Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_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: 1774241
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:244 original size:3 final size:3
Alignment explanation
Indices: 236--290 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
226 GTAATTTAAT
236 TAA TAA TAA -ACA TAA -ACA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
282 TAA TAA TAA
1 TAA TAA TAA
291 ATTAAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:544 original size:40 final size:40
Alignment explanation
Indices: 488--767 Score: 185
Period size: 40 Copynumber: 6.7 Consensus size: 40
478 CGTCTAAAGG
488 TGACACGGCTCCTACGTGATGAGGAGATCTGGTC-AGGGGA
1 TGACACGGCTCCTACGTGATGAGGAG-TCTGGTCTAGGGGA
* * * *
528 TGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAG-TC-TGG---TCT--AGGGGA
* * * * *
575 TAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGG-
1 TGACACGGCTCCTACGTGATGAGGA-GTCTGG---TCTAGGGGA
* *
618 TGACACAGCTCCTACGTGATGAGGAGGTCTGGTCGA-GGGA
1 TGACACGGCTCCTACGTGATGAGGA-GTCTGGTCTAGGGGA
* *
658 TGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTA-GGG-
1 TGACACGGCTCCTACGTGATGAGGA-GTCTGG---TC-TAGGGGA
* *
701 TGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGA-GGGA
1 TGACACGGCTCCTACGTGATGAGGA-GTCTGGTCTAGGGGA
* * *
741 TGACACTGCTCATACGTGATGAAGAGT
1 TGACACGGCTCCTACGTGATGAGGAGT
768 TCTTGGCCAT
Statistics
Matches: 194, Mismatches: 32, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
39 9 0.05
40 81 0.42
41 3 0.02
43 58 0.30
44 9 0.05
46 7 0.04
47 26 0.13
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (40 bp):
TGACACGGCTCCTACGTGATGAGGAGTCTGGTCTAGGGGA
Found at i:685 original size:83 final size:83
Alignment explanation
Indices: 577--762 Score: 291
Period size: 83 Copynumber: 2.2 Consensus size: 83
567 AAAGGTGATA
** *
577 ACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGACACAGCTCCTACGTGATGAGG
1 ACACAGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTGACACAGCTCCTACGTGATGAAG
642 AGGTCTGGTCGAGGGATG
66 AGGTCTGGTCGAGGGATG
* * *
660 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTAGGGTGACACGGCTCCTACGTGATGAAG
1 ACACAGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTGACACAGCTCCTACGTGATGAAG
725 AGGTCTGGTCGAGGGATG
66 AGGTCTGGTCGAGGGATG
* * *
743 ACACTGCTCATACGTGATGA
1 ACACAGTTCCTACGTGATGA
763 AGAGTTCTTG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (83 bp):
ACACAGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGGTGACACAGCTCCTACGTGATGAAG
AGGTCTGGTCGAGGGATG
Found at i:1109 original size:106 final size:105
Alignment explanation
Indices: 963--1314 Score: 465
Period size: 110 Copynumber: 3.3 Consensus size: 105
953 ATTCTGAGGG
* * *
963 AAAATGTCTCAAGTGAGACGAAATTTGTTTTGAAATAAACAACAATCTCAAGTGAGATTAATTTT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTCAAGTGAGATTAATTTT
*
1028 GTTTTAAGTGAAGCAAATTCAAAATTTGTTTCTCAAAGGAA
66 GTTTCAAGTGAAGCAAATTCAAAATTTG-TTCTCAAAGGAA
* * * * *
1069 AAAATGACCCAAGCGAGATGAAATTTGTTTTAAAAGAAACAACAATCTCAAATGAGAATAATTTT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTCAAGTGAGATTAATTTT
* *
1134 ATTTCAAGTGAAGCAAATTCAAAATTTG-TATCAAAGGAAA
66 GTTTCAAGTGAAGCAAATTCAAAATTTGTTCTCAAAGG-AA
* *** *
1174 AAAATGTCTCAAGCGAGACGAAGTTTGTTTTTTTTTTTGAGAAATAACAATCTCAAGTGAGATTA
1 AAAATGTCTCAAGCGAGACGAAATTTG-----TTTTAAAAGAAACAACAATCTCAAGTGAGATTA
*
1239 ATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCTCAAAGG-A
61 ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGT-TCTCAAAGGAA
1284 AAAATGTCTCAAGCGAGACGAAATTTGTTTT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTT
1315 GAAATAAATT
Statistics
Matches: 213, Mismatches: 25, Indels: 17
0.84 0.10 0.07
Matches are distributed among these distances:
104 8 0.04
105 29 0.14
106 83 0.39
110 85 0.40
112 8 0.04
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (105 bp):
AAAATGTCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCTCAAGTGAGATTAATTTT
GTTTCAAGTGAAGCAAATTCAAAATTTGTTCTCAAAGGAA
Found at i:1373 original size:35 final size:36
Alignment explanation
Indices: 1288--1388 Score: 132
Period size: 35 Copynumber: 2.8 Consensus size: 36
1278 AAAGGAAAAA
* * *
1288 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAATAAAC
* * * *
1324 TGTCTTAAGTGAGACAAAATTTGTTTTTTAA-GAAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAATAAAC
1359 TGTCTCAAGCGAGACAAAATTTGTTTTTAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAA
1389 GGGAAACGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 29 0.53
36 26 0.47
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAATAAAC
Found at i:2281 original size:65 final size:66
Alignment explanation
Indices: 2206--2420 Score: 276
Period size: 65 Copynumber: 3.3 Consensus size: 66
2196 AAAGATTTAC
* * * * * *
2206 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTCAAAGATTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCAA-AGAAACAGACTCAAAGATTTT
2269 T-T
64 TGT
* *
2271 TTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCCAAAG-AACAGACCCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT-CAAAGAAACAGACTCAAAGATTTTT
2335 GT
65 GT
*
2337 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT-CAAAGAAACAGACTCAAAGATTTTT
2402 GT
65 GT
*
2404 TTCAAAAGAAACAATCT
1 TTCAAAAGAAACTATCT
2421 CAAAGATTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
64 1 0.01
65 48 0.36
66 47 0.35
67 37 0.28
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCAAAGAAACAGACTCAAAGATTTTTG
T
Found at i:2305 original size:37 final size:38
Alignment explanation
Indices: 2259--2384 Score: 105
Period size: 37 Copynumber: 3.6 Consensus size: 38
2249 GAAACAGATT
*
2259 CAAAGATTTTTTTTCAAAAGAAAATATCTTAAGAGAGA
1 CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
* **
2297 CAAA-ATTTTGTTTCCAAAG---A-A-C-----AGACC
1 CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
*
2324 CAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAGA-TTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
*
2363 CAAA-ATTTTGTTTCCAAAGAAA
1 CAAAGATTTTGTTTCAAAAGAAA
2385 CAGACTCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 25
0.66 0.09 0.25
Matches are distributed among these distances:
27 7 0.10
28 1 0.01
29 13 0.19
32 1 0.01
33 2 0.03
34 2 0.03
37 29 0.43
38 5 0.07
39 7 0.10
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (38 bp):
CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
Found at i:2361 original size:66 final size:67
Alignment explanation
Indices: 2248--2414 Score: 284
Period size: 66 Copynumber: 2.5 Consensus size: 67
2238 TCATTTTAAG
**
2248 AGAAACAGATTCAAAGATTTTT-TTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
2312 AA
66 AA
*
2314 AG-AACAGACCCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
2378 AA
66 AA
*
2380 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 AGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAA
2415 CAATCTCAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
65 17 0.18
66 47 0.49
67 31 0.33
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (67 bp):
AGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
AA
Found at i:2402 original size:30 final size:30
Alignment explanation
Indices: 2368--2524 Score: 128
Period size: 30 Copynumber: 5.1 Consensus size: 30
2358 AGAGACAAAA
2368 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
*
2398 TTTTGTTTCAAAAGAAACA-ATCTCAAAGA-
1 TTTTGTTTCCAAAGAAACAGA-CTCAAAGAT
* * **
2427 TTTT-TTTCACAAAATTGTCTCAAGAGAGACAAA-A-
1 TTTTGTTTC-C-AAA--G---AAACAGACTCAAAGAT
*
2461 TTTTGTTTCCAAAGAAACAGACTAAAAGAT
1 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
*
2491 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCCAAAGAAACAGA-CTCAAAGAT
2521 TTTT
1 TTTT
2525 TTCACAAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
28 12 0.12
29 7 0.07
30 59 0.58
31 1 0.01
32 1 0.01
33 3 0.03
34 6 0.06
35 11 0.11
36 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCCAAAGAAACAGACTCAAAGAT
Found at i:2462 original size:93 final size:93
Alignment explanation
Indices: 2302--2562 Score: 400
Period size: 93 Copynumber: 2.8 Consensus size: 93
2292 AGAGACAAAA
* * * * *
2302 TTTTGTTTCCAAAG-AACAGA-CCCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACA
1 TTTTGTTTCAAAAGAAACA-ATCTCAAAGA-TTTT-TTTC-ACA-AAATTGTCTCAAGAGAGACA
*
2365 AAATTTTGTTTCCAAAGAAACAGACTCAAAGAT
61 AAATTTTGTTTCCAAAGAAACAGACTAAAAGAT
2398 TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAATT
1 TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAATT
2463 TTGTTTCCAAAGAAACAGACTAAAAGAT
66 TTGTTTCCAAAGAAACAGACTAAAAGAT
*
2491 TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACT
1 TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAATT
2556 TTGTTTC
66 TTGTTTC
2563 AGACTCAAAG
Statistics
Matches: 156, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
93 121 0.78
94 2 0.01
95 4 0.03
96 18 0.12
97 11 0.07
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (93 bp):
TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAATT
TTGTTTCCAAAGAAACAGACTAAAAGAT
Found at i:2587 original size:52 final size:53
Alignment explanation
Indices: 2512--2615 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
2502 AAGAAACAAT
2512 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* *
2566 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
2616 AAAGAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:2685 original size:26 final size:28
Alignment explanation
Indices: 2611--2671 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
2601 CAAAACTTTG
*
2611 TTTCAAAAGAAATAGA-CTCAAAGATTTT
1 TTTCAAAAGAAACA-ATCTCAAAGATTTT
2639 TTTCAAAAGAAACAATCTCAAAGATTTT
1 TTTCAAAAGAAACAATCTCAAAGATTTT
2667 TTTCA
1 TTTCA
2672 CAAAATTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.34
Consensus pattern (28 bp):
TTTCAAAAGAAACAATCTCAAAGATTTT
Found at i:2728 original size:50 final size:53
Alignment explanation
Indices: 2655--2756 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 53
2645 AAGAAACAAT
*
2655 CTCAAAGATTTTTTTCACAAAATTGTC-TCA-AGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAGA
*
2707 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
2757 AAAGAAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 16 0.35
51 2 0.04
52 28 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAGA
Found at i:2736 original size:141 final size:143
Alignment explanation
Indices: 2419--2846 Score: 689
Period size: 141 Copynumber: 3.0 Consensus size: 143
2409 AAGAAACAAT
* * * * *
2419 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACT
1 CTCAAAGA--TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACT
*
2484 AAAAGATTTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGA
64 CAAAGA-TTTT-TTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGA
2549 CAAAACTTTGTTTCAGA
127 CAAAACTTTGTTTCAGA
2566 CTCAAAGATTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCA
1 CTCAAAGATTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCA
2631 AAGATTTTTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTC-A-AGAGACAAA
66 AAGATTTTTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAA
2694 ACTTTGTTTCAGA
131 ACTTTGTTTCAGA
2707 CTCAAAGATTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCA
1 CTCAAAGATTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCA
* * ****
2772 AATATTTTTTTCAAAAGAAACAATCTCAAAAAAAAAATTTCACAAAATTGTCTCAAGAGAGACAA
66 AAGATTTTTTTCAAAAGAAACAATCTC-AAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAA
2837 AACTTTGTTT
130 AACTTTGTTT
2847 TAAAAGATTC
Statistics
Matches: 266, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
141 113 0.42
142 22 0.08
143 46 0.17
144 22 0.08
145 55 0.21
147 8 0.03
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (143 bp):
CTCAAAGATTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCA
AAGATTTTTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAA
ACTTTGTTTCAGA
Found at i:3143 original size:36 final size:36
Alignment explanation
Indices: 3059--3162 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
3049 GAGAAAATGA
* *
3059 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
3093 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
3129 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
3163 ACGATCTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.34
35 10 0.17
36 29 0.49
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:3190 original size:36 final size:36
Alignment explanation
Indices: 3060--3178 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
3050 AGAAAATGAT
* * *
3060 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
3094 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
3130 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
3165 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
3179 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 12 0.17
36 38 0.54
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:3592 original size:4 final size:4
Alignment explanation
Indices: 3583--3616 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
3573 TTTATGTATC
3583 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3617 GTATACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:4825 original size:18 final size:18
Alignment explanation
Indices: 4804--4852 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
4794 TTGTCCTCTT
4804 TTTGTTCTTTGCTTTTTC
1 TTTGTTCTTTGCTTTTTC
* *
4822 TTTGTT-GTTGTTTTTTTC
1 TTTGTTCTTTG-CTTTTTC
*
4840 TTTGCTCTTTGCT
1 TTTGTTCTTTGCT
4853 CTTCTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (18 bp):
TTTGTTCTTTGCTTTTTC
Found at i:5558 original size:26 final size:26
Alignment explanation
Indices: 5480--5561 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
5470 TTTCAAGGTG
5480 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
5506 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
5527 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
5552 GATAGAATGT
1 GAAAGAATGT
5562 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.51
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:5560 original size:46 final size:45
Alignment explanation
Indices: 5468--5561 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
5458 ATAAATACAG
* * *
5468 TGTTTCAAGGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
5513 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
5559 TGT
1 TGT
5562 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:7016 original size:31 final size:32
Alignment explanation
Indices: 6960--7021 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6950 TGACAAAATG
6960 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
6992 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
7022 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:10526 original size:3 final size:3
Alignment explanation
Indices: 10518--10572 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
10508 GTAATTTAAT
10518 TAA TAA TAA -ACA TAA -ACA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
10564 TAA TAA TAA
1 TAA TAA TAA
10573 ATTAAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:11130 original size:20 final size:20
Alignment explanation
Indices: 11067--11136 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
11057 GTCATGAGAG
* *
11067 TATCGATATTATAAGAACAA
1 TATCGATACTATAAGAACAT
**
11087 TATCGATACTAT--TCACAT
1 TATCGATACTATAAGAACAT
11105 GGTATCGATACTATAAGAACAT
1 --TATCGATACTATAAGAACAT
*
11127 TATCGTTACT
1 TATCGATACT
11137 TCTTTTCTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
20 32 0.82
22 4 0.10
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
TATCGATACTATAAGAACAT
Found at i:12824 original size:6 final size:6
Alignment explanation
Indices: 12813--12840 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
12803 GAAGACACGT
12813 ACGACC ACGACC ACGACC ACGACC ACGA
1 ACGACC ACGACC ACGACC ACGACC ACGA
12841 GACGGACGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:13214 original size:39 final size:39
Alignment explanation
Indices: 13160--13258 Score: 198
Period size: 39 Copynumber: 2.5 Consensus size: 39
13150 ACTATTTAAG
13160 GTTCAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
1 GTTCAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
13199 GTTCAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
1 GTTCAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
13238 GTTCAATCCCACATAGTATTG
1 GTTCAATCCCACATAGTATTG
13259 AAAACACTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (39 bp):
GTTCAATCCCACATAGTATTGGGAACAAGTGTTGGTAAT
Found at i:13550 original size:42 final size:42
Alignment explanation
Indices: 13491--13719 Score: 359
Period size: 42 Copynumber: 5.5 Consensus size: 42
13481 GATTTTGGAT
13491 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
* * * *
13533 TATCGCAACGAACTTGGAATAAATAGAAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
13575 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
* * *
13617 TATCGCAACGAACTTGGAATAAATAGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
* * *
13659 TACCGCAACGAATTTGGAAAAAATCGCAACGCGAACTTCAAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
*
13701 TATCGTAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
13720 CAACGCAAAC
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 168 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (42 bp):
TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
Found at i:13626 original size:84 final size:84
Alignment explanation
Indices: 13485--13719 Score: 407
Period size: 84 Copynumber: 2.8 Consensus size: 84
13475 CGTTGCGATT
*
13485 TTGGATTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
13550 AATAAATAGAAACGCGAAC
66 AATAAATAGAAACGCGAAC
13569 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
*
13634 AATAAATAGCAACGCGAAC
66 AATAAATAGAAACGCGAAC
* * * * *
13653 TTGGACTACCGCAACGAATTTGGAAAAAATCGCAACGCGAACTTCAACTATCGTAACGAATTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
13718 AA
66 AA
13720 CAACGCAAAC
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 144 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (84 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
AATAAATAGAAACGCGAAC
Found at i:13769 original size:21 final size:21
Alignment explanation
Indices: 13720--13770 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13710 GAATTTGGAA
*
13720 CAACGCAAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
13741 CAACGCGAACTTGGACTATCG
1 CAACGCGAACTTCGACTATCG
*
13762 CAATGCGAA
1 CAACGCGAA
13771 TATGTAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:17699 original size:2 final size:2
Alignment explanation
Indices: 17634--17683 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
17624 TTCTATGATC
17634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17676 AT AT AT AT
1 AT AT AT AT
17684 GCATATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21318 original size:13 final size:13
Alignment explanation
Indices: 21300--21325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21290 AGTCCAATGT
21300 TACCTAATTCGCG
1 TACCTAATTCGCG
21313 TACCTAATTCGCG
1 TACCTAATTCGCG
21326 GTTCACTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
TACCTAATTCGCG
Found at i:26258 original size:37 final size:36
Alignment explanation
Indices: 26183--26258 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
26173 TTTTTATATT
*
26183 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
26219 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
26256 TTT
1 TTT
26259 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:27317 original size:16 final size:17
Alignment explanation
Indices: 27279--27326 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
27269 TGTTTTTGAG
27279 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
*
27297 GGAATTGAAATCTGT-A
1 GGAATTGGAATCTGTAA
27313 GGAATTGGAATCTG
1 GGAATTGGAATCTG
27327 AATGTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.29
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:27733 original size:39 final size:38
Alignment explanation
Indices: 27674--27801 Score: 159
Period size: 39 Copynumber: 3.3 Consensus size: 38
27664 TTCACCCTAA
27674 ACCCAAACCCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCAAACCCGA-CCGAATATCACACTTAAAAAAACCCG
* * *
27713 ACCCAAACACGAGCCAAATATCACACTT-AAAAAATCCG
1 ACCCAAACCCGA-CCGAATATCACACTTAAAAAAACCCG
* *
27751 ACCCGACCCCGACCTGAATATCACACTTAAAAAAACCCG
1 ACCCAAACCCGACC-GAATATCACACTTAAAAAAACCCG
* *
27790 ACTCAACCCCGA
1 ACCCAAACCCGA
27802 ATTTTTTATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 2 0.03
38 30 0.39
39 44 0.58
ACGTcount: A:0.42, C:0.38, G:0.09, T:0.12
Consensus pattern (38 bp):
ACCCAAACCCGACCGAATATCACACTTAAAAAAACCCG
Found at i:28127 original size:22 final size:21
Alignment explanation
Indices: 28100--28171 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
28090 CCACCCCTTA
*
28100 TTCTTCACCAATTTACTTTTTC
1 TTCTTCTCC-ATTTACTTTTTC
28122 TTCTTCTCCATATTA-TTTATTC
1 TTCTTCTCCAT-TTACTTT-TTC
* * *
28144 TTCTTTTCCGAGTTACTTCTTC
1 TTCTTCTCC-ATTTACTTTTTC
28166 TTCTTC
1 TTCTTC
28172 CTTTTCCCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.12
22 33 0.80
23 3 0.07
ACGTcount: A:0.14, C:0.26, G:0.03, T:0.57
Consensus pattern (21 bp):
TTCTTCTCCATTTACTTTTTC
Found at i:29668 original size:2 final size:2
Alignment explanation
Indices: 29661--29694 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
29651 CATATTAGTC
29661 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
29695 TTAAAAATAA
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:29833 original size:2 final size:2
Alignment explanation
Indices: 29828--29856 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29818 CTATTCAAAT
29828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29857 TTAGTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30029 original size:2 final size:2
Alignment explanation
Indices: 30017--30051 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
30007 ATATCCTGCT
*
30017 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30052 TTACTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33683 original size:130 final size:131
Alignment explanation
Indices: 33402--33741 Score: 436
Period size: 130 Copynumber: 2.6 Consensus size: 131
33392 ATAATTCTAA
* * * ** *
33402 GAGAAAAAATGATAATATATAATTATTTCCGATCGAGAATAAATAACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * * *
33467 GTCATTTATTACTCTAATCGAAATGAAGAGATATCACTATTTCGTCTTAAGATTCAATATTGATT
66 ATCATTTATTACTCCAATCGAAAGGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATT
33532 C
131 C
* * * * * * *
33533 GAGCGAAAACGATAGTATCTAATGATTTCTAATCGAGAATATATGATCTGTCATGGCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
33598 ATCATTTATTACTCCAATCGAAAGGAAG-GATATCACTATTCTC-TCTTAAAAATCAATATTGAT
66 ATCATTTATTACTCCAATCGAAAGGAAGAGATATCACTATT-TCGTCTTAAAAATCAATATTGAT
33661 TC
130 TC
* * *
33663 GAGAGAAAACGATAATATCTAATTCTTT-TCAATCAAGAATAAATGACCTCTTATGCCTTAAAG-
1 GAGAGAAAACGATAATATCTAATTATTTCT-AATCGAGAATAAATGACCTCTCATGCCTTAAAGC
33726 AAGTCATTTATTACTC
65 AA-TCATTTATTACTC
33742 TAACCAAAAT
Statistics
Matches: 178, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
129 3 0.02
130 96 0.54
131 79 0.44
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
ATCATTTATTACTCCAATCGAAAGGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATT
C
Found at i:36173 original size:18 final size:18
Alignment explanation
Indices: 36138--36173 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36128 AAAATGGGTA
* *
36138 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
36156 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
36174 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:37371 original size:22 final size:18
Alignment explanation
Indices: 37329--37398 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 18
37319 TTAAGGAGCA
*
37329 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
37347 GTCCTACGGGACATATACAGTG
1 GTCCTACGGGAC--AT--AGTG
*
37369 GTCCTTCGGGACATAGTG
1 GTCCTACGGGACATAGTG
37387 GTCCTACGGGAC
1 GTCCTACGGGAC
37399 GAATACTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 26 0.58
20 4 0.09
22 15 0.33
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (18 bp):
GTCCTACGGGACATAGTG
Found at i:39897 original size:16 final size:17
Alignment explanation
Indices: 39870--39902 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39860 CTTTTAGTCA
39870 CTTTGTAAAAGTAAATG
1 CTTTGTAAAAGTAAATG
*
39887 CTTTG-AAAAGTCAATG
1 CTTTGTAAAAGTAAATG
39903 TGACACCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (17 bp):
CTTTGTAAAAGTAAATG
Found at i:40251 original size:109 final size:109
Alignment explanation
Indices: 40138--40347 Score: 314
Period size: 109 Copynumber: 1.9 Consensus size: 109
40128 ACAAAAATAT
* *
40138 AAAAACACGCTAAAC-ATAGAGAGACTAAACAATAAATAACCCTAAAAATATATAACATGAATAA
1 AAAAACACACTAAACTATAG-GAGACTAAACAACAAATAACCCTAAAAATATATAACATGAATAA
** *
40202 AAACATTTAAATAGCAAGTTCGGTCCCTACAGGTGACTAACATGC
65 AAACAGGTAAATAGCAAGCTCGGTCCCTACAGGTGACTAACATGC
* * * *
40247 AAAAACACACTAAACTATAGGGGACTAAATAGCAAATAACCCTAAAAATATATAACATGCATAAA
1 AAAAACACACTAAACTATAGGAGACTAAACAACAAATAACCCTAAAAATATATAACATGAATAAA
*
40312 AACGGGTAAATAGCAAGCTCGGTCCCTACAGGTGAC
66 AACAGGTAAATAGCAAGCTCGGTCCCTACAGGTGAC
40348 CCTTTTGTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 86 0.96
110 4 0.04
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (109 bp):
AAAAACACACTAAACTATAGGAGACTAAACAACAAATAACCCTAAAAATATATAACATGAATAAA
AACAGGTAAATAGCAAGCTCGGTCCCTACAGGTGACTAACATGC
Found at i:43716 original size:14 final size:14
Alignment explanation
Indices: 43697--43744 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
43687 CATGCACATG
*
43697 TGATACATGTTACA
1 TGATACATGTTATA
*
43711 TGATACGAAT-CTATA
1 TGATAC--ATGTTATA
43726 TGATACATGTTATA
1 TGATACATGTTATA
43740 TGATA
1 TGATA
43745 TGAGATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 15 0.54
15 9 0.32
16 2 0.07
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (14 bp):
TGATACATGTTATA
Found at i:43988 original size:20 final size:19
Alignment explanation
Indices: 43936--43991 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
43926 TGGACAGTTA
43936 CATAGGTCATTCGGGATAT
1 CATAGGTCATTCGGGATAT
*
43955 -ATAGAGATCCTTCGGGATATT
1 CATAG-G-TCATTCGGGATA-T
*
43976 CATAGGTCTTTCGGGA
1 CATAGGTCATTCGGGA
43992 CAAATTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 20 0.65
21 2 0.06
22 4 0.13
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
CATAGGTCATTCGGGATAT
Found at i:53457 original size:20 final size:21
Alignment explanation
Indices: 53424--53462 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
53414 TTTAAATAAT
53424 TTGATTGACAAAATTAAAAGA
1 TTGATTGACAAAATTAAAAGA
*
53445 TTGA-TGACCAAATTAAAA
1 TTGATTGACAAAATTAAAA
53463 TCTCTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (21 bp):
TTGATTGACAAAATTAAAAGA
Found at i:54301 original size:37 final size:37
Alignment explanation
Indices: 54254--54332 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
54244 AGAACGTGAC
*
54254 ACATATCATTTAATGGAAAAATTTAAGGACAGTTACG
1 ACATGTCATTTAATGGAAAAATTTAAGGACAGTTACG
*
54291 ACATGTCATTTAATGGAAAAATTTAATGACAGTTACG
1 ACATGTCATTTAATGGAAAAATTTAAGGACAGTTACG
54328 ACATG
1 ACATG
54333 GACACCTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (37 bp):
ACATGTCATTTAATGGAAAAATTTAAGGACAGTTACG
Found at i:54936 original size:19 final size:20
Alignment explanation
Indices: 54912--55114 Score: 134
Period size: 20 Copynumber: 10.1 Consensus size: 20
54902 AAATAACCAA
54912 CGAATTCGCAACTC-AATTT
1 CGAATTCGCAACTCGAATTT
54931 CGAATTCGCAACTC-AATTT
1 CGAATTCGCAACTCGAATTT
**
54950 CGAATTCGCAA-TACGAA-AG
1 CGAATTCGCAACT-CGAATTT
* * *
54969 CCAATTTCGCAACAC-AGTTT
1 CGAA-TTCGCAACTCGAATTT
*
54989 CTGAATTCACAACTCGAATTT
1 C-GAATTCGCAACTCGAATTT
* * **
55010 GGAATTCGCAACAC-ATAAAT
1 CGAATTCGCAACTCGA-ATTT
55030 CGAATTCGCAACTCGAATTTT
1 CGAATTCGCAACTCGAA-TTT
55051 AC-AATTTCGCAACTCGAATTTT
1 -CGAA-TTCGCAACTCGAA-TTT
*
55073 AC-AATTTCGCAACTCGATTTT
1 -CGAA-TTCGCAACTCGAATTT
** *
55094 TAAATTCGCAACACGAATTT
1 CGAATTCGCAACTCGAATTT
55114 C
1 C
55115 CTTTTCGCAA
Statistics
Matches: 146, Mismatches: 25, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.01
19 36 0.25
20 59 0.40
21 15 0.10
22 35 0.24
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (20 bp):
CGAATTCGCAACTCGAATTT
Found at i:55061 original size:22 final size:22
Alignment explanation
Indices: 55034--55113 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
55024 ATAAATCGAA
55034 TTCGCAACTCGAATTTTACAAT
1 TTCGCAACTCGAATTTTACAAT
55056 TTCGCAACTCGAATTTTACAAT
1 TTCGCAACTCGAATTTTACAAT
*
55078 TTCGCAACTCGATTTTTA-AA-
1 TTCGCAACTCGAATTTTACAAT
*
55098 TTCGCAACACGAATTT
1 TTCGCAACTCGAATTT
55114 CCTTTTCGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.25
21 2 0.04
22 39 0.71
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (22 bp):
TTCGCAACTCGAATTTTACAAT
Found at i:55217 original size:61 final size:61
Alignment explanation
Indices: 55078--55227 Score: 160
Period size: 61 Copynumber: 2.5 Consensus size: 61
55068 ATTTTACAAT
* * *
55078 TTCGCAACTCGATTTTTAAA-TTCGCAACACGAATTTCCTTTTCGCAACAAGATTTTTTCAA
1 TTCGCAACACGA-ATTTAAATTTCGCAACACGAATTTCCTTTTCGCAACAAGATTTCTTCAA
* ** * * * **
55139 TTCGCAACGCGGGTTTAAATTTGGCAACACGAATTTCGTTTTCGTAACTCGA-TTCTTCGAA
1 TTCGCAACACGAATTTAAATTTCGCAACACGAATTTCCTTTTCGCAACAAGATTTCTTC-AA
*
55200 TTCGCAACATGAATTTAAATTTCGCAAC
1 TTCGCAACACGAATTTAAATTTCGCAAC
55228 TCAGCTTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 11 0.15
61 62 0.85
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (61 bp):
TTCGCAACACGAATTTAAATTTCGCAACACGAATTTCCTTTTCGCAACAAGATTTCTTCAA
Found at i:56040 original size:12 final size:12
Alignment explanation
Indices: 56019--56052 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56009 ACCACATTTC
*
56019 CAATACCAAACA
1 CAATATCAAACA
56031 CAATATCAAACA
1 CAATATCAAACA
*
56043 CAATCTCAAA
1 CAATATCAAA
56053 ATCCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:56205 original size:24 final size:24
Alignment explanation
Indices: 56178--56231 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
56168 GTATTCGAAA
56178 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
56202 TTTGAACTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
56226 TTTGAT
1 TTTGAT
56232 GATGTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:58508 original size:12 final size:12
Alignment explanation
Indices: 58491--58537 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
58481 AGTAAAGGGA
58491 AATCAAAATCGC
1 AATCAAAATCGC
**
58503 AATCAAAATCAA
1 AATCAAAATCGC
*
58515 AATCAAAATCCC
1 AATCAAAATCGC
*
58527 AATCACAATCG
1 AATCAAAATCG
58538 TCTTCACCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.53, C:0.26, G:0.04, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:58512 original size:6 final size:6
Alignment explanation
Indices: 58490--58524 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
58480 AAGTAAAGGG
* *
58490 AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
58525 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:58927 original size:20 final size:20
Alignment explanation
Indices: 58822--58931 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
58812 ATAATGAATC
* *
58822 AAATTCGCAACTCAAAAATA
1 AAATTCGCAACTCGAAAATG
**
58842 AAATTCATAACTCGAAAATCG
1 AAATTCGCAACTCGAAAAT-G
* * * *
58863 -AGTTCGCAATTCGAAACTT
1 AAATTCGCAACTCGAAAATG
*
58882 AAATTCGCAACACG---A--
1 AAATTCGCAACTCGAAAATG
*
58897 AAA-TCGTAACTCGAAAATG
1 AAATTCGCAACTCGAAAATG
58916 AAATTCGCAACTCGAA
1 AAATTCGCAACTCGAA
58932 TTTCATTTTC
Statistics
Matches: 65, Mismatches: 17, Indels: 16
0.66 0.17 0.16
Matches are distributed among these distances:
14 8 0.12
15 3 0.05
17 1 0.02
19 3 0.05
20 50 0.77
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACTCGAAAATG
Found at i:60043 original size:12 final size:12
Alignment explanation
Indices: 60026--60082 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
60016 TTATATGGTA
60026 TGAACAGTACCG
1 TGAACAGTACCG
* *
60038 TGAACATTA--A
1 TGAACAGTACCG
*
60048 TTAACAGTACCG
1 TGAACAGTACCG
*
60060 TGAACAGTACCC
1 TGAACAGTACCG
*
60072 TAAACAGTACC
1 TGAACAGTACC
60083 CTGCTACAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 7 0.20
12 28 0.80
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:60082 original size:24 final size:23
Alignment explanation
Indices: 60028--60099 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
60018 ATATGGTATG
* * *
60028 AACAGTACCGTGAACATTA-ATT
1 AACAGTACCGTGAACAGTACCTA
60050 AACAGTACCGTGAACAGTACCCTA
1 AACAGTACCGTGAACAGTA-CCTA
* *
60074 AACAGTACCCTGCTACAGTACCTA
1 AACAGTACCGTG-AACAGTACCTA
60098 AA
1 AA
60100 TGCTAAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.43
24 18 0.43
25 6 0.14
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (23 bp):
AACAGTACCGTGAACAGTACCTA
Found at i:61333 original size:3 final size:3
Alignment explanation
Indices: 61325--61396 Score: 63
Period size: 3 Copynumber: 22.3 Consensus size: 3
61315 CACGTTTGGG
* * *
61325 AGA AGA AGA AGA TGA ATGG AGA AGA AGA AGA TGA AGGA AGA AGGA AGA
1 AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA A-GA AGA A-GA AGA
*
61373 AGA TGA AGAA AGA ATGA AGA AGA A
1 AGA AGA AG-A AGA A-GA AGA AGA A
61397 ATGAGAGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
3 42 0.75
4 14 0.25
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.07
Consensus pattern (3 bp):
AGA
Found at i:61373 original size:20 final size:19
Alignment explanation
Indices: 61325--61395 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 19
61315 CACGTTTGGG
61325 AGAAGAAGAAGATGAATGG-
1 AGAAGAAGAAGATGAA-GGA
61344 AGAAGAAGAAGATGAAGGA
1 AGAAGAAGAAGATGAAGGA
*
61363 AGAAGGAAGAAGATGAAGAA
1 AGAA-GAAGAAGATGAAGGA
61383 AGAATGAAGAAGA
1 AGAA-GAAGAAGA
61396 AATGAGAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
18 2 0.04
19 20 0.42
20 26 0.54
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.07
Consensus pattern (19 bp):
AGAAGAAGAAGATGAAGGA
Found at i:61380 original size:13 final size:13
Alignment explanation
Indices: 61325--61394 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
61315 CACGTTTGGG
61325 AGAA-GAAGAAGA
1 AGAAGGAAGAAGA
*
61337 TGAATGG-AGAAGA
1 AGAA-GGAAGAAGA
*
61350 AGAA-GATGAAGGA
1 AGAAGGAAGAA-GA
61363 AGAAGGAAGAAGA
1 AGAAGGAAGAAGA
* *
61376 TGAAGAAAGAATGA
1 AGAAGGAAGAA-GA
61390 AGAAG
1 AGAAG
61395 AAATGAGAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 1 0.02
12 6 0.13
13 26 0.58
14 12 0.27
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (13 bp):
AGAAGGAAGAAGA
Found at i:61405 original size:23 final size:22
Alignment explanation
Indices: 61345--61406 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
61335 GATGAATGGA
*
61345 GAAGAAGAAGATGAAGGAAGAAG
1 GAAGAAGAA-ATGAAGAAAGAAG
*
61368 GAAGAAG--ATGAAGAAAGAAT
1 GAAGAAGAAATGAAGAAAGAAG
61388 GAAGAAGAAATGAGAGAAA
1 GAAGAAGAAATGA-AGAAA
61407 TCTAAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 18 0.53
22 4 0.12
23 12 0.35
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (22 bp):
GAAGAAGAAATGAAGAAAGAAG
Found at i:70817 original size:21 final size:21
Alignment explanation
Indices: 70751--70817 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
70741 ATGTGGATTT
* * *
70751 TGAACGATGCGGGGTGGATCC
1 TGAACGATGAGAGGTGAATCC
* * * ** *
70772 TGAATGATGGGAGGGGCCTCT
1 TGAACGATGAGAGGTGAATCC
70793 TGAACGATGAGAGGTGAATCC
1 TGAACGATGAGAGGTGAATCC
70814 TGAA
1 TGAA
70818 GAATGGGAGG
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.39, T:0.21
Consensus pattern (21 bp):
TGAACGATGAGAGGTGAATCC
Found at i:71201 original size:21 final size:21
Alignment explanation
Indices: 71177--71381 Score: 218
Period size: 21 Copynumber: 9.8 Consensus size: 21
71167 TGAAATAATC
**
71177 TCACGTAGGGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
**
71198 TCACGTAAAGCACC-ATTTTCA
1 TCACGTAAAGCACCTA-CCTCA
71219 TCACGTAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* **
71240 TCACGTAAAACACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
* *
71261 TCACGTAAAACACCTATCTCA
1 TCACGTAAAGCACCTACCTCA
*
71282 CCACGTAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
**
71303 TCACGTAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
* * * *
71324 TTACGTAAAACACCGACCTCG
1 TCACGTAAAGCACCTACCTCA
71345 TCACGTAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
71366 TCACGTAAAGCACCTA
1 TCACGTAAAGCACCTA
71382 ACTGATCCCG
Statistics
Matches: 153, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.02
21 147 0.96
22 3 0.02
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:71287 original size:63 final size:62
Alignment explanation
Indices: 71195--71379 Score: 280
Period size: 63 Copynumber: 2.9 Consensus size: 62
71185 GGCACCTACC
* * *
71195 TCATCACGTAAAGCACCATTTTCATCACGTAAAGCACCTACCTCATCACGTAAAACACCATTG
1 TCATCACGTAAAACACCA-TCTCATCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTG
*
71258 TCATCACGTAAAACACCTATCTCACCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTG
1 TCATCACGTAAAACACC-ATCTCATCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTG
* * *
71321 TCATTACGTAAAACACCGACCTCGTCACGTAAAGCACCTACCTCATCACGTAAAGCACC
1 TCATCACGTAAAACACC-ATCTCATCACGTAAAGCACCTACCTCATCACGTAAAGCACC
71380 TAACTGATCC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
63 111 0.99
64 1 0.01
ACGTcount: A:0.35, C:0.34, G:0.10, T:0.21
Consensus pattern (62 bp):
TCATCACGTAAAACACCATCTCATCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTG
Found at i:71535 original size:42 final size:41
Alignment explanation
Indices: 71480--71691 Score: 298
Period size: 42 Copynumber: 5.0 Consensus size: 41
71470 GAGTCGACTG
* * *
71480 GAGGTGATGGATCTCAGTGTCGAGGTGTAGAATCGGCTCGAT
1 GAGGTGATGGATCTC-GTGTCGAAGTGGAGAATCGACTCGAT
* *
71522 GAGGTGATGGATCTCGATGCCGACGTGGAGAATCGACTCGAT
1 GAGGTGATGGATCTCG-TGTCGAAGTGGAGAATCGACTCGAT
*
71564 GAGGTGATGGATCTCGGTATCGAAGTGGAGAATCGACTCGAT
1 GAGGTGATGGATCTC-GTGTCGAAGTGGAGAATCGACTCGAT
*
71606 GAGGTGATGGATCTCGATGTCGAAGTGGAGAATCGGCTCGAT
1 GAGGTGATGGATCTCG-TGTCGAAGTGGAGAATCGACTCGAT
* *
71648 GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGAT
1 GAGGTGATGGATCTC-GTGTCGAAGTGGAGAATCGACTCGAT
71690 GA
1 GA
71692 AAAAGTGGGG
Statistics
Matches: 154, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
41 2 0.01
42 150 0.97
43 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (41 bp):
GAGGTGATGGATCTCGTGTCGAAGTGGAGAATCGACTCGAT
Found at i:71621 original size:84 final size:84
Alignment explanation
Indices: 71480--71691 Score: 343
Period size: 84 Copynumber: 2.5 Consensus size: 84
71470 GAGTCGACTG
* * *
71480 GAGGTGATGGATCTCAGTGTCGAGGTGTAGAATCGGCTCGATGAGGTGATGGATCTCGATGCCGA
1 GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGATGAGGTGATGGATCTCGATGCCGA
*
71545 CGTGGAGAATCGACTCGAT
66 AGTGGAGAATCGACTCGAT
* * * *
71564 GAGGTGATGGATCTCGGTATCGAAGTGGAGAATCGACTCGATGAGGTGATGGATCTCGATGTCGA
1 GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGATGAGGTGATGGATCTCGATGCCGA
*
71629 AGTGGAGAATCGGCTCGAT
66 AGTGGAGAATCGACTCGAT
71648 GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGATGA
1 GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGATGA
71692 AAAAGTGGGG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 117 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (84 bp):
GAGGTGATGGATCTCGGTGTCGAGGTGAAGAATCGACTCGATGAGGTGATGGATCTCGATGCCGA
AGTGGAGAATCGACTCGAT
Found at i:71867 original size:2 final size:2
Alignment explanation
Indices: 71860--71900 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
71850 ATAAATTGTT
71860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71901 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:71905 original size:2 final size:2
Alignment explanation
Indices: 71900--71936 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
71890 TATATATATA
71900 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
71937 ATGTACACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:73303 original size:20 final size:21
Alignment explanation
Indices: 73263--73320 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
73253 TTCGCAACAC
73263 GAAAATCGCAACTCGAAAAAT
1 GAAAATCGCAACTCGAAAAAT
73284 GAAAATCGCAACTC-AAAAAT
1 GAAAATCGCAACTCGAAAAAT
*
73304 GAAATTCGCAACTCGAA
1 GAAAATCGCAACTCGAA
73321 TTTCATTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.16
Consensus pattern (21 bp):
GAAAATCGCAACTCGAAAAAT
Found at i:73344 original size:20 final size:20
Alignment explanation
Indices: 73321--73384 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
73311 GCAACTCGAA
73321 TTTCATTTTCGAGTTGCGAT
1 TTTCATTTTCGAGTTGCGAT
* ** *
73341 TTTCGTTTTCGAGTTATGAA
1 TTTCATTTTCGAGTTGCGAT
*
73361 TTTCATGTTCGAGTTGCGAT
1 TTTCATTTTCGAGTTGCGAT
73381 TTTC
1 TTTC
73385 GTATTGCGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCATTTTCGAGTTGCGAT
Found at i:74012 original size:20 final size:20
Alignment explanation
Indices: 73969--74014 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
73959 AAACATTTAT
*
73969 GTTGCGAAATTAAAAGATGA
1 GTTGCGAAATTAAAAGACGA
* * *
73989 GTTGCGAAATTTAAATACGC
1 GTTGCGAAATTAAAAGACGA
74009 GTTGCG
1 GTTGCG
74015 CGTTGCGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (20 bp):
GTTGCGAAATTAAAAGACGA
Found at i:74079 original size:20 final size:20
Alignment explanation
Indices: 74016--74079 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
74006 CGCGTTGCGC
*
74016 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCAAAAATCGA
* ** * *
74036 GTTGCAAAAGCAAAACTCGT
1 GTTGCGAATTCAAAAATCGA
*
74056 GTTGCGAATTTAAAAATCGA
1 GTTGCGAATTCAAAAATCGA
74076 GTTG
1 GTTG
74080 TGAAACAGAA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTGCGAATTCAAAAATCGA
Found at i:74162 original size:20 final size:19
Alignment explanation
Indices: 74108--74167 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
74098 TGCGAAAATG
74108 TCAAATTCGAGTTGCGAAT
1 TCAAATTCGAGTTGCGAAT
* *
74127 TCTACTTCTGTA-TTGCGAAT
1 TCAAATTC-G-AGTTGCGAAT
74147 TCCAAATTCGAGTTGCGAAT
1 T-CAAATTCGAGTTGCGAAT
74167 T
1 T
74168 TAGAAATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 6 0.18
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (19 bp):
TCAAATTCGAGTTGCGAAT
Found at i:74179 original size:40 final size:40
Alignment explanation
Indices: 74109--74185 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
74099 GCGAAAATGT
**
74109 CAAATTCGAGTTGCGAATTCTACTTCTGTATTGCGAATTC
1 CAAATTCGAGTTGCGAATTCTAAATCTGTATTGCGAATTC
74149 CAAATTCGAGTTGCGAATT-TAGAAAT-TGTATTGCGAA
1 CAAATTCGAGTTGCGAATTCT--AAATCTGTATTGCGAA
74186 ATTGGCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 1 0.03
40 30 0.91
41 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (40 bp):
CAAATTCGAGTTGCGAATTCTAAATCTGTATTGCGAATTC
Found at i:81223 original size:4 final size:4
Alignment explanation
Indices: 81214--81245 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
81204 AAATTTACAA
*
81214 AAAT AAAT AAAT AAAT AAAT AAAT AAAG AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
81246 CGAGGATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:81571 original size:20 final size:21
Alignment explanation
Indices: 81546--81638 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
81536 TTTTCCCAAT
*
81546 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
81566 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
81587 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
81607 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
81628 TCGCAATGCGA
1 TCGCAATGCGA
81639 TACTGACTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:81591 original size:41 final size:41
Alignment explanation
Indices: 81546--81638 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
81536 TTTTCCCAAT
81546 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
81587 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
81628 TCGCAATGCGA
1 TCGCAATGCGA
81639 TACTGACTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:81652 original size:41 final size:41
Alignment explanation
Indices: 81566--81699 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
81556 AATAAGTAAA
* **
81566 TCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-AA
1 TCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACTT
81607 TCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACTT
1 TCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACTT
* * ** * * *
81648 TCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACTT
1 TCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACTT
81689 TCGCAACGCGA
1 TCGCAACGCGA
81700 TACTGACTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (41 bp):
TCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACTT
Found at i:81653 original size:20 final size:20
Alignment explanation
Indices: 81628--81721 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
81618 ATTGGGAAAA
*
81628 TCGCAATGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* * * ***
81648 TCGCAATGCGATAATAAAAAA
1 TCGCAACGCGATACT-GACTT
* *
81669 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
81689 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
81709 TTGCAACGCGATA
1 TCGCAACGCGATA
81722 ATACATAATC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:81937 original size:22 final size:22
Alignment explanation
Indices: 81909--81952 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
81899 CACTCTCTCA
81909 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
81931 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
81953 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:83592 original size:18 final size:18
Alignment explanation
Indices: 83571--83615 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
83561 TCCACTTCGG
*
83571 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
83589 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
83607 GAGCCATCA
1 GAGCCATCA
83616 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:84069 original size:19 final size:19
Alignment explanation
Indices: 84045--84192 Score: 93
Period size: 19 Copynumber: 8.3 Consensus size: 19
84035 GTTGAAGTAA
84045 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
84064 TGCGA-TTT--TGT--CGT
1 TGCGATTTTCATTTCGCGT
*
84078 TGCGA-TTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
84096 TGCGA-TTT--TGT--CGT
1 TGCGATTTTCATTTCGCGT
* *
84110 TGCGATTTTCGTTTCGCAT
1 TGCGATTTTCATTTCGCGT
***
84129 TGCGATAGCCATTTCCGCGT
1 TGCGATTTTCATTT-CGCGT
**
84149 TGCGATAGTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
* *
84168 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
84188 TGCGA
1 TGCGA
84193 AAGTAAACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
14 18 0.18
15 3 0.03
16 6 0.06
17 2 0.02
18 13 0.13
19 30 0.30
20 29 0.29
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:84080 original size:14 final size:14
Alignment explanation
Indices: 84061--84118 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
84051 TTTCATTTCG
84061 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
84075 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
84091 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
84107 CGTTGCGATTTT
1 CGTTGCGATTTT
84119 CGTTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:84130 original size:33 final size:33
Alignment explanation
Indices: 84045--84134 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 33
84035 GTTGAAGTAA
*
84045 TGCGATTTTCATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
84078 TGCGA-TTTCATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
*
84110 TGCGATTTTCGTTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGAT
84135 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.57
33 23 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
Found at i:84153 original size:20 final size:19
Alignment explanation
Indices: 84121--84173 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
84111 GCGATTTTCG
*
84121 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATAGCCA
*
84140 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATAGCCA
84160 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
84174 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGCCA
Found at i:86063 original size:14 final size:14
Alignment explanation
Indices: 86044--86079 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
86034 ATTGTTTAAT
86044 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
86058 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
86072 TGATTTGT
1 TGATTTGT
86080 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:86218 original size:19 final size:19
Alignment explanation
Indices: 86196--86251 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
86186 ATCGCAACGA
86196 GAAAATCGCAATGTGAAAT
1 GAAAATCGCAATGTGAAAT
*
86215 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGTGAAAT
*
86234 GAAAATCGCAACGTGAAA
1 GAAAATCGCAATGTGAAA
86252 ATCGCAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.16
Consensus pattern (19 bp):
GAAAATCGCAATGTGAAAT
Found at i:86339 original size:20 final size:20
Alignment explanation
Indices: 86282--86339 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
86272 TCGCATTGCG
* *
86282 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
86302 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
86322 ATTTTCGCGTTGTGATAG
1 ATTTTCGCGTTGCGATAG
86340 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:86543 original size:19 final size:19
Alignment explanation
Indices: 86488--86536 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
86478 ATCGCAACAA
86488 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
86507 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
86526 GAAAATCGCAA
1 GAAAATCGCAA
86537 CGAGAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:86631 original size:20 final size:20
Alignment explanation
Indices: 86574--86631 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
86564 TCGCATTGCG
* *
86574 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
*
86594 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
86614 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
86632 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:86637 original size:292 final size:292
Alignment explanation
Indices: 86113--86701 Score: 1106
Period size: 292 Copynumber: 2.0 Consensus size: 292
86103 TGTTGAAATG
*
86113 TAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGGCTATCGCAACGCG
1 TAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAAGCTATCGCAACGCG
* *
86178 AAATGGTTATCGCAACGAGAAAATCGCAATGTGAAATGAAAATCGCAATGCGAAATGAAAATCGC
66 AAATGGTTATCGCAACAAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
*
86243 AACGTGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTC
131 AACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTC
* *
86308 GCGTTGCGATAGCCATTTTCGCGTTGTGATAGTCAAATGAATATCTAATAAGTGATGACAACTGA
196 GCATTGCGATAGCCATTTTCGCGTTGCGATAGTCAAATGAATATCTAATAAGTGATGACAACTGA
86373 ACAGATCATAGCAATGTTCAAACTCAAGTTAC
261 ACAGATCATAGCAATGTTCAAACTCAAGTTAC
86405 TAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAAGCTATCGCAACGCG
1 TAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAAGCTATCGCAACGCG
86470 AAATGGTTATCGCAACAAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
66 AAATGGTTATCGCAACAAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
*
86535 AACGAGAAAATCGTAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTC
131 AACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTC
*
86600 GCATTGCGATAGCCATTTTCGCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGA
196 GCATTGCGATAGCCATTTTCGCGTTGCGATAGTCAAATGAATATCTAATAAGTGATGACAACTGA
86665 ACAGATCATAGCAATGTTCAAACTCAAGTTAC
261 ACAGATCATAGCAATGTTCAAACTCAAGTTAC
86697 TAATA
1 TAATA
86702 CATGCCTAAC
Statistics
Matches: 289, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
292 289 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (292 bp):
TAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAAGCTATCGCAACGCG
AAATGGTTATCGCAACAAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
AACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTC
GCATTGCGATAGCCATTTTCGCGTTGCGATAGTCAAATGAATATCTAATAAGTGATGACAACTGA
ACAGATCATAGCAATGTTCAAACTCAAGTTAC
Found at i:87710 original size:24 final size:24
Alignment explanation
Indices: 87683--87736 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
87673 GTATTCGAAA
* *
87683 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
87707 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
87731 TTTGAT
1 TTTGAT
87737 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:87928 original size:12 final size:12
Alignment explanation
Indices: 87911--87935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87901 ATATAATCCT
87911 GAAGAAGAAAAA
1 GAAGAAGAAAAA
87923 GAAGAAGAAAAA
1 GAAGAAGAAAAA
87935 G
1 G
87936 TCCTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:90249 original size:19 final size:19
Alignment explanation
Indices: 90227--90354 Score: 79
Period size: 19 Copynumber: 7.5 Consensus size: 19
90217 AATTACTATT
90227 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
90246 GCAA--CG--A-GAGAATC
1 GCAATGCGAAATGAAAATC
90260 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
* **
90279 GCAA--CG--CT-AATTTC
1 GCAATGCGAAATGAAAATC
*
90293 GCAATGCTAAATGAAAATC
1 GCAATGCGAAATGAAAATC
**
90312 GCAA--CG--A-GGGAATC
1 GCAATGCGAAATGAAAATC
90326 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
90345 GCAACGCGAA
1 GCAATGCGAA
90355 TTTAATTTCG
Statistics
Matches: 79, Mismatches: 15, Indels: 30
0.64 0.12 0.24
Matches are distributed among these distances:
14 27 0.34
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 36 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:90269 original size:33 final size:33
Alignment explanation
Indices: 90227--90350 Score: 187
Period size: 33 Copynumber: 3.8 Consensus size: 33
90217 AATTACTATT
90227 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
** *
90260 GCAATGCGAAATGAAAATCGCAACGCTA-ATTTC
1 GCAATGCGAAATGAAAATCGCAACGAGAGA-ATC
* *
90293 GCAATGCTAAATGAAAATCGCAACGAGGGAATC
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATC
90326 GCAATGCGAAATGAAAATCGCAACG
1 GCAATGCGAAATGAAAATCGCAACG
90351 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:90333 original size:66 final size:66
Alignment explanation
Indices: 90227--90357 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
90217 AATTACTATT
*
90227 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
90292 C
66 C
* *
90293 GCAATGCTAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
90358 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
C
Found at i:90372 original size:19 final size:19
Alignment explanation
Indices: 90350--90391 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
90340 AAATCGCAAC
90350 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
90369 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
90388 GCGA
1 GCGA
90392 TTCTCGTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:90392 original size:19 final size:19
Alignment explanation
Indices: 90359--90423 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
90349 CGCGAATTTA
90359 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
90378 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
90395 ---T--CGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
90409 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
90424 AGTACTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
12 8 0.21
14 4 0.11
17 4 0.11
19 22 0.58
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:90403 original size:31 final size:31
Alignment explanation
Indices: 90365--90423 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
90355 TTTAATTTCG
*
90365 CGTTGCGATTTTCATTTCGCGTTGCGATTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCT
90396 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
90424 AGTACTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (31 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCT
Found at i:90548 original size:14 final size:14
Alignment explanation
Indices: 90529--90565 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
90519 CATCAATTAA
90529 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
90543 ACAAATCACCTTTT
1 ACAAATCAACTTTT
90557 ACAAATCAA
1 ACAAATCAA
90566 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:91988 original size:21 final size:21
Alignment explanation
Indices: 91922--91988 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
91912 GTGAATCGGG
*
91922 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
91942 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
91964 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
91985 CTCT
1 CTCT
91989 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:92007 original size:42 final size:41
Alignment explanation
Indices: 91922--92044 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
91912 GTGAATCGGG
* * * * *
91922 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
91964 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
92006 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
92045 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:94127 original size:33 final size:33
Alignment explanation
Indices: 94072--94170 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
94062 ACGAGATAAT
* * *
94072 GAGAATCGTAATGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
94106 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
94139 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
94171 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 45 0.79
34 12 0.21
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:94175 original size:20 final size:19
Alignment explanation
Indices: 94047--94213 Score: 102
Period size: 20 Copynumber: 9.1 Consensus size: 19
94037 TCTTTTGGTT
*
94047 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* * *
94066 GATAATGAGAATCGTAATGC
1 GA-AATGAAAATCGCAACGC
**
94086 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
94104 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
94120 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
94138 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
94153 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
94173 GAAATAAAAAATCGCAACGC
1 GAAAT-GAAAATCGCAACGC
* *
94193 GAAACGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
94212 GA
1 GA
94214 TTTTGGTTTC
Statistics
Matches: 115, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.17
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 35 0.30
20 39 0.34
21 12 0.10
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:94225 original size:19 final size:19
Alignment explanation
Indices: 94209--94272 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
94199 AAAATCGCAA
94209 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
94228 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
94247 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
94266 TGTGATT
1 TGCGATT
94273 ATCTCGTTGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.06, C:0.14, G:0.31, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:94893 original size:20 final size:20
Alignment explanation
Indices: 94828--94921 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
94818 CGCTATGTAA
* *
94828 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
94848 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
94869 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
94889 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
94909 ATCGCATTGCGAT
1 ATCGCATTGCGAT
94922 TTTCCCAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.05
20 46 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:94940 original size:61 final size:61
Alignment explanation
Indices: 94828--94942 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
94818 CGCTATGTAA
* * * ** *
94828 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTCAGT
* *
94889 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
94943 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTCAGT
Found at i:99116 original size:3 final size:3
Alignment explanation
Indices: 99108--99132 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
99098 CAACCAAAAA
99108 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
99133 AATCAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:100432 original size:18 final size:18
Alignment explanation
Indices: 100409--100465 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
100399 TTAAGAAATT
100409 AATATGATTCATATGCTA
1 AATATGATTCATATGCTA
* *
100427 AATATGATTCATATGATT
1 AATATGATTCATATGCTA
100445 AATATGATTCATATGCTA
1 AATATGATTCATATGCTA
100463 AAT
1 AAT
100466 TTTTAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
AATATGATTCATATGCTA
Found at i:100440 original size:9 final size:9
Alignment explanation
Indices: 100410--100459 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
100400 TAAGAAATTA
100410 ATATGATTC
1 ATATGATTC
* **
100419 ATATGCTAA
1 ATATGATTC
100428 ATATGATTC
1 ATATGATTC
*
100437 ATATGATTA
1 ATATGATTC
100446 ATATGATTC
1 ATATGATTC
100455 ATATG
1 ATATG
100460 CTAAATTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (9 bp):
ATATGATTC
Found at i:101993 original size:9 final size:9
Alignment explanation
Indices: 101979--102013 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
101969 GAACTCGGTT
*
101979 AATTAACTG
1 AATTAACCG
101988 AATTAACCG
1 AATTAACCG
101997 AATTAACCG
1 AATTAACCG
102006 AATTAACC
1 AATTAACC
102014 TTTAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:103158 original size:14 final size:14
Alignment explanation
Indices: 103141--103168 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103131 ATTCACATCC
103141 TTGCATCTATATGT
1 TTGCATCTATATGT
103155 TTGCATCTATATGT
1 TTGCATCTATATGT
103169 AATTACATCT
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:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGCATCTATATGT
Found at i:105974 original size:2 final size:2
Alignment explanation
Indices: 105967--106015 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
105957 TGTCGTAAAT
105967 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
106009 TA TA TA T
1 TA TA TA T
106016 GTAGATTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112487 original size:127 final size:130
Alignment explanation
Indices: 112303--112561 Score: 357
Period size: 127 Copynumber: 2.0 Consensus size: 130
112293 ATCATCTCGC
* * * *
112303 TCGAGATAGTTTCCCTTGAAACTCAAACTTTAGTATCATTTTACTTGAGGCTTAAATCCAGCACA
1 TCGAGATAGTTTCCCATGAAACTCAAACTTCAGTATCATTTCACTTGAAGCTTAAATCCAGCACA
* * * *
112368 TAAGGAGTCGGATCAGTATCA-C-TTT-G-TTCGATTCCATCACTTAAGGAGTTGGATCAATATC
66 TAAGGAGTCGGATCAGTATCACCTTTTGGCTT-AATTCCATCACATAAAGAGTTGGATCAACATC
112429 A
130 A
*
112430 TCGAGATAGTTTCCCATGAAACTCAAACTTCAGTATCATTTCACTTGAAG-TTCAAATCCATCAC
1 TCGAGATAGTTTCCCATGAAACTCAAACTTCAGTATCATTTCACTTGAAGCTT-AAATCCAGCAC
** *
112494 ATAAGGAGTTTGATCAGTATCACCTTTTGGCTTAATTCTATCACATAAAGAGTTGGATCAACATC
65 ATAAGGAGTCGGATCAGTATCACCTTTTGGCTTAATTCCATCACATAAAGAGTTGGATCAACATC
112559 A
130 A
112560 TC
1 TC
112562 TCGCTCGAGT
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
126 2 0.02
127 76 0.66
128 1 0.01
129 3 0.03
130 31 0.27
131 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (130 bp):
TCGAGATAGTTTCCCATGAAACTCAAACTTCAGTATCATTTCACTTGAAGCTTAAATCCAGCACA
TAAGGAGTCGGATCAGTATCACCTTTTGGCTTAATTCCATCACATAAAGAGTTGGATCAACATCA
Found at i:116496 original size:20 final size:20
Alignment explanation
Indices: 116471--116517 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
116461 TTCAGGTAGG
116471 GAGTATCGATACTGCTGGGA
1 GAGTATCGATACTGCTGGGA
* *
116491 GAGTATCGATATTGTTGGGA
1 GAGTATCGATACTGCTGGGA
116511 GAGTATC
1 GAGTATC
116518 AATAATGCTC
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:0.26, C:0.11, G:0.34, T:0.30
Consensus pattern (20 bp):
GAGTATCGATACTGCTGGGA
Found at i:116829 original size:183 final size:184
Alignment explanation
Indices: 116520--116887 Score: 677
Period size: 183 Copynumber: 2.0 Consensus size: 184
116510 AGAGTATCAA
116520 TAATGCTCCTTTAGTATCGATACTAAAGGTATACAGTATCGATATTGAGCCTCATTTTTAGTAAC
1 TAATGCTCCTTTAGTATCGATACTAAAGGTATACAGTATCGATATTGAGCCTCATTTTTAGTAAC
116585 AATAGTGATTTTTGGCATCGATACTCATAAGGGTATTGATACTACAAGTAGAGTATCAATACTAC
66 AATAGTGATTTTTGGCATCGATACTCATAAGGGTATTGATACTACAAGTAGAGTATCAATACTAC
*
116650 CAACCTTGGATGATCAAATTCAACTC-AGTTAAGATTCGTAAGAGCTAAGGATGG
131 CAACCTTGGATGATCAAATTCAACTCGA-TTAAGATTCGTAAGAGCTAAGAATGG
116704 TAATGCTCCTTTAGTATCGATACTAAAGGTATACAGTATCGATATTGAGCCTCA-TTTTAGTAAC
1 TAATGCTCCTTTAGTATCGATACTAAAGGTATACAGTATCGATATTGAGCCTCATTTTTAGTAAC
*
116768 AATAGTGATTTTTGGTATCGATACTCATAAGGGTATTGATACTACAAGTAGAGTATCAATACTAC
66 AATAGTGATTTTTGGCATCGATACTCATAAGGGTATTGATACTACAAGTAGAGTATCAATACTAC
**
116833 CAACCTTGGATGATCAAATTTGACTCGATTAAGATTCGTAAGAGCTAAGAATGG
131 CAACCTTGGATGATCAAATTCAACTCGATTAAGATTCGTAAGAGCTAAGAATGG
116887 T
1 T
116888 CTGTAATGGC
Statistics
Matches: 179, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
183 124 0.69
184 55 0.31
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (184 bp):
TAATGCTCCTTTAGTATCGATACTAAAGGTATACAGTATCGATATTGAGCCTCATTTTTAGTAAC
AATAGTGATTTTTGGCATCGATACTCATAAGGGTATTGATACTACAAGTAGAGTATCAATACTAC
CAACCTTGGATGATCAAATTCAACTCGATTAAGATTCGTAAGAGCTAAGAATGG
Found at i:117860 original size:32 final size:32
Alignment explanation
Indices: 117820--117937 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 32
117810 ACATGGCAGT
117820 GTCAGTGTTGCATTCAGATAATGCACAACAGA
1 GTCAGTGTTGCATTCAGATAATGCACAACAGA
* * * *
117852 GTCGGTGTTGCATTTAGGTAATGCACAGCAGA
1 GTCAGTGTTGCATTCAGATAATGCACAACAGA
* * * *
117884 GTCATTGTTGCATTCAAAAAAATGTACAACATGA
1 GTCAGTGTTGCATTC-AGATAATGCACAACA-GA
*
117918 -TCAATGTTGCATTCAGATAA
1 GTCAGTGTTGCATTCAGATAA
117938 AGTATAGAAG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
32 44 0.64
33 23 0.33
34 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (32 bp):
GTCAGTGTTGCATTCAGATAATGCACAACAGA
Found at i:119107 original size:21 final size:21
Alignment explanation
Indices: 119080--119128 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
119070 ACAATTGTCA
*
119080 AATAATATTAGTAGTAATAAT
1 AATAATATTAATAGTAATAAT
*
119101 ATTAATATTAATAGTAATAAT
1 AATAATATTAATAGTAATAAT
119122 AATAATA
1 AATAATA
119129 GTAGGAGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
AATAATATTAATAGTAATAAT
Found at i:119112 original size:12 final size:12
Alignment explanation
Indices: 119080--119125 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
119070 ACAATTGTCA
*
119080 AATAATATTAGT
1 AATAATAATAGT
* *
119092 AGTAATAATATT
1 AATAATAATAGT
*
119104 AATATTAATAGT
1 AATAATAATAGT
119116 AATAATAATA
1 AATAATAATA
119126 ATAGTAGGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:119112 original size:15 final size:15
Alignment explanation
Indices: 119080--119128 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
119070 ACAATTGTCA
* *
119080 AATAATATTAGTAGT
1 AATAATATTAATAAT
*
119095 AATAATATTAATATT
1 AATAATATTAATAAT
* *
119110 AATAGTAATAATAAT
1 AATAATATTAATAAT
119125 AATA
1 AATA
119129 GTAGGAGGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
AATAATATTAATAAT
Found at i:122327 original size:17 final size:16
Alignment explanation
Indices: 122305--122351 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
122295 AAATATATTT
122305 TTATTTTTTAAAAAATA
1 TTATTTTTTAAAAAA-A
122322 TTATTTTTTTAAAAAAA
1 TTA-TTTTTTAAAAAAA
**
122339 TTAAATTTTAAAA
1 TTATTTTTTAAAA
122352 CTCGTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 8 0.30
17 7 0.26
18 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATTTTTTAAAAAAA
Done.