Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 10 of 444
Found at i:2963900 original size:16 final size:17
Alignment explanation
Indices: 2963856--2963901 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
2963846 TTTATCTTGA
2963856 TCAATTCT-CTTTGCTT
1 TCAATTCTCCTTTGCTT
*
2963872 TC-ATTTTCTCTTTGC-T
1 TCAATTCTC-CTTTGCTT
2963888 TCAATTCTCCTTTG
1 TCAATTCTCCTTTG
2963902 TTTTATTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.11, C:0.26, G:0.07, T:0.57
Consensus pattern (17 bp):
TCAATTCTCCTTTGCTT
Found at i:2969661 original size:34 final size:34
Alignment explanation
Indices: 2969623--2969688 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
2969613 TTTTTTTGAG
2969623 ATAAAATTGACCCTCAATCTTTTTTTAAAAAAGA
1 ATAAAATTGACCCTCAATCTTTTTTTAAAAAAGA
* * **
2969657 ATAAATTTGACCGTTGATCTTTTTTTAAAAAA
1 ATAAAATTGACCCTCAATCTTTTTTTAAAAAA
2969689 AGTCAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (34 bp):
ATAAAATTGACCCTCAATCTTTTTTTAAAAAAGA
Found at i:2974230 original size:15 final size:16
Alignment explanation
Indices: 2974201--2974240 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
2974191 TTTATCATGC
2974201 ATATTTTATATTAAAAT
1 ATATTTT-TATTAAAAT
2974218 ATATTTTTA-TAAAAT
1 ATATTTTTATTAAAAT
2974233 -TATTTTTA
1 ATATTTTTA
2974241 ACCAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 2 0.09
17 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTTTATTAAAAT
Found at i:2975139 original size:166 final size:166
Alignment explanation
Indices: 2974906--2975325 Score: 529
Period size: 166 Copynumber: 2.5 Consensus size: 166
2974896 ATTAGTGTCG
* * *
2974906 CTCATCAATTAAGATAACCGAGTTCTAACTTAGTTGATAAATTACGGAAAACCCATTTTTTATAA
1 CTCATCAATTAAGACAACCGAGTTCTAACTTAGTTGAGAAATTACGAAAAACCCATTTTTTATAA
* * *
2974971 AATATAGAATATTATTATGACGATATTTTTGTCATTTTATATTTTAGGATAGAAAGTTATTTTAA
66 AATA-AGAACATTATTATGACGATATTTTTGTCATTTTATATTCTAGGATAGAAAGTTAATTTAA
* * ** *
2975036 TCTTTA-CTAATATTTAG-GGTTGTTGAGCTGGTATCA
130 TCTATATC-AATATTTAGTGCTAATTGAGCTAGTATCA
* *
2975072 CTCATCAATTGAGACAACCGAGTTCTAACTTAATTGAGAAATTACGAAAAACCCATTTTTTATAA
1 CTCATCAATTAAGACAACCGAGTTCTAACTTAGTTGAGAAATTACGAAAAACCCATTTTTTATAA
*
2975137 AATAAGGAACATTATTATGACGATATTTTTGTCATTTTATATTCTAGGGTAGAAAGTTAATTTAA
66 AATAA-GAACATTATTATGACGATATTTTTGTCATTTTATATTCTAGGATAGAAAGTTAATTTAA
* *
2975202 TCTATATCATTATTTAGTGCTAATTGAGTTAGTATCA
130 TCTATATCAATATTTAGTGCTAATTGAGCTAGTATCA
** ** * * * * *
2975239 CTCATCAACAAAGACAATTGAGATCCAACTCAGTTGAGAAATTACTAAAAATCCATTCTTTTTAT
1 CTCATCAATTAAGACAACCGAGTTCTAACTTAGTTGAGAAATTACGAAAAACCCA-T-TTTTTAT
* *
2975304 AAAACAAAAAACATTATTATGA
64 AAAA-TAAGAACATTATTATGA
2975326 GGGTAAAATC
Statistics
Matches: 219, Mismatches: 29, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
165 1 0.00
166 132 0.60
167 59 0.27
168 1 0.00
169 24 0.11
170 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (166 bp):
CTCATCAATTAAGACAACCGAGTTCTAACTTAGTTGAGAAATTACGAAAAACCCATTTTTTATAA
AATAAGAACATTATTATGACGATATTTTTGTCATTTTATATTCTAGGATAGAAAGTTAATTTAAT
CTATATCAATATTTAGTGCTAATTGAGCTAGTATCA
Found at i:2977694 original size:17 final size:17
Alignment explanation
Indices: 2977674--2977729 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
2977664 AATTTATTAT
2977674 TTTAATAATTTTATATA
1 TTTAATAATTTTATATA
* * *
2977691 TTTATTAATTTAAAAT-
1 TTTAATAATTTTATATA
2977707 TTTAA-AAGTTTTATAATA
1 TTTAATAA-TTTTAT-ATA
2977725 TTTAA
1 TTTAA
2977730 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.07
16 8 0.27
17 15 0.50
18 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAATAATTTTATATA
Found at i:2981612 original size:145 final size:145
Alignment explanation
Indices: 2981386--2981673 Score: 504
Period size: 146 Copynumber: 2.0 Consensus size: 145
2981376 TATCTAATTG
*
2981386 AAGATGGACAAAATTTACAATTGTATGCATAGTACAAACTAATAATTGAATTTAACCAAATAAAT
1 AAGATGGACAAAATTTACAATTGTATGCATAGTACAAACTAATAATTGAATTTAACCAAACAAAT
** * * *
2981451 TTAACTGTTACTTTTTTTGTCGGGACTCAAATTTCATAAGTTGAAAAGTATAGTGACTAAAATTG
66 TTAACTACTACTTTTTTTGTCAGGACTCAAATTTCAAAAGTTGAAAAGAATAGTGACTAAAATTG
2981516 ATCAAATAATTGGAC
131 ATCAAATAATTGGAC
*
2981531 AAGATGGACAAAATTTACAATTGTATGCATAGTACAAAACTAATAATTGAATTTAACTAAACAAA
1 AAGATGGACAAAATTTACAATTGTATGCATAGTAC-AAACTAATAATTGAATTTAACCAAACAAA
2981596 TTTAACTACTACTTTTTTTGTCAGGACTCAAATTTCAAAAGTTGAAAAGAATAGTGACTAAAATT
65 TTTAACTACTACTTTTTTTGTCAGGACTCAAATTTCAAAAGTTGAAAAGAATAGTGACTAAAATT
2981661 GATCAAATAATTG
130 GATCAAATAATTG
2981674 TAGCAGGTAT
Statistics
Matches: 135, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
145 35 0.26
146 100 0.74
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (145 bp):
AAGATGGACAAAATTTACAATTGTATGCATAGTACAAACTAATAATTGAATTTAACCAAACAAAT
TTAACTACTACTTTTTTTGTCAGGACTCAAATTTCAAAAGTTGAAAAGAATAGTGACTAAAATTG
ATCAAATAATTGGAC
Found at i:2982561 original size:18 final size:18
Alignment explanation
Indices: 2982538--2982580 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2982528 AATTTTGGGA
*
2982538 CCAAAACAAATAATCTAC
1 CCAAAACAAATAACCTAC
2982556 CCAAAACAAATAACCTAC
1 CCAAAACAAATAACCTAC
2982574 CCAAAAC
1 CCAAAAC
2982581 CCACTAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.12
Consensus pattern (18 bp):
CCAAAACAAATAACCTAC
Found at i:2983709 original size:21 final size:22
Alignment explanation
Indices: 2983662--2983705 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2983652 ACTATTCTTG
*
2983662 TATTATTATTTTTAACATATTT
1 TATTATTATTTTAAACATATTT
2983684 TATTATTA-TTTAAACAT-TTT
1 TATTATTATTTTAAACATATTT
2983704 TA
1 TA
2983706 ATTAATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTTTAAACATATTT
Found at i:2983890 original size:31 final size:31
Alignment explanation
Indices: 2983855--2983924 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 31
2983845 ATGTTTATTA
*
2983855 TTAATATTAATATATGTTTTATTA-TATATC-T
1 TTAATATTAATAT-TATTTTATTATTATA-CAT
2983886 TTAATA-T-ATATTATTTTATTATTATACAT
1 TTAATATTAATATTATTTTATTATTATACAT
2983915 TTATATATTA
1 TTA-ATATTA
2983925 TTGTTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 10 0.30
29 12 0.36
30 4 0.12
31 7 0.21
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (31 bp):
TTAATATTAATATTATTTTATTATTATACAT
Found at i:2984145 original size:19 final size:19
Alignment explanation
Indices: 2984105--2984150 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2984095 TTTACCATGT
* *
2984105 ATATACATTTTAATATCTC
1 ATATATATTTTAATATCAC
2984124 ATATATATTTTATATAT-AC
1 ATATATATTTTA-ATATCAC
2984143 ATATATAT
1 ATATATAT
2984151 ATATGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATTTTAATATCAC
Found at i:2986152 original size:42 final size:42
Alignment explanation
Indices: 2986084--2986178 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
2986074 TGGCTCGAGC
* *
2986084 TACTTGAGTTCAAGCTCAATTAAGCTCACTTACTAATTTTTG
1 TACTCGAGCTCAAGCTCAATTAAGCTCACTTACTAATTTTTG
*
2986126 TACTCGAGCTCAAGCTCAATTAAGCTCATTTACTAATTTTTG
1 TACTCGAGCTCAAGCTCAATTAAGCTCACTTACTAATTTTTG
*
2986168 TACTCAAGCTC
1 TACTCGAGCTC
2986179 CAACTCGAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (42 bp):
TACTCGAGCTCAAGCTCAATTAAGCTCACTTACTAATTTTTG
Found at i:2988895 original size:26 final size:27
Alignment explanation
Indices: 2988756--2988920 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
2988746 AGCATGGCTG
* * * *
2988756 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
2988782 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATATTTGTGGCAGAGCCA
* * *
2988810 CCAGAACAGATATATGTGGCAGAGCTA
1 CCAGATCAGATATTTGTGGCAGAGCCA
*
2988837 CCAAATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
2988864 CCAGATCAGATATTTGT-GCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
*
2988890 CCAGAT-AGATATTTGTGGCATAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
2988916 CCAGA
1 CCAGA
2988921 ACGCTTCCTC
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.08
26 33 0.28
27 62 0.52
28 15 0.12
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATTTGTGGCAGAGCCA
Found at i:2990570 original size:26 final size:26
Alignment explanation
Indices: 2990534--2990668 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
2990524 GAATGAATTC
*
2990534 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
2990560 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
2990586 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
2990612 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
2990637 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
2990663 TTATCA
1 TTATCA
2990669 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
25 25 0.24
26 81 0.76
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:2994658 original size:27 final size:26
Alignment explanation
Indices: 2994605--2994735 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 26
2994595 CATGGCTGCC
* *
2994605 ATAATGTGACAGAGTCACCAGATACAG
1 ATAATGTGGCAGAGCCACCAGA-ACAG
2994632 ATAATCGTGGCAGAGCCACCAGAACAG
1 ATAAT-GTGGCAGAGCCACCAGAACAG
*
2994659 AT-ATGTGGCAGAGCCACCAGATCAG
1 ATAATGTGGCAGAGCCACCAGAACAG
* *
2994684 ATATTTGTGGCAGAGCCACCAGATCAG
1 ATA-ATGTGGCAGAGCCACCAGAACAG
* *
2994711 ATATTTGTGGCATAGCCACCAGAAC
1 ATA-ATGTGGCAGAGCCACCAGAAC
2994736 GCTTCCTCCA
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
25 22 0.23
26 2 0.02
27 56 0.59
28 15 0.16
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
ATAATGTGGCAGAGCCACCAGAACAG
Found at i:2994701 original size:52 final size:53
Alignment explanation
Indices: 2994608--2994733 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 53
2994598 GGCTGCCATA
* *
2994608 ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 ATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
* * *
2994661 ATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAGATCAGAT
1 ATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
*
2994713 ATTTGTGGCATAGCCACCAGA
1 A--TGTGGCAGAGCCACCAGA
2994734 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 30 0.46
53 18 0.28
54 17 0.26
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (53 bp):
ATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
Found at i:2996382 original size:26 final size:26
Alignment explanation
Indices: 2996346--2996479 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
2996336 ACATGAATTC
2996346 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2996372 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2996398 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2996424 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2996448 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2996474 TTATCA
1 TTATCA
2996480 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2996470 original size:50 final size:52
Alignment explanation
Indices: 2996346--2996479 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
2996336 ACATGAATTC
* *
2996346 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2996398 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2996448 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
2996480 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:3000137 original size:27 final size:26
Alignment explanation
Indices: 3000099--3000267 Score: 169
Period size: 27 Copynumber: 6.3 Consensus size: 26
3000089 AGCATGGCTG
* *
3000099 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
3000125 TCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
3000153 CCAGAACAGATATATGTGGCAGAGCTA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
3000180 CCA-AATCAGATATTTGTGGCAGAGCCA
1 CCAGAA-CAGATA-ATGTGGCAGAGCCA
* *
3000207 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
3000234 CCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
3000261 CCAGAAC
1 CCAGAAC
3000268 GCTTCCTTCA
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.05
27 103 0.82
28 17 0.13
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:3000163 original size:54 final size:53
Alignment explanation
Indices: 3000099--3000267 Score: 214
Period size: 54 Copynumber: 3.1 Consensus size: 53
3000089 AGCATGGCTG
* * * *
3000099 CCAGAACAGATA-ATGTGACAGAGTCATCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAG-CACCAGAT-CAGATATTTGTGGCAGAGCCA
*
3000153 CCAGAACAGATATATGTGGCAGAGCTACCAAATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGC-ACCAGATCAGATATTTGTGGCAGAGCCA
* * * *
3000207 CCAGATCAGATATTTGTGGCAGAGCCACCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAG-CACCAGATCAGATATTTGTGGCAGAGCCA
3000261 CCAGAAC
1 CCAGAAC
3000268 GCTTCCTTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
54 85 0.84
55 16 0.16
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATATGTGGCAGAGCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:3000217 original size:81 final size:82
Alignment explanation
Indices: 3000112--3000263 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 82
3000102 GAACAGATAA
* *
3000112 TGTGACAGAGTCATCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAG
1 TGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAG
*
3000177 CTACCAAATCAGATATT
66 CCACCAAATCAGATATT
* * * ** * *
3000194 TGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAGATTAGATATTTGTGGCATAG
1 TGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAG
3000258 CCACCA
66 CCACCA
3000264 GAACGCTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 44 0.73
82 16 0.27
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (82 bp):
TGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAG
CCACCAAATCAGATATT
Found at i:3000396 original size:25 final size:25
Alignment explanation
Indices: 3000368--3000416 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
3000358 CAAAATTAAC
*
3000368 CCTAGGGGTATAACGGTAATTTTCA
1 CCTAGGGGTATAACAGTAATTTTCA
3000393 CCTAGGGGTATAACAGTAATTTTC
1 CCTAGGGGTATAACAGTAATTTTC
3000417 CATACATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTATAACAGTAATTTTCA
Found at i:3000431 original size:28 final size:25
Alignment explanation
Indices: 3000370--3000442 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
3000360 AAATTAACCC
* *
3000370 TAGGGGTATAACGGTAATTTTCACC
1 TAGGGGTATAACAGTAATTTTCACA
3000395 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT-C--ACA
* *
3000423 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
3000443 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 20 0.49
26 1 0.02
28 20 0.49
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (25 bp):
TAGGGGTATAACAGTAATTTTCACA
Found at i:3001949 original size:26 final size:26
Alignment explanation
Indices: 3001880--3002014 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
3001870 CACGATATTC
*
3001880 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
3001906 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
3001931 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
3001957 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
3001983 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
3002009 TTATCA
1 TTATCA
3002015 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 24 0.24
26 76 0.76
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:3003435 original size:26 final size:26
Alignment explanation
Indices: 3003404--3003511 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
3003394 TGAAATTCCC
*
3003404 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
3003430 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
3003456 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
3003482 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3003508 ATCA
1 ATCA
3003512 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:3005530 original size:56 final size:57
Alignment explanation
Indices: 3005443--3005555 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 57
3005433 AGTAATGGTC
* *
3005443 TGAAATTAGAGCCGATCATAGGTTGGGTTGACTTGGGTTAGTGC-AAAAATCAGGTT
1 TGAAATTAGAGCCGATCATAGGTTGGCTTGACTCGGGTTAGTGCAAAAAATCAGGTT
*
3005499 TGAAATTAGAGCTGATCATAGGTTGGCTTGACTCGGGTTAGTGCAAAAAATCAGGTT
1 TGAAATTAGAGCCGATCATAGGTTGGCTTGACTCGGGTTAGTGCAAAAAATCAGGTT
3005556 CATTTTTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 41 0.77
57 12 0.23
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (57 bp):
TGAAATTAGAGCCGATCATAGGTTGGCTTGACTCGGGTTAGTGCAAAAAATCAGGTT
Found at i:3007408 original size:2 final size:2
Alignment explanation
Indices: 3007401--3007448 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
3007391 TGATCTGTTT
* *
3007401 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3007443 TA TA TA
1 TA TA TA
3007449 AAAGTATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3008388 original size:19 final size:19
Alignment explanation
Indices: 3008364--3008402 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3008354 TTATAATTGT
*
3008364 AATAAATATT-AATTATTAA
1 AATAAA-ATTGAAATATTAA
3008383 AATAAAATTGAAATATTAA
1 AATAAAATTGAAATATTAA
3008402 A
1 A
3008403 TAACTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AATAAAATTGAAATATTAA
Found at i:3009930 original size:26 final size:26
Alignment explanation
Indices: 3009901--3010010 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
3009891 TGATACAAAT
3009901 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3009927 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3009953 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3009979 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3010005 TGATAA
1 TGATAA
3010011 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3012040 original size:136 final size:136
Alignment explanation
Indices: 3011796--3012080 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
3011786 GAGTAGTCTC
*
3011796 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
3011861 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAATACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAATACCA
3011926 CTGTTA
131 CTGTTA
3011932 CCCAAATGGGCTTGCATATGTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
3011997 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAATACCA
3012062 CTGTTA
131 CTGTTA
**
3012068 CCTGAATGGGCTT
1 CCCAAATGGGCTT
3012081 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAATACCA
CTGTTA
Found at i:3014950 original size:25 final size:25
Alignment explanation
Indices: 3014920--3014970 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
3014910 TATGAAAAAA
3014920 AACCTTCAAGTTTATGTTAATATAT
1 AACCTTCAAGTTTATGTTAATATAT
*
3014945 AACCTTCAAGTTTATGTTAATGTAT
1 AACCTTCAAGTTTATGTTAATATAT
3014970 A
1 A
3014971 TATGAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (25 bp):
AACCTTCAAGTTTATGTTAATATAT
Found at i:3015539 original size:15 final size:16
Alignment explanation
Indices: 3015519--3015551 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3015509 GCGGTAAAAA
3015519 TTCAATACTT-AATTT
1 TTCAATACTTAAATTT
3015534 TTCAATACTTAAATTT
1 TTCAATACTTAAATTT
3015550 TT
1 TT
3015552 AGTTTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAATACTTAAATTT
Found at i:3017610 original size:36 final size:36
Alignment explanation
Indices: 3017567--3017649 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
3017557 TATTTTTAAG
*
3017567 CTCGAGCTTGATTAAGCTCGTTGACTAATTTTTGTA
1 CTCGAGCTTGATTAAGCTCATTGACTAATTTTTGTA
* * * *
3017603 CTTGAGCTCGATTAAGCTCATTTACTATTTTTTGTA
1 CTCGAGCTTGATTAAGCTCATTGACTAATTTTTGTA
*
3017639 CTCAAGCTTGA
1 CTCGAGCTTGA
3017650 ACTTGAGCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (36 bp):
CTCGAGCTTGATTAAGCTCATTGACTAATTTTTGTA
Found at i:3020646 original size:15 final size:16
Alignment explanation
Indices: 3020626--3020658 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3020616 ATATATTTTT
3020626 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
3020641 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
3020658 T
1 T
3020659 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:3020731 original size:21 final size:22
Alignment explanation
Indices: 3020705--3020763 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
3020695 GTTTTAAGAA
*
3020705 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
3020726 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
3020748 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
3020764 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:3020778 original size:26 final size:24
Alignment explanation
Indices: 3020734--3020781 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
3020724 ATTTGTTTTA
*
3020734 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
3020758 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
3020782 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:3027867 original size:21 final size:21
Alignment explanation
Indices: 3027843--3027893 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
3027833 GGTATTCGCA
3027843 AAGAAAGATGGATCTCCTAGC
1 AAGAAAGATGGATCTCCTAGC
3027864 AAGAAAGATGGATCTCCTAGC
1 AAGAAAGATGGATCTCCTAGC
3027885 AAGAAAGAT
1 AAGAAAGAT
3027894 ATTCACTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.18
Consensus pattern (21 bp):
AAGAAAGATGGATCTCCTAGC
Found at i:3035474 original size:52 final size:50
Alignment explanation
Indices: 3035360--3035494 Score: 135
Period size: 52 Copynumber: 2.6 Consensus size: 50
3035350 TGAATTGACA
* *
3035360 GATAGATGTGATATGTAAGCCCGTATAAGACCAAAGCTGGGCTATGACATC
1 GATAGATGTGATATGT-ACCCCGTATAAGAACAAAGCTGGGCTATGACATC
* ** * *
3035411 GATACATTGTGATATGTACTCCCGTATAAGAACATGGTTGGGCTATGGCATC
1 GATAGA-TGTGATATGTAC-CCCGTATAAGAACAAAGCTGGGCTATGACATC
* *
3035463 GGTATGATGTGATAATGTGCCTCCGTATAAGA
1 GATA-GATGTGAT-ATGTACC-CCGTATAAGA
3035495 CCATATATGG
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
51 6 0.09
52 47 0.68
53 16 0.23
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (50 bp):
GATAGATGTGATATGTACCCCGTATAAGAACAAAGCTGGGCTATGACATC
Found at i:3036467 original size:12 final size:11
Alignment explanation
Indices: 3036452--3036563 Score: 59
Period size: 12 Copynumber: 9.4 Consensus size: 11
3036442 CAATAGTGAA
3036452 AATAATAAGTAT
1 AATAATAA-TAT
3036464 AATAATAAATAT
1 AATAAT-AATAT
* *
3036476 AATGATATATAA
1 AATAATA-ATAT
*
3036488 AATAATACTAT
1 AATAATAATAT
3036499 ATATAA-AAGTAT
1 A-ATAATAA-TAT
3036511 ATATATATACACGTAT
1 A-ATA-ATA-A--TAT
3036527 AATAA-AATAT
1 AATAATAATAT
*
3036537 -ATACTAATATT
1 AATAATAATA-T
3036548 AATAATAAATAT
1 AATAAT-AATAT
3036560 AATA
1 AATA
3036564 GGGGTAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 24
0.71 0.07 0.21
Matches are distributed among these distances:
9 3 0.04
10 7 0.09
11 6 0.08
12 45 0.56
13 8 0.10
14 2 0.03
15 4 0.05
16 5 0.06
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:3036527 original size:16 final size:16
Alignment explanation
Indices: 3036480--3036519 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
3036470 AAATATAATG
3036480 ATATATAAAA-TAATACT
1 ATATATAAAAGT-ATA-T
3036497 ATATATAAAAGTATAT
1 ATATATAAAAGTATAT
3036513 ATATATA
1 ATATATA
3036520 CACGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 13 0.59
18 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (16 bp):
ATATATAAAAGTATAT
Found at i:3036974 original size:23 final size:23
Alignment explanation
Indices: 3036911--3037171 Score: 129
Period size: 23 Copynumber: 11.3 Consensus size: 23
3036901 AAACAACTAT
*
3036911 TAATAATATTACATAAATACATACA
1 TAATAATATTA-A-AAATATATACA
*
3036936 TATATATATATTAAAAATAAATACA
1 TA-ATA-ATATTAAAAATATATACA
* *
3036961 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
* *
3036984 TAA-AATA-TATACATATGAT--A
1 TAATAATATTAAAAATAT-ATACA
* * * *
3037004 TAGT--TACTGAAAATATGTACA
1 TAATAATATTAAAAATATATACA
*
3037025 TAATACAT-GTAAAAATATATACA
1 TAATA-ATATTAAAAATATATACA
*
3037048 TAATATAGTATTAAAAATATTTACA
1 TAATA-A-TATTAAAAATATATACA
* * *
3037073 TAAT-ATA-TACATATTAGAAATA-A
1 TAATAATATTA-A-A-AATATATACA
*
3037096 TAATAATATTAAAAA-A-ACTA-T
1 TAATAATATTAAAAATATA-TACA
3037117 TAATAATATTACATAAATATATACA
1 TAATAATATTA-A-AAATATATACA
*
3037142 T-ATATATATTAAAGATATATACA
1 TAATA-ATATTAAAAATATATACA
3037165 T-ATAATA
1 TAATAATA
3037172 AAACACATAC
Statistics
Matches: 184, Mismatches: 28, Indels: 51
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.02
20 10 0.05
21 26 0.14
22 13 0.07
23 61 0.33
24 20 0.11
25 41 0.22
26 4 0.02
27 6 0.03
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:3037038 original size:64 final size:61
Alignment explanation
Indices: 3036915--3037050 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 61
3036905 AACTATTAAT
* *
3036915 AATAT-TACAT-AAATACATACATATATATATATTAAAAATAAATACATAATAATATTAAA
1 AATATATACATAAAATACATACATATATATATACTAAAAATAAATACATAATAATAGTAAA
* * * * **
3036974 AGTATGTACATAAAATATATACATATGATATAGTTACTGAAAATATGTACATAATACAT-GTAAA
1 AATATATACATAAAATACATACATAT-ATATA--TACTAAAAATAAATACATAATA-ATAGTAAA
3037038 AATATATACATAA
1 AATATATACATAA
3037051 TATAGTATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
59 4 0.06
60 5 0.08
61 13 0.21
62 5 0.08
64 33 0.53
65 2 0.03
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (61 bp):
AATATATACATAAAATACATACATATATATATACTAAAAATAAATACATAATAATAGTAAA
Found at i:3037865 original size:18 final size:19
Alignment explanation
Indices: 3037842--3037881 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
3037832 ATATAAATGT
3037842 AAAAAGA-T-AAAATATATA
1 AAAAAGATTCAAAATATA-A
3037860 AAAAAGATTCAAAATATAA
1 AAAAAGATTCAAAATATAA
3037879 AAA
1 AAA
3037882 GAAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAAAGATTCAAAATATAA
Found at i:3042573 original size:2 final size:2
Alignment explanation
Indices: 3042566--3042597 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3042556 AGTTTATGTT
3042566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3042598 AAGTTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3042993 original size:2 final size:2
Alignment explanation
Indices: 3042986--3043012 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3042976 AATCCTAATA
3042986 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3043013 ATTCATTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3049437 original size:13 final size:15
Alignment explanation
Indices: 3049419--3049450 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
3049409 TTATGGTATT
3049419 AATAATAA-TGT-AC
1 AATAATAAGTGTGAC
3049432 AATAATAAGTGTGAC
1 AATAATAAGTGTGAC
3049447 AATA
1 AATA
3049451 TTAGTAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (15 bp):
AATAATAAGTGTGAC
Found at i:3050131 original size:28 final size:28
Alignment explanation
Indices: 3050049--3050132 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
3050039 TAAAAGGTGT
*
3050049 AATAAT-ATAATAATATGATGGTAATAAA
1 AATAATAATAATAATAT-ATGATAATAAA
* *
3050077 AATACAATAATATTAATATATTA-AATAACA
1 AAT--AATAATAATAATATATGATAATAA-A
3050107 AATAATAATAATAATA-ATGATAATAA
1 AATAATAATAATAATATATGATAATAA
3050133 TATACAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 3 0.07
28 20 0.43
29 5 0.11
30 9 0.20
31 9 0.20
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
AATAATAATAATAATATATGATAATAAA
Found at i:3050452 original size:22 final size:22
Alignment explanation
Indices: 3050425--3050467 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3050415 ATACTAAGGC
*
3050425 TAATAAATAAT-AAGTATAATAA
1 TAAT-AATAATGAAATATAATAA
3050447 TAATAATAATGAAATATAATA
1 TAATAATAATGAAATATAATA
3050468 GTATGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAATAATAATGAAATATAATAA
Found at i:3053599 original size:14 final size:14
Alignment explanation
Indices: 3053580--3053619 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
3053570 TATAATCGGT
*
3053580 AAAATTTTCGTAAC
1 AAAATTTTCATAAC
3053594 AAAATTTTCATAAC
1 AAAATTTTCATAAC
*
3053608 AAAGTTTTCATA
1 AAAATTTTCATA
3053620 TGAATTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (14 bp):
AAAATTTTCATAAC
Found at i:3055350 original size:26 final size:26
Alignment explanation
Indices: 3055321--3055430 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
3055311 TGGTACAAAT
3055321 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
3055347 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3055373 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3055399 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
3055425 TGATAA
1 TGATAA
3055431 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:3057093 original size:27 final size:27
Alignment explanation
Indices: 3057052--3057164 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
3057042 GAGGAAGCGT
*
3057052 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3057079 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3057106 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
3057134 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
3057160 TCTGG
1 TCTGG
3057165 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:3057157 original size:54 final size:54
Alignment explanation
Indices: 3057050--3057164 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
3057040 TGGAGGAAGC
*
3057050 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
3057104 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
3057158 GTTCTGG
1 GTTCTGG
3057165 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:3062130 original size:20 final size:21
Alignment explanation
Indices: 3062107--3062155 Score: 55
Period size: 25 Copynumber: 2.2 Consensus size: 21
3062097 TTTATGGTAC
3062107 AAAT-TGATAATAGGTTAGGT
1 AAATATGATAATAGGTTAGGT
3062127 AAATGTTCATGATAATAGGTTAGGT
1 AAA---T-ATGATAATAGGTTAGGT
3062152 AAAT
1 AAAT
3062156 GTTCCATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
20 3 0.12
22 1 0.04
23 1 0.04
25 19 0.79
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (21 bp):
AAATATGATAATAGGTTAGGT
Found at i:3062173 original size:26 final size:26
Alignment explanation
Indices: 3062111--3062219 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3062101 TGGTACAAAT
3062111 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3062136 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3062162 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
3062188 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
3062214 TGATAA
1 TGATAA
3062220 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:3063882 original size:27 final size:27
Alignment explanation
Indices: 3063841--3063953 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
3063831 GAGGAAGCGT
*
3063841 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3063868 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
3063895 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
3063923 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
3063949 TCTGG
1 TCTGG
3063954 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:3063946 original size:54 final size:54
Alignment explanation
Indices: 3063839--3063953 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
3063829 TGGAGGAAGC
*
3063839 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
3063893 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
3063947 GTTCTGG
1 GTTCTGG
3063954 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:3068809 original size:16 final size:17
Alignment explanation
Indices: 3068776--3068823 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
3068766 TATTAATTTG
* *
3068776 ATTTTTTGAATTATAAA
1 ATTTTTTAAAATATAAA
*
3068793 ATTTTTTAAAATAAAAA
1 ATTTTTTAAAATATAAA
**
3068810 ATAATTTAAAATAT
1 ATTTTTTAAAATAT
3068824 TATTAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTTTTAAAATATAAA
Found at i:3068840 original size:10 final size:11
Alignment explanation
Indices: 3068808--3068879 Score: 62
Period size: 12 Copynumber: 6.5 Consensus size: 11
3068798 TTAAAATAAA
3068808 AAATA-ATT-T
1 AAATATATTAT
3068817 AAA-ATATTATT
1 AAATATATTA-T
3068828 AAATAT-TTAT
1 AAATATATTAT
*
3068838 AAATTCTATTAT
1 AAA-TATATTAT
3068850 AAACTTATATTAT
1 AAA--TATATTAT
3068863 AAATTATATTAT
1 AAA-TATATTAT
3068875 AAATA
1 AAATA
3068880 AACAAAATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 1 0.02
9 6 0.11
10 4 0.07
11 11 0.20
12 21 0.39
13 11 0.20
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
AAATATATTAT
Found at i:3068851 original size:12 final size:12
Alignment explanation
Indices: 3068820--3068878 Score: 77
Period size: 12 Copynumber: 4.9 Consensus size: 12
3068810 ATAATTTAAA
3068820 ATATTATTAAA-T
1 ATATTA-TAAATT
3068832 AT-TTATAAATT
1 ATATTATAAATT
*
3068843 CTATTATAAACTT
1 ATATTATAAA-TT
3068856 ATATTATAAATT
1 ATATTATAAATT
3068868 ATATTATAAAT
1 ATATTATAAAT
3068879 AAACAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
12 22 0.52
13 11 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTATAAATT
Found at i:3069583 original size:5 final size:5
Alignment explanation
Indices: 3069573--3069610 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
3069563 TTGTGTGTTC
3069573 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
3069611 TACAAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:3084192 original size:72 final size:72
Alignment explanation
Indices: 3084106--3084253 Score: 233
Period size: 72 Copynumber: 2.1 Consensus size: 72
3084096 GGGCTTGCAT
* * * *
3084106 TTTGCTGCTCGCAACTATACACCTTTGACAGGTTCACATTTTTGTTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACATTTTTGCTTACTATCTTCAACAGGTGT
3084171 CGTCAAC
66 CGTCAAC
* *
3084178 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCATTTTTGCTTACTATCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACATTTTTGCTTACTATCTTCAACAGGTGT
*
3084243 CTTCAAC
66 CGTCAAC
3084250 TTTG
1 TTTG
3084254 ACAGGCTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACATTTTTGCTTACTATCTTCAACAGGTGT
CGTCAAC
Found at i:3084367 original size:25 final size:25
Alignment explanation
Indices: 3084317--3084367 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
3084307 AACTATCACT
*
3084317 TCTTGCTAAGCTTGCAGTTTTGACA
1 TCTTGCTAAGCTTGCAGTCTTGACA
3084342 TCTTGCTAAGCTTGCAG-CTTGCACA
1 TCTTGCTAAGCTTGCAGTCTTG-ACA
3084367 T
1 T
3084368 TGGAAAGCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (25 bp):
TCTTGCTAAGCTTGCAGTCTTGACA
Found at i:3087032 original size:21 final size:21
Alignment explanation
Indices: 3086998--3087052 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
3086988 TTTTTTATGA
*
3086998 TTAAA-TTGAATTAA-TACAAT
1 TTAAATTTAAATTAATTA-AAT
3087018 TTAAATTTAAATTAATTAAAT
1 TTAAATTTAAATTAATTAAAT
*
3087039 TAAATATTTAAATT
1 TTAA-ATTTAAATT
3087053 TAGATTCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 14 0.47
22 11 0.37
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAATTTAAATTAATTAAAT
Found at i:3087041 original size:20 final size:20
Alignment explanation
Indices: 3086997--3087043 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3086987 TTTTTTTATG
*
3086997 ATTAAA-TTGAATTAATACA
1 ATTAAATTTAAATTAATACA
3087016 ATTTAAATTTAAATTAATTA-A
1 A-TTAAATTTAAATTAA-TACA
3087037 ATTAAAT
1 ATTAAAT
3087044 ATTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.46
21 10 0.42
22 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTAAATTTAAATTAATACA
Found at i:3089315 original size:13 final size:13
Alignment explanation
Indices: 3089297--3089323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3089287 GTTAAAATGC
3089297 TACATGGATTTCT
1 TACATGGATTTCT
3089310 TACATGGATTTCT
1 TACATGGATTTCT
3089323 T
1 T
3089324 TTCTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TACATGGATTTCT
Found at i:3091510 original size:15 final size:15
Alignment explanation
Indices: 3091467--3091512 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
3091457 ATAATTCAAA
*
3091467 TTTAACTCTTAATTT
1 TTTAACACTTAATTT
*
3091482 TTTAACACTGAATTT
1 TTTAACACTTAATTT
**
3091497 TTTAGTACTTAATTT
1 TTTAACACTTAATTT
3091512 T
1 T
3091513 CAGTTTACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (15 bp):
TTTAACACTTAATTT
Found at i:3095631 original size:131 final size:131
Alignment explanation
Indices: 3095394--3095660 Score: 498
Period size: 131 Copynumber: 2.0 Consensus size: 131
3095384 ATATCGAACC
*
3095394 AAAGGAGGTGTCCTCTCATTTTTCCGTGACTTGGGTCAAGTACCATGGTGGAGGTGGAGGCGTTA
1 AAAGGAGGTGTCCTCTCATTTTTCCGTGACTTGGGTCAAGTACCATGGCGGAGGTGGAGGCGTTA
*
3095459 ACGCCGATGAAACCCAGGATCGGTGTTTGCACGAAAAGGGATTAGAGTTCGGCGGTATGAGAGGG
66 ACGCCGATGAAACCCAGGATCGGTGTTTGCACGAAAAGGGATTAGAGTTCGGCGGTATAAGAGGG
3095524 G
131 G
*
3095525 AAAGGAGGTGTCCTCTCGTTTTTCCGTGACTTGGGTCAAGTACCATGGCGGAGGTGGAGGCGTTA
1 AAAGGAGGTGTCCTCTCATTTTTCCGTGACTTGGGTCAAGTACCATGGCGGAGGTGGAGGCGTTA
*
3095590 ACGCCGATGAAACCCAGGATCGGTGTTTGCACGAAAGGGGATTAGAGTTCGGCGGTATAAGAGGG
66 ACGCCGATGAAACCCAGGATCGGTGTTTGCACGAAAAGGGATTAGAGTTCGGCGGTATAAGAGGG
3095655 G
131 G
3095656 AAAGG
1 AAAGG
3095661 GAGAGCTTTG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (131 bp):
AAAGGAGGTGTCCTCTCATTTTTCCGTGACTTGGGTCAAGTACCATGGCGGAGGTGGAGGCGTTA
ACGCCGATGAAACCCAGGATCGGTGTTTGCACGAAAAGGGATTAGAGTTCGGCGGTATAAGAGGG
G
Found at i:3097587 original size:129 final size:130
Alignment explanation
Indices: 3097342--3097593 Score: 364
Period size: 129 Copynumber: 1.9 Consensus size: 130
3097332 TTTGAAGATT
* * *
3097342 CATTAAAACAAAGACAATATTCGATGTTTTGAAGATCGGGGAATAGTGCCCTATCGTGTTGGGTT
1 CATTAAAACAAAGACAATATTCGATGTTTGGAAGATCAGGGAATAGTGCCCTATCGTGCTGGGTT
* *
3097407 TCGATTTCTCGTTTGTTCAGAATAATCGAATATTCCTTTAAAATTTTACTCGTGTTTTTTCAAAA
66 TCGATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCGTGTTTTTTCAAAA
* * * *
3097472 CATTGAAAC-AAGGCAATATTTGATGTTTGGAA-ATTCAGGGAATAGTGCTCTATCGTGCTGGGT
1 CATTAAAACAAAGACAATATTCGATGTTTGGAAGA-TCAGGGAATAGTGCCCTATCGTGCTGGGT
* * **
3097535 TTTGATTTCTCGTTTGTTCAAAATAATCGAATTTTCCTTTGGAATTTCACTCGTGTTTT
65 TTCGATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCGTGTTTT
3097594 CTAAAGCGAG
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
128 1 0.01
129 99 0.92
130 8 0.07
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (130 bp):
CATTAAAACAAAGACAATATTCGATGTTTGGAAGATCAGGGAATAGTGCCCTATCGTGCTGGGTT
TCGATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCGTGTTTTTTCAAAA
Found at i:3104577 original size:20 final size:18
Alignment explanation
Indices: 3104552--3104588 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
3104542 ATTGCTAAGT
3104552 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
3104572 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
3104589 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:3105632 original size:50 final size:50
Alignment explanation
Indices: 3105574--3105678 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
3105564 TTTTAATGTG
*
3105574 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGTCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
3105623 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
3105673 AGTATT
1 AGTATT
3105679 AGTCATGTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 50 0.93
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:3112519 original size:8 final size:8
Alignment explanation
Indices: 3112519--3112564 Score: 92
Period size: 8 Copynumber: 5.8 Consensus size: 8
3112509 AAAAATCTAA
3112519 AAAAATTT
1 AAAAATTT
3112527 AAAAATTT
1 AAAAATTT
3112535 AAAAATTT
1 AAAAATTT
3112543 AAAAATTT
1 AAAAATTT
3112551 AAAAATTT
1 AAAAATTT
3112559 AAAAAT
1 AAAAAT
3112565 AAACAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:3122426 original size:27 final size:26
Alignment explanation
Indices: 3122396--3122457 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
3122386 AGATAATTAA
3122396 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
3122423 AATAATTATCTGAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
3122450 AATAAAAT
1 AATAAAAT
3122458 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:3126040 original size:26 final size:26
Alignment explanation
Indices: 3126011--3126118 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
3126001 TGATACAAAT
3126011 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3126037 TGATAATGGGTTAGGTAAACGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3126063 TGATATTGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3126089 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3126115 TGAT
1 TGAT
3126119 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3134442 original size:51 final size:51
Alignment explanation
Indices: 3134325--3134460 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
3134315 CTACCACCAA
* * *
3134325 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
3134376 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
3134427 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
3134461 CATGTTTCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:3137266 original size:51 final size:51
Alignment explanation
Indices: 3137149--3137284 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
3137139 CTACCACCAA
* * *
3137149 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
3137200 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
3137251 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
3137285 CATGTTTCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:3145074 original size:18 final size:19
Alignment explanation
Indices: 3145038--3145075 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3145028 AATTATCTAA
*
3145038 TTAATCAATTCGACCCGAT
1 TTAATCAATCCGACCCGAT
*
3145057 TTAATCAA-CCGACTCGAT
1 TTAATCAATCCGACCCGAT
3145075 T
1 T
3145076 ATAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
TTAATCAATCCGACCCGAT
Found at i:3145994 original size:60 final size:59
Alignment explanation
Indices: 3145844--3146004 Score: 233
Period size: 54 Copynumber: 2.8 Consensus size: 59
3145834 TTGTACATTA
3145844 ATGGGTTCGTAAAGAGGTGCAAATGCAATCCCATTTTGAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCGTAAAGA-GTGCAAATGCAATCCCATTTTGAAGCATTTGGGAACTAGTATTT
* *
3145904 AAGGGTTCATAAAGAG-G----TGCAATCCCATTTTGAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCGTAAAGAGTGCAAATGCAATCCCATTTTGAAGCATTTGGGAACTAGTATTT
* *
3145958 ATGGGTTCGTAAAGATGTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCGTAAAGA-GTGCAAATGCAATCCCATTTTGAAGCATTTG
3146005 AGTTCCATTG
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
54 50 0.56
55 1 0.01
56 1 0.01
58 1 0.01
59 1 0.01
60 35 0.39
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (59 bp):
ATGGGTTCGTAAAGAGTGCAAATGCAATCCCATTTTGAAGCATTTGGGAACTAGTATTT
Found at i:3148299 original size:14 final size:14
Alignment explanation
Indices: 3148280--3148307 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3148270 TTTGTTTGCA
3148280 TGTAAAATATTTTC
1 TGTAAAATATTTTC
3148294 TGTAAAATATTTTC
1 TGTAAAATATTTTC
3148308 ATTGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TGTAAAATATTTTC
Found at i:3162200 original size:28 final size:28
Alignment explanation
Indices: 3162128--3162220 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 28
3162118 TACATTTCCT
* *
3162128 TTTTTAGGTGGTATACACGAAGTATACC
1 TTTTTAGATGGTATACACAAAGTATACC
*
3162156 TTTCCCTTTTCAAATGGTATACACAAAGTATACC
1 --T---TTTT-AGATGGTATACACAAAGTATACC
3162190 TTTTTAGATGGTATACACAAAGTATACC
1 TTTTTAGATGGTATACACAAAGTATACC
3162218 TTT
1 TTT
3162221 CCTTTTCACG
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
28 25 0.45
29 4 0.07
30 1 0.02
32 1 0.02
33 4 0.07
34 20 0.36
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (28 bp):
TTTTTAGATGGTATACACAAAGTATACC
Found at i:3162236 original size:33 final size:33
Alignment explanation
Indices: 3162123--3162460 Score: 246
Period size: 33 Copynumber: 10.3 Consensus size: 33
3162113 AGGTGTACAT
* * *
3162123 TTCCTTTTTTAGGTGGTATACACGAAGTATACCT
1 TTCC-TTTTCAGGTGGTATACACAAAGTATACCA
**
3162157 TTCCCTTTTCAAATGGTATACACAAAGTATACC-
1 TT-CCTTTTCAGGTGGTATACACAAAGTATACCA
* *
3162190 -T--TTTT-AGATGGTATACACAAAGTATACCT
1 TTCCTTTTCAGGTGGTATACACAAAGTATACCA
* * * * *
3162219 TTCCTTTTCACGCGGTATACGCAAAGTACACCG
1 TTCCTTTTCAGGTGGTATACACAAAGTATACCA
* * * *
3162252 TTACTTTTCACGTGGTATGCACAAAGTACACCA
1 TTCCTTTTCAGGTGGTATACACAAAGTATACCA
* *
3162285 GTCCATTTCAGGTGGTATACACAAAGTATACCGA
1 TTCCTTTTCAGGTGGTATACACAAAGTATACC-A
* *
3162319 TTCATTTT-AGGTGGTATACACAAAGTACCT-CAA
1 TTCCTTTTCAGGTGGTATACACAAAGTA--TACCA
* * *
3162352 TT-CATTTCAGGCGGTATACACAAAGTACACCAA
1 TTCCTTTTCAGGTGGTATACACAAAGTATACC-A
* ** *
3162385 TTCATTTT-AGGCAGTATACACAAAGTACACCGA
1 TTCCTTTTCAGGTGGTATACACAAAGTATACC-A
* ** *
3162418 TT-CATTTCAGACGGTATACACAAAGTACACCGA
1 TTCCTTTTCAGGTGGTATACACAAAGTATACC-A
*
3162451 TTCATTTTCA
1 TTCCTTTTCA
3162461 AGTTTGATAG
Statistics
Matches: 248, Mismatches: 41, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
28 22 0.09
29 4 0.02
30 1 0.00
32 12 0.05
33 165 0.67
34 41 0.17
35 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (33 bp):
TTCCTTTTCAGGTGGTATACACAAAGTATACCA
Found at i:3162294 original size:66 final size:65
Alignment explanation
Indices: 3162129--3162458 Score: 296
Period size: 66 Copynumber: 5.1 Consensus size: 65
3162119 ACATTTCCTT
* * ** * *** *
3162129 TTTTAGGTGGTATACACGAAGTATACCTTTCCCTTTTCAAATGGTATACACAAAGTATACC--T-
1 TTTTAGGTGGTATACACAAAGTACACCAGT-CCATTTCAGGCGGTATACACAAAGTACACCGTTC
3162191 -
65 A
* * ** * * *
3162191 TTTTAGATGGTATACACAAAGTATACCTTTCCTTTTCACGCGGTATACGCAAAGTACACCGTT-A
1 TTTTAGGTGGTATACACAAAGTACACCAGTCCATTTCAGGCGGTATACACAAAGTACACCGTTCA
* * * *
3162255 CTTTTCACGTGGTATGCACAAAGTACACCAGTCCATTTCAGGTGGTATACACAAAGTATACCGAT
1 -TTTT-AGGTGGTATACACAAAGTACACCAGTCCATTTCAGGCGGTATACACAAAGTACACCG-T
3162320 TCA
63 TCA
* * *
3162323 TTTTAGGTGGTATACACAAAGTAC-CTCAATTCATTTCAGGCGGTATACACAAAGTACACCAATT
1 TTTTAGGTGGTATACACAAAGTACAC-CAGTCCATTTCAGGCGGTATACACAAAGTACACC-GTT
3162387 CA
64 CA
** * *
3162389 TTTTAGGCAGTATACACAAAGTACACC-GATTCATTTCAGACGGTATACACAAAGTACACCGATT
1 TTTTAGGTGGTATACACAAAGTACACCAG-TCCATTTCAGGCGGTATACACAAAGTACACCG-TT
3162453 CA
64 CA
3162455 TTTT
1 TTTT
3162459 CAAGTTTGAT
Statistics
Matches: 226, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
61 25 0.11
62 28 0.12
63 1 0.00
65 5 0.02
66 159 0.70
67 7 0.03
68 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (65 bp):
TTTTAGGTGGTATACACAAAGTACACCAGTCCATTTCAGGCGGTATACACAAAGTACACCGTTCA
Found at i:3162335 original size:99 final size:98
Alignment explanation
Indices: 3162198--3162457 Score: 299
Period size: 99 Copynumber: 2.6 Consensus size: 98
3162188 CCTTTTTAGA
* * * * *
3162198 TGGTATACACAAAGTATACC-TTTCCTTTTCACGCGGTATACGCAAAGTACACCGTTACTTTTCA
1 TGGTATACACAAAGTATACCGATTCATTTT-AGGCGGTATACACAAAGTACACCGTT-CATTTCA
* * *
3162262 CGTGGTATGCACAAAGTACACCAGTCCATTTCAGG
64 CGCGGTATACACAAAGTACACCAATCCATTTCAGG
* *
3162297 TGGTATACACAAAGTATACCGATTCATTTTAGGTGGTATACACAAAGTAC-CTCAATTCATTTCA
1 TGGTATACACAAAGTATACCGATTCATTTTAGGCGGTATACACAAAGTACAC-C-GTTCATTTCA
* * *
3162361 GGCGGTATACACAAAGTACACCAATTCATTTTAGG
64 CGCGGTATACACAAAGTACACCAATCCATTTCAGG
** * * *
3162396 CAGTATACACAAAGTACACCGATTCATTTCAGACGGTATACACAAAGTACACCGATTCATTT
1 TGGTATACACAAAGTATACCGATTCATTTTAGGCGGTATACACAAAGTACACCG-TTCATTT
3162458 TCAAGTTTGA
Statistics
Matches: 136, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
98 1 0.01
99 125 0.92
100 10 0.07
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (98 bp):
TGGTATACACAAAGTATACCGATTCATTTTAGGCGGTATACACAAAGTACACCGTTCATTTCACG
CGGTATACACAAAGTACACCAATCCATTTCAGG
Found at i:3162497 original size:29 final size:29
Alignment explanation
Indices: 3162455--3162518 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
3162445 CACCGATTCA
3162455 TTTTCAAGTTTGATAGCCGAAGCTATCCC
1 TTTTCAAGTTTGATAGCCGAAGCTATCCC
*
3162484 TTTTCACGTTTGATAGCCGAAGCTATCCC
1 TTTTCAAGTTTGATAGCCGAAGCTATCCC
3162513 TTTTCA
1 TTTTCA
3162519 TGTGGTACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTTCAAGTTTGATAGCCGAAGCTATCCC
Found at i:3164364 original size:3 final size:3
Alignment explanation
Indices: 3164356--3164422 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
3164346 TATTTCTTAT
* *
3164356 TTA TTA TTA ATA -TA TTA TT- TTA TT- TCT- TTA TTGT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA
*
3164399 TTA TTC TTA TTA TTA TTA GTTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TT
3164423 TGAATTGTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.11
3 42 0.79
4 5 0.09
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3164380 original size:30 final size:30
Alignment explanation
Indices: 3164345--3164409 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
3164335 CTTTATTTAA
3164345 TTATTTC-TTATT-TATTATTAATATATTATT-
1 TTATTTCTTTATTGT-TTATT-AT-TATTATTC
3164375 TTATTTCTTTATTGTTTATTATTATTATTC
1 TTATTTCTTTATTGTTTATTATTATTATTC
3164405 TTATT
1 TTATT
3164410 ATTATTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.22
30 14 0.44
31 10 0.31
32 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (30 bp):
TTATTTCTTTATTGTTTATTATTATTATTC
Found at i:3166053 original size:6 final size:6
Alignment explanation
Indices: 3166038--3166110 Score: 94
Period size: 6 Copynumber: 12.3 Consensus size: 6
3166028 ATTGAGTCCA
* * *
3166038 TTTA-T TTTATT TTTATT TTTATT TTTAGT TTTAGT TTTAGT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
3166085 TTTATT TTTCTG TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
3166111 CTTAAACTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
5 4 0.07
6 57 0.93
ACGTcount: A:0.15, C:0.01, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:3183429 original size:31 final size:32
Alignment explanation
Indices: 3183361--3183429 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
3183351 GTTCATGTAG
* * * **
3183361 TTTAATTTGATCAATTTTAGATCTTTTATTTT
1 TTTAAATTGATCAATTTTAGATCCTTGAACTT
3183393 TTTAAATTGATCAATTTTA-ATCCTTGAACTT
1 TTTAAATTGATCAATTTTAGATCCTTGAACTT
3183424 TTTAAA
1 TTTAAA
3183430 ATTTGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTAAATTGATCAATTTTAGATCCTTGAACTT
Found at i:3185143 original size:23 final size:25
Alignment explanation
Indices: 3185107--3185157 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
3185097 TTGACCTTAC
3185107 TTTTATATTATATAT-TGTAAGATTA
1 TTTTATATTATATATAT-TAAGATTA
*
3185132 TTTTAT-TT-TATATATTAATATTA
1 TTTTATATTATATATATTAAGATTA
3185155 TTT
1 TTT
3185158 ATTATCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 15 0.62
24 3 0.12
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTATATTATATATATTAAGATTA
Found at i:3185225 original size:20 final size:20
Alignment explanation
Indices: 3185200--3185261 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
3185190 TTTACATCAT
3185200 TATTTTTTATATTATTATTA
1 TATTTTTTATATTATTATTA
3185220 TA-TTTTTACT-TGTATTATATA
1 TATTTTTTA-TAT-TATTAT-TA
* *
3185241 TATTTATTA-ATTATTTTTA
1 TATTTTTTATATTATTATTA
3185260 TA
1 TA
3185262 CATTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
19 11 0.31
20 14 0.40
21 5 0.14
22 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTTTATATTATTATTA
Found at i:3185446 original size:32 final size:27
Alignment explanation
Indices: 3185421--3185472 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
3185411 TATGTATATC
3185421 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
3185448 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
3185473 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:3188481 original size:65 final size:65
Alignment explanation
Indices: 3188377--3188506 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
3188367 GTCCCATGCG
3188377 TCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
1 TCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
*
3188442 TCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
1 TCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
3188507 ACCTTAGGGG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
TCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
Found at i:3188565 original size:27 final size:26
Alignment explanation
Indices: 3188511--3188565 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
3188501 ACCTTAACCT
* * *
3188511 TAGGGGTATATCAGTAATTTTGCTCC
1 TAGGGGTAAATCAGTAATTTTCCACC
*
3188537 TAGGGGTAAATCTGTAAATTTTCCACC
1 TAGGGGTAAATCAGT-AATTTTCCACC
3188564 TA
1 TA
3188566 TAAAGGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGGGGTAAATCAGTAATTTTCCACC
Found at i:3190805 original size:19 final size:19
Alignment explanation
Indices: 3190781--3190832 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
3190771 AATCTTTAAG
*
3190781 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
3190800 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3190819 GATATGCAATCTTA
1 GATATGCAATCTTA
3190833 AAGATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:3191253 original size:25 final size:27
Alignment explanation
Indices: 3191205--3191256 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
3191195 GTTTATTTTC
* *
3191205 AAATATATATTTTCTATGCATGTATAT
1 AAATATATATTATATATGCATGTATAT
3191232 AAAT-TATATTATATAT-CATGTATAT
1 AAATATATATTATATATGCATGTATAT
3191257 CGTATATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 10 0.43
27 4 0.17
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (27 bp):
AAATATATATTATATATGCATGTATAT
Found at i:3195461 original size:20 final size:19
Alignment explanation
Indices: 3195433--3195470 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3195423 TCTACTTTTT
*
3195433 ATAATATTATTAATTAGTAC
1 ATAACATTATTAA-TAGTAC
3195453 ATAACATTATTAATAGTA
1 ATAACATTATTAATAGTA
3195471 GTTGTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATAACATTATTAATAGTAC
Found at i:3211484 original size:60 final size:60
Alignment explanation
Indices: 3211391--3211557 Score: 307
Period size: 60 Copynumber: 2.8 Consensus size: 60
3211381 ACCATAATCA
*
3211391 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAGCTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
3211451 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
3211511 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTG
3211558 AGTTCCGTTG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 103 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (60 bp):
ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
Found at i:3213886 original size:24 final size:24
Alignment explanation
Indices: 3213859--3213910 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
3213849 AATTAAGGTC
* *
3213859 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
3213883 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
3213907 AAAT
1 AAAT
3213911 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:3217277 original size:37 final size:38
Alignment explanation
Indices: 3217177--3217278 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
3217167 ATATATTTGG
3217177 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
3217213 TACATATATATATATACATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
3217255 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
3217279 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:3217325 original size:13 final size:14
Alignment explanation
Indices: 3217295--3217378 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
3217285 TTAGGAAACG
3217295 TACATAAAAATATA
1 TACATAAAAATATA
*
3217309 TACATAAAAA-ATT
1 TACATAAAAATATA
3217322 TACA-ACAATAATATA
1 TACATA-AA-AATATA
* ** *
3217337 -AAATAATGATATG
1 TACATAAAAATATA
3217350 TACA-AAAAATATA
1 TACATAAAAATATA
* * *
3217363 TATATATATATATA
1 TACATAAAAATATA
3217377 TA
1 TA
3217379 TATATATATA
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
12 1 0.02
13 21 0.41
14 26 0.51
15 3 0.06
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (14 bp):
TACATAAAAATATA
Found at i:3217363 original size:2 final size:2
Alignment explanation
Indices: 3217358--3217390 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3217348 TGTACAAAAA
3217358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3217391 CGTATGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3218074 original size:33 final size:33
Alignment explanation
Indices: 3218029--3218093 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3218019 GGTGGCTAGG
3218029 TTTTTTTATCTTTTTTTT-TTTGTTAGGTTTTTC
1 TTTTTTTATCTTTTTTTTCTTT-TTAGGTTTTTC
3218062 TTTTTTCT-TCTTTTTTTTCTTTTTAGGTTTTT
1 TTTTTT-TATCTTTTTTTTCTTTTTAGGTTTTT
3218094 TTGGGGTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.05, C:0.08, G:0.08, T:0.80
Consensus pattern (33 bp):
TTTTTTTATCTTTTTTTTCTTTTTAGGTTTTTC
Found at i:3218081 original size:9 final size:9
Alignment explanation
Indices: 3218056--3218085 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3218046 TTTTGTTAGG
3218056 TTTTTCTTT
1 TTTTTCTTT
3218065 TTTCTTCTTT
1 TTT-TTCTTT
3218075 TTTTTCTTT
1 TTTTTCTTT
3218084 TT
1 TT
3218086 AGGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:3218105 original size:48 final size:46
Alignment explanation
Indices: 3218052--3218147 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 46
3218042 TTTTTTTTGT
*
3218052 TAGGTTTTTCTTTTTTCTTCTTTTTTTTCTT-TTTAGGTTTTTTTGGGG
1 TAGGTTTTTCTTTTTCCTT-TTTTTTTT-TTGTTT-GGTTTTTTTGGGG
3218100 TAGGTTTTTCTTTTTCCTTTTTTTTTTTTGGGTTTGGTTTTTTTGGGG
1 TAGGTTTTTCTTTTTCCTTTTTTTTTTTT--GTTTGGTTTTTTTGGGG
3218148 GGCTTAATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 8 0.18
48 31 0.70
49 3 0.07
ACGTcount: A:0.03, C:0.07, G:0.20, T:0.70
Consensus pattern (46 bp):
TAGGTTTTTCTTTTTCCTTTTTTTTTTTTGTTTGGTTTTTTTGGGG
Found at i:3219002 original size:30 final size:30
Alignment explanation
Indices: 3218966--3219027 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
3218956 TTTTGAAAAA
3218966 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
3218996 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
3219026 CA
1 CA
3219028 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:3219145 original size:14 final size:14
Alignment explanation
Indices: 3219122--3219156 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3219112 TGAGTTGATT
3219122 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
3219135 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
3219149 TTTGAAAA
1 TTTGAAAA
3219157 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:3219343 original size:77 final size:74
Alignment explanation
Indices: 3219135--3219537 Score: 359
Period size: 72 Copynumber: 5.3 Consensus size: 74
3219125 GAAAACAGAA
** * * *
3219135 TTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAAT
1 TTTG-AAAACAGAAATTGAAAATACCTCAG-C--GTGATCCGAAGCTCAACTCACCTCTCGCAAT
*
3219199 GTGAGTTGATTTTT
62 ATGAGTTGA-TTTT
* * * *
3219213 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTG-AAAACAGAAATTG--AAAATACCTCA--GCGTGATCCGAAGCTCAACTCACCTCTCGCAA
3219278 TATGAGTTGATTTT
61 TATGAGTTGATTTT
* * * *
3219292 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAAGCTCAACTCACCTCTCGCAATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCG--TGATCCGAAGCTCAACTCACCTCTCGCAATA
*
3219357 TAAGTTGA-TTT
63 TGAGTTGATTTT
* * * * ** *
3219368 TTTGAAAACAAAAATTGAAAATACCTCAACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATA
1 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGATC-CGAAGCTCAACTCACCTCTCGCAATATG
*
3219432 AGTTGA--AT
65 AGTTGATTTT
* * *
3219440 TTTGAAAACAGAAATTGCAATTACCTCAGCGTG-TCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGAT-CCGAAGCTCAACTCACCTCTCGCAATATG
3219504 AGTTGATTTTTT
65 AGTTGA--TTTT
*
3219516 TTTGAAAGGCAGAAATTGAAAA
1 TTTGAAA-ACAGAAATTGAAAA
3219538 ATGGAAATTG
Statistics
Matches: 270, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
72 62 0.23
73 32 0.12
75 22 0.08
76 18 0.07
77 56 0.21
78 17 0.06
79 17 0.06
80 45 0.17
83 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (74 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGATCCGAAGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:3219664 original size:74 final size:75
Alignment explanation
Indices: 3219541--3219702 Score: 229
Period size: 74 Copynumber: 2.1 Consensus size: 75
3219531 TTGAAAAATG
* *
3219541 GAAATTGAAAATACCCCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCCCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
3219606 TTTTGACAA-CA
65 TTTTGA-AAGCA
* * * *
3219617 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCCCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
3219681 TTTGAAAGGCA
66 TTTGAAA-GCA
3219692 GAAATTGAAAA
1 GAAATTGAAAA
3219703 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCCCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGAAAGCA
Found at i:3219696 original size:165 final size:165
Alignment explanation
Indices: 3219379--3220430 Score: 1492
Period size: 165 Copynumber: 6.3 Consensus size: 165
3219369 TTGAAAACAA
** * ** ** *
3219379 AAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--AT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
* * *
3219440 TTTGAAAACAGAAATTGCAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
3219505 GTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAATGG
131 GTTGA--TTTTTTTGAAAGACAGAAATTGAAAAACGG
* *
3219542 AAATTGAAAATACCCCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
3219607 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
3219672 GTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
131 GTTGATTTTTTTGAAAGACAGAAATTGAAAAACGG
* *
3219707 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA-TTT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
3219771 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
3219836 GTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGG
131 GTTGA-TTTTTTTGAAAGACAGAAATTGAAAAACGG
*
3219872 AAATTGAAAATACCTCGGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
* * *
3219937 TTTGACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATAA
66 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
3220002 GTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
131 GTTGATTTTTTTGAAAGACAGAAATTGAAAAACGG
* * *
3220037 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
* *
3220102 TTTGACAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
66 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
3220167 GTTGATTTTTTTGAAAGACAGAAATTGAAAAACGG
131 GTTGATTTTTTTGAAAGACAGAAATTGAAAAACGG
* * *
3220202 AAATTGAAAATACATCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACAAGTTGATTCT
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA--CT
* * * *
3220267 TTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCAC
64 TT--------T--T--TGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * * * * * * *
3220332 CTCTCGCAATATGAGCTGA-TTCTTTCAAAAACATAATAATG-AAGACAG
117 CTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAA-ATTGAAAAACGG
3220380 AAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
3220431 TGAGCTGATT
Statistics
Matches: 812, Mismatches: 56, Indels: 29
0.91 0.06 0.03
Matches are distributed among these distances:
163 20 0.02
164 73 0.09
165 445 0.55
166 70 0.09
167 71 0.09
175 1 0.00
176 31 0.04
177 1 0.00
178 36 0.04
179 64 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (165 bp):
AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAGACAGAAATTGAAAAACGG
Found at i:3219784 original size:89 final size:88
Alignment explanation
Indices: 3219617--3219790 Score: 253
Period size: 91 Copynumber: 2.0 Consensus size: 88
3219607 TTTGACAACA
* * *
3219617 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
3219682 TTGAAAGGCAGAAATTGAAAAACG
66 TTGAAA-GCAGAAATTGAAAAACG
* *
3219706 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
3219770 TTTTGACAA-CAGAAATTGAAA
64 TTTTGA-AAGCAGAAATTGAAA
3219791 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
89 34 0.44
90 8 0.10
91 35 0.45
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTGAAAGCAGAAATTGAAAAACG
Found at i:3219790 original size:403 final size:390
Alignment explanation
Indices: 3219009--3219863 Score: 914
Period size: 403 Copynumber: 2.1 Consensus size: 390
3218999 AAATTAAAAA
* * * * * *
3219009 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAACAGAAATTGAAAATAGCT
1 GCTCAACTCACCTCTCGCAATATAAGTTG-A-TATTTTG---AAAGACAGAAATTGCAATTACCT
* ** * * *
3219074 CAGCACATGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTG
61 CAG--CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG
** * **
3219139 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
124 AAAAACAGAAATTGAAAATACCCCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATACGAG
* * * * *
3219204 TTGATTTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCAC
189 TTGATCTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAGCGTGT-ACCTGAAGCTCAACTCAC
*
3219269 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAA
252 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAA
* *
3219334 AGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAACG
317 AGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAACG
*
3219399 TGTCTTGAG
382 TGTCCTGAG
**
3219408 GCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAA-ACAGAAATTGCAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAGACAGAAATTGCAATTACCTCAGCG
*
3219471 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAA
66 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA-ACAGAAATTGAA
** * * * * *
3219536 AAATGGAAATTGAAAATACCCCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTT
126 AAACAGAAATTGAAAATACCCCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATACGAGTT
* * *
3219601 GA-CTTTTTTG-ACAACAGAAATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCT
191 GATCTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCT
*
3219662 CGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCG
256 CGCAATATGAGTTGATTTTTTTG-AA---AG--A-T-----A--GAAATTGAAAATACCTCAGCG
** * * * * * *
3219727 TGTGA-CCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTGACAACAGAAATTGAAA
307 CATGAGCC-AAAGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAAAAATTGAAA
* *
3219791 TTACCTCAGCGTGTCCTGAG
371 ATACCTCAACGTGTCCTGAG
* *
3219811 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATAAGTTGA--TATTTTGAAAGACAGAAATTG
3219864 AAAAACGGAA
Statistics
Matches: 379, Mismatches: 53, Indels: 40
0.80 0.11 0.08
Matches are distributed among these distances:
389 42 0.11
390 38 0.10
391 15 0.04
392 19 0.05
393 15 0.04
394 16 0.04
395 66 0.17
396 6 0.02
398 1 0.00
399 26 0.07
401 1 0.00
402 2 0.01
403 114 0.30
406 8 0.02
407 10 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (390 bp):
GCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAGACAGAAATTGCAATTACCTCAGCG
TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACA
GAAATTGAAAATACCCCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGATCT
TTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAAAGCTCAACT
CACCACTCGCAATACAAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAG
Found at i:3219830 original size:73 final size:76
Alignment explanation
Indices: 3219696--3220197 Score: 254
Period size: 75 Copynumber: 6.3 Consensus size: 76
3219686 AAGGCAGAAA
* * * *
3219696 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
3219761 GAGTTGA-TTTT
65 GAGTTGATTTTT
* * * *
3219772 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
3219835 AGTTGATTTTTT
66 AGTTGA-TTTTT
** *** *
3219847 TTGAAAGACAGAAATTGAAAA-A-CGGAAATTGAAAATACCT-CGGCGTGCGACCTGAGGCTCAA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTG----TACCTGAGGC-T-C-A----A--CTC-A
*
3219909 CTCACCTCTCGCAATACGAGTTGACTTTT
52 C-CA---CTCGCAATACGAGTTGATTTTT
* * * * * **
3219938 TTGACA-ACAGAAATTGAAATTACCTCAGCGTAT-CCTGAGGCTCAACTCACCTCTCGTAATATA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
3220001 AGTTGATTTTT
66 AGTTGATTTTT
* ** *** * * *
3220012 TTGAAAGGCAGAAATTGAAAA-A-CGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTG----TACCT----GAG-G--CTCA-ACTC-AC
3220075 TCGCCACTCGCAATACGAGTTGATTTTT
53 -C---ACTCGCAATACGAGTTGATTTTT
* * * * * *
3220103 TTGACA-ACAGAAATTGAAATTACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
3220166 AGTTGATTTTT
66 AGTTGATTTTT
3220177 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
3220198 ACGGAAATTG
Statistics
Matches: 316, Mismatches: 63, Indels: 95
0.67 0.13 0.20
Matches are distributed among these distances:
73 36 0.11
74 53 0.17
75 59 0.19
76 18 0.06
77 3 0.01
78 11 0.03
79 10 0.03
80 4 0.01
81 2 0.01
82 3 0.01
83 3 0.01
85 5 0.02
86 4 0.01
87 12 0.04
88 8 0.03
89 1 0.00
90 25 0.08
91 35 0.11
92 24 0.08
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (76 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTT
Found at i:3219847 original size:75 final size:75
Alignment explanation
Indices: 3219696--3219867 Score: 231
Period size: 73 Copynumber: 2.3 Consensus size: 75
3219686 AAGGCAGAAA
* * * *
3219696 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
3219761 GAGTTGATTTT
65 GAGTTGATTTT
* * * *
3219772 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
3219835 AGTTGATTTTTT
66 AGTTGA--TTTT
3219847 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
3219868 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 33 0.39
75 33 0.39
76 18 0.21
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (75 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTT
Found at i:3219866 original size:14 final size:14
Alignment explanation
Indices: 3219847--3219881 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3219837 TTGATTTTTT
*
3219847 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
3219861 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
3219875 TTGAAAA
1 TTGAAAA
3219882 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:3219951 original size:90 final size:90
Alignment explanation
Indices: 3219781--3219956 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 90
3219771 TTTGACAACA
* * * *
3219781 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTT
3219846 TTTGAAAGACAGAAATTGAAAAACG
66 TTTGAAAGACAGAAATTGAAAAACG
*
3219871 GAAATTGAAAATACCTCGGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-CT
1 GAAATTGAAAATACCTCAGCGT--GACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCT
*
3219935 TTTTTGACA-ACAGAAATTGAAA
64 TTTTTGAAAGACAGAAATTGAAA
3219957 TTACCTCAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
90 33 0.42
91 9 0.12
92 36 0.46
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (90 bp):
GAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTT
TTTGAAAGACAGAAATTGAAAAACG
Found at i:3220005 original size:74 final size:74
Alignment explanation
Indices: 3219871--3220032 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 74
3219861 TTGAAAAACG
* *
3219871 GAAATTGAAAATACCTCGGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCAGCGT--GACCTGAGGCTCAACTCACCTCTCGCAATACAAGTTGACTT
3219936 TTTTGACAA-CA
64 TTTTGA-AAGCA
* * * *
3219947 GAAATTGAAATTACCTCAGCGT-ATCCTGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGA-CCTGAGGCTCAACTCACCTCTCGCAATACAAGTTGACTTT
3220011 TTTGAAAGGCA
65 TTTGAAA-GCA
3220022 GAAATTGAAAA
1 GAAATTGAAAA
3220033 ACGGAAATTG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
73 3 0.04
74 41 0.54
75 12 0.16
76 20 0.26
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (74 bp):
GAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATACAAGTTGACTTTT
TTGAAAGCA
Found at i:3220100 original size:91 final size:88
Alignment explanation
Indices: 3219947--3220121 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 88
3219937 TTTGACAACA
* * * *
3219947 GAAATTGAAATTACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCACTCGCAATACAAGTTGATTTTT
3220012 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATTGAAAAACG
* * * *
3220036 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTAT--CCTGAGGCTCAACTCACCACTCGCAATACAAGTTGATTT
3220101 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
3220122 TTACCTCAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 40 0.53
92 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCACTCGCAATACAAGTTGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:3220163 original size:74 final size:76
Alignment explanation
Indices: 3220026--3220197 Score: 231
Period size: 74 Copynumber: 2.3 Consensus size: 76
3220016 AAGGCAGAAA
* * ** *
3220026 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAACGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
3220091 GAGTTGATTTTT
65 GAGTTGATTTTT
* * * * *
3220103 TTGACA-ACAGAAATTGAAATTACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
3220166 AGTTGATTTTT
66 AGTTGATTTTT
3220177 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
3220198 ACGGAAATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
74 42 0.51
75 13 0.16
76 23 0.28
77 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (76 bp):
TTGAAAGACAGAAATTGAAAATACCTCAACGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTT
Found at i:3220196 original size:14 final size:14
Alignment explanation
Indices: 3220177--3220211 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3220167 GTTGATTTTT
*
3220177 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
3220191 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
3220205 TTGAAAA
1 TTGAAAA
3220212 TACATCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:3220338 original size:88 final size:88
Alignment explanation
Indices: 3220108--3220440 Score: 461
Period size: 88 Copynumber: 3.8 Consensus size: 88
3220098 TTTTTTTGAC
* ** * *
3220108 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * * *
3220173 TTTTTTGAAAGACAGAA-ATTGAAA
65 TTCTTTCAAAAACATAATAATG-AA
* * * **
3220197 AACGGAAATTGAAAATACATCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACAAGTTG
1 AACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
3220262 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
*
3220287 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
3220352 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
* *
3220375 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
3220440 T
66 T
3220441 TTGAAAAAGT
Statistics
Matches: 219, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
88 125 0.57
89 19 0.09
90 37 0.17
91 38 0.17
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:3220343 original size:179 final size:176
Alignment explanation
Indices: 3220108--3220430 Score: 468
Period size: 179 Copynumber: 1.8 Consensus size: 176
3220098 TTTTTTTGAC
* * * *
3220108 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * *
3220173 TTTTTTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACATCGGCGTGTGACCTGAGGCTC
65 TTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACATCGGC--GTGACCTGAGGCTC
*
3220237 AACTCGCCTCTCGCAATACAAGTTGATTCTTTCAAAAACATAATAATGAA
127 AACTCACCTCTCGCAATACAAGTTGATTCTTTCAAAAACATAATAATGAA
**
3220287 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* * *
3220352 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACATCGGCGTGACCTGAGGCTCAACT
3220417 CACCTCTCGCAATA
131 CACCTCTCGCAATA
3220431 TGAGCTGATT
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
176 31 0.24
178 36 0.28
179 61 0.48
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (176 bp):
AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACATCGGCGTGACCTGAGGCTCAACT
CACCTCTCGCAATACAAGTTGATTCTTTCAAAAACATAATAATGAA
Found at i:3220556 original size:73 final size:71
Alignment explanation
Indices: 3220464--3220652 Score: 245
Period size: 71 Copynumber: 2.6 Consensus size: 71
3220454 AATTAAAGGT
* * * * *
3220464 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAAAAATTGAAAATACCTCAGCGTG-
*
3220529 CCTGAGGC
64 CCCGAGGC
**
3220537 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
3220601 CCGAGGC
65 CCGAGGC
* * *
3220608 TCAACTCACCTCTAGCAATATGAATTGATTTTGAAAAACCAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAAT
3220653 AAAAAGGCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 45 0.45
72 29 0.29
73 27 0.27
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CGAGGC
Done.