Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009028.1 Hibiscus syriacus cultivar Beakdansim tig00112428_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 486293
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:9741 original size:24 final size:23
Alignment explanation
Indices: 9696--9765 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
9686 TATTATGCTT
9696 GAAGAGAAAAAAGAAGAAAAAAAAATA
1 GAAGA-AAAAAAG-AG-AAAAAAAA-A
9723 GAA-AATGAAAAAGAGAAAAAAAAA
1 GAAGAA--AAAAAGAGAAAAAAAAA
9747 GAAGAAAAAAAG-GAAAAAA
1 GAAGAAAAAAAGAGAAAAAA
9766 GAAAAAGGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
22 7 0.17
23 6 0.15
24 4 0.10
25 11 0.28
26 3 0.08
27 9 0.22
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (23 bp):
GAAGAAAAAAAGAGAAAAAAAAA
Found at i:9742 original size:27 final size:27
Alignment explanation
Indices: 9703--9754 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
9693 CTTGAAGAGA
9703 AAAAAGAAGAAAAAAAA-ATAGAAAATG
1 AAAAAGAAGAAAAAAAAGA-AGAAAATG
9730 AAAAAG-AGAAAAAAAAAGAAGAAAA
1 AAAAAGAAG-AAAAAAAAGAAGAAAA
9755 AAAGGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.09
27 20 0.87
28 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (27 bp):
AAAAAGAAGAAAAAAAAGAAGAAAATG
Found at i:9770 original size:13 final size:11
Alignment explanation
Indices: 9697--9770 Score: 67
Period size: 12 Copynumber: 6.2 Consensus size: 11
9687 ATTATGCTTG
*
9697 AAGAGAAAAAAG
1 AAGA-AAAAAAA
9709 AAGAAAAAAAA
1 AAGAAAAAAAA
*
9720 ATAGAAAATGAAA
1 A-AGAAAA-AAAA
9733 AAGAGAAAAAAA
1 AAGA-AAAAAAA
9745 AAGAAGAAAAAA
1 AAGAA-AAAAAA
*
9757 AGGAAAAAAGAA
1 AAGAAAAAA-AA
9769 AA
1 AA
9771 AGGGGGTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
11 12 0.23
12 33 0.63
13 7 0.13
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:11029 original size:81 final size:82
Alignment explanation
Indices: 10893--11315 Score: 669
Period size: 81 Copynumber: 5.2 Consensus size: 82
10883 AAACATTAAA
*
10893 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
*
10958 AGAACAGTCATTGAATT
66 AGAACAATCATTGAATT
*
10975 TGGAAGATGAATTTACC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
11039 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
*
11056 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTG-TCTTTGAGTTATCTGACCTGGTTT-GC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
11119 AGAAC-ATCATTGAATT
66 AGAACAATCATTGAATT
* * * *
11135 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTATA-
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTT-TAG
* *
11199 TAGAATCAAGCATTGAATT
65 CAGAA-CAATCATTGAATT
* *
11218 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGA
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-
11282 CAGAACAATCATTGAATT
65 CAGAACAATCATTGAATT
11300 TGGAAGATGAATTTGC
1 TGGAAGATGAATTTGC
11316 TCATAGTAAA
Statistics
Matches: 319, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
79 48 0.15
80 27 0.08
81 108 0.34
82 66 0.21
83 70 0.22
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (82 bp):
TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
AGAACAATCATTGAATT
Found at i:12269 original size:112 final size:112
Alignment explanation
Indices: 11924--12464 Score: 804
Period size: 112 Copynumber: 4.8 Consensus size: 112
11914 CAAAGATTCA
* * *
11924 AATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
11989 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTACCTG
* * *
12037 AATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT--AGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
12100 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTACCTG
* *
12147 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
12212 AGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTACCTG
* * *
12259 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
12323 AAGGAAGAAGAAGTTCATAATGAGAAGAATGTGTTCAACCTTTGCTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTACCTG
* * *
12371 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
12435 AAGGAAGAAAAAGTTTCATAATGAGAAGAA
65 AAGGAAGAAGAAG-TTCATAATGAGAAGAA
12465 CTCATCAAGA
Statistics
Matches: 408, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
110 64 0.16
111 53 0.13
112 206 0.50
113 85 0.21
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (112 bp):
AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTACCTG
Found at i:12717 original size:3 final size:3
Alignment explanation
Indices: 12711--12807 Score: 117
Period size: 3 Copynumber: 32.7 Consensus size: 3
12701 TTTTTATCCA
* **
12711 TAT TAT TAT TAT TAA TAT TAT TAT CCT TA- TAT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * *
12756 TAT CAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12803 TAT TA
1 TAT TA
12808 AATATATTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
2 4 0.05
3 72 0.91
4 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:15922 original size:24 final size:24
Alignment explanation
Indices: 15888--15934 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15878 CTGAAACATC
15888 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
15912 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
15935 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:16642 original size:20 final size:20
Alignment explanation
Indices: 16614--16843 Score: 221
Period size: 20 Copynumber: 11.5 Consensus size: 20
16604 AAATTTCAGT
* * *
16614 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
16634 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
16654 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
16674 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
16694 GTTGCGATTTATGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
16714 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
16734 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
16754 GTTGCGATTTACGGATAT-AC
1 GTTGCGATTTACGGAT-TCGC
*
16774 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
16794 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
16814 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
16834 GTTGCGATTT
1 GTTGCGATTT
16844 TGGAAAATCG
Statistics
Matches: 176, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
20 175 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:16860 original size:21 final size:21
Alignment explanation
Indices: 16830--16912 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
16820 ATTTTCATAT
*
16830 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
16851 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
16872 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
16893 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
16913 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:16903 original size:42 final size:43
Alignment explanation
Indices: 16810--16908 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
16800 ATTTATGTGT
*
16810 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
16851 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
16893 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
16909 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:17630 original size:16 final size:18
Alignment explanation
Indices: 17609--17643 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
17599 TTTACTCATT
17609 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
17625 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
17643 T
1 T
17644 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:20302 original size:8 final size:8
Alignment explanation
Indices: 20289--20335 Score: 69
Period size: 8 Copynumber: 6.0 Consensus size: 8
20279 GAACATTTCG
*
20289 TGCATTCT
1 TGCATTTT
20297 TGCA-TTT
1 TGCATTTT
20304 TGCATTTT
1 TGCATTTT
20312 TGCATTTT
1 TGCATTTT
*
20320 TGCCTTTT
1 TGCATTTT
20328 TGCATTTT
1 TGCATTTT
20336 CATCTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
7 6 0.17
8 29 0.83
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.60
Consensus pattern (8 bp):
TGCATTTT
Found at i:20309 original size:15 final size:15
Alignment explanation
Indices: 20289--20335 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
20279 GAACATTTCG
*
20289 TGCATTCTTGCATTT
1 TGCATTTTTGCATTT
20304 TGCATTTTTGCATTTT
1 TGCATTTTTGCA-TTT
*
20320 TGCCTTTTTGCATTT
1 TGCATTTTTGCATTT
20335 T
1 T
20336 CATCTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.60
Consensus pattern (15 bp):
TGCATTTTTGCATTT
Found at i:21515 original size:9 final size:8
Alignment explanation
Indices: 21472--21543 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
21462 AATCAAGAAC
21472 AAAAAAGA
1 AAAAAAGA
*
21480 AAAGAAGCA
1 AAAAAAG-A
21489 AAAAAAGCA
1 AAAAAAG-A
21498 AAAAAA-A
1 AAAAAAGA
*
21505 AACAAAGA
1 AAAAAAGA
*
21513 AAAAGAG-
1 AAAAAAGA
*
21520 AAACAAGA
1 AAAAAAGA
*
21528 ACAAAAGA
1 AAAAAAGA
21536 AAAAAAGA
1 AAAAAAGA
21544 GCAAAAATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 11 0.22
8 25 0.49
9 15 0.29
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:21515 original size:22 final size:23
Alignment explanation
Indices: 21490--21573 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
21480 AAAGAAGCAA
21490 AAAAAGCA-AAAAAAAAAC-AAAG
1 AAAAAG-AGAAAAAAAAACAAAAG
* *
21512 AAAAAGAGAAACAAGAACAAAAG
1 AAAAAGAGAAAAAAAAACAAAAG
* ** *
21535 AAAAAAAGAGCAAAAATCAAAAAG
1 AAAAAGAGAAAAAAAAAC-AAAAG
* *
21559 AAAAAGGGACAAAAA
1 AAAAAGAGAAAAAAA
21574 GCACATGCAA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.02
22 14 0.30
23 16 0.34
24 16 0.34
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.01
Consensus pattern (23 bp):
AAAAAGAGAAAAAAAAACAAAAG
Found at i:23193 original size:25 final size:25
Alignment explanation
Indices: 23165--23212 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23155 TTTTTAACGA
23165 TATACATATGTT-ATTTTTTATTTAT
1 TATA-ATATGTTAATTTTTTATTTAT
* *
23190 TATAATTTTTTAATTTTTTATTT
1 TATAATATGTTAATTTTTTATTT
23213 TCTGTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TATAATATGTTAATTTTTTATTTAT
Found at i:28913 original size:194 final size:192
Alignment explanation
Indices: 28625--29029 Score: 438
Period size: 194 Copynumber: 2.1 Consensus size: 192
28615 ATCGTTCTAT
* * * * * * *
28625 TAAACCAATTGGTTGATAGTTTCTTCTTGCAT-ATTTTTTTTTATAACCAGCAGTATTCGATCTA
1 TAAACCAACTGGTTGTTGGTTTATTCATACATAATTTTTTTTTATAACCACCAGTATTCGATCTA
* * * * * * * * *
28689 TTGATCAACTAATATAGATCGGGTACTGCAGAGGGAAATGCGACATTCTCAACCCAGTTTGCTCT
66 TTAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCTCC
* * * * *
28754 ATTCGCAATCACCAGGATTCGAA-CTCCTGACCTTGCTTAAAGGGATATAGTGTCTCACCCCAC
131 ATTCACAATCACCAAGATTCGAATC-CCTGACATTG-TTAAAGGGATATAGTGCCTCACCACAC
* *
28817 TATACCAACTGGTTGTTGGTTTATTCATACATAATTTTTTTTGTATAACCACCGGTA-TCTGATC
1 TAAACCAACTGGTTGTTGGTTTATTCATACATAATTTTTTTT-TATAACCACCAGTATTC-GATC
** * * *
28881 TATTAATTGACTAATCCAGATCGGGAACTGCAGAGGCAAGGGCGACCCTCCCAACCCAATTTGCT
64 TATTAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCT
** * * * *
28946 CCATTCACAATCGTCAAGATTCGAATCCCTGACATTGTTTAAGGGATTTAGTGCCTTATCACAC
129 CCATTCACAATCACCAAGATTCGAATCCCTGACATTGTTAAAGGGATATAGTGCCTCACCACAC
*
29010 TAAACCAATTGGTTGTTGGT
1 TAAACCAACTGGTTGTTGGT
29030 GGTTTCTTAG
Statistics
Matches: 173, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
192 25 0.14
193 50 0.29
194 97 0.56
195 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (192 bp):
TAAACCAACTGGTTGTTGGTTTATTCATACATAATTTTTTTTTATAACCACCAGTATTCGATCTA
TTAATCAACTAATACAGATCGGGAACTGCAGAGGCAAAGGCGACACTCCCAACCCAATTTGCTCC
ATTCACAATCACCAAGATTCGAATCCCTGACATTGTTAAAGGGATATAGTGCCTCACCACAC
Found at i:31011 original size:120 final size:122
Alignment explanation
Indices: 30868--31157 Score: 394
Period size: 120 Copynumber: 2.4 Consensus size: 122
30858 TAAGTTTTGA
* * * * * * *
30868 AAAAAATTAAAAGTTTATG-TACTAAAACGGATCAAAACTACTAGTTTAGT-TATTAAATGTGTT
1 AAAAAATAAAAAATTTA-GCTACTAAAACGAACCAAAACTAATAGTTTAGTGTACTAAACGTGTT
*
30931 AAGTTTTTAACG-ACGACTACTAAAATGAAATGAAAACTAAGCGTTATTTATGGTCTTG
65 AAGTTTTTAACGAACGA-TACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTG
30989 -AAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTA-TGTACTAAACGTGTTA
1 AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAGTGTACTAAACGTGTTA
* * * *
31052 AGTTTTTAACGAATGATACTAAAATGAAATGGAAACTAAGCTTTATGTATGGTTTTG
66 AGTTTTTAACGAACGATACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTG
*
31109 AAAAAATTAAAAGA-TTAGCTACTAAAACGAACCAAAACTAATAGTTTAG
1 AAAAAA-TAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAG
31158 ATACTAATAT
Statistics
Matches: 150, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
119 2 0.01
120 100 0.67
121 42 0.28
122 6 0.04
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (122 bp):
AAAAAATAAAAAATTTAGCTACTAAAACGAACCAAAACTAATAGTTTAGTGTACTAAACGTGTTA
AGTTTTTAACGAACGATACTAAAATGAAATGAAAACTAAGCGTTATGTATGGTCTTG
Found at i:31568 original size:28 final size:28
Alignment explanation
Indices: 31528--31585 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
31518 AAGCTCAAAG
*
31528 ATTATCATATTGAATATGATATGATAAA
1 ATTAACATATTGAATATGATATGATAAA
* *
31556 ATTAACATGTTGACTATGATATGATAAA
1 ATTAACATATTGAATATGATATGATAAA
31584 AT
1 AT
31586 ATGATTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (28 bp):
ATTAACATATTGAATATGATATGATAAA
Found at i:34825 original size:59 final size:60
Alignment explanation
Indices: 34750--34863 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
34740 ATTATGATTG
* * * *
34750 TCATTCTAAACTAGTCCTC-AAAC-TTTTGAACATTTCAATTTCATCCCAAACTATGACCT
1 TCATTCTAAACTAGTCC-CAAAACACTCTGAACATTCCAATTTCACCCCAAACTATGACCT
34809 TCATTCTAAA-TCAGTCCCAAAACACTCTGAACATTCCAATTTCACCCCAAACTAT
1 TCATTCTAAACT-AGTCCCAAAACACTCTGAACATTCCAATTTCACCCCAAACTAT
34864 ATGTATATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 2 0.04
59 19 0.40
60 27 0.56
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (60 bp):
TCATTCTAAACTAGTCCCAAAACACTCTGAACATTCCAATTTCACCCCAAACTATGACCT
Found at i:35169 original size:60 final size:59
Alignment explanation
Indices: 34990--35170 Score: 179
Period size: 60 Copynumber: 3.0 Consensus size: 59
34980 AATGAATTTG
* * * * *
34990 GGGATAAAATTAGAATATTTAAAAGTTTAGGGACTAATTTAGAAA-GAGGGTCATAATTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTA-AAATGA-GGTTATAGTTTA
* * ** *
35050 GGGATGGAATTAGAATGTTCAAAAGTTTAAGGACTGGTTTAGAATGAGAGTTA-AGGTTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAG-GTTATA-GTTTA
* *
35110 GGGATGAAATTGGAATATTCAAAAGTTTAAGCA-TCAATTTAAAATGATGGTTATAGTTTA
1 GGGATGAAATTAGAATATTCAAAAGTTTAAGGACT-AATTTAAAATGA-GGTTATAGTTTA
35170 G
1 G
35171 AGCCATACAA
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
59 5 0.05
60 91 0.93
61 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (59 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGGTTATAGTTTA
Found at i:35396 original size:3 final size:3
Alignment explanation
Indices: 35383--35413 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
35373 TTTCTTGACG
35383 ATA ACTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
35414 TAAATATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35962 original size:29 final size:29
Alignment explanation
Indices: 35902--35965 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
35892 AAGTCTCTCA
* * *
35902 ACTATTACAAGTTACAAAATGGTCCTTTG
1 ACTATTAAAAGTTACAAAACGGTCCTTCG
*
35931 ACTATTAAAAGTTATAAAACGGTCAC-TCG
1 ACTATTAAAAGTTACAAAACGGTC-CTTCG
35960 ACTATT
1 ACTATT
35966 CATTATGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (29 bp):
ACTATTAAAAGTTACAAAACGGTCCTTCG
Found at i:37377 original size:2 final size:2
Alignment explanation
Indices: 37367--37398 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
37357 ATATATTGAA
*
37367 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37399 CCATTGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39517 original size:25 final size:25
Alignment explanation
Indices: 39489--39539 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
39479 AATAATAACG
39489 TGTTATTAATTCAT-TTGGCATTGCA
1 TGTTATTAATTCATGTT-GCATTGCA
39514 TGTTATTAATTCATGTTGCATTGCA
1 TGTTATTAATTCATGTTGCATTGCA
39539 T
1 T
39540 ACTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.49
Consensus pattern (25 bp):
TGTTATTAATTCATGTTGCATTGCA
Found at i:42294 original size:7 final size:7
Alignment explanation
Indices: 42284--42314 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
42274 TACAAACGAC
42284 CTAACTG
1 CTAACTG
42291 CTAACTG
1 CTAACTG
42298 CTAACTG
1 CTAACTG
42305 CTAACTG
1 CTAACTG
42312 CTA
1 CTA
42315 CTCTTTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (7 bp):
CTAACTG
Found at i:43049 original size:3 final size:3
Alignment explanation
Indices: 43041--43087 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
43031 ATTCAATAGT
43041 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43088 GAGGAATTCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64760 original size:3 final size:3
Alignment explanation
Indices: 64752--64779 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64742 GTTATTGTAC
64752 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
64780 TTGTCTCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:69690 original size:21 final size:21
Alignment explanation
Indices: 69665--69718 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
69655 CGCAACTTAG
**
69665 TTTCCAAATTCGCGTTGTGAT
1 TTTCCAAATTCGCGTTACGAT
*
69686 TTTCC-ATTTCGCGTTACGAT
1 TTTCCAAATTCGCGTTACGAT
**
69706 AGTCCAAATTCGC
1 TTTCCAAATTCGC
69719 ATTGCGATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (21 bp):
TTTCCAAATTCGCGTTACGAT
Found at i:69726 original size:21 final size:21
Alignment explanation
Indices: 69667--69727 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
69657 CAACTTAGTT
* **
69667 TCCAAATTCGCGTTGTGATTT
1 TCCAAATTCGCGTTGCGATAG
* *
69688 TCC-ATTTCGCGTTACGATAG
1 TCCAAATTCGCGTTGCGATAG
*
69708 TCCAAATTCGCATTGCGATA
1 TCCAAATTCGCGTTGCGATA
69728 TTGCAACGCG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (21 bp):
TCCAAATTCGCGTTGCGATAG
Found at i:69821 original size:41 final size:41
Alignment explanation
Indices: 69766--69945 Score: 222
Period size: 41 Copynumber: 4.4 Consensus size: 41
69756 AGTTTTCAAA
*
69766 TTCGCGTTAG-GATAGTCCAAAATCGCATTGTGATTTTTCAT
1 TTCGCGTT-GCGATAGTCCAAAATCGCATTGCGATTTTTCAT
* * *
69807 TTCGCATTGTGATAGTCCAAAATCGTATTGCGATCTTTT-AT
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGAT-TTTTCAT
* * * * *
69848 TTTGCGTTGCAATAGTCCAAAATCACATTGTGATTTTCCAT
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTTCAT
* *
69889 TTCGCGTTTCGATATTCCAAAAT-GCATTGCGATTTTTCAT
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTTCAT
69929 TTCGCGTTGCGATAGTC
1 TTCGCGTTGCGATAGTC
69946 TTGCTCTTGT
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 33 0.28
41 79 0.68
42 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTTCAT
Found at i:70114 original size:22 final size:22
Alignment explanation
Indices: 70089--70231 Score: 95
Period size: 21 Copynumber: 6.8 Consensus size: 22
70079 ATTTTTCGAT
*
70089 TATCGCAAATGC-AATTTTGGAC
1 TATCGCAAACGCGAA-TTTGGAC
* *
70111 TATCGC-AACGCGAA-ATGGAA
1 TATCGCAAACGCGAATTTGGAC
* *
70131 AATCGC-AACGCGAATTTCGAC
1 TATCGCAAACGCGAATTTGGAC
* *
70152 TATCGCAAATGCGATTTTGGAC
1 TATCGCAAACGCGAATTTGGAC
* * *
70174 TATCGC-AACGCGAA-ATGAAA
1 TATCGCAAACGCGAATTTGGAC
* * * *
70194 AATCGC-GATGTGAATTTGGAC
1 TATCGCAAACGCGAATTTGGAC
70215 TATCGC-AACGCGAATTT
1 TATCGCAAACGCGAATTT
70232 AGAAACTGAG
Statistics
Matches: 90, Mismatches: 27, Indels: 9
0.71 0.21 0.07
Matches are distributed among these distances:
20 30 0.33
21 34 0.38
22 26 0.29
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (22 bp):
TATCGCAAACGCGAATTTGGAC
Found at i:70161 original size:63 final size:63
Alignment explanation
Indices: 70082--70222 Score: 219
Period size: 63 Copynumber: 2.2 Consensus size: 63
70072 AAGGGGGATT
* *
70082 TTTCGATTATCGCAAATGCAATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAA
1 TTTCGACTATCGCAAATGCAATTTTGGACTATCGCAACGCGAAATGAAAAATCGCAACGCGAA
* * * *
70145 TTTCGACTATCGCAAATGCGATTTTGGACTATCGCAACGCGAAATGAAAAATCGCGATGTGAA
1 TTTCGACTATCGCAAATGCAATTTTGGACTATCGCAACGCGAAATGAAAAATCGCAACGCGAA
*
70208 TTTGGACTATCGCAA
1 TTTCGACTATCGCAA
70223 CGCGAATTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (63 bp):
TTTCGACTATCGCAAATGCAATTTTGGACTATCGCAACGCGAAATGAAAAATCGCAACGCGAA
Found at i:70250 original size:41 final size:41
Alignment explanation
Indices: 70160--70342 Score: 111
Period size: 41 Copynumber: 4.7 Consensus size: 41
70150 ACTATCGCAA
* *
70160 ATGCGATTTTGGACTATCGCAACGCGAAATGAAAAATCGCG
1 ATGCGAATTTGGACTATCGCAACGCGAAATGAAAAATCGAG
* * * *
70201 ATGTGAATTTGGACTATCGCAACGCGAATTTAGAAA-CTGAG
1 ATGCGAATTTGGACTATCGCAACGCGAAATGAAAAATC-GAG
* * * ** * *
70242 TTGCGAATTTAAGA-TCTCG--TTGCG--AT---ATAGC-A-
1 ATGCGAATTT-GGACTATCGCAACGCGAAATGAAAAATCGAG
*
70274 ATGCGAATTTGGACTATCGCAACGCGAAATGGAAAATCGCA-
1 ATGCGAATTTGGACTATCGCAACGCGAAATGAAAAATCG-AG
* *
70315 ACGCGAATTTGGACTATCGCAACACGAA
1 ATGCGAATTTGGACTATCGCAACGCGAA
70343 TTTGGAAACT
Statistics
Matches: 106, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
31 2 0.02
32 13 0.12
33 1 0.01
34 5 0.05
35 1 0.01
36 2 0.02
37 1 0.01
39 6 0.06
40 1 0.01
41 72 0.68
42 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (41 bp):
ATGCGAATTTGGACTATCGCAACGCGAAATGAAAAATCGAG
Found at i:70300 original size:21 final size:21
Alignment explanation
Indices: 70271--70348 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
70261 TTGCGATATA
*
70271 GCAATGCGAATTTGGACTATC
1 GCAACGCGAATTTGGACTATC
* **
70292 GCAACGCGAA-ATGGAAAATC
1 GCAACGCGAATTTGGACTATC
70312 GCAACGCGAATTTGGACTATC
1 GCAACGCGAATTTGGACTATC
*
70333 GCAACACGAATTTGGA
1 GCAACGCGAATTTGGA
70349 AACTGAGTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (21 bp):
GCAACGCGAATTTGGACTATC
Found at i:71503 original size:50 final size:49
Alignment explanation
Indices: 71449--71569 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 49
71439 TGTAAATGTA
* **
71449 TGTTAAGTGCTACACTTTTTTTTTATTTTATTTACTCC-GATGTAATTATG
1 TGTTAAGTGCTACACTTTTTTTTTA-TTCATTTAAACCAG-TGTAATTATG
** * *
71499 TGTTAAGTATTATACATTTTTATTTTATTCATTTAAACCAGTTTAATTATG
1 TGTTAAGTGCTACAC-TTTTT-TTTTATTCATTTAAACCAGTGTAATTATG
71550 TGTTAAGTGCTACA-TTTTTT
1 TGTTAAGTGCTACACTTTTTT
71570 GTAGTATGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.02
49 5 0.09
50 12 0.21
51 34 0.59
52 6 0.10
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.54
Consensus pattern (49 bp):
TGTTAAGTGCTACACTTTTTTTTTATTCATTTAAACCAGTGTAATTATG
Found at i:74155 original size:2 final size:2
Alignment explanation
Indices: 74148--74179 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
74138 GATATGTATG
74148 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
74180 TTTTCTCCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:80092 original size:30 final size:30
Alignment explanation
Indices: 80058--80114 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
80048 CAGTTAAAGT
*
80058 TCTAGATCTACTTTTATAAACTAAAAAAAA
1 TCTAGATCTACTTTTAAAAACTAAAAAAAA
80088 TCTAGATCTACTTTTAAAAACTAAAAA
1 TCTAGATCTACTTTTAAAAACTAAAAA
80115 CAAGTGCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (30 bp):
TCTAGATCTACTTTTAAAAACTAAAAAAAA
Found at i:82441 original size:20 final size:21
Alignment explanation
Indices: 82405--82450 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
82395 ATTGCCAAAT
82405 TATTATAAAATTATCATTAAA
1 TATTATAAAATTATCATTAAA
82426 TATTATAAAA-TATCATTAAA
1 TATTATAAAATTATCATTAAA
82446 T-TTAT
1 TATTAT
82451 CGAAATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTATAAAATTATCATTAAA
Found at i:84055 original size:21 final size:21
Alignment explanation
Indices: 84031--84077 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
84021 ATATATTATT
*
84031 TTTATTCAATAAAAACAAG-AA
1 TTTATT-AATAAAAAAAAGTAA
*
84052 TTTAATAATAAAAAAAAGTAA
1 TTTATTAATAAAAAAAAGTAA
84073 TTTAT
1 TTTAT
84078 GAAGGGTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
TTTATTAATAAAAAAAAGTAA
Found at i:84063 original size:20 final size:21
Alignment explanation
Indices: 84038--84076 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
84028 ATTTTTATTC
*
84038 AATAAAAACAAG-AATTTAAT
1 AATAAAAAAAAGTAATTTAAT
84058 AATAAAAAAAAGTAATTTA
1 AATAAAAAAAAGTAATTTA
84077 TGAAGGGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
AATAAAAAAAAGTAATTTAAT
Found at i:87158 original size:2 final size:2
Alignment explanation
Indices: 87151--87201 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
87141 TAAAATTAAA
* * *
87151 AT AT AT AT AT AT AT AT AT AT A- AT AT TT AT AT AT TT A- AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
87191 AA AT AT AT AT A
1 AT AT AT AT AT A
87202 CTCAGCCCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:92881 original size:4 final size:4
Alignment explanation
Indices: 92872--92896 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
92862 AATTATGCAT
92872 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
92897 TATTACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:93051 original size:17 final size:17
Alignment explanation
Indices: 93026--93058 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
93016 AAATTAAATA
93026 AAATATTAAA-AAATTT
1 AAATATTAAATAAATTT
93042 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
93059 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAATTT
Found at i:93053 original size:24 final size:23
Alignment explanation
Indices: 93013--93086 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
93003 ATATCTGTAA
93013 AAAAAATT-AAATA--AAATATT
1 AAAAAATTAAAATATTAAATATT
*
93033 AAAAAATTTAAATACTTAAATAAATT
1 AAAAAATTAAAATA-TTAAAT--ATT
93059 -AAAAA-TAAAATATTAAATA-T
1 AAAAAATTAAAATATTAAATATT
93079 AATAAAAT
1 AA-AAAAT
93087 ATACCTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
20 9 0.20
21 7 0.16
22 4 0.09
23 6 0.14
24 10 0.23
25 5 0.11
26 3 0.07
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAAATTAAAATATTAAATATT
Found at i:93060 original size:17 final size:16
Alignment explanation
Indices: 93020--93078 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
93010 TAAAAAAAAT
*
93020 TAAATAAAATATTAAA
1 TAAATTAAATATTAAA
93036 -AAATTTAAATACTTAAA
1 TAAA-TTAAATA-TTAAA
*
93053 TAAATTAAA-AATAAA
1 TAAATTAAATATTAAA
*
93068 -ATATTAAATAT
1 TAAATTAAATAT
93079 AATAAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
14 7 0.20
15 8 0.23
16 7 0.20
17 10 0.29
18 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTAAATATTAAA
Found at i:93191 original size:5 final size:5
Alignment explanation
Indices: 93181--93208 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
93171 AGTATTTATT
93181 GGGAG GGGAG GGGAG GGGAG GGGAG GGG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGG
93209 GTGGGGGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:96315 original size:16 final size:15
Alignment explanation
Indices: 96286--96320 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
96276 AAATAATAAT
96286 AAATAAATTATATTA
1 AAATAAATTATATTA
*
96301 AAATAAAATTTTATTA
1 AAAT-AAATTATATTA
96317 AAAT
1 AAAT
96321 CATTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAAATTATATTA
Found at i:96384 original size:11 final size:11
Alignment explanation
Indices: 96368--96397 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
96358 TAATATTTTA
96368 TTTAAATTATT
1 TTTAAATTATT
96379 TTTAAAATTATT
1 TTT-AAATTATT
96391 TTTAAAT
1 TTTAAAT
96398 AATAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAATTATT
Found at i:96386 original size:12 final size:12
Alignment explanation
Indices: 96371--96396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96361 TATTTTATTT
96371 AAATTATTTTTA
1 AAATTATTTTTA
96383 AAATTATTTTTA
1 AAATTATTTTTA
96395 AA
1 AA
96397 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTATTTTTA
Found at i:96396 original size:118 final size:118
Alignment explanation
Indices: 96257--96478 Score: 356
Period size: 118 Copynumber: 1.9 Consensus size: 118
96247 ACGATTTTAA
* *
96257 TATTTTTACAACTATTTTTAAATAATAATAAATAAATTATATTA-AAATAAAATTTTATTAAAAT
1 TATTTTTAAAACTATTTTTAAATAATAATAAATAAATTATATTATAAATAAAATTATATTAAAAT
*
96321 CATTTAAAGAATCCAAATCGCAAAATAAAAATAAATTTAATATTTTATTTAAAT
66 CATTTAAAGAATCCAAATCACAAAATAAAAAT-AATTTAATATTTTATTTAAAT
* *
96375 TATTTTTAAAATTATTTTTAAATAATAATATATAAATTATATTATAAATAAAATTATATTAAAAT
1 TATTTTTAAAACTATTTTTAAATAATAATAAATAAATTATATTATAAATAAAATTATATTAAAAT
* * *
96440 TATTTAGAGAATTCAAATCACAAAATAAAAATAATTTAA
66 CATTTAAAGAATCCAAATCACAAAATAAAAATAATTTAA
96479 CTTAAAAAGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 48 0.51
119 47 0.49
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (118 bp):
TATTTTTAAAACTATTTTTAAATAATAATAAATAAATTATATTATAAATAAAATTATATTAAAAT
CATTTAAAGAATCCAAATCACAAAATAAAAATAATTTAATATTTTATTTAAAT
Found at i:96410 original size:26 final size:27
Alignment explanation
Indices: 96371--96445 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
96361 TATTTTATTT
* *
96371 AAATTATTTTTAAAATTATTTTTAAATA
1 AAATTA-TATTAAAATTATTTATAAATA
96399 ATAA-TATA-T-AAATTATATTATAAATA
1 A-AATTATATTAAAATTAT-TTATAAATA
96425 AAATTATATTAAAATTATTTA
1 AAATTATATTAAAATTATTTA
96446 GAGAATTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
25 9 0.22
26 14 0.35
27 5 0.12
28 10 0.25
29 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATTATATTAAAATTATTTATAAATA
Found at i:96430 original size:17 final size:16
Alignment explanation
Indices: 96408--96439 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
96398 AATAATATAT
96408 AAATTATATTATAAATA
1 AAATTATATTA-AAATA
96425 AAATTATATTAAAAT
1 AAATTATATTAAAAT
96440 TATTTAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTATATTAAAATA
Found at i:96589 original size:2 final size:2
Alignment explanation
Indices: 96584--96615 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
96574 TAATAATTTA
96584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96616 GTATGTGTGA
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):
AT
Found at i:98163 original size:26 final size:26
Alignment explanation
Indices: 98127--98184 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
98117 TGAAATGAAA
98127 TGAAAACTAAACGTTATGTATGGTTT
1 TGAAAACTAAACGTTATGTATGGTTT
98153 TGAAAACTAAACGTTATGTATGGTTT
1 TGAAAACTAAACGTTATGTATGGTTT
98179 TGAAAA
1 TGAAAA
98185 AATTGCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TGAAAACTAAACGTTATGTATGGTTT
Found at i:99041 original size:31 final size:31
Alignment explanation
Indices: 99003--99109 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
98993 CATTCTGAAT
99003 CATTCAGAGCCAGTTATCAAAAAACATGTCA
1 CATTCAGAGCCAGTTATCAAAAAACATGTCA
* * * * * * * *
99034 CATTCAGAGCCA--AACCATTCAGAGCCTCTGAA
1 CATTCAGAGCCAGTTATCA--AAAAACATGT-CA
99066 TCATTCAGAGCCAGTTATCAAAAAACATGTCA
1 -CATTCAGAGCCAGTTATCAAAAAACATGTCA
99098 CATTCAGAGCCA
1 CATTCAGAGCCA
99110 AACCATTCAG
Statistics
Matches: 54, Mismatches: 16, Indels: 12
0.66 0.20 0.15
Matches are distributed among these distances:
29 3 0.06
31 29 0.54
32 2 0.04
33 17 0.31
35 3 0.06
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.21
Consensus pattern (31 bp):
CATTCAGAGCCAGTTATCAAAAAACATGTCA
Found at i:99074 original size:64 final size:64
Alignment explanation
Indices: 98996--99133 Score: 276
Period size: 64 Copynumber: 2.2 Consensus size: 64
98986 AGAAGTACAT
98996 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
1 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
99060 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
1 TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
99124 TCTGAATCAT
1 TCTGAATCAT
99134 CCAGCGCTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (64 bp):
TCTGAATCATTCAGAGCCAGTTATCAAAAAACATGTCACATTCAGAGCCAAACCATTCAGAGCC
Found at i:100269 original size:2 final size:2
Alignment explanation
Indices: 100264--100306 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
100254 TCTCTCTCTC
100264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100306 T
1 T
100307 TGTAGTTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100673 original size:16 final size:16
Alignment explanation
Indices: 100627--100674 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
100617 TTCATATAAA
* *
100627 AATAAATATTCAAATT
1 AATAAATATTTAATTT
*
100643 AATAAATATAATAATTT
1 AATAAATAT-TTAATTT
*
100660 ATTAAATATTTAATT
1 AATAAATATTTAATT
100675 AGATAGGGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATATTTAATTT
Found at i:111656 original size:19 final size:20
Alignment explanation
Indices: 111622--111659 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
111612 AGATGGAACA
*
111622 ATTGATAAATATAAGGTTAG
1 ATTGATAAATAAAAGGTTAG
111642 ATTGAT-AATAAAAGGTTA
1 ATTGATAAATAAAAGGTTA
111660 CCGATAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGATAAATAAAAGGTTAG
Found at i:115702 original size:38 final size:39
Alignment explanation
Indices: 115660--115734 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
115650 TTTCAAATTG
* * *
115660 AACGG-GGGTACTACAATGAAACCAAAACTAAATTTTTT
1 AACGGCGGATACTAAAATGAAACAAAAACTAAATTTTTT
* *
115698 AACGGCGGATAGTAAAATGAAATAAAAACTAAATTTT
1 AACGGCGGATACTAAAATGAAACAAAAACTAAATTTT
115735 AGATATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 5 0.16
39 26 0.84
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (39 bp):
AACGGCGGATACTAAAATGAAACAAAAACTAAATTTTTT
Found at i:117638 original size:16 final size:16
Alignment explanation
Indices: 117617--117656 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
117607 ACATTGATTT
117617 GTTGAGATCGAAAATG
1 GTTGAGATCGAAAATG
117633 GTTGAGATCGAAAATG
1 GTTGAGATCGAAAATG
*
117649 GTTAAGAT
1 GTTGAGAT
117657 TGTACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.28
Consensus pattern (16 bp):
GTTGAGATCGAAAATG
Found at i:118909 original size:10 final size:10
Alignment explanation
Indices: 118894--118920 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
118884 CACTGACCTG
118894 TGATTTTAAT
1 TGATTTTAAT
118904 TGATTTTAAT
1 TGATTTTAAT
118914 TGATTTT
1 TGATTTT
118921 GAGGTTCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (10 bp):
TGATTTTAAT
Found at i:125106 original size:2 final size:2
Alignment explanation
Indices: 125099--125125 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125089 GATTCGACAA
125099 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
125126 ATTTTCATTT
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:125543 original size:47 final size:47
Alignment explanation
Indices: 125492--125605 Score: 194
Period size: 47 Copynumber: 2.4 Consensus size: 47
125482 AATTGTTACG
125492 AAGTGATTATTATATATTATGAAACGATGATAAAATTTAATAAGTTT
1 AAGTGATTATTATATATTATGAAACGATGATAAAATTTAATAAGTTT
*
125539 AAGTGATCATTATATATTATGAAACGATGATAAAATTTAATAAGTTT
1 AAGTGATTATTATATATTATGAAACGATGATAAAATTTAATAAGTTT
*
125586 AAG-GATTATTTTATAATTAT
1 AAGTGATTATTATAT-ATTAT
125606 TAGATAAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 9 0.14
47 54 0.86
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (47 bp):
AAGTGATTATTATATATTATGAAACGATGATAAAATTTAATAAGTTT
Found at i:125664 original size:28 final size:29
Alignment explanation
Indices: 125609--125684 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
125599 TAATTATTAG
**
125609 ATAAAATTTAATAATCATTTTTGATAAT-TT
1 ATAAAATTTAATAAT--TACTTGATAATCTT
125639 AATAAAATTTAATAATTACTT-ATAATCTT
1 -ATAAAATTTAATAATTACTTGATAATCTT
125668 A-AAAATTTAAATAATTA
1 ATAAAATTT-AATAATTA
125685 GAAAATCCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.17
28 14 0.34
29 5 0.12
31 15 0.37
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAATAATTACTTGATAATCTT
Found at i:139729 original size:19 final size:19
Alignment explanation
Indices: 139695--139744 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 19
139685 AAACATTTTA
139695 TATCATTCCTCAAACTATCAG
1 TATCATT-C-CAAACTATCAG
139716 TATCATTCCAAACTATCAG
1 TATCATTCCAAACTATCAG
139735 TATCATTCCA
1 TATCATTCCA
139745 TTCTGATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 21 0.72
20 1 0.03
21 7 0.24
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (19 bp):
TATCATTCCAAACTATCAG
Found at i:144087 original size:21 final size:20
Alignment explanation
Indices: 144063--144126 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
144053 AACTTTGAAA
144063 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
144084 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
144098 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
144119 AAATGTTT
1 AAATGTTT
144127 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:144101 original size:35 final size:36
Alignment explanation
Indices: 144055--144176 Score: 176
Period size: 35 Copynumber: 3.4 Consensus size: 36
144045 TGGTAACCAA
144055 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
144092 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
144127 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
144164 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
144177 AATGAGATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
35 36 0.46
36 14 0.18
37 28 0.36
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:148708 original size:21 final size:21
Alignment explanation
Indices: 148684--148749 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
148674 AACTTTGAAA
148684 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
148705 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
148719 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
148740 AAATGTTTTT
1 AAATGGTTTT
148750 TTGAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 4 0.11
21 14 0.40
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:148775 original size:37 final size:37
Alignment explanation
Indices: 148677--148794 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 37
148667 GGTAACCAAC
*
148677 TTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTTT
148714 TTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTT
1 TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
* *
148749 TTTGAAAAATAGTTTTTCAAAGTTTGGTAGATG-TTT
1 TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
*
148785 GTTGAAAAAT
1 TTTGAAAAAT
148795 GATAATGTGA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 29 0.39
36 21 0.28
37 24 0.32
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (37 bp):
TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
Found at i:150159 original size:21 final size:21
Alignment explanation
Indices: 150134--150178 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
150124 AAACCACGGG
150134 TTTAACACCTAAACTATCAAT
1 TTTAACACCTAAACTATCAAT
* * * *
150155 TTTAATACTTAAACTTTCGAT
1 TTTAACACCTAAACTATCAAT
150176 TTT
1 TTT
150179 TTTAAAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAACACCTAAACTATCAAT
Found at i:153183 original size:24 final size:24
Alignment explanation
Indices: 153151--153198 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
153141 TAGCCTCCGT
153151 GAAATTAGGGTATCCAGATCCAAG
1 GAAATTAGGGTATCCAGATCCAAG
153175 GAAATTAGGGTATCCAGATCCAAG
1 GAAATTAGGGTATCCAGATCCAAG
153199 AGCACCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (24 bp):
GAAATTAGGGTATCCAGATCCAAG
Found at i:159088 original size:2 final size:2
Alignment explanation
Indices: 159081--159114 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
159071 CAAACTTTTA
159081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159115 GATGTGATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159455 original size:3 final size:3
Alignment explanation
Indices: 159447--159473 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
159437 CTCATTCAGT
159447 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
159474 TCGAGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:159733 original size:38 final size:38
Alignment explanation
Indices: 159691--159771 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
159681 AGCAAAGGAG
159691 AATGCAATAACATTTTAGGCAATGCATCCTCTGATATA
1 AATGCAATAACATTTTAGGCAATGCATCCTCTGATATA
* **
159729 AATGCAATAACGTTTTAGGGTATGCATCCTCTGATATA
1 AATGCAATAACATTTTAGGCAATGCATCCTCTGATATA
159767 AATGC
1 AATGC
159772 CATTAATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (38 bp):
AATGCAATAACATTTTAGGCAATGCATCCTCTGATATA
Found at i:160890 original size:16 final size:16
Alignment explanation
Indices: 160866--160902 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
160856 TAAATTTATT
* *
160866 AATATTTTTAAACTCA
1 AATAATTTTAAACCCA
160882 AATAATTTTAAACCCA
1 AATAATTTTAAACCCA
160898 AATAA
1 AATAA
160903 AAACTACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTTTAAACCCA
Found at i:168698 original size:24 final size:24
Alignment explanation
Indices: 168651--168699 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
168641 TCTGGTAATT
*
168651 ATAAAAATTATACTTAAAATAAAA
1 ATAAAAATTATAATTAAAATAAAA
*
168675 ATAAAAATTATATATTTAAA-AAAA
1 ATAAAAATTATA-ATTAAAATAAAA
168699 A
1 A
168700 CTCAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAAAAATTATAATTAAAATAAAA
Found at i:169531 original size:30 final size:32
Alignment explanation
Indices: 169486--169549 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
169476 ATTATTTTTC
*
169486 GATATAAGATTATTGTTACAGTATTAAAGAAA
1 GATATAAGATTATTGTTACAATATTAAAGAAA
*
169518 GATAT-AG-TTATTGTTACAATATTAAGGAAA
1 GATATAAGATTATTGTTACAATATTAAAGAAA
169548 GA
1 GA
169550 CGCGTGATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.77
31 2 0.07
32 5 0.17
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.34
Consensus pattern (32 bp):
GATATAAGATTATTGTTACAATATTAAAGAAA
Found at i:171270 original size:6 final size:6
Alignment explanation
Indices: 171259--171287 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
171249 TAGATTTGTA
171259 TTGCCC TTGCCC TTGCCC TTGCCC TTGCC
1 TTGCCC TTGCCC TTGCCC TTGCCC TTGCC
171288 AAGGGCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGCCC
Found at i:174460 original size:32 final size:32
Alignment explanation
Indices: 174391--174460 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
174381 GTGTTTTATA
*
174391 GGTTTTGTTAATATATCCGGTAAAACGCTATC
1 GGTTTTGTTAATATATCCGGTAAAACGCTACC
* *
174423 GGTTTTGTTGATATATCCGG-AAAAGTGCTACC
1 GGTTTTGTTAATATATCCGGTAAAA-CGCTACC
*
174455 TGTTTT
1 GGTTTT
174461 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (32 bp):
GGTTTTGTTAATATATCCGGTAAAACGCTACC
Found at i:176083 original size:20 final size:20
Alignment explanation
Indices: 176042--176096 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
176032 GTTTCCAGAT
**
176042 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACCAAA
*
176062 TCGCATTGCGATTTCCCAAA
1 TCGCATTGCGATTTACCAAA
*
176082 TCCGCGTTGCGATTT
1 T-CGCATTGCGATTT
176097 TCCTAATTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAA
Found at i:176113 original size:21 final size:21
Alignment explanation
Indices: 176040--176114 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
176030 CAGTTTCCAG
*
176040 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACCTA
* *
176061 A-TCGCATTGCGATTTCCCAA
1 ATTCGCATTGCGATTTACCTA
* * *
176081 ATCCGCGTTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACCTA
*
176102 ATTCGCAATGCGA
1 ATTCGCATTGCGA
176115 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACCTA
Found at i:176129 original size:20 final size:20
Alignment explanation
Indices: 176104--176257 Score: 254
Period size: 20 Copynumber: 7.7 Consensus size: 20
176094 TTTTCCTAAT
176104 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
176124 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
176145 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
176165 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
176185 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
176205 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
176225 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
176245 TCGCAATGCGAAT
1 TCGCAATGCGAAT
176258 CTGACTATCG
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
20 108 0.88
21 15 0.12
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:176478 original size:22 final size:22
Alignment explanation
Indices: 176453--176518 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
176443 GGCGACATCC
*
176453 GTCCCCATCTACGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
176475 GTCCTCATCGCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
176497 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
176519 TTCACGGTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:176892 original size:20 final size:20
Alignment explanation
Indices: 176867--176916 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
176857 TGTGATTCTT
176867 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
176887 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
176907 GTGTTGCGAT
1 GCGTTGCGAT
176917 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:176922 original size:20 final size:20
Alignment explanation
Indices: 176884--176938 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
176874 GATAGTCAAA
* **
176884 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
176904 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
176924 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
176939 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:176946 original size:20 final size:20
Alignment explanation
Indices: 176903--176946 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
176893 CGATAGTCAT
** *
176903 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
176923 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
176943 TTTC
1 TTTC
176947 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:178835 original size:20 final size:20
Alignment explanation
Indices: 178810--178990 Score: 165
Period size: 20 Copynumber: 9.7 Consensus size: 20
178800 AGAATAGTTT
178810 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
178830 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
178850 ACTATCGCAACGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
178870 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
178886 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
178903 AAAATCG-AA-AC-AACAA--
1 ACTATCGCAATGCGAA-AATG
178919 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
178937 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
178957 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
*
178977 ACTATCGCATTGCG
1 ACTATCGCAATGCG
178991 GTAGTCATTT
Statistics
Matches: 137, Mismatches: 10, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
14 11 0.08
15 2 0.01
16 10 0.07
17 8 0.06
18 6 0.04
19 4 0.03
20 96 0.70
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:179076 original size:20 final size:20
Alignment explanation
Indices: 179051--179099 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
179041 GTGATTCTCT
179051 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
179071 CGTTGCTATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
179091 CGTTGCGAT
1 CGTTGCGAT
179100 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:179674 original size:21 final size:21
Alignment explanation
Indices: 179583--179687 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
179573 GACTCACCTG
*
179583 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
179605 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
179625 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
179646 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
179667 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
179688 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:179680 original size:42 final size:42
Alignment explanation
Indices: 179580--179690 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
179570 CCCGACTCAC
* * * *
179580 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
179622 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
179664 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
179691 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:181256 original size:33 final size:34
Alignment explanation
Indices: 181217--181292 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
181207 GGAAACGACT
*
181217 ATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATCGCAATACGAAAATGAAA
* *
181250 ATCGCAACGAGTGAATCGTAATACGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATACGAAAATGAAA
181284 ATCGCAACG
1 ATCGCAACG
181293 CGAATCACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 22 0.56
34 17 0.44
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATACGAAAATGAAA
Found at i:181337 original size:33 final size:34
Alignment explanation
Indices: 181300--181363 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
181290 ACGCGAATCA
**
181300 CTCGTTGCGATTTTCATTT-CGCATTGCGATTCT
1 CTCGTTGCGATAGTCATTTCCGCATTGCGATTCT
*
181333 CTCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CTCGTTGCGATAGTCATTTCCGCATTGCGAT
181364 AGTCAATTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (34 bp):
CTCGTTGCGATAGTCATTTCCGCATTGCGATTCT
Found at i:181360 original size:20 final size:20
Alignment explanation
Indices: 181335--181423 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
181325 GCGATTCTCT
181335 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
181355 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
181375 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
181395 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
181415 CGTTGCGAT
1 CGTTGCGAT
181424 TTCCGCGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:184773 original size:20 final size:20
Alignment explanation
Indices: 184748--184794 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
184738 AAATTCAGTA
*
184748 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
184768 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
184788 TTGCGAT
1 TTGCGAT
184795 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:184804 original size:20 final size:20
Alignment explanation
Indices: 184781--184935 Score: 211
Period size: 20 Copynumber: 7.7 Consensus size: 20
184771 CGATAGTCAG
*
184781 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
184801 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
184821 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* **
184841 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
**
184862 ATTCGTGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* **
184882 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
184903 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
184923 ATTCGCATTGCGA
1 ATTCGCATTGCGA
184936 ATTAGGAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 84 0.72
21 32 0.28
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:184878 original size:41 final size:41
Alignment explanation
Indices: 184781--184935 Score: 249
Period size: 41 Copynumber: 3.8 Consensus size: 41
184771 CGATAGTCAG
* * **
184781 ATTCGCGTTGCGATTTACGTATTCGCATTGCGA-TTTACGT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
184821 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
**
184862 ATTCGTGTTGCGATTTACGTATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
184903 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
184936 ATTAGGAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 32 0.30
41 74 0.70
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
Found at i:184927 original size:61 final size:60
Alignment explanation
Indices: 184781--184935 Score: 211
Period size: 61 Copynumber: 2.5 Consensus size: 60
184771 CGATAGTCAG
* **
184781 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACAA
* ** ** *
184841 ATTCGCATTGCGATTTTCCAAATTCGTGTTGCGATTTACGTATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGA-TTTACAA
184903 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
184936 ATTAGGAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
60 12 0.15
61 50 0.63
62 17 0.22
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (60 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACAA
Found at i:184956 original size:21 final size:21
Alignment explanation
Indices: 184932--184977 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
184922 TATTCGCATT
184932 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
184953 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
184974 GCGA
1 GCGA
184978 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:194279 original size:16 final size:16
Alignment explanation
Indices: 194260--194292 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
194250 ATTCGGTTAA
194260 AATTTAA-TAAATATTT
1 AATTTAATTAAAT-TTT
194276 AATTTAATTAAATTTT
1 AATTTAATTAAATTTT
194292 A
1 A
194293 TTCGAGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTAATTAAATTTT
Found at i:195632 original size:13 final size:13
Alignment explanation
Indices: 195614--195640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
195604 TTACAGACGC
195614 GCATATGAAGACT
1 GCATATGAAGACT
195627 GCATATGAAGACT
1 GCATATGAAGACT
195640 G
1 G
195641 TTCACCTATT
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:201394 original size:241 final size:241
Alignment explanation
Indices: 200971--201453 Score: 966
Period size: 241 Copynumber: 2.0 Consensus size: 241
200961 ATATATGATA
200971 TACCTACATGCCTAATTAACAGTTGGGGATGGTTAAAAATACATAAGAGGCATGCATTTAATAGC
1 TACCTACATGCCTAATTAACAGTTGGGGATGGTTAAAAATACATAAGAGGCATGCATTTAATAGC
201036 TTGTTTACATTCAGGGAGAGGATGAGAACTCCCAAGGAATTTTTCTTTTGCTGTCAATGAAGGTT
66 TTGTTTACATTCAGGGAGAGGATGAGAACTCCCAAGGAATTTTTCTTTTGCTGTCAATGAAGGTT
201101 ATTTCGGTTCGTTTCCAAGCTTTCTTTGTGATACTGCATTGGCTAGTAACTATTTTTTCAGAAAA
131 ATTTCGGTTCGTTTCCAAGCTTTCTTTGTGATACTGCATTGGCTAGTAACTATTTTTTCAGAAAA
201166 GTTAATTGATACTCTTTCATCGGCTCGTCGCGATTATGTATTTTAC
196 GTTAATTGATACTCTTTCATCGGCTCGTCGCGATTATGTATTTTAC
201212 TACCTACATGCCTAATTAACAGTTGGGGATGGTTAAAAATACATAAGAGGCATGCATTTAATAGC
1 TACCTACATGCCTAATTAACAGTTGGGGATGGTTAAAAATACATAAGAGGCATGCATTTAATAGC
201277 TTGTTTACATTCAGGGAGAGGATGAGAACTCCCAAGGAATTTTTCTTTTGCTGTCAATGAAGGTT
66 TTGTTTACATTCAGGGAGAGGATGAGAACTCCCAAGGAATTTTTCTTTTGCTGTCAATGAAGGTT
201342 ATTTCGGTTCGTTTCCAAGCTTTCTTTGTGATACTGCATTGGCTAGTAACTATTTTTTCAGAAAA
131 ATTTCGGTTCGTTTCCAAGCTTTCTTTGTGATACTGCATTGGCTAGTAACTATTTTTTCAGAAAA
201407 GTTAATTGATACTCTTTCATCGGCTCGTCGCGATTATGTATTTTAC
196 GTTAATTGATACTCTTTCATCGGCTCGTCGCGATTATGTATTTTAC
201453 T
1 T
201454 CGGATGTTGG
Statistics
Matches: 242, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 242 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (241 bp):
TACCTACATGCCTAATTAACAGTTGGGGATGGTTAAAAATACATAAGAGGCATGCATTTAATAGC
TTGTTTACATTCAGGGAGAGGATGAGAACTCCCAAGGAATTTTTCTTTTGCTGTCAATGAAGGTT
ATTTCGGTTCGTTTCCAAGCTTTCTTTGTGATACTGCATTGGCTAGTAACTATTTTTTCAGAAAA
GTTAATTGATACTCTTTCATCGGCTCGTCGCGATTATGTATTTTAC
Found at i:204020 original size:31 final size:31
Alignment explanation
Indices: 203979--204096 Score: 128
Period size: 31 Copynumber: 3.7 Consensus size: 31
203969 ATACTTAACA
* *
203979 TTTATTTTTTGTTTCATTTTGGTATCCGATG
1 TTTACTTTTTGTTTCATTTTAGTATCCGATG
* * **
204010 TTTACTTTTTGTTTTATTTTAGTACCCGGGG
1 TTTACTTTTTGTTTCATTTTAGTATCCGATG
* *
204041 TTTACTTTCTGTTTCATTTTAGTACTCCCATTG
1 TTTACTTTTTGTTTCATTTTAGTA-TCCGA-TG
* *
204074 CTAACTTTTTGTTTCATTTTAGT
1 TTTACTTTTTGTTTCATTTTAGT
204097 TTAAAAAATT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
31 47 0.67
32 2 0.03
33 21 0.30
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (31 bp):
TTTACTTTTTGTTTCATTTTAGTATCCGATG
Found at i:205222 original size:4 final size:4
Alignment explanation
Indices: 205215--205350 Score: 272
Period size: 4 Copynumber: 34.0 Consensus size: 4
205205 TTGTACATAC
205215 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205263 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205311 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205351 GTACCTCTCA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 132 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:208384 original size:184 final size:184
Alignment explanation
Indices: 208024--208394 Score: 627
Period size: 184 Copynumber: 2.0 Consensus size: 184
208014 ATTGAATTTT
* * *
208024 AAATATGAAATATATTATATATAACATGTGAGCTTAACCCAAACCATTTAAAACTCAATTAATAA
1 AAATATGAAACATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
* *
208089 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
66 TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
208154 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAAA
* **
208208 AAATATTAAACATATTATATATAACATATGAGCTCAGTCCAAACCATTTAAAACTCAATTAATAA
1 AAATATGAAACATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
* *
208273 TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTT
66 TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATTT
208338 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTTAATTAAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAAA
208392 AAA
1 AAA
208395 CATTTAATTT
Statistics
Matches: 175, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
184 125 0.71
185 50 0.29
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (184 bp):
AAATATGAAACATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAAA
Found at i:209206 original size:21 final size:20
Alignment explanation
Indices: 209180--209256 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
209170 ATCAGTTTCC
209180 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
209201 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
* *
209220 ACAAATTCGCAACGCGAATATG
1 A-AAA-TCGCAACGCGATTTTG
209242 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
209257 ACACATAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 29 0.63
22 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:209251 original size:20 final size:19
Alignment explanation
Indices: 209180--209275 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
209170 ATCAGTTTCC
* *
209180 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGA--ATAG
*
209201 AAAATCGCAATGCG-ATAG
1 AAAATCGCAACGCGAATAG
209219 TACAAATTCGCAACGCGAATATG
1 -A-AAA-TCGCAACGCGAATA-G
* *
209242 AAAATCGCAACGCGAACAC
1 AAAATCGCAACGCGAATAG
209261 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
209276 TATCCGTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 29 0.46
21 25 0.40
22 4 0.06
23 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.17
Consensus pattern (19 bp):
AAAATCGCAACGCGAATAG
Found at i:209285 original size:20 final size:20
Alignment explanation
Indices: 209243--209452 Score: 237
Period size: 20 Copynumber: 10.5 Consensus size: 20
209233 GCGAATATGA
* *
209243 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
209263 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
209283 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
209303 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
209323 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
209343 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
209363 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
209383 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
209403 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
209423 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
209443 AAATCACAAC
1 AAATCGCAAC
209453 ACTGAAATTT
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 161 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:210174 original size:24 final size:24
Alignment explanation
Indices: 210135--210181 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
210125 AAATTTGGTC
210135 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
210159 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
210182 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:212659 original size:33 final size:34
Alignment explanation
Indices: 212608--212772 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
212598 CGGAAATTAC
* *
212608 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
212641 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
212675 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
212713 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
212746 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
212773 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:212691 original size:19 final size:19
Alignment explanation
Indices: 212622--212810 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
212612 GCAACGAGAG
212622 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
212641 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
212655 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
212675 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
212694 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
212713 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
212727 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
212746 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
212765 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
212779 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
212798 AATCGCATTGCGA
1 AATCGCAATGCGA
212811 TTCTCCCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 84 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:212749 original size:52 final size:52
Alignment explanation
Indices: 212608--212810 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
212598 CGGAAATTAC
*
212608 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
212655 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
212713 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
212765 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
212811 TTCTCCCGTT
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 85 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:212877 original size:19 final size:19
Alignment explanation
Indices: 212819--212916 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
212809 GATTCTCCCG
212819 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
212839 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
212853 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
212872 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
212891 TTGCTATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
212910 TTGCGAT
1 TTGCGAT
212917 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 5 0.07
17 6 0.09
18 3 0.04
19 43 0.62
20 6 0.09
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:212909 original size:38 final size:34
Alignment explanation
Indices: 212800--212916 Score: 148
Period size: 34 Copynumber: 3.4 Consensus size: 34
212790 GAAATTAAAA
*
212800 TCGCATTGCGA-TTCTCCCGTTGCGATTTTCATT
1 TCGCATTGCGATTTCTCTCGTTGCGATTTTCATT
212833 TCCGCATTGCGA-TTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTCTCTCGTTGCGATTTTCATT
* *
212867 TCGCATTGCGATTTTCATTTCGCATTGCTATTTTCATT
1 TCGCATTGCGA-TTTC-TCTCG--TTGCGATTTTCATT
212905 TCGCATTGCGAT
1 TCGCATTGCGAT
212917 AGTCAATTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
33 11 0.15
34 32 0.43
35 3 0.04
36 4 0.05
37 1 0.01
38 24 0.32
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.44
Consensus pattern (34 bp):
TCGCATTGCGATTTCTCTCGTTGCGATTTTCATT
Found at i:213042 original size:14 final size:14
Alignment explanation
Indices: 213023--213059 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
213013 CATCAATTAC
213023 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
213037 ACAAATCATCTTTT
1 ACAAATCAACTTTT
213051 ACAAATCAA
1 ACAAATCAA
213060 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:215031 original size:19 final size:19
Alignment explanation
Indices: 214991--215111 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
214981 TAGTTTACTT
* *
214991 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
215011 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
215030 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
215049 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
215063 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
215082 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
215101 TCGCAATGCGA
1 TCGCAACGCGA
215112 TTTTGGTTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
14 8 0.09
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:215123 original size:19 final size:19
Alignment explanation
Indices: 215107--215202 Score: 112
Period size: 19 Copynumber: 5.3 Consensus size: 19
215097 AAAATCGCAA
215107 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
215126 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
*
215140 TGCGATTTTGATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
215159 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
215178 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
215198 TGCGA
1 TGCGA
215203 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
18 1 0.02
19 38 0.58
20 13 0.20
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:215454 original size:93 final size:93
Alignment explanation
Indices: 215250--215809 Score: 1072
Period size: 93 Copynumber: 6.1 Consensus size: 93
215240 ATGGATTGCA
215250 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
215312 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215340 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
215405 TAGCATAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215433 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
215498 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215526 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
215591 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215619 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
215684 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215712 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
* *
215777 TAGCAGAATTGGCAGCAACCAAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
215805 TTACT
1 TTACT
215810 AAGCAATCTA
Statistics
Matches: 463, Mismatches: 4, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
90 4 0.01
91 52 0.11
93 407 0.88
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:217407 original size:23 final size:26
Alignment explanation
Indices: 217376--217429 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
217366 CAAAAACAAT
*
217376 AAACATACA-AGT-TAGATATACCAA
1 AAACATACACAGTGAAGATATACCAA
*
217400 AAAC-TACACTGTGAAGATATACCAA
1 AAACATACACAGTGAAGATATACCAA
217425 AAACA
1 AAACA
217430 ATAAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 15 0.60
ACGTcount: A:0.54, C:0.19, G:0.09, T:0.19
Consensus pattern (26 bp):
AAACATACACAGTGAAGATATACCAA
Done.