGAATTTTCGAAA
*
2749962 TCGCAACATGAATTTT-GAAA
1 TCGCAACAAGAATTTTCGAAA
*
2749982 TCGCAACAAG-ATTTTCGAAT
1 TCGCAACAAGAATTTTCGAAA
* *
2750002 TCGCGACACGAATTTT
1 TCGCAACAAGAATTTT
2750018 AATTTCGCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 5 0.11
20 32 0.71
21 8 0.18
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (21 bp):
TCGCAACAAGAATTTTCGAAA
Found at i:2750026 original size:40 final size:41
Alignment explanation
Indices: 2749940--2750029 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
2749930 CAAGTTTCCT
* *
2749940 TTTCGCAACAAGATCTACTAAATCGCAACATGAATTTTGAA
1 TTTCGCAACAAGATCTACGAAATCGCAACACGAATTTTGAA
* * * * *
2749981 -ATCGCAACAAGATTTTCGAATTCGCGACACGAATTTT-AA
1 TTTCGCAACAAGATCTACGAAATCGCAACACGAATTTTGAA
2750020 TTTCGCAACA
1 TTTCGCAACA
2750030 GCTTTTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (41 bp):
TTTCGCAACAAGATCTACGAAATCGCAACACGAATTTTGAA
Found at i:2750993 original size:24 final size:24
Alignment explanation
Indices: 2750961--2751014 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2750951 GTATTCGAAA
2750961 TTTGATCTTGGACAATACCCGGAC
1 TTTGATCTTGGACAATACCCGGAC
* * *
2750985 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGACAATACCCGGAC
2751009 TTTGAT
1 TTTGAT
2751015 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGACAATACCCGGAC
Found at i:2753482 original size:20 final size:20
Alignment explanation
Indices: 2753457--2753562 Score: 149
Period size: 20 Copynumber: 5.3 Consensus size: 20
2753447 AGGTACACTT
*
2753457 TCGCAACGCGAAAATCAAAA
1 TCGCAACGCGAAAGTCAAAA
* * *
2753477 TCGCAATGCGAAAGACAAAT
1 TCGCAACGCGAAAGTCAAAA
*
2753497 TCGCAACGTGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
2753517 TCGCAACGCGAAAGTCAAAT
1 TCGCAACGCGAAAGTCAAAA
*
2753537 TCGCAACGTGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
2753557 TCGCAA
1 TCGCAA
2753563 TGACTTTCGC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAA
Found at i:2753500 original size:40 final size:40
Alignment explanation
Indices: 2753456--2753564 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 40
2753446 AAGGTACACT
* *
2753456 TTCGCAACGCGAAAATCAAAATCGCAATGCGAAAGACAAA
1 TTCGCAACGTGAAAGTCAAAATCGCAATGCGAAAGACAAA
* *
2753496 TTCGCAACGTGAAAGTCAAAATCGCAACGCGAAAGTCAAA
1 TTCGCAACGTGAAAGTCAAAATCGCAATGCGAAAGACAAA
2753536 TTCGCAACGTGAAAGTCAAAATCGCAATG
1 TTCGCAACGTGAAAGTCAAAATCGCAATG
2753565 ACTTTCGCGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (40 bp):
TTCGCAACGTGAAAGTCAAAATCGCAATGCGAAAGACAAA
Found at i:2753880 original size:13 final size:13
Alignment explanation
Indices: 2753858--2753966 Score: 57
Period size: 13 Copynumber: 8.4 Consensus size: 13
2753848 GAAATTAAAC
2753858 AACAAATCAATTA
1 AACAAATCAATTA
* *
2753871 AACTAATCAACTTT
1 AACAAATCAA-TTA
*
2753885 TACAAATCAATTA
1 AACAAATCAATTA
*
2753898 AAC-AAGCAA--A
1 AACAAATCAATTA
*
2753908 AA-ATAA-GAATTA
1 AACA-AATCAATTA
* *
2753920 TTTACACATCAATTA
1 --AACAAATCAATTA
*
2753935 AACAAATCAACTTT
1 AACAAATCAA-TTA
*
2753949 TACAAATCAATTA
1 AACAAATCAATTA
2753962 AACAA
1 AACAA
2753967 GCAAAAAAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
10 5 0.07
11 2 0.03
12 6 0.09
13 27 0.39
14 23 0.33
15 6 0.09
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.27
Consensus pattern (13 bp):
AACAAATCAATTA
Found at i:2755348 original size:21 final size:20
Alignment explanation
Indices: 2755319--2755415 Score: 113
Period size: 21 Copynumber: 4.7 Consensus size: 20
2755309 GTGAATCGGG
* *
2755319 CTCTCGAACGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGG-C
**
2755340 CTCTTGAACGATGACAGGGCC
1 CTCTTGAACGATGGGAGGG-C
2755361 CTCTTGAACGATGGGAGGGGC
1 CTCTTGAACGATGGGA-GGGC
*
2755382 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAG-GGC
2755403 CTCTTGAACGATG
1 CTCTTGAACGATG
2755416 ACAGGTGCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.02
21 61 0.94
22 3 0.05
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.20
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:2755385 original size:42 final size:42
Alignment explanation
Indices: 2755319--2755415 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
2755309 GTGAATCGGG
* *
2755319 CTCTCGAACGGTGGGAGGGACCTCTTGAACGAT-GACAG-GGCC
1 CTCTTGAACGATGGGAGGGACCTCTTGAACGATAG-CAGAGG-C
* *
2755361 CTCTTGAACGATGGGAGGGGCCTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGACCTCTTGAACGATAGCAGAGGC
2755403 CTCTTGAACGATG
1 CTCTTGAACGATG
2755416 ACAGGTGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 46 0.94
43 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGATGGGAGGGACCTCTTGAACGATAGCAGAGGC
Found at i:2757547 original size:20 final size:20
Alignment explanation
Indices: 2757518--2757576 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
2757508 ATTTTCGCAA
* *
2757518 CGTTGAGATTTTAATTTTTG
1 CGTTGCGATTTTAATTTTCG
*
2757538 CGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTAATTTTCG
* * *
2757558 TGTTGCGAATTTAAGTTTC
1 CGTTGCGATTTTAATTTTC
2757577 AAAAACTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.51
Consensus pattern (20 bp):
CGTTGCGATTTTAATTTTCG
Found at i:2758122 original size:20 final size:20
Alignment explanation
Indices: 2758099--2758146 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2758089 TTTACTTTCG
*
2758099 CGTTGCGATTTACATATT-A
1 CGTTGCGATTAACATATTCA
*
2758118 TCGTTGCGATTAACCTATTCA
1 -CGTTGCGATTAACATATTCA
2758139 CGTTGCGA
1 CGTTGCGA
2758147 ATTTGGAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTAACATATTCA
Found at i:2758163 original size:20 final size:20
Alignment explanation
Indices: 2758140--2758187 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2758130 ACCTATTCAC
2758140 GTTGCGAATTTGGAACCTAT
1 GTTGCGAATTTGGAACCTAT
2758160 GTTGCGAATTTGGAACCTAT
1 GTTGCGAATTTGGAACCTAT
2758180 GTTGCGAA
1 GTTGCGAA
2758188 ATTGAAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGGAACCTAT
Found at i:2759634 original size:26 final size:25
Alignment explanation
Indices: 2759605--2759657 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
2759595 ATAATAAATA
2759605 TTAAGATCATAAATTAATTTTAACTT
1 TTAAGATCATAAATTAATTTT-ACTT
* * * *
2759631 TTAATATGATATATTAGTTTTACTT
1 TTAAGATCATAAATTAATTTTACTT
2759656 TT
1 TT
2759658 GTGTAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (25 bp):
TTAAGATCATAAATTAATTTTACTT
Found at i:2760069 original size:25 final size:25
Alignment explanation
Indices: 2760036--2760090 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
2760026 GAGATAGGAT
*
2760036 TATA-TTATAAATAACTACATAAAG
1 TATACTTATAAATAAATACATAAAG
*
2760060 TATACTTATAAATAAATACTTAAAG
1 TATACTTATAAATAAATACATAAAG
2760085 TATACT
1 TATACT
2760091 ATCTTCTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (25 bp):
TATACTTATAAATAAATACATAAAG
Found at i:2760143 original size:29 final size:29
Alignment explanation
Indices: 2760107--2760204 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
2760097 TTCGTTTAAG
*
2760107 TACTTAAAATATTCTTTTATCAAAATAAA
1 TACTTAAAATATTATTTTATCAAAATAAA
* * * **
2760136 TACTTAAAGTTTTTTTTTATCAAAATAGG
1 TACTTAAAATATTATTTTATCAAAATAAA
* *
2760165 TACCT--AA-ATTATTTAAGTCAAAATAAA
1 TACTTAAAATATTATTTTA-TCAAAATAAA
*
2760192 TACTTAAACTATT
1 TACTTAAAATATT
2760205 TAAACATTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
26 6 0.12
27 13 0.25
29 29 0.57
30 3 0.06
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (29 bp):
TACTTAAAATATTATTTTATCAAAATAAA
Found at i:2760199 original size:27 final size:26
Alignment explanation
Indices: 2760125--2760207 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
2760115 ATATTCTTTT
* *
2760125 ATCAAAATAAATACTTAAAGTTTTTTTTT
1 ATCAAAATAAATACTTAAA---TTATTTA
** *
2760154 ATCAAAATAGGTACCTAAATTATTTA
1 ATCAAAATAAATACTTAAATTATTTA
*
2760180 AGTCAAAATAAATACTTAAACTATTTA
1 A-TCAAAATAAATACTTAAATTATTTA
2760207 A
1 A
2760208 ACATTTTCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.14
27 22 0.50
29 16 0.36
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (26 bp):
ATCAAAATAAATACTTAAATTATTTA
Found at i:2761272 original size:20 final size:20
Alignment explanation
Indices: 2761247--2761297 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2761237 CAATCGTCGA
*
2761247 TATTTTTTTTATTGTCGT-TT
1 TATTTTTTTTATT-TCATCTT
*
2761267 TATTTTTTATATTTCATCTT
1 TATTTTTTTTATTTCATCTT
*
2761287 CATTTTTTTTA
1 TATTTTTTTTA
2761298 ATTTTCAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.73
Consensus pattern (20 bp):
TATTTTTTTTATTTCATCTT
Found at i:2765345 original size:232 final size:230
Alignment explanation
Indices: 2764857--2765355 Score: 912
Period size: 232 Copynumber: 2.2 Consensus size: 230
2764847 GTTATATTGT
* * *
2764857 AAAGTATATATCCTTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
*
2764922 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
2764987 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
2765052 AAAAAATTGAAACATAAATTACATAACTTTAAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAAA
2765087 AAAGTATATATCATTTTTAT-AAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
2765151 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
2765216 ATAATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
130 ATAA--TTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTAT
2765281 TAAAAAAAATTGAAACATAAATTACATAACTTT-AAAA
193 TAAAAAAAATTGAAACATAAATTACATAACTTTAAAAA
2765318 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
2765356 AAAAGTAGGT
Statistics
Matches: 260, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
229 24 0.09
230 104 0.40
231 24 0.09
232 108 0.42
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (230 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAAA
Found at i:2765657 original size:20 final size:19
Alignment explanation
Indices: 2765634--2765680 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2765624 CGATATACCA
2765634 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2765654 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2765674 GGTAAAA
1 GGTAAAA
2765681 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2765768 original size:181 final size:182
Alignment explanation
Indices: 2765422--2765894 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
2765412 GATCCAAATT
* * * * *
2765422 AAAAATGTGTCGATCCAAAACGATATAACAAGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
2765486 AAAACCGGTAAAGCGCTACCAGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
2765551 CGTTAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** *
2765604 AAAAATGTATCGATCCAGTACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
2765669 AAACCGGTAAAACGTTACCGGATATATTGAACGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
2765733 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
2765785 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
*
2765850 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
2765895 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 167 0.64
182 93 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:2765838 original size:20 final size:19
Alignment explanation
Indices: 2765815--2765861 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2765805 CGATATAACA
2765815 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
2765835 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
2765855 GGTAAAA
1 GGTAAAA
2765862 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2765863 original size:17 final size:19
Alignment explanation
Indices: 2765824--2765866 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2765814 AGGTAAAAAT
2765824 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
2765844 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
2765861 ATGATA
1 ATGATA
2765867 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:2768109 original size:21 final size:21
Alignment explanation
Indices: 2768083--2768147 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2768073 AAGACAATCA
*
2768083 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
2768104 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2768125 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2768146 AG
1 AG
2768148 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2768223 original size:33 final size:33
Alignment explanation
Indices: 2768181--2768246 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2768171 AAATAGATGG
*
2768181 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2768214 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2768247 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2770036 original size:19 final size:19
Alignment explanation
Indices: 2770012--2770060 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2770002 AATGTAGGGT
2770012 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2770031 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2770050 TAATTTTGTAT
1 TAATTTTGTAT
2770061 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2770720 original size:200 final size:200
Alignment explanation
Indices: 2770153--2771328 Score: 2129
Period size: 200 Copynumber: 5.9 Consensus size: 200
2770143 ATACACATTA
* *
2770153 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAAGTGTCGATCCCAAAAACATCGAAAACC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAAAC
* *
2770218 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATATCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
*
2770283 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
2770348 GAAAAC
195 GAAAAC
*
2770354 AGGGTACAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAAACATC-AAAAAC
1 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAAACATCGAAAAA-
*
2770418 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGAG
64 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
2770483 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
129 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
*
2770548 GGAGAAC
194 GGAAAAC
*
2770555 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAAACA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
*
2770620 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
2770685 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
2770750 AAAAC
196 AAAAC
* *
2770755 AGGGTGCAACCATAAAGTGTCGATCCATATATACAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
2770820 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
2770885 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
*
2770950 AGAAC
196 AAAAC
*
2770955 ATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
*
2771020 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
2771085 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTGTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
2771150 AAAAC
196 AAAAC
*
2771155 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
* *
2771220 AAAGTATAATGTAATATATAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
* *
2771285 TATGTCTAAATAATGTGTCGACATTTTTTTAATTTGTGTCGATA
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
2771329 CTAATTTAAA
Statistics
Matches: 944, Mismatches: 29, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
200 718 0.76
201 226 0.24
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAACA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
AAAAC
Found at i:2772813 original size:18 final size:18
Alignment explanation
Indices: 2772792--2772873 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
2772782 CAAGCGGTCA
2772792 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
* * *
2772810 ATGAAGATGATGATGATG
1 ATGAAGATGAAGCTGACG
*
2772828 ATGACGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
*
2772846 ATGAAGATGATGAC-GACG
1 ATGAAGATGAAG-CTGACG
*
2772864 ATGATGATGA
1 ATGAAGATGA
2772874 TGATGATGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
18 52 0.98
19 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:2772823 original size:3 final size:3
Alignment explanation
Indices: 2772809--2772886 Score: 84
Period size: 3 Copynumber: 26.0 Consensus size: 3
2772799 TGAAGCTGAC
* * * * * *
2772809 GAT GAA GAT GAT GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2772857 GAC GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2772887 CCAAACAAGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2772886 original size:12 final size:12
Alignment explanation
Indices: 2772792--2772885 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
2772782 CAAGCGGTCA
*
2772792 ATGAAGATGAAG
1 ATGATGATGAAG
* *
2772804 CTGACGATGAAG
1 ATGATGATGAAG
*
2772816 ATGATGATGATG
1 ATGATGATGAAG
*
2772828 ATGACGATGAAG
1 ATGATGATGAAG
* *
2772840 CTGACGATGAAG
1 ATGATGATGAAG
* *
2772852 ATGATGACGACG
1 ATGATGATGAAG
*
2772864 ATGATGATGATG
1 ATGATGATGAAG
2772876 ATGATGATGA
1 ATGATGATGA
2772886 TCCAAACAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 68 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:2776697 original size:25 final size:25
Alignment explanation
Indices: 2776669--2776733 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
2776659 TTATCATTAA
2776669 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
2776694 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
2776719 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
2776734 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:2777107 original size:23 final size:23
Alignment explanation
Indices: 2777076--2777148 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2777066 ATAGGTAAAA
*
2777076 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2777099 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2777122 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2777145 ATAT
1 ATAT
2777149 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2777593 original size:23 final size:23
Alignment explanation
Indices: 2777562--2777634 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2777552 ATAGGTAAAA
*
2777562 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
2777585 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2777608 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2777631 ATAT
1 ATAT
2777635 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2777644 original size:486 final size:482
Alignment explanation
Indices: 2776733--2777788 Score: 1925
Period size: 486 Copynumber: 2.2 Consensus size: 482
2776723 AGGTATATAC
*
2776733 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-TTTTTTAC
2776798 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATTACATATTATTATTATCTTG
65 GTTACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATTACATATTATTATTATCTTG
*
2776863 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
127 GTTAATATTGTTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
2776928 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
192 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
*
2776993 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTGTAAAAAGTATGGACACTT
257 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
*
2777058 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
322 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTAGCGTTTA
2777123 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
387 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
2777188 TTTTCACTGTGGAAAACATTAATTTAAGGTT
452 TTTTCACTGTGGAAAACATTAATTTAAGGTT
2777219 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTTACG
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTTACG
2777284 TTACGATATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 TTACGATATATATTATTAAATTAAAAACAATAAAC--ATATATTACATA-TTATTATTATC-TTG
2777349 GTTAATATTGTTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
127 GTTAATATTGTTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
2777414 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAA
191 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
2777478 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
256 ATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
*
2777543 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTT
321 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTAGCGTTT
* *
2777608 ATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACT
386 ATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACT
2777673 TTTTTCACTGTGGAAAACATTAATTTAAGGTT
451 TTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
2777705 ATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTTTTTTTTAC
2777770 GTTACGATATATATTATTA
65 GTTACGATATATATTATTA
2777789 TTAAATTAAA
Statistics
Matches: 554, Mismatches: 10, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
482 25 0.05
483 5 0.01
484 12 0.02
485 25 0.05
486 355 0.64
487 132 0.24
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (482 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTTACG
TTACGATATATATTATTAAATTAAAAACAATAAACATATATTACATATTATTATTATCTTGGTTA
ATATTGTTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTAGCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTT
Found at i:2778023 original size:23 final size:23
Alignment explanation
Indices: 2777992--2778064 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2777982 ATAGGTAAAA
* *
2777992 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2778015 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2778038 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2778061 ATAT
1 ATAT
2778065 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2778159 original size:430 final size:430
Alignment explanation
Indices: 2777354--2779149 Score: 1777
Period size: 430 Copynumber: 4.0 Consensus size: 430
2777344 CTTTGGTTAA
*
2777354 TATTGTTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
2777419 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
2777484 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
* * *
2777549 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATAA
196 ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAA
* * *
2777614 TGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTC
261 TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
2777679 ACTGTGGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
2777744 TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
391 TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
2777784 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
2777848 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
*
2777913 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATTGACACTTTCAA
130 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2777978 TATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATA
195 TATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATA
2778043 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
260 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
2778108 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
325 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
2778173 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
390 ATAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
*** * * * * * ** ** ** * *
2778214 TATTATTAAATTAAAAACAATAAACA-TA-TATATTACATATTTATTATTATC-TTTAGTTAATA
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATA-TCAAAACAATCAAATAATT--TT
* * * * * * ** ** * * * * **
2778276 TTGT-TAAATTTAAATT-CTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
63 TTGTGCAAA-TGAAATTATTAAAT-TAATATTGT-AGGT-GGAAAAC-ATGAAA-CA-CTATTAA
** * *** ** * *
2778339 GCAAA-TGAAATTATTAAATTA-AT-A-TTGTATGTGGAAAACAT-GAAACAC-TATTA-AAAAA
121 AAAAATTGAAA-CA-TAAATTACATAACTT-TA-AAAG-AAGTATCG-ATC-CTTTTTATAAAAA
* * * * ** * * *
2778397 --ATTGAAAC-ATAAAT-TACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGA
179 GTATGGACACTTTCAATATA-AT-A-GGT-AAA-AA-TAT-GA-------TGTAATAGGTA---A
* * * *** * *
2778458 CACTT-T-CAATATAATAGGTA---AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAA
227 CGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT--TGTAA-AA
** * * * * **
2778518 GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
289 -TATC-------T-A--TCCT---T--T--TTATA----AAAGTGTCCATACTTTTT-TCACTGT
** * * * ** * * * * * * **
2778583 GTCTATAC-TT-TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGA
331 G-GAAAACATTAATTT-A---AGGTTATC--T--TTTGA-GTGA-GTTTT-A-AGA-TATTAATT
*
2778646 TATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
382 TAGTAA-TT-------ATAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
2778703 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
2778768 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
2778833 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
2778898 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
196 ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAA
* * *
2778963 TGTAATATGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTTC
261 TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
* *
2779028 ACTGTGGAAAACATTAATTTAAAGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
*
2779093 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
2779133 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
2779150 CAATAAACAT
Statistics
Matches: 1076, Mismatches: 183, Indels: 214
0.73 0.12 0.15
Matches are distributed among these distances:
428 10 0.01
429 68 0.06
430 447 0.42
431 19 0.02
432 8 0.01
433 15 0.01
434 14 0.01
435 17 0.02
436 22 0.02
437 6 0.01
438 12 0.01
439 2 0.00
440 1 0.00
441 4 0.00
442 3 0.00
443 29 0.03
445 13 0.01
446 14 0.01
447 8 0.01
448 5 0.00
449 3 0.00
450 8 0.01
451 17 0.02
454 1 0.00
455 6 0.01
457 3 0.00
459 1 0.00
460 1 0.00
462 3 0.00
464 6 0.01
465 1 0.00
468 18 0.02
469 8 0.01
470 3 0.00
471 4 0.00
472 9 0.01
473 13 0.01
474 14 0.01
476 28 0.03
477 3 0.00
478 4 0.00
479 1 0.00
480 2 0.00
481 12 0.01
482 6 0.01
483 19 0.02
484 19 0.02
485 10 0.01
486 14 0.01
487 11 0.01
488 4 0.00
489 79 0.07
490 16 0.01
491 12 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (430 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAA
TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATAT
Found at i:2778512 original size:23 final size:23
Alignment explanation
Indices: 2778481--2778553 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2778471 ATAGGTAAAA
*
2778481 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
2778504 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2778527 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2778550 ATAT
1 ATAT
2778554 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2778648 original size:919 final size:920
Alignment explanation
Indices: 2776868--2779385 Score: 4825
Period size: 919 Copynumber: 2.7 Consensus size: 920
2776858 TCTTGGTTAA
* *
2776868 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
2776932 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
*
2776997 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTGTAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2777062 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
2777127 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
2777192 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
2777257 ATAGGCGTCTAATGATTT-TTTTTTACGTTACG--ATATA-TATTATTAAATTAAAAACAATAAA
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
* *
2777318 CATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTAAAAATTCTAAATATTA
456 CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATT-TAAATTCTAAATATTA
2777383 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
520 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
2777448 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
585 AGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
2777513 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
650 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
2777578 AGCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
715 AGCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
2777643 ATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATA
780 ATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATA
*
2777708 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTT
845 TTTTGACTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTT
2777773 ACGATATATAT
910 ACGATATATAT
2777784 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
2777848 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
*
2777913 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATTGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
2777978 TATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
*
2778043 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
2778108 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
2778173 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
2778238 CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTAAATATTAT
456 CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTAAATATTAT
2778303 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
521 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
*
2778368 TGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
586 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
2778433 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
651 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
2778498 GCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTA
716 GCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTA
*
2778563 TCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
781 TCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATAT
2778628 TTTGACTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTTA
846 TTTGACTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTTA
2778693 CGATATATAT
911 CGATATATAT
2778703 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
2778768 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
2778832 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2778897 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
* *
2778962 ATGTAATATGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
* *
2779027 CACTGTGGAAAACATTAATTTAAAGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
2779092 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
2779157 CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTAAATATTAT
456 CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTAAATATTAT
2779222 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
521 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
*
2779287 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTAT
586 GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
2779352 CGATCCTTTTTATAAAAAGTATGGACACTTTCAA
651 CGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2779386 CATATTATAA
Statistics
Matches: 1575, Mismatches: 21, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
916 355 0.23
917 58 0.04
919 1032 0.66
920 130 0.08
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (920 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
CATATATATTACATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTAAATATTAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
GCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTA
TCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATAT
TTTGACTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAGTTATTTTTTACGTTA
CGATATATAT
Found at i:2778708 original size:489 final size:490
Alignment explanation
Indices: 2777784--2778719 Score: 1741
Period size: 489 Copynumber: 1.9 Consensus size: 490
2777774 CGATATATAT
2777784 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
2777849 GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
66 GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
*
2777914 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATTGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
2777979 ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAA
196 ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAAGTAGCGTTTATATAA
2778044 TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
261 TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
2778109 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGATATTAATTTAGTAATTA
*
2778174 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
391 TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
2778239 ATATATATTACATATTTATTATTATCTTTAGTTAA
456 ATATATATTACATATTTATTATTATCTTTAGTTAA
* *
2778274 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTG
*
2778338 TGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACACTATT-AAAAAAATTGA
65 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
2778402 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
130 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* *
2778467 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATA
195 TATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAAGTAGCGTTTATATA
* * *
2778532 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
260 ATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
2778597 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGATATTAATTTAGTAATT
325 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGATATTAATTTAGTAATT
2778662 ATAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
390 ATAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
2778720 TTCTAAATAT
Statistics
Matches: 433, Mismatches: 12, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
489 364 0.84
490 69 0.16
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (490 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAAGTAGCGTTTATATAA
TGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGAGTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
ATATATATTACATATTTATTATTATCTTTAGTTAA
Found at i:2778942 original size:23 final size:23
Alignment explanation
Indices: 2778911--2778983 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2778901 ATAGGTAAAA
*
2778911 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2778934 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2778957 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2778980 ATAT
1 ATAT
2778984 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2786527 original size:24 final size:22
Alignment explanation
Indices: 2786475--2786532 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
2786465 GGCATGTGAA
*
2786475 ATATGTCCCGAAGGACCTATGC
1 ATATGTCCCGAAGGACCTATCC
*
2786497 ATTTGTCCCGAAGGACCACTATCC
1 ATATGTCCCGAAGGA-C-CTATCC
*
2786521 ATATGTCTCGAA
1 ATATGTCCCGAA
2786533 AGACATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 14 0.47
23 1 0.03
24 15 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (22 bp):
ATATGTCCCGAAGGACCTATCC
Found at i:2793918 original size:191 final size:191
Alignment explanation
Indices: 2793594--2793975 Score: 764
Period size: 191 Copynumber: 2.0 Consensus size: 191
2793584 TGTAGCCGCC
2793594 ACTGGTCCAAGCCACTCATGGTCAAAAGTGAAGTACCAGCACCACCACCGTTGCCGCCATCCCCA
1 ACTGGTCCAAGCCACTCATGGTCAAAAGTGAAGTACCAGCACCACCACCGTTGCCGCCATCCCCA
2793659 CCGGCTCCACCTAAAGCACTTCCTATTTGAAAACTTAAGGGATCGTTTGTTCCTCCGAGTGGAGC
66 CCGGCTCCACCTAAAGCACTTCCTATTTGAAAACTTAAGGGATCGTTTGTTCCTCCGAGTGGAGC
2793724 CGAAATCGAACCGTAATTCAACCCCGTATCAGCTGCACTGCCACCAAATTCATTAAGATGA
131 CGAAATCGAACCGTAATTCAACCCCGTATCAGCTGCACTGCCACCAAATTCATTAAGATGA
2793785 ACTGGTCCAAGCCACTCATGGTCAAAAGTGAAGTACCAGCACCACCACCGTTGCCGCCATCCCCA
1 ACTGGTCCAAGCCACTCATGGTCAAAAGTGAAGTACCAGCACCACCACCGTTGCCGCCATCCCCA
2793850 CCGGCTCCACCTAAAGCACTTCCTATTTGAAAACTTAAGGGATCGTTTGTTCCTCCGAGTGGAGC
66 CCGGCTCCACCTAAAGCACTTCCTATTTGAAAACTTAAGGGATCGTTTGTTCCTCCGAGTGGAGC
2793915 CGAAATCGAACCGTAATTCAACCCCGTATCAGCTGCACTGCCACCAAATTCATTAAGATGA
131 CGAAATCGAACCGTAATTCAACCCCGTATCAGCTGCACTGCCACCAAATTCATTAAGATGA
2793976 TGTAAGGGAG
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 191 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.21
Consensus pattern (191 bp):
ACTGGTCCAAGCCACTCATGGTCAAAAGTGAAGTACCAGCACCACCACCGTTGCCGCCATCCCCA
CCGGCTCCACCTAAAGCACTTCCTATTTGAAAACTTAAGGGATCGTTTGTTCCTCCGAGTGGAGC
CGAAATCGAACCGTAATTCAACCCCGTATCAGCTGCACTGCCACCAAATTCATTAAGATGA
Found at i:2797240 original size:21 final size:21
Alignment explanation
Indices: 2797196--2797240 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2797186 AAATTACGTG
*
2797196 TTTAATACCTAAACTATCAGT
1 TTTAATACCTAAACTATCAAT
* * *
2797217 TTTAGTACCTAAACTTTTAAT
1 TTTAATACCTAAACTATCAAT
2797238 TTT
1 TTT
2797241 TTAAAAGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTAATACCTAAACTATCAAT
Found at i:2799773 original size:23 final size:21
Alignment explanation
Indices: 2799739--2799782 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2799729 CTTTATCGTT
*
2799739 TTATTTAGACATAATATTAAAA
1 TTATTTAAACAT-ATATTAAAA
*
2799761 TTATATTAAACATTTATTAAAA
1 TTAT-TTAAACATATATTAAAA
2799783 AATAATCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TTATTTAAACATATATTAAAA
Found at i:2800508 original size:4 final size:4
Alignment explanation
Indices: 2800499--2800545 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
2800489 TCAACTATGC
2800499 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
2800546 ACATGCATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:2805186 original size:37 final size:37
Alignment explanation
Indices: 2805112--2805186 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
2805102 TACTATAATT
* *
2805112 AATTTATATATTTTCTTTAAAAATTTTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAATTTAAAAATCATAA
*
2805149 AATTTATATAATTTTTTTTACAAAA-TTAAAAAT-ATAA
1 AATTTATAT-ATTTTCTTTA-AAAATTTAAAAATCATAA
2805186 A
1 A
2805187 TAGGTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 15 0.45
39 4 0.12
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (37 bp):
AATTTATATATTTTCTTTAAAAATTTAAAAATCATAA
Found at i:2808616 original size:55 final size:55
Alignment explanation
Indices: 2808511--2809100 Score: 852
Period size: 55 Copynumber: 10.7 Consensus size: 55
2808501 TGGTTTTATC
* * * **
2808511 CCCTATTGCTTCAGGGAGTA--AAACTCGAA-AATCTTCGTCAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* ** * * * * *
2808563 CCCCATTT-TTCCAGAGAGTACAAGACTCAAACGAT-TCTCGATAATCATGTCTGCT
1 CCCTATTTCTT-CAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCT
* *
2808618 CCCTATTTTTTCAGAGAGTATGAGACTCGAACAAT-TCTCAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCT-TCAACAATCGTGTCTGCT
*
2808673 CCCTATTTTCTTCAGAGAGAATGAGACTCGAACAATCTTCAACGAA-CGTGTCTGCT
1 CCCTA-TTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAAC-AATCGTGTCTGCT
2808729 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
2808784 CCCTACTTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAAACGTGTCTGCT
1 CCCTA-TTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
2808840 CTCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
*
2808895 CCATATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
2808950 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATTTTCAACAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
2809005 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCT
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
* *
2809060 CCCTATTTCTTCAGAGAGTATAAGACTCGATCAATCTTCAA
1 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAA
2809101 TTATCGTTGG
Statistics
Matches: 496, Mismatches: 31, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.00
52 14 0.03
54 10 0.02
55 365 0.74
56 102 0.21
57 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCT
Found at i:2810112 original size:8 final size:8
Alignment explanation
Indices: 2810099--2810162 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 8
2810089 TCTTGAACCC
2810099 TCATTTTT
1 TCATTTTT
2810107 TCATTTTTT
1 TCA-TTTTT
2810116 TCA----T
1 TCATTTTT
2810120 TCATTTTT
1 TCATTTTT
2810128 T-ATTTTT
1 TCATTTTT
2810135 T-ATTTTT
1 TCATTTTT
2810142 T-A-TTTT
1 TCATTTTT
2810148 TCATTTTT
1 TCATTTTT
2810156 TCATTTT
1 TCATTTT
2810163 CACTCATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.08
6 5 0.10
7 16 0.33
8 16 0.33
9 8 0.16
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (8 bp):
TCATTTTT
Found at i:2810123 original size:21 final size:21
Alignment explanation
Indices: 2810099--2810160 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
2810089 TCTTGAACCC
2810099 TCATTTTTTCATTTTTTTCAT
1 TCATTTTTTCATTTTTTTCAT
**
2810120 TCATTTTTT-ATTTTTTATTTT
1 TCATTTTTTCATTTTTT-TCAT
*
2810141 TTA-TTTTTCA-TTTTTTCAT
1 TCATTTTTTCATTTTTTTCAT
2810160 T
1 T
2810161 TTCACTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 14 0.41
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (21 bp):
TCATTTTTTCATTTTTTTCAT
Found at i:2810132 original size:7 final size:7
Alignment explanation
Indices: 2810122--2810162 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
2810112 TTTTTCATTC
2810122 ATTTTTT
1 ATTTTTT
2810129 ATTTTTT
1 ATTTTTT
2810136 ATTTTTT
1 ATTTTTT
*
2810143 ATTTTTC
1 ATTTTTT
2810150 ATTTTTT
1 ATTTTTT
2810157 CATTTT
1 -ATTTT
2810163 CACTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:2810132 original size:28 final size:29
Alignment explanation
Indices: 2810099--2810162 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
2810089 TCTTGAACCC
2810099 TCATTTTTTCATTTTTT-TCATTCATTTTT
1 TCATTTTTT-ATTTTTTATCATTCATTTTT
**
2810128 T-ATTTTTTATTTTTTATTTTTCATTTTT
1 TCATTTTTTATTTTTTATCATTCATTTTT
2810156 TCATTTT
1 TCATTTT
2810163 CACTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 18 0.58
29 6 0.19
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (29 bp):
TCATTTTTTATTTTTTATCATTCATTTTT
Found at i:2810164 original size:14 final size:14
Alignment explanation
Indices: 2810103--2810162 Score: 77
Period size: 14 Copynumber: 4.3 Consensus size: 14
2810093 GAACCCTCAT
2810103 TTTTTCATTTTTT-
1 TTTTTCATTTTTTA
**
2810116 TCATTCATTTTTTA
1 TTTTTCATTTTTTA
*
2810130 TTTTTTATTTTTTA
1 TTTTTCATTTTTTA
2810144 TTTTTCATTTTTTCA
1 TTTTTCATTTTTT-A
2810159 TTTT
1 TTTT
2810163 CACTCATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 11 0.28
14 23 0.59
15 5 0.13
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCATTTTTTA
Found at i:2813684 original size:8 final size:8
Alignment explanation
Indices: 2813671--2813698 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2813661 GGAAAAGAAG
2813671 ATATATAC
1 ATATATAC
2813679 ATATATAC
1 ATATATAC
2813687 ATATATAC
1 ATATATAC
2813695 ATAT
1 ATAT
2813699 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:2824203 original size:2 final size:2
Alignment explanation
Indices: 2824196--2824220 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2824186 TGGTATTTAT
2824196 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2824221 TATTTTTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2824285 original size:21 final size:21
Alignment explanation
Indices: 2824261--2824304 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2824251 TGTTTAATAA
*
2824261 AATTTATATATAAACATTATT
1 AATTGATATATAAACATTATT
* **
2824282 AATTGATCTATAATTATTATT
1 AATTGATATATAAACATTATT
2824303 AA
1 AA
2824305 GTTTTGAAAA
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:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTGATATATAAACATTATT
Found at i:2825727 original size:31 final size:31
Alignment explanation
Indices: 2825690--2825762 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
2825680 TTTAATATCC
* *
2825690 AAGTGACCAAAATTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAATGATAACAT
*
2825721 ATGTGACCAAAACTTAATAAAATGATAACAT
1 AAGTGACCAAAACTTAATAAAATGATAACAT
2825752 AAGTGACCAAA
1 AAGTGACCAAA
2825763 TGTATACAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAATGATAACAT
Found at i:2825960 original size:31 final size:31
Alignment explanation
Indices: 2825897--2825973 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
2825887 GTTAATGTTC
* *
2825897 AGTGACCACATCTTAATTAAAACGAAACAAA
1 AGTGACCAAATCTTAATTAAAACAAAACAAA
* *
2825928 AGTGACCAAAT-TATAATTAAAATAAAATAAA
1 AGTGACCAAATCT-TAATTAAAACAAAACAAA
2825959 AGT-AGCCAAATCTTA
1 AGTGA-CCAAATCTTA
2825974 TGTTTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.05
31 36 0.92
32 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACAAAACAAA
Found at i:2829178 original size:16 final size:17
Alignment explanation
Indices: 2829148--2829181 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2829138 TAATTTAGGA
2829148 TTTTTCTTTGAAAATGT
1 TTTTTCTTTGAAAATGT
*
2829165 TTTTTTTTTG-AAATGT
1 TTTTTCTTTGAAAATGT
2829181 T
1 T
2829182 GAGAGTCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (17 bp):
TTTTTCTTTGAAAATGT
Found at i:2830972 original size:26 final size:27
Alignment explanation
Indices: 2830930--2830981 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
2830920 TGGTATTGCT
*
2830930 TTCTAAAAATGAGGGAAGAATAAAATA
1 TTCTAAAAAAGAGGGAAGAATAAAATA
*
2830957 TTCTAAAAAAGA-GGAATAATAAAAT
1 TTCTAAAAAAGAGGGAAGAATAAAAT
2830982 CATCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (27 bp):
TTCTAAAAAAGAGGGAAGAATAAAATA
Found at i:2835155 original size:2 final size:2
Alignment explanation
Indices: 2835148--2835173 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2835138 GCCAATTGAT
2835148 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2835174 GCTTAAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2835390 original size:17 final size:17
Alignment explanation
Indices: 2835365--2835402 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2835355 CAAACAAATT
*
2835365 CAAAGTCAAACAATCCA
1 CAAATTCAAACAATCCA
*
2835382 CAAATTCAAACATTCCA
1 CAAATTCAAACAATCCA
2835399 -AAAT
1 CAAAT
2835403 ATCCAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (17 bp):
CAAATTCAAACAATCCA
Found at i:2837312 original size:23 final size:23
Alignment explanation
Indices: 2837282--2837333 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2837272 CCAGAACCCC
2837282 AGGGGGAATCA-GTTCCCCTTCAA
1 AGGGGGAAT-AGGTTCCCCTTCAA
2837305 AGGGGGAATAGGTTCCCCTTCAA
1 AGGGGGAATAGGTTCCCCTTCAA
*
2837328 TGGGGG
1 AGGGGG
2837334 TATCGATTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (23 bp):
AGGGGGAATAGGTTCCCCTTCAA
Found at i:2837345 original size:22 final size:23
Alignment explanation
Indices: 2837282--2837344 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
2837272 CCAGAACCCC
2837282 AGGGGGAATCAG-TTCCCCTTCAA
1 AGGGGGAAT-AGATTCCCCTTCAA
*
2837305 AGGGGGAATAGGTTCCCCTTCAA
1 AGGGGGAATAGATTCCCCTTCAA
* * *
2837328 TGGGGGTATCGATTCCC
1 AGGGGGAATAGATTCCC
2837345 TCTGCACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.06
23 33 0.94
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (23 bp):
AGGGGGAATAGATTCCCCTTCAA
Found at i:2843493 original size:23 final size:23
Alignment explanation
Indices: 2843460--2843527 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
2843450 CATCTTATAT
* *
2843460 GGCACTTCGGTGCATTTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
2843483 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
2843506 GGCACTTCGATGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
2843528 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2850249 original size:45 final size:45
Alignment explanation
Indices: 2850183--2850297 Score: 194
Period size: 45 Copynumber: 2.5 Consensus size: 45
2850173 CTTCTGTACA
2850183 CAAAAGAGATAAGCCTACCTTGCAACCCTCATACAGTCATATGCACG
1 CAAAAGAG--AAGCCTACCTTGCAACCCTCATACAGTCATATGCACG
2850230 CAAAAGAGAAGCCTACCTTGCAACCCTCATACAGTCATATGCACG
1 CAAAAGAGAAGCCTACCTTGCAACCCTCATACAGTCATATGCACG
* *
2850275 CAAAAGAGAACCCTACCCTGCAA
1 CAAAAGAGAAGCCTACCTTGCAA
2850298 ATGAACATGG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 58 0.88
47 8 0.12
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (45 bp):
CAAAAGAGAAGCCTACCTTGCAACCCTCATACAGTCATATGCACG
Found at i:2854753 original size:17 final size:18
Alignment explanation
Indices: 2854731--2854765 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2854721 ATCTATAAAA
2854731 TATTTA-ATTTTTTATTT
1 TATTTAGATTTTTTATTT
2854748 TATTTATGATTTTTTATT
1 TATTTA-GATTTTTTATT
2854766 AAGATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTAGATTTTTTATTT
Found at i:2854869 original size:179 final size:186
Alignment explanation
Indices: 2854561--2854931 Score: 657
Period size: 179 Copynumber: 2.0 Consensus size: 186
2854551 TCTATTCATA
*
2854561 TATTTATGATTTTTTATTAAGATTATTTAATCTAATATTTTCATGTTATTAATTGTGTTTGCTTT
1 TATTTATGATTTTTTATTAAGATTATTTAA-CTAATATTTTCATGTTATTAATTCTGTTTGCTTT
2854626 ATTATTAATTTATATACATTAATTTTACGATGAAATTCTATCGAGAAATTGAATATCATGCGACT
65 ATTATTAATTTATATACATTAATTTTACGATGAAATTCTATCGAGAAATTGAATATCATGCGACT
2854691 TATATGAATCACCATAGATTCAAATTATGAATCTATAAAATATTTAATTTTTTATTT
130 TATATGAATCACCATAGATTCAAATTATGAATCTATAAAATATTTAATTTTTTATTT
*
2854748 TATTTATGATTTTTTATTAAGATTATTTAA-TAATATTTTGATGTTATTAATTCTGTTTGCTTT-
1 TATTTATGATTTTTTATTAAGATTATTTAACTAATATTTTCATGTTATTAATTCTGTTTGCTTTA
*
2854811 TT-TT-CTTT-T-T-CATTAATTTTACGATGAAATTCTATCGAGAAATTGAATATCATGCGACTT
66 TTATTAATTTATATACATTAATTTTACGATGAAATTCTATCGAGAAATTGAATATCATGCGACTT
2854871 ATATGAATCACCATAGATTCAAATTATGAATCTATAAAATATTTAATTTTTTATTT
131 ATATGAATCACCATAGATTCAAATTATGAATCTATAAAATATTTAATTTTTTATTT
2854927 TATTT
1 TATTT
2854932 TCATCACGAA
Statistics
Matches: 181, Mismatches: 3, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
179 111 0.61
180 1 0.01
181 1 0.01
182 3 0.02
183 2 0.01
184 2 0.01
185 31 0.17
187 30 0.17
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (186 bp):
TATTTATGATTTTTTATTAAGATTATTTAACTAATATTTTCATGTTATTAATTCTGTTTGCTTTA
TTATTAATTTATATACATTAATTTTACGATGAAATTCTATCGAGAAATTGAATATCATGCGACTT
ATATGAATCACCATAGATTCAAATTATGAATCTATAAAATATTTAATTTTTTATTT
Found at i:2856427 original size:41 final size:41
Alignment explanation
Indices: 2856394--2856919 Score: 190
Period size: 41 Copynumber: 12.8 Consensus size: 41
2856384 AAAAATGGGT
* * *
2856394 TTTTAGTGGCATTTTTTAAACAAACGCCGCTAAATACTCATA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAA-AATCGTA
* * * *
2856436 ATTTAGTGGCGTTTTTATATA-AAA-GCCGCTAAATATTGTA
1 TTTTAGTGGCATTTTT-TATACAAACGCCGCTAAAAATCGTA
* *
2856476 TTTTAGTGGCA-TTTTTATACAAACGCCGCTAAAGATTTGTA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAA-AATCGTA
* * * * * *
2856517 CTTTAGTGGCGTTTTGGTAT--AAGCGCCGCTAAAGATTCATA
1 TTTTAGTGGCATTTT-TTATACAAACGCCGCTAAA-AATCGTA
* * ** * * * *
2856558 CTTTAGTGGCATTTTATGCACAAATGCCGATAAATACTCATA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAA-AATCGTA
* * * * * *
2856600 CTTTAGTGGC-GTTTTTATATAAACGACGCTAAAGACTGGTA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAA-AATCGTA
* * * *
2856641 CTTTAGTGGCA-TTTTTGTACAAACACCGCTAAAAACTCATA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAAAA-TCGTA
* * * * * *
2856682 CTTTGGTGG-AGTTTGTGCT-TA-AAACACCGCTAAAGACTCATA
1 TTTTAGTGGCA-TTT-T-TTATACAAACGCCGCTAAA-AATCGTA
* * * *
2856724 CTTTT-GTGGTATTTGTTCT-TA-AAACGCTGCTAAATATTGTA
1 -TTTTAGTGGCATTT-TT-TATACAAACGCCGCTAAAAATCGTA
* *
2856765 CTTTAGTGGC---TTTTATACAAACACCGCTAAAAATCCGTA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAAAAT-CGTA
* * * * *
2856804 CTTTAGTGGGA-TTTTAATATAAACGCCGCTAAAGAATTGTA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAA-AATCGTA
*** * * * * *
2856845 CAATAGTGGC-GTTTTTATCCAAACTCCGCTAAAAGCTCATA
1 TTTTAGTGGCATTTTTTATACAAACGCCGCTAAAA-ATCGTA
* * * *
2856886 CTGTAGTGGC-GTTTTAATCACAAACGCCGCTAAA
1 TTTTAGTGGCATTTTTTAT-ACAAACGCCGCTAAA
2856920 TATTTAGTCT
Statistics
Matches: 375, Mismatches: 81, Indels: 56
0.73 0.16 0.11
Matches are distributed among these distances:
36 1 0.00
37 4 0.01
38 18 0.05
39 19 0.05
40 28 0.07
41 185 0.49
42 105 0.28
43 14 0.04
44 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTTAGTGGCATTTTTTATACAAACGCCGCTAAAAATCGTA
Found at i:2856612 original size:83 final size:82
Alignment explanation
Indices: 2856395--2856921 Score: 383
Period size: 83 Copynumber: 6.4 Consensus size: 82
2856385 AAAATGGGTT
* * * * *
2856395 TTTAGTGGCATTTTTTAAACAAACGCCGCTAAATACTCATAATTTAGTGGCGTTTTTATATAAAA
1 TTTAGTGGCATTTTAT-GACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAAC
* ** *
2856460 GCCGCTAAATA-TTGTAT
65 GCCGCTAAAGACTCATAC
* * ** * *
2856477 TTTAGTGGCATTTTTAT-ACAAACGCCGCTAAAGATTTGTACTTTAGTGGCGTTTTGGTATAAGC
1 TTTAGTGGCA-TTTTATGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAAC
*
2856541 GCCGCTAAAGATTCATAC
65 GCCGCTAAAGACTCATAC
* * *
2856559 TTTAGTGGCATTTTATGCACAAATGCCGATAAATACTCATACTTTAGTGGCGTTTTTATATAAAC
1 TTTAGTGGCATTTTATG-ACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAAC
* **
2856624 GACGCTAAAGACTGGTAC
65 GCCGCTAAAGACTCATAC
* * * * *
2856642 TTTAGTGGCATTTT-TGTACAAACACCGCTAAAAACTCATACTTTGGTGGAGTTTGTGCT-TAAA
1 TTTAGTGGCATTTTATG-ACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTT-TGATAT-AA
*
2856705 ACACCGCTAAAGACTCATAC
63 ACGCCGCTAAAGACTCATAC
* * * * * ** *
2856725 TTTTGTGGTATTTGTTCTTA-AAACGCTGCTAAATA-TTGTACTTTAGTGGC-TTTT-ATACAAA
1 TTTAGTGGCA-TT-TTATGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAA
* * *
2856786 CACCGCTAAA-AATCCGTAC
64 CGCCGCTAAAGACT-CATAC
* * * * ** ** * **
2856805 TTTAGTGGGATTTTAAT-ATAAACGCCGCTAAAGAATTGTACAATAGTGGCGTTTTTATCCAAAC
1 TTTAGTGGCATTTT-ATGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAAC
*
2856869 TCCGCTAAA-AGCTCATAC
65 GCCGCTAAAGA-CTCATAC
* * *
2856887 TGTAGTGGCGTTTTAATCACAAACGCCGCTAAATA
1 TTTAGTGGCATTTT-ATGACAAACGCCGCTAAATA
2856922 TTTAGTCTTC
Statistics
Matches: 357, Mismatches: 70, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
78 3 0.01
79 18 0.05
80 39 0.11
81 59 0.17
82 94 0.26
83 126 0.35
84 14 0.04
85 3 0.01
86 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (82 bp):
TTTAGTGGCATTTTATGACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTTGATATAAACG
CCGCTAAAGACTCATAC
Found at i:2856714 original size:42 final size:42
Alignment explanation
Indices: 2856661--2856757 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
2856651 ATTTTTGTAC
2856661 AAACACCGCTAAAAACTCATACTTTGGTGG-AGTTTGTGCTTA
1 AAACACCGCTAAAAACTCATACTTTGGTGGTA-TTTGTGCTTA
* * *
2856703 AAACACCGCTAAAGACTCATACTTTTGTGGTATTTGTTCTTA
1 AAACACCGCTAAAAACTCATACTTTGGTGGTATTTGTGCTTA
* *
2856745 AAACGCTGCTAAA
1 AAACACCGCTAAA
2856758 TATTGTACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (42 bp):
AAACACCGCTAAAAACTCATACTTTGGTGGTATTTGTGCTTA
Found at i:2856721 original size:124 final size:120
Alignment explanation
Indices: 2856395--2856812 Score: 362
Period size: 124 Copynumber: 3.4 Consensus size: 120
2856385 AAAATGGGTT
* * * * **
2856395 TTTAGTGGCATTTTT-TAAACAAACGCCGCTAAATACTCATAATTTAGTGGCGTTTTTATATAAA
1 TTTAGTGGCATTTTTGT--ACAAACACCGCTAAAAACTCATACTTTAGTGGAGTTTTGCT-TAAA
** * *
2856459 AGCCGCTAAATA-TTGTATTTTAGTGGCATTTTTATACAAACGCCGCTAAAGATTTGTAC
63 AGCCGCTAAATACTCATACTTTAGTGGCATTTTTATATAAACG-CGCTAAAGA-TTGTAC
* * * * * * * * ** *
2856518 TTTAGTGGCGTTTTGGTATAAGCGCCGCTAAAGATTCATACTTTAGTGGCATTTTATGCACAAAT
1 TTTAGTGGCATTTTTGTACAAACACCGCTAAAAACTCATACTTTAGTGG-AGTTT-TGCTTAAAA
* * *
2856583 GCCGATAAATACTCATACTTTAGTGGCGTTTTTATATAAACGACGCTAAAGACTGGTAC
64 GCCGCTAAATACTCATACTTTAGTGGCATTTTTATATAAACG-CGCTAAAGA-TTGTAC
*
2856642 TTTAGTGGCATTTTTGTACAAACACCGCTAAAAACTCATACTTTGGTGGAGTTTGTGCTTAAAAC
1 TTTAGTGGCATTTTTGTACAAACACCGCTAAAAACTCATACTTTAGTGGAGTTT-TGCTTAAAA-
* * * * * *
2856707 ACCGCTAAAGACTCATACTTTTGTGGTATTTGTTCT-TAAAACGCTGCTAAATATTGTAC
64 GCCGCTAAATACTCATACTTTAGTGGCATTT-TTATAT-AAACGC-GCTAAAGATTGTAC
* *
2856766 TTTAGTGGC--TTTTATACAAACACCGCTAAAAA-TCCGTACTTTAGTGG
1 TTTAGTGGCATTTTTGTACAAACACCGCTAAAAACT-CATACTTTAGTGG
2856813 GATTTTAATA
Statistics
Matches: 238, Mismatches: 48, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
121 1 0.00
122 60 0.25
123 39 0.16
124 123 0.52
125 15 0.06
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (120 bp):
TTTAGTGGCATTTTTGTACAAACACCGCTAAAAACTCATACTTTAGTGGAGTTTTGCTTAAAAGC
CGCTAAATACTCATACTTTAGTGGCATTTTTATATAAACGCGCTAAAGATTGTAC
Found at i:2861386 original size:43 final size:43
Alignment explanation
Indices: 2861186--2861398 Score: 215
Period size: 43 Copynumber: 5.0 Consensus size: 43
2861176 ATCATGAGCC
*
2861186 CTTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGA--TATAAT
1 CTTTTGCGGCGTTTGT-TCAAAAAATGCCGCTATAGACCT-TGAT
* *
2861229 CTTTTGCGGCGTTTGTGACAAAAAATGCCGCTATAGATC-TGA-
1 CTTTTGCGGCGTTTGT-TCAAAAAATGCCGCTATAGACCTTGAT
** * * *
2861271 CATTTTGCGGCGTTTGTTCAAAAAATGTTGCTATAGATC-TAAC
1 C-TTTTGCGGCGTTTGTTCAAAAAATGCCGCTATAGACCTTGAT
* *
2861314 CTTTTGCGGCGTTTGTTCTAAAAACGCCG-TGATAGACCTTGAT
1 CTTTTGCGGCGTTTGTTCAAAAAATGCCGCT-ATAGACCTTGAT
* *
2861357 CTATTGCGGCGTTTGTTCCAAAAATGCCG-TGATAGACCTTGA
1 CTTTTGCGGCGTTTGTTCAAAAAATGCCGCT-ATAGACCTTGA
2861399 CCTGTGGCAT
Statistics
Matches: 147, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 52 0.35
43 94 0.64
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (43 bp):
CTTTTGCGGCGTTTGTTCAAAAAATGCCGCTATAGACCTTGAT
Found at i:2861392 original size:85 final size:85
Alignment explanation
Indices: 2861189--2861385 Score: 247
Period size: 85 Copynumber: 2.3 Consensus size: 85
2861179 ATGAGCCCTT
*
2861189 TTGCGGCGTTTGTATCAAAAAATGCCGCTATAGATATAATCTTTTGCGGCGTTTGTGACAAAAAA
1 TTGCGGCGTTTGT-TCAAAAAATGCCGCTATAGATATAACCTTTTGCGGCGTTTGTGACAAAAAA
* * *
2861254 TGCCGCTATAGATCTGACATT
65 CGCCGCTATAGACCTGACATA
** * * *
2861275 TTGCGGCGTTTGTTCAAAAAATGTTGCTATAGATCTAACCTTTTGCGGCGTTTGT-TCTAAAAAC
1 TTGCGGCGTTTGTTCAAAAAATGCCGCTATAGATATAACCTTTTGCGGCGTTTGTGACAAAAAAC
2861339 GCCG-TGATAGACCTTGATC-TA
66 GCCGCT-ATAGACC-TGA-CATA
*
2861360 TTGCGGCGTTTGTTCCAAAAATGCCG
1 TTGCGGCGTTTGTTCAAAAAATGCCG
2861386 TGATAGACCT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
83 1 0.01
84 16 0.17
85 65 0.68
86 14 0.15
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (85 bp):
TTGCGGCGTTTGTTCAAAAAATGCCGCTATAGATATAACCTTTTGCGGCGTTTGTGACAAAAAAC
GCCGCTATAGACCTGACATA
Found at i:2862694 original size:10 final size:10
Alignment explanation
Indices: 2862675--2862704 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2862665 GGTTCAATCG
*
2862675 CGGTTAAACC
1 CGGTTGAACC
2862685 CGGTTGAACC
1 CGGTTGAACC
2862695 CGGTTGAACC
1 CGGTTGAACC
2862705 AGTGAACCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (10 bp):
CGGTTGAACC
Found at i:2863303 original size:14 final size:14
Alignment explanation
Indices: 2863286--2863314 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2863276 CCAACAAACC
2863286 ATAACAAACTAATA
1 ATAACAAACTAATA
2863300 ATAACAAACTAATA
1 ATAACAAACTAATA
2863314 A
1 A
2863315 CAAGCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAACAAACTAATA
Found at i:2863376 original size:11 final size:11
Alignment explanation
Indices: 2863298--2863370 Score: 112
Period size: 11 Copynumber: 6.7 Consensus size: 11
2863288 AACAAACTAA
2863298 TAATAACAAAC
1 TAATAACAAAC
*
2863309 TAATAACAAGC
1 TAATAACAAAC
*
2863320 TAATAACAAGC
1 TAATAACAAAC
2863331 TAATAACAAAC
1 TAATAACAAAC
*
2863342 -CATAACAAAC
1 TAATAACAAAC
2863352 TAATAACAAAC
1 TAATAACAAAC
2863363 TAATAACA
1 TAATAACA
2863371 CTCTAACATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
10 9 0.16
11 48 0.84
ACGTcount: A:0.60, C:0.19, G:0.03, T:0.18
Consensus pattern (11 bp):
TAATAACAAAC
Found at i:2865158 original size:11 final size:11
Alignment explanation
Indices: 2865142--2865190 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
2865132 CCAACAAACC
2865142 ATAACAAACTA
1 ATAACAAACTA
*
2865153 ATAACAAGCTA
1 ATAACAAACTA
*
2865164 ATAACAAAC-C
1 ATAACAAACTA
2865174 ATAACAAACTA
1 ATAACAAACTA
2865185 ATAACA
1 ATAACA
2865191 CTCTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.16
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:2865177 original size:21 final size:22
Alignment explanation
Indices: 2865134--2865190 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
2865124 CCAAGTAACC
*
2865134 AACAAAC-CATAACAAACTAAT
1 AACAAACTAATAACAAACTAAT
* *
2865155 AACAAGCTAATAACAAAC-CAT
1 AACAAACTAATAACAAACTAAT
2865176 AACAAACTAATAACA
1 AACAAACTAATAACA
2865191 CTCTAACAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.61, C:0.23, G:0.02, T:0.14
Consensus pattern (22 bp):
AACAAACTAATAACAAACTAAT
Found at i:2867208 original size:24 final size:25
Alignment explanation
Indices: 2867163--2867210 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2867153 TACACTTTTA
*
2867163 TACAACACTTTTAAAAATTCATTTC
1 TACAACACTTTTAAAAAGTCATTTC
*
2867188 TACATCACTTTT-AAAAGTCATTT
1 TACAACACTTTTAAAAAGTCATTT
2867211 TTCAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (25 bp):
TACAACACTTTTAAAAAGTCATTTC
Found at i:2869217 original size:35 final size:36
Alignment explanation
Indices: 2869171--2869258 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
2869161 CTGTTAAAAG
*
2869171 TTTCAAAGTTTGG-CAA-CCAACTTTGAAAAATGTTT
1 TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATG-TT
****
2869206 TTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATGTT
2869242 TTTCAAAGTTTGGTAAA
1 TTTCAAAGTTTGGTAAA
2869259 ATTTTGGTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 13 0.28
36 21 0.46
37 12 0.26
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTCAAAGTTTGGTAAATCCAACTTTGAAAAATGTT
Found at i:2878622 original size:52 final size:52
Alignment explanation
Indices: 2878560--2878662 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
2878550 AAATTGGACA
2878560 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
2878612 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
2878663 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:2883221 original size:52 final size:52
Alignment explanation
Indices: 2883159--2883261 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
2883149 AAATTGGACA
2883159 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
2883211 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
2883262 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:2883535 original size:2 final size:2
Alignment explanation
Indices: 2883524--2883563 Score: 62
Period size: 2 Copynumber: 19.0 Consensus size: 2
2883514 TTTATAACCC
2883524 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
2883564 CTAATAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2889353 original size:49 final size:49
Alignment explanation
Indices: 2889281--2889379 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
2889271 CACTTGTGCA
*
2889281 TTTTGGTGATCGAAAGATTTGGGTTATATAGACAAGATAACCCCTGCTT
1 TTTTGGTGATAGAAAGATTTGGGTTATATAGACAAGATAACCCCTGCTT
2889330 TTTTGGTGATAGAAAGATTTGGGTTATATAGACAAGATAACCCCTGCTT
1 TTTTGGTGATAGAAAGATTTGGGTTATATAGACAAGATAACCCCTGCTT
2889379 T
1 T
2889380 GCCTCTAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (49 bp):
TTTTGGTGATAGAAAGATTTGGGTTATATAGACAAGATAACCCCTGCTT
Found at i:2894390 original size:21 final size:21
Alignment explanation
Indices: 2894366--2894439 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
2894356 GTTTCCAGAT
2894366 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
2894387 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
2894408 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
* *
2894429 TCACATTGCGA
1 TCGCAATGCGA
2894440 TTTACATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:2895079 original size:6 final size:6
Alignment explanation
Indices: 2895068--2895098 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2895058 TCGTCTCGTC
2895068 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
2895099 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:2895249 original size:42 final size:42
Alignment explanation
Indices: 2895187--2895281 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
2895177 TGCGATTTTG
*
2895187 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
2895229 GACTATCGCAACGAACTTGGAATAAATCGCAACGTGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
2895271 GACTATCGCAA
1 GACTATCGCAA
2895282 TGCGAATATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:2895278 original size:21 final size:19
Alignment explanation
Indices: 2895184--2895281 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 19
2895174 CGTTGCGATT
*
2895184 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
2895203 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
2895226 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
2895245 TTGGAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAAC--GAAC
2895268 TTGGACTATCGCAA
1 TTGGACTATCGCAA
2895282 TGCGAATATG
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
19 16 0.25
21 29 0.45
23 19 0.30
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:2904622 original size:31 final size:31
Alignment explanation
Indices: 2904574--2904646 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
2904564 AAAAAACAGA
*
2904574 TTTGGTCACTTAAGTTATCGTTTTATTAAGT
1 TTTGATCACTTAAGTTATCGTTTTATTAAGT
*
2904605 TTTGATCACTTACGTTATCGTTTTATTAAGT
1 TTTGATCACTTAAGTTATCGTTTTATTAAGT
2904636 TTT-AGTCACTT
1 TTTGA-TCACTT
2904647 GGACGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (31 bp):
TTTGATCACTTAAGTTATCGTTTTATTAAGT
Found at i:2916267 original size:182 final size:181
Alignment explanation
Indices: 2915956--2916410 Score: 748
Period size: 182 Copynumber: 2.5 Consensus size: 181
2915946 ACTTTTTTAC
2915956 TACCGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGAT
1 TACCGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGAT
* * *
2916021 ACATTTTTATAAAGTATCAACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGT
66 ACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGT
* * *
2916086 GTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTT
131 GTCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGCGCTT
* * * * *
2916137 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACC-GTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGA
*
2916202 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAG
65 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
2916267 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGCGCTT
130 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGCGCTT
** * *
2916319 TACCTGTTTTGTCATTTATAGATCGATTTTGTCATTTTTTTACTTGTTATATTGTTATAGATCGA
1 TACC-GTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGA
2916384 TACATTTTTATAAAGTATCGACACTTT
65 TACATTTTTATAAAGTATCGACACTTT
2916411 CAATATATCT
Statistics
Matches: 252, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
181 4 0.02
182 248 0.98
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TACCGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATAGATCGAT
ACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGT
GTCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGCGCTT
Found at i:2916520 original size:113 final size:112
Alignment explanation
Indices: 2916281--2916742 Score: 678
Period size: 112 Copynumber: 4.1 Consensus size: 112
2916271 GATACTTATA
* * * *
2916281 ATAAAGTATCGACACTATCAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGATC-GA
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAG-
* *
2916345 TTTTGTCATTTTTTTACTTGTTATATTGTTATAGATCGATACATTTTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATAGATCAATACATTTTT
* *
2916393 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCAGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
* *
2916458 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATAGATCAATACATTTTT
* * * * *
2916506 ATAAAGTATCGACACTTTCAATATATCCGATAGCGTTTTACATGCTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
* * *
2916571 TTTGTTA-TTTTTTACCCGTTATATTGTTAT-GAATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAG-ATCAATACATTTTT
*
2916617 ATAAAGTATTGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
* * *
2916682 TTTATTATTTTTTTACCTGTTATATTGTTATAGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCAATACATTTTT
2916729 ATAAAGTATCGACA
1 ATAAAGTATCGACA
2916743 TAAACCGACA
Statistics
Matches: 317, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
110 1 0.00
111 99 0.31
112 113 0.36
113 104 0.33
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCAATACATTTTT
Found at i:2917423 original size:13 final size:13
Alignment explanation
Indices: 2917405--2917429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2917395 AGATAATAAA
2917405 AAAATTAAAATAT
1 AAAATTAAAATAT
2917418 AAAATTAAAATA
1 AAAATTAAAATA
2917430 ATGACAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAATAT
Found at i:2931735 original size:259 final size:258
Alignment explanation
Indices: 2931276--2931794 Score: 959
Period size: 259 Copynumber: 2.0 Consensus size: 258
2931266 CTTATAACTA
2931276 TTAATATATGATTCATTAATTCAATTAATTTAAATTCAAGTATTATAGAGAAATGTTAAAATAGA
1 TTAATATATGATTCATTAATTCAATTAATTTAAATTCAAGTATTATAGAGAAATGTTAAAATAGA
*
2931341 GATCTTTATAACTCAATTTGTATAATTTATAATGTTAATATCATTAATATATAAATATTTAAATA
66 GACCTTTATAACTCAATTTGTATAATTTATAATGTTAATATCATTAATATATAAATATTTAAATA
2931406 AATTTTAGGTAAACATAGTTTTTCGTACCCAACTTTGGAATTTATTTGCAATGTGGTATTCTACT
131 AATTTTAGGTAAACATAGTTTTTCGTACCCAACTTTGGAATTTATTTGCAATGTGGTATTCTACT
2931471 TTTATTTTTTTACAATTATATATCTAATATTTTTTTTATTATCGCAAATAAGTGCCTAATT-TTT
196 TTTA-TTTTTTACAATTATATATCTAATA-TTTTTTTATTATCGCAAATAAGTGCCTAATTCTTT
*
2931535 TTAATATATGATTCATTAATTCAATTAATTTAAATTCAAGTATTATAGAGAAATGTTATAATAGA
1 TTAATATATGATTCATTAATTCAATTAATTTAAATTCAAGTATTATAGAGAAATGTTAAAATAGA
* * *
2931600 GACCTTTTTAACTCAATTTGTATCATTTATAATGTTAATATTATTAATATATAAATATTTAAATA
66 GACCTTTATAACTCAATTTGTATAATTTATAATGTTAATATCATTAATATATAAATATTTAAATA
*
2931665 AATTTTAGGTAAACATAGTTTTTCGTACCCAACTTTGGAATTTATTTGCGATGTGGTATTCTACT
131 AATTTTAGGTAAACATAGTTTTTCGTACCCAACTTTGGAATTTATTTGCAATGTGGTATTCTACT
2931730 TTTATTTTTTACAATTATATATCTAATATTTTTTTATTATCGCAAATAAGTGCCTAATTCTTT
196 TTTATTTTTTACAATTATATATCTAATATTTTTTTATTATCGCAAATAAGTGCCTAATTCTTT
2931793 TT
1 TT
2931795 CTTAAGATTC
Statistics
Matches: 253, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
257 31 0.12
258 29 0.11
259 193 0.76
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (258 bp):
TTAATATATGATTCATTAATTCAATTAATTTAAATTCAAGTATTATAGAGAAATGTTAAAATAGA
GACCTTTATAACTCAATTTGTATAATTTATAATGTTAATATCATTAATATATAAATATTTAAATA
AATTTTAGGTAAACATAGTTTTTCGTACCCAACTTTGGAATTTATTTGCAATGTGGTATTCTACT
TTTATTTTTTACAATTATATATCTAATATTTTTTTATTATCGCAAATAAGTGCCTAATTCTTT
Found at i:2933040 original size:48 final size:48
Alignment explanation
Indices: 2932947--2933049 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 48
2932937 TTAAGTGTTC
* *
2932947 AAATATAACATTTAAAACATATATTTATTAAGCAATTGAAAATTACGT
1 AAATATAACATTTAAAACATATATTTATTAAACAATTGAAAATTACAT
* * *
2932995 AAATATATCATTTTAAACATATATTTATTAAACAATT-AAGGATTACAT
1 AAATATAACATTTAAAACATATATTTATTAAACAATTGAA-AATTACAT
*
2933043 TAATATA
1 AAATATA
2933050 CGCACACCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (48 bp):
AAATATAACATTTAAAACATATATTTATTAAACAATTGAAAATTACAT
Found at i:2933345 original size:22 final size:21
Alignment explanation
Indices: 2933316--2933357 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2933306 TGATCAAATG
2933316 ATATTATTTTAGT-ATTTTTAT
1 ATATTATTTT-GTGATTTTTAT
2933337 ATATATATTTTGTGATTTTTA
1 ATAT-TATTTTGTGATTTTTA
2933358 GATAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTGTGATTTTTAT
Found at i:2939307 original size:22 final size:24
Alignment explanation
Indices: 2939270--2939313 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2939260 AAATACAAAC
*
2939270 AATGGCGGATCTAAAA-GTTAAAA
1 AATGGCGGATCCAAAATGTTAAAA
2939293 AATGG-GGATCCAAAATGTTAA
1 AATGGCGGATCCAAAATGTTAA
2939314 TATTCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (24 bp):
AATGGCGGATCCAAAATGTTAAAA
Found at i:2944299 original size:2 final size:2
Alignment explanation
Indices: 2944292--2944342 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2944282 GGAAATAATA
2944292 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
2944334 AT AT AT AT A
1 AT AT AT AT A
2944343 ATTAGGGGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2945438 original size:23 final size:23
Alignment explanation
Indices: 2945407--2945472 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
2945397 TCTTATATGG
*
2945407 CACTTCGGTGCATTTCTCCGCGA
1 CACTTCGGTGCATTTCTACGCGA
* * * *
2945430 CACTACGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGCGA
*
2945453 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
2945473 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:2946180 original size:15 final size:15
Alignment explanation
Indices: 2946156--2946189 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2946146 CCGTAGGACC
2946156 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
2946171 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
2946186 ACTA
1 ACTA
2946190 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:2946316 original size:29 final size:29
Alignment explanation
Indices: 2946274--2946354 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2946264 TTTTATATGT
2946274 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
2946302 TCATGTAGCTCATGTCATCTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2946331 TCATGTAGCTCATGTCATCTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
2946355 ATATCACATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.14
29 38 0.78
30 4 0.08
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:2946814 original size:64 final size:63
Alignment explanation
Indices: 2946745--2946901 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 63
2946735 TAATGAAGGT
* **
2946745 ATGCATCGATGCATTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
2946808 G
63 G
** * * * *
2946809 ATGCATCGATGCATGCCTTATACATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
* *
2946872 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCATTACTTGTGCATCGAT
2946902 ACACCTTCAA
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
63 2 0.03
64 65 0.87
65 8 0.11
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:2949824 original size:11 final size:12
Alignment explanation
Indices: 2949795--2949834 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
2949785 TTTGGTGCTG
2949795 GAAACAAGATAA
1 GAAACAAGATAA
*
2949807 GAAACAAGATTA
1 GAAACAAGATAA
2949819 -AAACAAGATAAA
1 GAAACAAGAT-AA
2949831 GAAA
1 GAAA
2949835 AGATAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 12 0.50
13 3 0.12
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (12 bp):
GAAACAAGATAA
Done.