Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 19
Found at i:2210011 original size:21 final size:21
Alignment explanation
Indices: 2209985--2210025 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2209975 TTTAAATTTA
* *
2209985 ATGAAGGTGTACTGATACCCT
1 ATGAAGGGGTACCGATACCCT
2210006 ATGAAGGGGTACCGATACCC
1 ATGAAGGGGTACCGATACCC
2210026 CATGTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCGATACCCT
Found at i:2216156 original size:21 final size:21
Alignment explanation
Indices: 2216100--2216149 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2216090 TTATTTGAGA
2216100 GTGCATCGGTACACAATGAAT
1 GTGCATCGGTACACAATGAAT
2216121 GTGCATCGGTACACAATGAAT
1 GTGCATCGGTACACAATGAAT
2216142 GTGCATCG
1 GTGCATCG
2216150 ATGCACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (21 bp):
GTGCATCGGTACACAATGAAT
Found at i:2216383 original size:70 final size:70
Alignment explanation
Indices: 2216260--2216398 Score: 224
Period size: 70 Copynumber: 2.0 Consensus size: 70
2216250 ACATATTCAA
* * * *
2216260 ACTCATTTCTATTCATTAATCCCCTTTTTAACATCAAAATCCTATTTTTCATATGTAATTCAAGA
1 ACTCATTTCTATTCATTAATCCCCTCTTTAACATCAAAATCATATTCTCCATATGTAATTCAAGA
2216325 ATTAC
66 ATTAC
* *
2216330 ACTCATTTTTATTCATTAATCTCCTCTTTAACATCAAAATCATATTCTCCATATGTAATTCAAGA
1 ACTCATTTCTATTCATTAATCCCCTCTTTAACATCAAAATCATATTCTCCATATGTAATTCAAGA
2216395 ATTA
66 ATTA
2216399 ACTAAATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (70 bp):
ACTCATTTCTATTCATTAATCCCCTCTTTAACATCAAAATCATATTCTCCATATGTAATTCAAGA
ATTAC
Found at i:2218295 original size:19 final size:19
Alignment explanation
Indices: 2218256--2218309 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2218246 ATTAAAGATG
*
2218256 AATTGATTTTGAAAGTAAA
1 AATTGATTTTGAAAATAAA
*
2218275 AATTGATTTTGAAAATCAA
1 AATTGATTTTGAAAATAAA
2218294 AA-TGAAATTTTGAAAA
1 AATTG--ATTTTGAAAA
2218310 ATAATTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 2 0.06
19 19 0.61
20 10 0.32
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (19 bp):
AATTGATTTTGAAAATAAA
Found at i:2219258 original size:13 final size:13
Alignment explanation
Indices: 2219240--2219282 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
2219230 GTCATAAATC
*
2219240 TATGACGCACATT
1 TATGACACACATT
*
2219253 TATGACACGCATT
1 TATGACACACATT
2219266 TATGACACACATT
1 TATGACACACATT
2219279 TATG
1 TATG
2219283 TCGCGTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (13 bp):
TATGACACACATT
Found at i:2223942 original size:20 final size:20
Alignment explanation
Indices: 2223917--2223962 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2223907 GAATGTAATT
2223917 AGTGTACCGATACACTATAC
1 AGTGTACCGATACACTATAC
* * *
2223937 AGTGTACCTATACACTCTGC
1 AGTGTACCGATACACTATAC
2223957 AGTGTA
1 AGTGTA
2223963 TCCATATACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
AGTGTACCGATACACTATAC
Found at i:2224601 original size:48 final size:48
Alignment explanation
Indices: 2224549--2224644 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
2224539 ATCAAATATA
*
2224549 TATCCTTATAAATAGATACTAAGGATTATGGTTAGAAATTAGGTTATC
1 TATCCTTATAAATAGATACTAAGGATTATGGTTAAAAATTAGGTTATC
*
2224597 TATCCTTATAAATAGATACTAAGGATTGTGGTTAAAAATTAGGTTATC
1 TATCCTTATAAATAGATACTAAGGATTATGGTTAAAAATTAGGTTATC
2224645 AATGATGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (48 bp):
TATCCTTATAAATAGATACTAAGGATTATGGTTAAAAATTAGGTTATC
Found at i:2232463 original size:57 final size:57
Alignment explanation
Indices: 2232395--2232557 Score: 229
Period size: 57 Copynumber: 2.9 Consensus size: 57
2232385 CTTCCGAGAG
* *
2232395 CAACAACAACAACAGTGAGAATGCAAGTCAG-ATCGAGAACAATGATGCTGTTCAGAT
1 CAACACCAACAACAATGAGAATGCAAGTCAGAAT-GAGAACAATGATGCTGTTCAGAT
* * * *
2232452 CAATACCAACAACAATGAGAATACTAGTCGGAATGAGAACAATGATGCTGTTCAGAT
1 CAACACCAACAACAATGAGAATGCAAGTCAGAATGAGAACAATGATGCTGTTCAGAT
* * *
2232509 CAACACCAACAACAACGAGAATGCAAGTGAGAATGAGAACAATGCTGCT
1 CAACACCAACAACAATGAGAATGCAAGTCAGAATGAGAACAATGATGCT
2232558 AAGAGCATTA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 90 0.98
58 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (57 bp):
CAACACCAACAACAATGAGAATGCAAGTCAGAATGAGAACAATGATGCTGTTCAGAT
Found at i:2244499 original size:38 final size:38
Alignment explanation
Indices: 2244448--2244532 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
2244438 CGATAGCATA
2244448 TAAAATGCCAACTCTTATTATTACCATATAATTAAAAT
1 TAAAATGCCAACTCTTATTATTACCATATAATTAAAAT
2244486 TAAAATGCCAACTCTTATTATTACCATATAATTAAAAT
1 TAAAATGCCAACTCTTATTATTACCATATAATTAAAAT
*
2244524 AAAAATGCC
1 TAAAATGCC
2244533 GCTACATGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (38 bp):
TAAAATGCCAACTCTTATTATTACCATATAATTAAAAT
Found at i:2245705 original size:34 final size:34
Alignment explanation
Indices: 2245662--2245735 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
2245652 TAAGAACTTA
2245662 AGATAGAGAAAAATAAAAATCAAGGCTTGAAATG
1 AGATAGAGAAAAATAAAAATCAAGGCTTGAAATG
*
2245696 AGATAGAGAACAATAAAAATCAAGGCTTGAAATG
1 AGATAGAGAAAAATAAAAATCAAGGCTTGAAATG
*
2245730 AAATAG
1 AGATAG
2245736 GAAGTCGCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.55, C:0.07, G:0.20, T:0.18
Consensus pattern (34 bp):
AGATAGAGAAAAATAAAAATCAAGGCTTGAAATG
Found at i:2249861 original size:31 final size:31
Alignment explanation
Indices: 2249826--2249890 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
2249816 CCTTAATAAG
2249826 CCACTCATTCCTCCAATCCTTATCCATTTCC
1 CCACTCATTCCTCCAATCCTTATCCATTTCC
2249857 CCACTCATTCCTCCAATCCTTATCCATTTCC
1 CCACTCATTCCTCCAATCCTTATCCATTTCC
2249888 CCA
1 CCA
2249891 TTAACATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
CCACTCATTCCTCCAATCCTTATCCATTTCC
Found at i:2251705 original size:22 final size:22
Alignment explanation
Indices: 2251673--2251720 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
2251663 TCTACTGAAA
2251673 TATCACATTTAGATTTAATAAT
1 TATCACATTTAGATTTAATAAT
*
2251695 TATCACCTTTAGATTTAATAAT
1 TATCACATTTAGATTTAATAAT
2251717 TATC
1 TATC
2251721 TGTCAGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (22 bp):
TATCACATTTAGATTTAATAAT
Found at i:2253723 original size:134 final size:135
Alignment explanation
Indices: 2253474--2253739 Score: 430
Period size: 134 Copynumber: 2.0 Consensus size: 135
2253464 GCTAATTTGC
*
2253474 AAAAGAATTGTGTCTTGAAAAATTAATTTGGATAATTGTAAATATTTGGGAAGCAATGTATAAAT
1 AAAAGAATTGTGTCTTGAAAAATTAATTTGGATAATTGTAAATATTTGGGAAGCAATCTATAAAT
* *
2253539 TTTGGAAAATTTGATGACTTTCTAGGGAGTTAAAACATTTTGTTTATTATGGAGAGTAATCCTAT
66 TTTGGAAAATTTGATGACTTGCTAGGGAGTTAAAACATTTTGTTTATTATGGAGAGTAATCATAT
2253604 TCGAA
131 TCGAA
* *
2253609 AAAAGAA-T-TGTCTTGGAAAATTAATTTGGATAATTGTAAATATTTGGGAAAG-AGTACTATAA
1 AAAAGAATTGTGTCTTGAAAAATTAATTTGGATAATTGTAAATATTTGGG-AAGCAAT-CTATAA
* *
2253671 ATTTTGGAAAATTTGATGACTTGCTAGGGAGTTAAACCATTTTGTTTATTATGGAGAGTGATCAT
64 ATTTTGGAAAATTTGATGACTTGCTAGGGAGTTAAAACATTTTGTTTATTATGGAGAGTAATCAT
2253736 ATTC
129 ATTC
2253740 CCTCTTCTAC
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
133 41 0.34
134 74 0.61
135 7 0.06
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (135 bp):
AAAAGAATTGTGTCTTGAAAAATTAATTTGGATAATTGTAAATATTTGGGAAGCAATCTATAAAT
TTTGGAAAATTTGATGACTTGCTAGGGAGTTAAAACATTTTGTTTATTATGGAGAGTAATCATAT
TCGAA
Found at i:2256364 original size:29 final size:26
Alignment explanation
Indices: 2256360--2256433 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 26
2256350 TTTTTTGATG
*
2256360 TATTTATAAATAGTTTTGTATTTATTT
1 TATTTATAAATAGTTTTGT-TTTTTTT
2256387 TATTTATAAA-AGTTTTGTATTTTATTT
1 TATTTATAAATAGTTTTGT-TTTT-TTT
2256414 TAATTTATTAAA-AGTTTTGT
1 T-ATTTA-TAAATAGTTTTGT
2256434 CCTTCATGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 12 0.28
27 14 0.33
28 5 0.12
29 12 0.28
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (26 bp):
TATTTATAAATAGTTTTGTTTTTTTT
Found at i:2256410 original size:27 final size:28
Alignment explanation
Indices: 2256312--2256433 Score: 137
Period size: 29 Copynumber: 4.3 Consensus size: 28
2256302 ATTGCACAAG
* *
2256312 AAGTTTTGTACTTTATTGTAATTTATAA
1 AAGTTTTGTATTTTATTGTTATTTATAA
2256340 ATAGTTTTGT-TTTT-TTGATGTATTTATAA
1 A-AGTTTTGTATTTTATTG-T-TATTTATAA
2256369 ATAGTTTTGTA-TTTATT-TTATTTATAA
1 A-AGTTTTGTATTTTATTGTTATTTATAA
2256396 AAGTTTTGTATTTTATT-TTAATTTATTAA
1 AAGTTTTGTATTTTATTGTT-ATTTA-TAA
2256425 AAGTTTTGT
1 AAGTTTTGT
2256434 CCTTCATGGT
Statistics
Matches: 84, Mismatches: 2, Indels: 15
0.83 0.02 0.15
Matches are distributed among these distances:
26 9 0.11
27 21 0.25
28 11 0.13
29 41 0.49
30 2 0.02
ACGTcount: A:0.29, C:0.01, G:0.11, T:0.60
Consensus pattern (28 bp):
AAGTTTTGTATTTTATTGTTATTTATAA
Found at i:2260008 original size:10 final size:10
Alignment explanation
Indices: 2259950--2260007 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
2259940 GTCACATAAT
2259950 TAAAATAACA
1 TAAAATAACA
2259960 TAAAATAACA
1 TAAAATAACA
2259970 TAAAAATAA-A
1 T-AAAATAACA
* *
2259980 TATAATACCA
1 TAAAATAACA
* *
2259990 TAAATTAAAA
1 TAAAATAACA
*
2260000 TAACATAA
1 TAAAATAA
2260008 ATTTCAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 5 0.13
10 26 0.68
11 7 0.18
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAATAACA
Found at i:2260016 original size:15 final size:15
Alignment explanation
Indices: 2259943--2260010 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
2259933 AATCCTAGTC
2259943 ACAT-AATTAAAATA
1 ACATAAATTAAAATA
* *
2259957 ACATAAAATAACATAA
1 ACATAAATTAAAAT-A
* *
2259973 AAATAAA-TATAATA
1 ACATAAATTAAAATA
*
2259987 CCATAAATTAAAATA
1 ACATAAATTAAAATA
2260002 ACATAAATT
1 ACATAAATT
2260011 TCAATATTAG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 10 0.24
15 25 0.60
16 7 0.17
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
ACATAAATTAAAATA
Found at i:2285744 original size:331 final size:332
Alignment explanation
Indices: 2285115--2285758 Score: 1047
Period size: 331 Copynumber: 1.9 Consensus size: 332
2285105 CCCTAGGACA
* *
2285115 CAAGGTATTTTGCAAGTGTGTGTGCATGACTGTATCCAATCTATGCTTAGTCAAGTTAGAAAAAT
1 CAAGGTATTTTGCAAGCGTGTGTGCATGACTGTATCCAATCTATGCTTAGTCAAATTAGAAAAAT
* * * * *
2285180 TCTAAAGAAAGTATACTATTATGTCATAGCATGTTTTCATGTTTCAGCACAAGTTCATTACTCTC
66 TCTAAAGAAAATATACTATTATGCCATAGAATGTTTTCAAGTTTCAACACAAGTTCATTACTCTC
*
2285245 ATTTCCTTAACACTTAATTAATTTAATTTTTTTAAACACTGCTACGAGGGGAGTCAACCTATCAT
131 ATTTCCTTAACACTTAATTAATTTAATTTTTTTAAACACTGCTACGAGGGGAGTCAACCTATCAC
* * *
2285310 AACTACCTTTCACTCATGTTATTGTTGCCATTTATTATAACGTGGTATCCAGGCAATGTAACGCA
196 AACTACCTTTCACTCATGATATTGTTGCCATTTATTAAAACGTGGTATCCAGGCAATGCAACGCA
* *
2285375 AGGCAGAGGTGTAGAGTCATCCCGTGACTACTTTCATTCACTCATATGCTATTGCTGCCATTTAT
261 AGGAAAAGGTGTAGAGTCATCCCGTGACTACTTTCATTCACTCATATGCTATTGCTGCCATTTAT
2285440 TAAAACG
326 TAAAACG
* *
2285447 CAAGGTCTTTTTCAAGCGTGTGTGCATGACTGTATCCAATCTATGCTTAGTCAAATTAGAAAAAT
1 CAAGGTATTTTGCAAGCGTGTGTGCATGACTGTATCCAATCTATGCTTAGTCAAATTAGAAAAAT
* * *
2285512 TCTAAAGAAAATCTATTATTATGCCATAGAATGTTTTCAAGTTTCAACACAAGTTCATTACTCTT
66 TCTAAAGAAAATATACTATTATGCCATAGAATGTTTTCAAGTTTCAACACAAGTTCATTACTCTC
* * * *
2285577 ATTTCCTTAACACTTAATTAATTT-ATTTTTTTAAACACTTCTATGAGGGGAGTTAATCTATCAC
131 ATTTCCTTAACACTTAATTAATTTAATTTTTTTAAACACTGCTACGAGGGGAGTCAACCTATCAC
**
2285641 AACTACCTTTCACTCATGATATTGTTTTCATTTATTAAAACGTGGTATCCAGGCAATGCAACGCA
196 AACTACCTTTCACTCATGATATTGTTGCCATTTATTAAAACGTGGTATCCAGGCAATGCAACGCA
* *
2285706 AGGAAAAGGTGTAGAGTCATCCTGTGCCTACTTTCATTCACTCATATGCTATT
261 AGGAAAAGGTGTAGAGTCATCCCGTGACTACTTTCATTCACTCATATGCTATT
2285759 ATGTTGCTCA
Statistics
Matches: 286, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
331 144 0.50
332 142 0.50
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (332 bp):
CAAGGTATTTTGCAAGCGTGTGTGCATGACTGTATCCAATCTATGCTTAGTCAAATTAGAAAAAT
TCTAAAGAAAATATACTATTATGCCATAGAATGTTTTCAAGTTTCAACACAAGTTCATTACTCTC
ATTTCCTTAACACTTAATTAATTTAATTTTTTTAAACACTGCTACGAGGGGAGTCAACCTATCAC
AACTACCTTTCACTCATGATATTGTTGCCATTTATTAAAACGTGGTATCCAGGCAATGCAACGCA
AGGAAAAGGTGTAGAGTCATCCCGTGACTACTTTCATTCACTCATATGCTATTGCTGCCATTTAT
TAAAACG
Found at i:2287275 original size:24 final size:22
Alignment explanation
Indices: 2287230--2287275 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
2287220 AGAATGAGGT
*
2287230 GAAGAGATGAAAGATAACAAAA
1 GAAGAGATGAAAAATAACAAAA
*
2287252 GAAGAGATAGAGAAAATAATAAAA
1 GAAGAGAT-GA-AAAATAACAAAA
2287276 AAACAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (22 bp):
GAAGAGATGAAAAATAACAAAA
Found at i:2287565 original size:19 final size:19
Alignment explanation
Indices: 2287538--2287575 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2287528 ACATGGAAAA
*
2287538 TAATTAAAATAAAATAAAG
1 TAATGAAAATAAAATAAAG
2287557 TAATGAAAATAAAATAAAG
1 TAATGAAAATAAAATAAAG
2287576 AAAACTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
TAATGAAAATAAAATAAAG
Found at i:2303321 original size:158 final size:157
Alignment explanation
Indices: 2303002--2303290 Score: 481
Period size: 158 Copynumber: 1.8 Consensus size: 157
2302992 TTGGACCGTA
2303002 AAAATTCTCCCATTAGCTACTCCAATGATCATAGTGACCATCAAAACGTGGGATCGCAGCCTGCA
1 AAAATTCTCCCATTAGCTACTCCAATGATCATAGTGACCATCAAAACGTGGGATCGCAGCCTGCA
2303067 CAAAATTTGAGTCTGAAGCCATCAATGCTATTTGAAATTCTCTCTCTTGCTTTTAACCTGGCTCT
66 CAAAATTTGAGTCTGAAGCCATCAATGCTATTTGAAATTCTCTCTCTTGCTTTTAACCTGGCTCT
* **** **
2303132 CAATCGGCCAATACTCTTTGGACCGTAG
131 CAATC-ACCAATACTCGAAAGAAAGTAG
2303160 AAAATTCT-CCATTAGCATACTCCAATGATCATAGTGACCATCAAAACGTGGGATCGCAGCCTGC
1 AAAATTCTCCCATTAGC-TACTCCAATGATCATAGTGACCATCAAAACGTGGGATCGCAGCCTGC
2303224 ACAAAATTTGAGTCTGAAGCCATCAATGCTATTTGAAAATTCTCTCTCTTGCTTTTAACCTGGCT
65 ACAAAATTTGAGTCTGAAGCCATCAATGCTATTTG-AAATTCTCTCTCTTGCTTTTAACCTGGCT
2303289 CT
129 CT
2303291 GATACCACTG
Statistics
Matches: 129, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
157 8 0.06
158 90 0.70
159 31 0.24
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (157 bp):
AAAATTCTCCCATTAGCTACTCCAATGATCATAGTGACCATCAAAACGTGGGATCGCAGCCTGCA
CAAAATTTGAGTCTGAAGCCATCAATGCTATTTGAAATTCTCTCTCTTGCTTTTAACCTGGCTCT
CAATCACCAATACTCGAAAGAAAGTAG
Found at i:2308681 original size:37 final size:39
Alignment explanation
Indices: 2308603--2308682 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
2308593 TACAAGTCGG
* *
2308603 AAAATATTTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAATATTTATATATTTTCTTTAAAAAATTAAAAATCAT
*
2308642 AAAAT-TTATATATATTTT-TTTACAAAATTAAAAAT-AT
1 AAAATATT-TATATATTTTCTTTAAAAAATTAAAAATCAT
2308679 AAAA
1 AAAA
2308683 AATGTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 16 0.43
39 15 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (39 bp):
AAAATATTTATATATTTTCTTTAAAAAATTAAAAATCAT
Found at i:2314381 original size:2 final size:2
Alignment explanation
Indices: 2314374--2314440 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
2314364 TTTATACTCG
2314374 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
2314416 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2314441 ATCTCAACGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2321562 original size:185 final size:183
Alignment explanation
Indices: 2321213--2321582 Score: 589
Period size: 185 Copynumber: 2.0 Consensus size: 183
2321203 AAATTAAATG
* *
2321213 TTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
1 TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
2321278 ATAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTG
66 ATAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTG
* * * *
2321343 AGTTTTAAATTGTTTGGGTTTAGCCCAAATGTTATATATAATATATATAATAT
131 AGTTTTAAATGGTTTGGGATGAACCCAAATGTTATATATAATATATATAATAT
2321396 TTTTTAATTAAAAAAATAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAATTT-
1 TTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAAT-AAAAATTTC
* * * *
2321460 ATATATATTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTTATTGGATCTTAAATTATTAA
64 AGATA-AATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAA
* * *
2321525 TTGGGTTTTAAATGGTTTGGGATGAACCCATATGTTATATATAATATATTTAATAT
128 TTGAGTTTTAAATGGTTTGGGATGAACCCAAATGTTATATATAATATATATAATAT
2321581 TT
1 TT
2321583 AATATTTAAT
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 15 0.09
184 41 0.24
185 115 0.67
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (183 bp):
TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
ATAAATTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATTG
AGTTTTAAATGGTTTGGGATGAACCCAAATGTTATATATAATATATATAATAT
Found at i:2322095 original size:3 final size:3
Alignment explanation
Indices: 2322087--2322150 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
2322077 TGCAAGAAAT
2322087 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2322135 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
2322151 CTGTGTTCTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2322211 original size:22 final size:22
Alignment explanation
Indices: 2322183--2322250 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
2322173 ACTAGTATCA
2322183 ACGGCAATGGGGAAGAAAAAGC
1 ACGGCAATGGGGAAGAAAAAGC
2322205 ACGGCAATGGGGAAGAAAAAGC
1 ACGGCAATGGGGAAGAAAAAGC
2322227 ACGGCAATGGGGAAGAAAAAGC
1 ACGGCAATGGGGAAGAAAAAGC
2322249 AC
1 AC
2322251 ACAGCACTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.46, C:0.15, G:0.35, T:0.04
Consensus pattern (22 bp):
ACGGCAATGGGGAAGAAAAAGC
Found at i:2323889 original size:23 final size:24
Alignment explanation
Indices: 2323855--2323905 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
2323845 TTAAGGTATA
2323855 TTTTATTATATTTAA-TAATTT-AT
1 TTTTATTATATTTAAGT-ATTTAAT
2323878 TTTTAATT-TATTTAAGTATTTAAT
1 TTTT-ATTATATTTAAGTATTTAAT
2323902 TTTT
1 TTTT
2323906 TAAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATTATATTTAAGTATTTAAT
Found at i:2323913 original size:16 final size:17
Alignment explanation
Indices: 2323879--2323931 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
2323869 ATAATTTATT
*
2323879 TTTAATTTATTTAAGTA
1 TTTAATTTATTTAAATA
2323896 TTTAATTT-TTTAAATA
1 TTTAATTTATTTAAATA
* * *
2323912 TTTTATTTAGTTAATTA
1 TTTAATTTATTTAAATA
2323929 TTT
1 TTT
2323932 TTGATGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTAATTTATTTAAATA
Found at i:2323914 original size:24 final size:23
Alignment explanation
Indices: 2323855--2323914 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
2323845 TTAAGGTATA
*
2323855 TTTTATTATATTTAATAATTTAT
1 TTTTAATATATTTAATAATTTAT
*
2323878 TTTTAATTTATTTAAGT-ATTTAATT
1 TTTTAATATATTTAA-TAATTT-A-T
2323903 TTTTAA-ATATTT
1 TTTTAATATATTT
2323915 TATTTAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 17 0.55
24 7 0.23
25 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAATATATTTAATAATTTAT
Found at i:2323932 original size:17 final size:17
Alignment explanation
Indices: 2323878--2323932 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
2323868 AATAATTTAT
*
2323878 TTTTAATTTATTTAAGTA
1 TTTT-ATTTATTTAAATA
*
2323896 TTTAATTT-TTTAAATA
1 TTTTATTTATTTAAATA
* *
2323912 TTTTATTTAGTTAATTA
1 TTTTATTTATTTAAATA
2323929 TTTT
1 TTTT
2323933 TGATGATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 14 0.45
17 14 0.45
18 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTATTTATTTAAATA
Found at i:2326332 original size:27 final size:28
Alignment explanation
Indices: 2326298--2326370 Score: 107
Period size: 26 Copynumber: 2.7 Consensus size: 28
2326288 ATATAGCTAT
2326298 AAATATTAAATTTATTTTTAAAATAT-A
1 AAATATTAAATTTATTTTTAAAATATAA
*
2326325 AAATATTAAATTT-TGTTT-AAATATAA
1 AAATATTAAATTTATTTTTAAAATATAA
*
2326351 AAATCTTAAATTTATTTTTA
1 AAATATTAAATTTATTTTTA
2326371 TTGTAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 6 0.15
26 17 0.43
27 17 0.43
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AAATATTAAATTTATTTTTAAAATATAA
Found at i:2326343 original size:26 final size:27
Alignment explanation
Indices: 2326298--2326370 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
2326288 ATATAGCTAT
*
2326298 AAATATTAAATTTATTTTTAAA-ATATA
1 AAATATTAAATTTATGTTTAAATATA-A
2326325 AAATATTAAATTT-TGTTTAAATATAA
1 AAATATTAAATTTATGTTTAAATATAA
* *
2326351 AAATCTTAAATTTATTTTTA
1 AAATATTAAATTTATGTTTA
2326371 TTGTAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
AAATATTAAATTTATGTTTAAATATAA
Found at i:2326406 original size:2 final size:2
Alignment explanation
Indices: 2326399--2326423 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2326389 TTACAATTTA
2326399 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2326424 GGTATTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2326458 original size:16 final size:16
Alignment explanation
Indices: 2326429--2326461 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2326419 ATATAGGTAT
2326429 TTCTAATTTTTTTTAC
1 TTCTAATTTTTTTTAC
2326445 TTCT-ATTTTCTTTTAC
1 TTCTAATTTT-TTTTAC
2326461 T
1 T
2326462 ATTAGCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTAATTTTTTTTAC
Found at i:2327203 original size:14 final size:14
Alignment explanation
Indices: 2327184--2327225 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
2327174 GATTGAGCTA
2327184 AACATAAATGAACG
1 AACATAAATGAACG
* *
2327198 AACATAGACGAACG
1 AACATAAATGAACG
2327212 AACATAAATGAACG
1 AACATAAATGAACG
2327226 TAAGTGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2329348 original size:13 final size:14
Alignment explanation
Indices: 2329320--2329348 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2329310 ATATATTTTT
2329320 AAAATAGACTTAAA
1 AAAATAGACTTAAA
2329334 AAAATAGACTTAAA
1 AAAATAGACTTAAA
2329348 A
1 A
2329349 TTATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAATAGACTTAAA
Found at i:2332334 original size:18 final size:18
Alignment explanation
Indices: 2332311--2332348 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2332301 GCAGCAATAG
*
2332311 TACAATACTGATTTTGAT
1 TACAATACTGATATTGAT
2332329 TACAATACTGATATTGAT
1 TACAATACTGATATTGAT
2332347 TA
1 TA
2332349 ATTAAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
TACAATACTGATATTGAT
Found at i:2333728 original size:25 final size:24
Alignment explanation
Indices: 2333683--2333729 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
2333673 TAGATTTATT
*
2333683 TATGAAAATAAAAAGAGTAATAAA
1 TATGAAAATAAAAAGAATAATAAA
2333707 TATGAAAAATAAATAA-AATAATA
1 TATG-AAAATAAA-AAGAATAATA
2333730 TAAATATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 14 0.70
26 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (24 bp):
TATGAAAATAAAAAGAATAATAAA
Found at i:2352230 original size:39 final size:39
Alignment explanation
Indices: 2352187--2352274 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
2352177 AGCTAAATAT
**
2352187 GAAGACTCCACGA-T-TATATAATGTCTTCAGGTAAA-TGAA
1 GAAGACTCCACGACTGTATAT-A-GTCTTCAGACAAATTG-A
* *
2352226 GAAGACCCCATGACTGTATATAGTCTTCAGACAAATTGA
1 GAAGACTCCACGACTGTATATAGTCTTCAGACAAATTGA
2352265 GAAGACTCCA
1 GAAGACTCCA
2352275 AGAGTGTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 32 0.78
40 4 0.10
41 5 0.12
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (39 bp):
GAAGACTCCACGACTGTATATAGTCTTCAGACAAATTGA
Found at i:2354544 original size:23 final size:22
Alignment explanation
Indices: 2354518--2354574 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
2354508 AAAAATGCTC
2354518 AAGATAATTCCTAATAAATACAA
1 AAGATAATTCCTAA-AAATACAA
* *
2354541 AAGATAATTCCCTAAAATTGCAA
1 AAGATAATT-CCTAAAAATACAA
*
2354564 AAGACAATTCC
1 AAGATAATTCC
2354575 CTTAATTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.07
23 23 0.77
24 5 0.17
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (22 bp):
AAGATAATTCCTAAAAATACAA
Found at i:2356890 original size:12 final size:12
Alignment explanation
Indices: 2356873--2356897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2356863 AAGAGTTGAT
2356873 AAGTTGAATTTG
1 AAGTTGAATTTG
2356885 AAGTTGAATTTG
1 AAGTTGAATTTG
2356897 A
1 A
2356898 CTTGTCATCT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:2360699 original size:18 final size:19
Alignment explanation
Indices: 2360671--2360713 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2360661 ATATTTAAGT
*
2360671 AGTAAAGAAAAACGATTAA
1 AGTAAAGAAAAACAATTAA
* *
2360690 A-TAAATAAAAGCAATTAA
1 AGTAAAGAAAAACAATTAA
2360708 AGTAAA
1 AGTAAA
2360714 AATAAGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (19 bp):
AGTAAAGAAAAACAATTAA
Found at i:2363961 original size:137 final size:136
Alignment explanation
Indices: 2363672--2363979 Score: 467
Period size: 137 Copynumber: 2.3 Consensus size: 136
2363662 TTTACTCAAG
* *
2363672 TCTGATCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTATTTCCGATTTGGTCTTCCTGAAGAG
1 TCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTATTTCCGATTTGGTCTTCCTGAAGAA
* * *
2363737 CATCGAACCAAATCAATCTTGAGATCTGATCTCCCCTAAAGAGTAGTGGAACATACCCGTCTTCT
66 AAGCGAACCAAATCAATCTTGAGATCTGATCTCCCCTAAAGAGTAGTGGAACAGACCCGTCTTCT
2363802 CTTAGA
131 CTTAGA
* * *
2363808 TCTGATCTCCCTTAAAGAGTAGTGGAACATATTCTTCTTATTTCCGATTTGGTTTTCCTGAAGAA
1 TCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTATTTCCGATTTGGTCTTCCTGAAGAA
* *
2363873 AAGCGAAGCAAATCATAATCTTGAG-TCTGATCTCCCCTAAAGAGTAGTGGAGCAGACCCGTCTT
66 AAGCGAACCAAATC--AATCTTGAGATCTGATCTCCCCTAAAGAGTAGTGGAACAGACCCGTCTT
2363937 CTCTTAGA
129 CTCTTAGA
* *
2363945 TTTGATCTCCCCTAAAGAGTAGAGGAGA-AGATTCT
1 TCTGATCTCCCCTAAAGAGTAGTGGA-ACAGATTCT
2363980 CTCCGATTTG
Statistics
Matches: 155, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
136 71 0.46
137 74 0.48
138 10 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (136 bp):
TCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTATTTCCGATTTGGTCTTCCTGAAGAA
AAGCGAACCAAATCAATCTTGAGATCTGATCTCCCCTAAAGAGTAGTGGAACAGACCCGTCTTCT
CTTAGA
Found at i:2364306 original size:2 final size:2
Alignment explanation
Indices: 2364299--2364326 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2364289 TTATTTTGAT
2364299 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
2364327 GTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2364348 original size:19 final size:19
Alignment explanation
Indices: 2364322--2364538 Score: 189
Period size: 19 Copynumber: 11.2 Consensus size: 19
2364312 ATATATATAT
2364322 ATATAGTTTTATAAAATAA
1 ATATAGTTTTATAAAATAA
* *
2364341 AAATAGTTTTGA-AAAATAT
1 ATATAGTTTT-ATAAAATAA
2364360 ATATAGTTTTATAAAATAA
1 ATATAGTTTTATAAAATAA
*
2364379 A-AGTAGTTTTGA-AAAATAT
1 ATA-TAGTTTT-ATAAAATAA
2364398 ATATAGTTTTATAAAATAA
1 ATATAGTTTTATAAAATAA
*
2364417 AAATAGTTTTGA-AAATATATA
1 ATATAGTTTT-ATAAA-ATA-A
2364438 TATATAGTTTTATAAAATAA
1 -ATATAGTTTTATAAAATAA
*
2364458 AAATAGTTTTCA-AATATATATA
1 ATATAGTTTT-ATAA-A-ATA-A
*
2364480 TATATAATTTTATAAAAT-A
1 -ATATAGTTTTATAAAATAA
*
2364499 ATATAGTTTTTTTAAAAT-A
1 ATATAG-TTTTATAAAATAA
*
2364518 ATATAGTTTTAGAAAA-AA
1 ATATAGTTTTATAAAATAA
2364536 ATA
1 ATA
2364539 GTATATGGTT
Statistics
Matches: 164, Mismatches: 15, Indels: 39
0.75 0.07 0.18
Matches are distributed among these distances:
18 20 0.12
19 99 0.60
20 10 0.06
21 10 0.06
22 15 0.09
23 10 0.06
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
ATATAGTTTTATAAAATAA
Found at i:2364362 original size:38 final size:38
Alignment explanation
Indices: 2364318--2364533 Score: 283
Period size: 38 Copynumber: 5.5 Consensus size: 38
2364308 ATATATATAT
2364318 ATATATATAGTTTTATAAAATAAAAATAGTTTTGAAAA
1 ATATATATAGTTTTATAAAATAAAAATAGTTTTGAAAA
*
2364356 ATATATATAGTTTTATAAAATAAAAGTAGTTTTGAAAA
1 ATATATATAGTTTTATAAAATAAAAATAGTTTTGAAAA
2364394 ATATATATAGTTTTATAAAATAAAAATAGTTTTGAAAATA
1 ATATATATAGTTTTATAAAATAAAAATAGTTTTG-AAA-A
*
2364434 TATATATATAGTTTTATAAAATAAAAATAGTTTTCAAATATA
1 -ATATATATAGTTTTATAAAATAAAAATAGTTTT-GAA-A-A
* * **
2364476 TATATATATAATTTTATAAAAT-AATATAGTTTTTTTAAA
1 -ATATATATAGTTTTATAAAATAAAAATAG-TTTTGAAAA
*
2364515 ATA-ATATAGTTTTAGAAAA
1 ATATATATAGTTTTATAAAA
2364534 AAATAGTATA
Statistics
Matches: 163, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
37 14 0.09
38 73 0.45
39 4 0.02
40 2 0.01
41 42 0.26
42 28 0.17
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (38 bp):
ATATATATAGTTTTATAAAATAAAAATAGTTTTGAAAA
Found at i:2364554 original size:21 final size:21
Alignment explanation
Indices: 2364512--2364554 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2364502 TAGTTTTTTT
*
2364512 AAAATAATATAGTTTTAGAAA
1 AAAATAATATAGGTTTAGAAA
*
2364533 AAAATAGTATATGGTTTA-AAA
1 AAAATAATATA-GGTTTAGAAA
2364554 A
1 A
2364555 TGCAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATAATATAGGTTTAGAAA
Found at i:2364663 original size:25 final size:28
Alignment explanation
Indices: 2364608--2364662 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2364598 AAAATTTAAA
*
2364608 TAAATATATTATTATATATTTATATTTTT
1 TAAATATATTATTATATAATTATA-TTTT
2364637 TAAAT-TATTATTAT-TAATTATATTTT
1 TAAATATATTATTATATAATTATATTTT
2364663 ATTTCAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 7 0.28
28 9 0.36
29 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TAAATATATTATTATATAATTATATTTT
Found at i:2364706 original size:13 final size:13
Alignment explanation
Indices: 2364685--2364721 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2364675 AAGTTTAGTG
2364685 ATCCAAGTCCAAT
1 ATCCAAGTCCAAT
*
2364698 ATTCAAGTCCAAT
1 ATCCAAGTCCAAT
2364711 ATCCAAGTCCA
1 ATCCAAGTCCA
2364722 GAAATTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.24
Consensus pattern (13 bp):
ATCCAAGTCCAAT
Found at i:2367462 original size:20 final size:21
Alignment explanation
Indices: 2367437--2367529 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2367427 TTTTCCCAAT
*
2367437 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2367457 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2367478 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2367498 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2367519 TCGCAATGCGA
1 TCGCAATGCGA
2367530 TACTGACTAT
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:2367482 original size:41 final size:41
Alignment explanation
Indices: 2367437--2367529 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2367427 TTTTCCCAAT
2367437 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2367478 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2367519 TCGCAATGCGA
1 TCGCAATGCGA
2367530 TACTGACTAT
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:2367785 original size:22 final size:22
Alignment explanation
Indices: 2367760--2367802 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2367750 TACGGCGAAA
2367760 TCCGTCCCCATCTCCGAAGATT
1 TCCGTCCCCATCTCCGAAGATT
2367782 TCCGTCCCCATCTCCGAAGAT
1 TCCGTCCCCATCTCCGAAGAT
2367803 GATTGCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.14, T:0.26
Consensus pattern (22 bp):
TCCGTCCCCATCTCCGAAGATT
Found at i:2370105 original size:24 final size:24
Alignment explanation
Indices: 2370071--2370124 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2370061 CTGAAACATC
* *
2370071 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
2370095 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
2370119 ATCAAA
1 ATCAAA
2370125 TTTCGAATAC
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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:2371211 original size:20 final size:20
Alignment explanation
Indices: 2371186--2371243 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2371176 ATTCATTTGA
2371186 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
2371206 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
2371226 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
2371244 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:2371286 original size:33 final size:33
Alignment explanation
Indices: 2371249--2371319 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
2371239 AAAATCGCAA
*
2371249 TGCGAAATGAAAATCGCATTGTGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
2371282 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
2371315 TGCGA
1 TGCGA
2371320 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:2371290 original size:14 final size:14
Alignment explanation
Indices: 2371271--2371320 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 14
2371261 ATCGCATTGT
2371271 GATTTTCTCGTTGC
1 GATTTTCTCGTTGC
2371285 GATTTTCATTTCGCATTGC
1 GATTTTC---TCG--TTGC
2371304 GATTTTCTCGTTGC
1 GATTTTCTCGTTGC
2371318 GAT
1 GAT
2371321 AGCCATTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 14 0.45
16 3 0.10
17 3 0.10
19 11 0.35
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
GATTTTCTCGTTGC
Found at i:2371320 original size:33 final size:33
Alignment explanation
Indices: 2371262--2371339 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
2371252 GAAATGAAAA
* ***
2371262 TCGCATTGTGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
2371295 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
2371328 TCGCGTTGCGAT
1 TCGCATTGCGAT
2371340 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:2373368 original size:20 final size:19
Alignment explanation
Indices: 2373333--2373399 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2373323 GAAACTTAAA
2373333 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
2373352 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
2373372 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2373391 ATCGCAACG
1 ATCGCAACG
2373400 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2373407 original size:14 final size:14
Alignment explanation
Indices: 2373388--2373445 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2373378 ATGCGAAATG
2373388 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
2373402 AAAATCGCAATGCAAA
1 AAAATCGCAA--CGAC
2373418 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2373434 AAAATCGCAACG
1 AAAATCGCAACG
2373446 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2373414 original size:33 final size:32
Alignment explanation
Indices: 2373372--2373450 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 32
2373362 GGAAATGGCT
2373372 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
*
2373405 ATCGCAATGCAAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
2373437 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
2373451 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:2373498 original size:14 final size:14
Alignment explanation
Indices: 2373479--2373536 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2373469 TTTCATTTCG
2373479 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2373493 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2373509 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2373525 CGTTGCGATTTT
1 CGTTGCGATTTT
2373537 CATTTCGCAT
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:2373543 original size:33 final size:33
Alignment explanation
Indices: 2373462--2373552 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2373452 ACAAATCGCA
*
2373462 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
2373495 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
2373527 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
2373553 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:2373574 original size:20 final size:20
Alignment explanation
Indices: 2373546--2373589 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2373536 TCATTTCGCA
*
2373546 TTGCGATAGCCATTTCCGTG
1 TTGCAATAGCCATTTCCGTG
* *
2373566 TTGCAATAGTCATTTTCGTG
1 TTGCAATAGCCATTTCCGTG
2373586 TTGC
1 TTGC
2373590 GAAAGTAAAC
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:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCAATAGCCATTTCCGTG
Found at i:2374090 original size:18 final size:18
Alignment explanation
Indices: 2374064--2374108 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2374054 GTCGATCAGA
*
2374064 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
2374082 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
2374100 TGATGGCTC
1 TGATGGCTC
2374109 CCGAAGTGGA
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:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:2375453 original size:20 final size:20
Alignment explanation
Indices: 2375428--2375465 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2375418 AATAGTTTCT
2375428 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
2375448 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
2375466 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2375754 original size:22 final size:22
Alignment explanation
Indices: 2375729--2375772 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2375719 GATTTAGATA
2375729 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2375751 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2375773 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2376030 original size:21 final size:21
Alignment explanation
Indices: 2375997--2376097 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
2375987 TGCGAAAGTA
* * *
2375997 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
2376018 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
2376038 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
2376060 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
2376081 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
2376098 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:2376053 original size:20 final size:20
Alignment explanation
Indices: 2375960--2376053 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
2375950 GATTATGTAA
*
2375960 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
2375980 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
2376000 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
2376021 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
2376041 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2376054 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:2376072 original size:41 final size:41
Alignment explanation
Indices: 2375981--2376115 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
2375971 AAAGTCAGTA
* * * ** *
2375981 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
2376021 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
2376063 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
2376104 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2376116 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:2376107 original size:21 final size:20
Alignment explanation
Indices: 2376042--2376134 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
2376032 ATAGTCAGTA
*
2376042 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
2376063 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
2376083 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
2376104 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
2376124 TCGCATTGCGA
1 TCGCATTGCGA
2376135 AATGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:2376116 original size:41 final size:41
Alignment explanation
Indices: 2376042--2376134 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2376032 ATAGTCAGTA
2376042 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2376083 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2376124 TCGCATTGCGA
1 TCGCATTGCGA
2376135 AATGGGAAAA
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:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:2381408 original size:29 final size:29
Alignment explanation
Indices: 2381373--2381454 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2381363 AAACTAAATT
*
2381373 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2381402 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2381431 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2381455 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2386180 original size:29 final size:29
Alignment explanation
Indices: 2386145--2386226 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2386135 AAACTAAATT
*
2386145 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2386174 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2386203 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2386227 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2388710 original size:21 final size:21
Alignment explanation
Indices: 2388593--2388730 Score: 59
Period size: 21 Copynumber: 6.7 Consensus size: 21
2388583 ACGCGAAATA
**
2388593 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
2388613 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
2388633 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
2388654 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* * **
2388675 ATATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
2388696 ATAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
2388716 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2388731 ACACATAAAT
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.45
21 44 0.52
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:2388792 original size:20 final size:20
Alignment explanation
Indices: 2388698--2389066 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2388688 GATTTTCCAT
* ** *
2388698 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2388718 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2388738 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2388758 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2388778 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2388798 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2388818 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2388838 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2388858 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2388878 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2388898 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2388918 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2388938 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2388958 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2388978 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2388998 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2389018 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2389038 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2389058 AATCACAAC
1 AATCGCAAC
2389067 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2389788 original size:24 final size:24
Alignment explanation
Indices: 2389749--2389795 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2389739 AAATTTGGTC
2389749 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2389773 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2389796 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:2389987 original size:12 final size:12
Alignment explanation
Indices: 2389970--2389994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2389960 ATATAATCCT
2389970 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2389982 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2389994 G
1 G
2389995 TCCCCGAAGA
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:2392299 original size:19 final size:19
Alignment explanation
Indices: 2392277--2392583 Score: 376
Period size: 19 Copynumber: 17.4 Consensus size: 19
2392267 CGGAAAATAC
*
2392277 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2392296 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2392310 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2392330 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2392344 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392363 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2392382 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2392396 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392415 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2392434 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
2392448 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
2392467 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392486 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392505 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392524 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2392538 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392557 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2392576 AATCGCAA
1 AATCGCAA
2392584 CGAGATAATC
Statistics
Matches: 252, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 48 0.19
15 2 0.01
16 16 0.06
17 14 0.06
18 3 0.01
19 156 0.62
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2392392 original size:52 final size:52
Alignment explanation
Indices: 2392305--2392583 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
2392295 AAATCCCAAC
2392305 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2392358 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
2392410 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
2392462 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
2392519 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
2392571 ATGAAAATCGCAA
1 ATGAAAATCGCAA
2392584 CGAGATAATC
Statistics
Matches: 216, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
52 164 0.76
53 16 0.07
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.12
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2392428 original size:71 final size:71
Alignment explanation
Indices: 2392344--2392583 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
2392334 GCAACGAGAG
*
2392344 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2392409 AATGAA
66 AATGAA
* *
2392415 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
2392475 TGCGAAATGAA
61 TGCGAAATGAA
2392486 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
2392551 AATGAA
66 AATGAA
2392557 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
2392584 CGAGATAATC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 8 0.05
68 3 0.02
69 5 0.03
71 121 0.79
73 6 0.04
74 3 0.02
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:2392529 original size:142 final size:138
Alignment explanation
Indices: 2392277--2392621 Score: 518
Period size: 142 Copynumber: 2.5 Consensus size: 138
2392267 CGGAAAATAC
* * *
2392277 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAAATCGCAATGC-GAAATTAAAATCGCAATGCG
* *
2392340 -AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAA
63 AAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
2392404 TGCGAAATGAA
128 TGCGAAATGAA
2392415 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTAAAATCGCAATGCG-
2392480 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 AA-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
2392545 ATGCGAAATGAA
127 ATGCGAAATGAA
*
2392557 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAA-CGCATTGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTA-AAATCGCAATGCG
2392621 A
63 A
2392622 TTTTCATTTC
Statistics
Matches: 191, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 16 0.08
138 37 0.19
139 2 0.01
141 2 0.01
142 129 0.68
143 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (138 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAG
AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC
GAAATGAA
Found at i:2392584 original size:52 final size:55
Alignment explanation
Indices: 2392277--2392605 Score: 332
Period size: 52 Copynumber: 6.3 Consensus size: 55
2392267 CGGAAAATAC
* *
2392277 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
2392330 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
2392382 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
2392434 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
2392486 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
2392538 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
2392590 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2392606 TATAAACGCA
Statistics
Matches: 257, Mismatches: 6, Indels: 27
0.89 0.02 0.09
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 2 0.01
52 181 0.70
53 24 0.09
54 7 0.03
55 6 0.02
57 26 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:2392654 original size:72 final size:71
Alignment explanation
Indices: 2392578--2392725 Score: 163
Period size: 72 Copynumber: 2.1 Consensus size: 71
2392568 GAAATGAAAA
2392578 TCGCAACGAGATAATCGCAATGCGAAATT-ATAAACGCATTGCGATTTTCATTTCCGCATTGCGA
1 TCGCAACGAGATAATCGCAATGCGAAATTCAT-AACGCATTGCGATTTTCATTT-CGCATTGCGA
2392642 TTTTCATT
64 TTTTCATT
** * ** * ** ** **
2392650 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAACGAGATAATCGCAATGCGAAATTCATAACGCATTGCGATTTTCATTTCGCATTGCGATT
2392715 TTCATT
66 TTCATT
2392721 TCGCA
1 TCGCA
2392726 TTGCGATAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
71 23 0.37
72 38 0.60
73 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (71 bp):
TCGCAACGAGATAATCGCAATGCGAAATTCATAACGCATTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:2392678 original size:33 final size:35
Alignment explanation
Indices: 2392612--2392732 Score: 147
Period size: 33 Copynumber: 3.3 Consensus size: 35
2392602 AAATTATAAA
*
2392612 CGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGA--TTCATCT-CG-ATTGCGATTTTCATTT
2392651 CGCATTGCGATTC-TCTCG-TTGCGATTTTCATTT
1 CGCATTGCGATTCATCTCGATTGCGATTTTCATTT
*
2392684 CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT
1 CGCATTGCGA--TTCATCTCG-ATTGCGATTTTCATTT
2392722 CGCATTGCGAT
1 CGCATTGCGAT
2392733 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 13
0.83 0.02 0.14
Matches are distributed among these distances:
33 25 0.33
35 5 0.07
36 7 0.09
37 3 0.04
38 25 0.33
39 10 0.13
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (35 bp):
CGCATTGCGATTCATCTCGATTGCGATTTTCATTT
Found at i:2392740 original size:19 final size:19
Alignment explanation
Indices: 2392612--2392732 Score: 189
Period size: 19 Copynumber: 6.6 Consensus size: 19
2392602 AAATTATAAA
2392612 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2392631 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2392651 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2392667 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2392684 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2392703 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2392722 CGCATTGCGAT
1 CGCATTGCGAT
2392733 AGTCATTTTT
Statistics
Matches: 94, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 7 0.07
19 55 0.59
20 19 0.20
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2392858 original size:14 final size:14
Alignment explanation
Indices: 2392839--2392875 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2392829 CATCAATTAC
2392839 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2392853 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2392867 ACAAATCAA
1 ACAAATCAA
2392876 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:2394825 original size:20 final size:20
Alignment explanation
Indices: 2394800--2394865 Score: 100
Period size: 19 Copynumber: 3.4 Consensus size: 20
2394790 TAGTTTACTT
*
2394800 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTTAAAA
*
2394820 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTTAAAA
2394839 TCGCAACGCGAAA-TTAAAA
1 TCGCAACGCGAAACTTAAAA
2394858 TCGCAACG
1 TCGCAACG
2394866 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAACTTAAAA
Found at i:2394875 original size:14 final size:14
Alignment explanation
Indices: 2394856--2394911 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2394846 GCGAAATTAA
*
2394856 AATCGCAACGACAG
1 AATCGCAACGAAAG
2394870 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2394887 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2394903 AATCGCAAC
1 AATCGCAAC
2394912 CAACATGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 17 0.47
16 5 0.14
17 6 0.17
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2394883 original size:33 final size:33
Alignment explanation
Indices: 2394837--2394928 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
2394827 GCGAAACCAA
* *
2394837 AATCGCAACGCGAAATTAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2394870 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2394903 AATCGCAAC-C-AACATGAAAATCGCAA
1 AATCGCAACGCGAA-ATGAAAATCGCAA
2394929 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
31 2 0.04
32 14 0.26
33 38 0.70
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2394894 original size:19 final size:18
Alignment explanation
Indices: 2394816--2394933 Score: 83
Period size: 19 Copynumber: 6.8 Consensus size: 18
2394806 CACGAAACTT
**
2394816 AAAATCGCAACGCGAAACC
1 AAAATCGCAA-GCGAAATG
*
2394835 AAAATCGCAACGCGAAATT
1 AAAATCGCAA-GCGAAATG
*
2394854 AAAATCGCAA-CGACA-G
1 AAAATCGCAAGCGAAATG
2394870 --AATCGCAATGCGAAATG
1 AAAATCGCAA-GCGAAATG
2394887 AAAATCGCAA-CGAAA-G
1 AAAATCGCAAGCGAAATG
*
2394903 --AATCGCAA-CCAACATG
1 AAAATCGCAAGCGAA-ATG
2394919 AAAATCGCAATGCGA
1 AAAATCGCAA-GCGA
2394934 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
14 19 0.23
15 1 0.01
16 6 0.07
17 10 0.12
18 8 0.10
19 35 0.43
20 2 0.02
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAATCGCAAGCGAAATG
Found at i:2394951 original size:19 final size:19
Alignment explanation
Indices: 2394929--2395057 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2394919 AAAATCGCAA
2394929 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2394948 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2394962 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2394981 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2394995 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2395014 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2395033 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2395053 TGCGA
1 TGCGA
2395058 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2394971 original size:33 final size:33
Alignment explanation
Indices: 2394929--2395020 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2394919 AAAATCGCAA
2394929 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2394962 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2394995 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2395021 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2395391 original size:92 final size:93
Alignment explanation
Indices: 2395101--2395572 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
2395091 TTGAATGGAT
2395101 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395166 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2395194 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395259 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2395287 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395351 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2395379 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395443 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2395471 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2395536 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2395564 AAATTTACT
1 AAATTTACT
2395573 AAGCAATCTA
Statistics
Matches: 377, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.49
93 193 0.51
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2395414 original size:185 final size:185
Alignment explanation
Indices: 2395101--2395572 Score: 919
Period size: 185 Copynumber: 2.6 Consensus size: 185
2395091 TTGAATGGAT
2395101 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395166 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2395231 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2395287 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2395351 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2395416 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2395471 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2395536 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2395573 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
184 92 0.32
185 153 0.54
186 39 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2397298 original size:14 final size:14
Alignment explanation
Indices: 2397279--2397368 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2397269 TTGAAATGAA
2397279 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2397293 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2397310 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2397326 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2397345 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2397359 AATCGCAACG
1 AATCGCAACG
2397369 CGAAATTAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2397316 original size:33 final size:33
Alignment explanation
Indices: 2397271--2397385 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
2397261 TCTTTTGGTT
2397271 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2397304 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2397337 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2397370 GAAATTAAAATCGCAA
1 GAAATGAAAATCGCAA
2397386 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2397317 original size:19 final size:18
Alignment explanation
Indices: 2397278--2397390 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
2397268 GTTGAAATGA
2397278 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2397293 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2397310 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2397326 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2397343 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
2397359 -AATCGCAACGCGAAATTA
1 AAATCGCAACGCGAGA-TG
*
2397377 AAATCGCAATGCGA
1 AAATCGCAACGCGA
2397391 TTTTGGTTTC
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
14 24 0.31
16 15 0.19
17 11 0.14
19 28 0.36
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2397421 original size:14 final size:14
Alignment explanation
Indices: 2397402--2397456 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2397392 TTTGGTTTCG
2397402 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2397416 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2397435 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2397449 CGTTGCGA
1 CGTTGCGA
2397457 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2397434 original size:33 final size:33
Alignment explanation
Indices: 2397386--2397456 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2397376 AAAATCGCAA
**
2397386 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2397419 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2397452 TGCGA
1 TGCGA
2397457 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2397464 original size:33 final size:33
Alignment explanation
Indices: 2397397--2397478 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2397387 GCGATTTTGG
***
2397397 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2397430 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2397463 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2397479 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2397483 original size:20 final size:20
Alignment explanation
Indices: 2397409--2397497 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2397399 TCGCGTTGCG
2397409 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2397429 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2397442 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2397462 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2397482 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2397498 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2397619 original size:33 final size:33
Alignment explanation
Indices: 2397577--2397647 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2397567 AATACTAACT
*
2397577 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2397610 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2397643 TGAAA
1 TGAAA
2397648 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2397880 original size:22 final size:22
Alignment explanation
Indices: 2397828--2397882 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2397818 TGGTTGTGAG
**
2397828 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2397850 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2397872 GGATTTCTTCG
1 GGATTTCTTCG
2397883 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2398053 original size:20 final size:20
Alignment explanation
Indices: 2398028--2398220 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
2398018 CTTTAAATAT
2398028 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2398048 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2398070 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2398089 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2398109 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2398129 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2398149 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2398169 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2398189 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2398209 CGCGTTGCGATT
1 CGCGTTGCGATT
2398221 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2398215 original size:60 final size:60
Alignment explanation
Indices: 2398028--2398220 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
2398018 CTTTAAATAT
**
2398028 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2398089 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2398149 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2398209 CGCGTTGCGATT
1 CGCGTTGCGATT
2398221 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2398301 original size:20 final size:20
Alignment explanation
Indices: 2398276--2398327 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2398266 AAGAATCGCG
*
2398276 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2398296 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2398316 TTGCGATTCTGG
1 TTGCGATTCTGG
2398328 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2400172 original size:27 final size:26
Alignment explanation
Indices: 2400139--2400225 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 26
2400129 TTAAATTCAT
2400139 AATATTTTATATATATTAACTTAAAAA
1 AATATTTT-TATATATTAACTTAAAAA
**
2400166 AATA-TTTT-TATATTAACTT-ATTA
1 AATATTTTTATATATTAACTTAAAAA
*
2400189 AATGTATTTTAT-TATTAACTTAATTTAAA
1 AATAT-TTTTATATATTAACTTAA---AAA
2400218 AATATTTT
1 AATATTTT
2400226 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
23 5 0.11
24 11 0.23
25 14 0.30
26 5 0.11
27 4 0.09
28 3 0.06
29 5 0.11
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (26 bp):
AATATTTTTATATATTAACTTAAAAA
Found at i:2400181 original size:24 final size:24
Alignment explanation
Indices: 2400150--2400225 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
2400140 ATATTTTATA
2400150 TATATTAACTTAAAAAAATATTTT
1 TATATTAACTTAAAAAAATATTTT
** *
2400174 TATATTAACTT-ATTAAATGTATTT
1 TATATTAACTTAAAAAAATAT-TTT
2400198 TATTATTAACTTAATTTAAAAATATTTT
1 TA-TATTAACTTAA---AAAAATATTTT
2400226 ATTTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 6 0.15
24 16 0.40
25 9 0.22
26 1 0.03
28 3 0.08
29 5 0.12
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (24 bp):
TATATTAACTTAAAAAAATATTTT
Found at i:2400226 original size:27 final size:26
Alignment explanation
Indices: 2400152--2400228 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 26
2400142 ATTTTATATA
2400152 TATTAACTTAA--AAAAATATTTT-T
1 TATTAACTTAATTAAAAATATTTTAT
**
2400175 ATATTAACTT-ATTAAATGTATTTTAT
1 -TATTAACTTAATTAAAAATATTTTAT
2400201 TATTAACTTAATTTAAAAATATTTTAT
1 TATTAACTTAA-TTAAAAATATTTTAT
2400228 T
1 T
2400229 TTTATTTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
23 1 0.02
24 9 0.20
25 18 0.41
26 2 0.05
27 14 0.32
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (26 bp):
TATTAACTTAATTAAAAATATTTTAT
Found at i:2400249 original size:27 final size:27
Alignment explanation
Indices: 2400139--2400249 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 27
2400129 TTAAATTCAT
**
2400139 AATAT-TTTATATATATTAACTTAA-AAA
1 AATATATTT-TAT-TATTAACTTAATTTA
2400166 AATAT-TTTTA-TATTAACTT-A-TTA
1 AATATATTTTATTATTAACTTAATTTA
*
2400189 AATGTATTTTATTATTAACTTAATTTA
1 AATATATTTTATTATTAACTTAATTTA
* * ** *
2400216 AAAATATTTTATTTTTATTTTGATTTA
1 AATATATTTTATTATTAACTTAATTTA
2400243 AATATAT
1 AATATAT
2400250 ATATATATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
23 6 0.09
24 14 0.20
25 9 0.13
26 3 0.04
27 38 0.54
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (27 bp):
AATATATTTTATTATTAACTTAATTTA
Found at i:2400434 original size:31 final size:31
Alignment explanation
Indices: 2400396--2400463 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
2400386 TGATGACTAC
* *
2400396 ATCTTAATTAAATAAAAAC-GAAACTGATAGT
1 ATCTTAATCAAATAAAAACAG-AACTGATAAT
*
2400427 ATCTTAATCAAATAAAAACAGAAGTGATAAT
1 ATCTTAATCAAATAAAAACAGAACTGATAAT
2400458 ATCTTA
1 ATCTTA
2400464 TATTTTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.29
Consensus pattern (31 bp):
ATCTTAATCAAATAAAAACAGAACTGATAAT
Found at i:2402281 original size:4 final size:4
Alignment explanation
Indices: 2402272--2402303 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
2402262 TAGTAATTGC
2402272 TATT TATT TATT TATT TATT TATT TA-T TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
2402304 TTCAGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:2402741 original size:5 final size:6
Alignment explanation
Indices: 2402723--2402778 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
2402713 CATGTTAATA
* *
2402723 TAATTT TAATTT TAATTT ATAATTT TGACATTT T-ATTT TATTTT TTATTAT
1 TAATTT TAATTT TAATTT -TAATTT T-A-ATTT TAATTT TAATTT TAATT-T
2402774 TAATT
1 TAATT
2402779 ATTATTTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.12
6 19 0.46
7 12 0.29
8 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:2402747 original size:13 final size:12
Alignment explanation
Indices: 2402723--2402778 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
2402713 CATGTTAATA
2402723 TAATTTTAATTT
1 TAATTTTAATTT
2402735 TAATTTATAATTT
1 TAATTT-TAATTT
2402748 TGACATTTT-ATTT
1 T-A-ATTTTAATTT
* *
2402761 TATTTTTTATTAT
1 TAATTTTAATT-T
2402774 TAATT
1 TAATT
2402779 ATTATTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 4 0.11
12 10 0.27
13 17 0.46
14 2 0.05
15 4 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
TAATTTTAATTT
Found at i:2403683 original size:23 final size:23
Alignment explanation
Indices: 2403657--2403713 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
2403647 TATAAATGCG
2403657 CCGAAGTGCCACGTAGAATTGCA
1 CCGAAGTGCCACGTAGAATTGCA
*
2403680 CCGAAGTGCCGCGTAGAATTGCA
1 CCGAAGTGCCACGTAGAATTGCA
*
2403703 CCGTAGTGCCA
1 CCGAAGTGCCA
2403714 TATAAGGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (23 bp):
CCGAAGTGCCACGTAGAATTGCA
Found at i:2410581 original size:23 final size:23
Alignment explanation
Indices: 2410540--2410591 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
2410530 CTCGTATAAA
* *
2410540 TGCACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTACCACGTAGAAT
*
2410563 TGCACCGAAGTACCGCGTAGAAT
1 TGCACCGAAGTACCACGTAGAAT
*
2410586 TACACC
1 TGCACC
2410592 ATAGTGCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTACCACGTAGAAT
Found at i:2411287 original size:16 final size:16
Alignment explanation
Indices: 2411266--2411296 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2411256 ATTTAAAGGG
2411266 GTGCATCGATGCACTT
1 GTGCATCGATGCACTT
2411282 GTGCATCGATGCACT
1 GTGCATCGATGCACT
2411297 GATGGCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (16 bp):
GTGCATCGATGCACTT
Found at i:2416281 original size:14 final size:16
Alignment explanation
Indices: 2416248--2416281 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2416238 TTTTCCCGTT
2416248 ACACCAAATCAACAAC
1 ACACCAAATCAACAAC
*
2416264 ACACCAAATCAAGAAC
1 ACACCAAATCAACAAC
2416280 AC
1 AC
2416282 GGATTCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.35, G:0.03, T:0.06
Consensus pattern (16 bp):
ACACCAAATCAACAAC
Found at i:2423508 original size:16 final size:15
Alignment explanation
Indices: 2423472--2423519 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
2423462 ATTACCCGAC
2423472 CTGTTATGAACCTGA
1 CTGTTATGAACCTGA
2423487 CTTGTTATGAACCTGA
1 C-TGTTATGAACCTGA
* *
2423503 TCTGTTTTTAACCTGA
1 -CTGTTATGAACCTGA
2423519 C
1 C
2423520 CTATAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 2 0.07
16 26 0.90
17 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (15 bp):
CTGTTATGAACCTGA
Found at i:2423826 original size:23 final size:23
Alignment explanation
Indices: 2423792--2423886 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
2423782 ATGGAAAGGA
*
2423792 AAATTAATATAGTTTCATTTATAT
1 AAATT-ATATAGTTTAATTTATAT
2423816 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
2423839 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
2423862 AAATTATATAGTTTAATTTAT-T
1 AAATTATATAGTTTAATTTATAT
2423884 AAA
1 AAA
2423887 AAAATAATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
22 4 0.06
23 61 0.87
24 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (23 bp):
AAATTATATAGTTTAATTTATAT
Done.