Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold559_ERROPOS3517101
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: 170279
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
Found at i:836 original size:40 final size:40
Alignment explanation
Indices: 732--872 Score: 250
Period size: 40 Copynumber: 3.6 Consensus size: 40
722 ATGAATTGAG
732 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
771 AGTGATATA-CCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
810 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
850 TGTGATATATCCGGGCTAAGTCC
1 AGTGATATATCCGGGCTAAGTCC
873 AAATTTCATA
Statistics
Matches: 97, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 10 0.10
39 37 0.38
40 50 0.52
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:2462 original size:37 final size:37
Alignment explanation
Indices: 2412--2490 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
2402 TTATTACGAA
* * *
2412 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
2449 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
2486 GTCTT
1 GTCTT
2491 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:2726 original size:47 final size:47
Alignment explanation
Indices: 2609--3110 Score: 880
Period size: 47 Copynumber: 10.6 Consensus size: 47
2599 CCCTTCGGGA
* * * * * *
2609 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
2655 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2749 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2988 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3084 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
3111 ACCAACCCTT
Statistics
Matches: 443, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
46 39 0.09
47 261 0.59
49 143 0.32
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2794 original size:96 final size:94
Alignment explanation
Indices: 2609--3110 Score: 880
Period size: 96 Copynumber: 5.3 Consensus size: 94
2599 CCCTTCGGGA
* * * * * * *
2609 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
2673 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
2702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
2767 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
2798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
2863 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
2892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
2957 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
2988 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
3053 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
3084 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
3111 ACCAACCCTT
Statistics
Matches: 395, Mismatches: 7, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
93 40 0.10
94 120 0.30
96 188 0.48
98 47 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:2877 original size:143 final size:141
Alignment explanation
Indices: 2609--3110 Score: 880
Period size: 143 Copynumber: 3.5 Consensus size: 141
2599 CCCTTCGGGA
* * * * * * *
2609 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
2673 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
2738 GGCCATTAGGC
131 GGCCATTAGGC
2749 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
2814 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
2879 TCGGCCATTAGGC
129 TCGGCCATTAGGC
2892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
2957 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
3022 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
3037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
3102 TTTCACATT
66 TTTCACATT
3111 ACCAACCCTT
Statistics
Matches: 348, Mismatches: 7, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
140 8 0.02
141 47 0.14
142 32 0.09
143 167 0.48
145 94 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:3427 original size:40 final size:40
Alignment explanation
Indices: 3338--3436 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
3328 GCTACTCGTT
* * * *
3338 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* *
3378 CAAATGCCTTCGGGACTTAACCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAAC-TAGCA
3419 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
3437 GCCCAGACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 44 0.85
41 8 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:13218 original size:34 final size:34
Alignment explanation
Indices: 13131--13232 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
13121 ATGCATTTTG
* * *
13131 GATACTG-TACTGAAATGGGCTAAGGCCCACATT
1 GATACTGCGACTGATATGGGCTAAGGCCCACACT
** *
13164 GATACTGTTACTG-TGTTGGGCTAAGGCCCACACT
1 GATACTGCGACTGAT-ATGGGCTAAGGCCCACACT
* * *
13198 GATATTGCGACTGATATGGGCTTAGGCCCAGACT
1 GATACTGCGACTGATATGGGCTAAGGCCCACACT
13232 G
1 G
13233 TTCAACACTG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 7 0.12
34 49 0.86
35 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (34 bp):
GATACTGCGACTGATATGGGCTAAGGCCCACACT
Found at i:18119 original size:24 final size:24
Alignment explanation
Indices: 18087--18182 Score: 95
Period size: 24 Copynumber: 3.8 Consensus size: 24
18077 TGACATTGTG
18087 CTAAGTGAAATAAGACCATGACAT
1 CTAAGTGAAATAAGACCATGACAT
** *
18111 CTAAGTGAAATAAGTTCATGGCAATGT
1 CTAAGTGAAATAAGACCATGAC-A--T
*
18138 GCTAAGTGAAATAA-ATCCGTGACAT
1 -CTAAGTGAAATAAGA-CCATGACAT
*
18163 CTAAGTGAAATAAGTCCATG
1 CTAAGTGAAATAAGACCATG
18183 GCATTGTGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
24 36 0.63
25 2 0.04
27 2 0.04
28 17 0.30
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGACAT
Found at i:18161 original size:52 final size:52
Alignment explanation
Indices: 18083--18196 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 52
18073 GATATGACAT
*
18083 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTTCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAA
* *
18135 TGTGCTAAGTGAAATAA-ATCCGTGACATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGA-CCATGACATCTAAGTGAAATAAGTCCATGGCAA
18187 TGTGCTAAGT
1 TGTGCTAAGT
18197 AAGAAATTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.02
52 57 0.98
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAA
Found at i:18352 original size:52 final size:52
Alignment explanation
Indices: 18226--18376 Score: 200
Period size: 52 Copynumber: 3.0 Consensus size: 52
18216 CCTTAGGAAT
* *
18226 AAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC-TT-TGAGAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
* * * ** * *
18276 GAGATAAC-TTGGTCATGAGTGTGGTACCACGTGAAGGCCACTTTGTGAAAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
18327 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA
18377 GAAGGTAGCT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 28 0.34
50 7 0.09
51 10 0.12
52 37 0.45
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (52 bp):
AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
Found at i:18406 original size:51 final size:50
Alignment explanation
Indices: 18229--18408 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 50
18219 TAGGAATAAA
*
18229 ATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* * * ** * * * *
18279 ATAACTTGGTCATGAGTGTGGTACCACGTGAAGGCCACTTTGTGAAAAAAA
1 ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAG
*
18330 ATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* *
18381 GTAGCTTTGACTACAAGGGTGGTACTAT
1 ATAGCTTTGAC-ACAAGTGTGGTACTAT
18409 TTGCATGCCG
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 30 0.29
50 10 0.10
51 33 0.31
52 32 0.30
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (50 bp):
ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
Found at i:23360 original size:27 final size:27
Alignment explanation
Indices: 23318--23686 Score: 323
Period size: 27 Copynumber: 13.7 Consensus size: 27
23308 AAATAAAGAG
* *
23318 AAATTACCGAAATACCCCCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
23345 AAATTATCGAAGTACCCTC-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
*
23372 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
23399 AAATTACCGGAATACCCCCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
23426 AAATTACCAAAACACCCTCAATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
**
23452 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
23479 AAATTATCAAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
23506 AAATTACCAAAACATCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
23533 AAATTATCGAAACACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
23560 AAATTACCGAAATATCCTTAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
23587 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
23614 AAATTACCAAAACACTCTCAATTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
** * * *
23642 AAATTATTGAAATACCAT-TATAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
23669 AAATTACTGAAATACCCT
1 AAATTACCGAAATACCCT
23687 TATAATGTAA
Statistics
Matches: 279, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
25 2 0.01
26 22 0.08
27 234 0.84
28 21 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:26711 original size:28 final size:28
Alignment explanation
Indices: 26679--26780 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
26669 TGGGAAGTAG
* *
26679 TTGGGCCTAATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
**
26707 TTGGGCCTGATGGGTGATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
26735 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
26763 TTGGGCCTGATTGGCCAT
1 TTGGGCCTGATGGGCCAT
26781 GTGTCCGAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.22, C:0.13, G:0.34, T:0.31
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:27170 original size:26 final size:27
Alignment explanation
Indices: 27122--27449 Score: 201
Period size: 27 Copynumber: 12.3 Consensus size: 27
27112 AGAAATTATT
**
27122 GAAATACCCCCGGTTTGTAAAATTACC
1 GAAATACCCCTAGTTTGTAAAATTACC
*
27149 -AAAGTA-CCCTAGTTTCTAAAATTACC
1 GAAA-TACCCCTAGTTTGTAAAATTACC
*
27175 GAAATACCCCTAGTTTGTAAAATCACC
1 GAAATACCCCTAGTTTGTAAAATTACC
*
27202 GAAA-ACCCC-CGATTTGTAAAATTACC
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * * * * * *
27228 GAAATA-CCATCGATTATGAAATTTCT
1 GAAATACCCCTAGTTTGTAAAATTACC
* * *
27254 GTAATA-CCCTTGATTTGTAAAATTATC
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * *
27281 G-AATACCCCCAATTTGTGAAATTACC
1 GAAATACCCCTAGTTTGTAAAATTACC
* * *
27307 GAAACA-CCCTCGATTTTTAAAATTACC
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * *
27334 TAAACA-CCCTCGATTTGTAAAATTACC
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * *
27361 GAAATA-CCCTCGATTTGTAAATTTACT
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * * *
27388 AAAATA-TCCTTGATTTGTAAAATTATC
1 GAAATACCCCTAG-TTTGTAAAATTACC
* * * *
27415 GAAACACCCCCAATTTGTAAAATTATC
1 GAAATACCCCTAGTTTGTAAAATTACC
27442 GAAATACC
1 GAAATACC
27450 ATTGTAGTGT
Statistics
Matches: 238, Mismatches: 52, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 84 0.35
27 151 0.63
28 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
GAAATACCCCTAGTTTGTAAAATTACC
Found at i:27194 original size:53 final size:53
Alignment explanation
Indices: 27122--27449 Score: 152
Period size: 53 Copynumber: 6.2 Consensus size: 53
27112 AGAAATTATT
* * *
27122 GAAATACCCCCGGTTTGTAAAATTACC-AAAGTACCCTAG-TTTCTAAAATTACC
1 GAAATACCCCCAGTTTGTAAAATCACCGAAA--ACCCCAGATTTCTAAAATTACC
* * *
27175 GAAATACCCCTAGTTTGTAAAATCACCGAAAACCCCCGATTTGTAAAATTACC
1 GAAATACCCCCAGTTTGTAAAATCACCGAAAACCCCAGATTTCTAAAATTACC
** * * * ** * * ** * *
27228 GAAATACCATC-GATTATGAAATTTCTGTAATACCCTTGATTTGTAAAATTATC
1 GAAATACCCCCAGTTTGTAAAATCACCG-AAAACCCCAGATTTCTAAAATTACC
* * * *
27281 G-AATACCCCCAATTTGTGAAATTACCGAAACACCCTC-GATTTTTAAAATTACC
1 GAAATACCCCCAGTTTGTAAAATCACCGAAA-ACCC-CAGATTTCTAAAATTACC
* * * * * * *
27334 TAAACACCCTC-GATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAATTTACT
1 GAAATACCCCCAG-TTTGTAAAATCACCGAAA-ACCC-CAGATTTCTAAAATTACC
* * ** * * * *
27388 AAAATA-TCCTTGATTTGTAAAATTATCGAAACACCCCCA-ATTTGTAAAATTATC
1 GAAATACCCCCAG-TTTGTAAAATCACCGAAA-A-CCCCAGATTTCTAAAATTACC
27442 GAAATACC
1 GAAATACC
27450 ATTGTAGTGT
Statistics
Matches: 212, Mismatches: 51, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
52 24 0.11
53 97 0.46
54 88 0.42
55 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
GAAATACCCCCAGTTTGTAAAATCACCGAAAACCCCAGATTTCTAAAATTACC
Found at i:27447 original size:54 final size:54
Alignment explanation
Indices: 27122--27449 Score: 310
Period size: 54 Copynumber: 6.1 Consensus size: 54
27112 AGAAATTATT
* * * *
27122 GAAATACCCCCGGTTTGTAAAATTACC-AAAGTACCCTAG-TTTCTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCGATTTGTAAAATTACC
* * *
27175 GAAATACCC-CTAGTTTGTAAAATCACCGAAA-ACCCCCGATTTGTAAAATTACC
1 GAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
* * * * * *
27228 GAAATACCATCGATTATG--AAATTTCTGTAATACCCTTGATTTGTAAAATTATC
1 GAAATACCCTCGATT-TGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
* * * * *
27281 G-AATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTTTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
* * * *
27334 TAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAATTTACT
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
* * * * * * * *
27388 AAAATATCCTTGATTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
27442 GAAATACC
1 GAAATACC
27450 ATTGTAGTGT
Statistics
Matches: 219, Mismatches: 47, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
51 2 0.01
52 24 0.11
53 93 0.42
54 100 0.46
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACC
Found at i:27460 original size:27 final size:27
Alignment explanation
Indices: 27430--27491 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27420 ACCCCCAATT
*
27430 TGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTATCAAAATACCATTGTAG
*
27457 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCATTGTAG
27484 TGTAAAAT
1 TGTAAAAT
27492 AACTGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCATTGTAG
Found at i:27461 original size:81 final size:81
Alignment explanation
Indices: 27137--27480 Score: 225
Period size: 81 Copynumber: 4.3 Consensus size: 81
27127 ACCCCCGGTT
* * * * * * * *
27137 TGTAAAATTACCAAAGTACCCTAG-TTTCTAAAATTACCGAAATACCCCTAGTTTGTAAAATCAC
1 TGTAAAATTATCAAAATACCCTTGATTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTAC
** *
27201 CGAAA-ACCCCCGATT
66 CGAAATACCATCGATG
* * * * * * * * ***
27216 TGTAAAATTACCGAAATACCATCGATTATG--AAATTTCTGTAATACCCTTGATTTGTAAAATTA
1 TGTAAAATTATCAAAATACCCTTGATT-TGTAAAATTACCGAAACACCCCCAATTTGTAAAATTA
* ** * *
27279 TCG-AATACCCCCAATT
65 CCGAAATACCATCGATG
* * * * * * * * *
27295 TGTGAAATTACCGAAACACCCTCGATTTTTAAAATTACCTAAACACCCTCGATTTGTAAAATTAC
1 TGTAAAATTATCAAAATACCCTTGATTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTAC
* *
27360 CGAAATACCCTCGATT
66 CGAAATACCATCGATG
* * *
27376 TGTAAATTTA-CTAAAATATCCTTGATTTGTAAAATTATCGAAACACCCCCAATTTGTAAAATTA
1 TGTAAAATTATC-AAAATACCCTTGATTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTA
* *
27440 TCGAAATACCATTG-TAG
65 CCGAAATACCATCGAT-G
27457 TGTAAAATTATCAAAATACCCTTG
1 TGTAAAATTATCAAAATACCCTTG
27481 TAGTGTAAAA
Statistics
Matches: 212, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
78 3 0.01
79 81 0.38
80 33 0.16
81 94 0.44
82 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
TGTAAAATTATCAAAATACCCTTGATTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTAC
CGAAATACCATCGATG
Found at i:27995 original size:11 final size:11
Alignment explanation
Indices: 27979--28004 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27969 ATTGCATGTA
27979 TGATATTATTG
1 TGATATTATTG
27990 TGATATTATTG
1 TGATATTATTG
28001 TGAT
1 TGAT
28005 GTGGGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:31347 original size:15 final size:14
Alignment explanation
Indices: 31304--31347 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
31294 TAGGAAATTC
*
31304 TATTTTAAGTTTAT
1 TATTTTAATTTTAT
*
31318 TTTTTTAATTATTAT
1 TATTTTAATT-TTAT
31333 TATTTTAGATTTTAT
1 TATTTTA-ATTTTAT
31348 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TATTTTAATTTTAT
Found at i:32254 original size:23 final size:24
Alignment explanation
Indices: 32228--32273 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
32218 TTCCTTTAAA
32228 TCAT-TTTGTTATTTAT-TTTCATT
1 TCATCTTT-TTATTTATATTTCATT
*
32251 TCATCTTTTTATTTTTATTTCAT
1 TCATCTTTTTATTTATATTTCAT
32274 CTTTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TCATCTTTTTATTTATATTTCATT
Found at i:32284 original size:19 final size:19
Alignment explanation
Indices: 32239--32278 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
32229 CATTTTGTTA
32239 TTTATTTTCATTTCATCTT
1 TTTATTTTCATTTCATCTT
*
32258 TTTATTTTTATTTCATCTT
1 TTTATTTTCATTTCATCTT
32277 TT
1 TT
32279 ACTTTTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCATTTCATCTT
Found at i:36530 original size:15 final size:14
Alignment explanation
Indices: 36487--36530 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
36477 TAGGAAATTC
*
36487 TATTTTAAGTTTAT
1 TATTTTAATTTTAT
*
36501 TTTTTTAATTATTAT
1 TATTTTAATT-TTAT
36516 TATTTTAGATTTTAT
1 TATTTTA-ATTTTAT
36531 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TATTTTAATTTTAT
Found at i:37436 original size:23 final size:24
Alignment explanation
Indices: 37410--37455 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
37400 TTCCTTTAAA
37410 TCAT-TTTGTTATTTAT-TTTCATT
1 TCATCTTT-TTATTTATATTTCATT
*
37433 TCATCTTTTTATTTTTATTTCAT
1 TCATCTTTTTATTTATATTTCAT
37456 CTTTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TCATCTTTTTATTTATATTTCATT
Found at i:37466 original size:19 final size:19
Alignment explanation
Indices: 37421--37460 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
37411 CATTTTGTTA
37421 TTTATTTTCATTTCATCTT
1 TTTATTTTCATTTCATCTT
*
37440 TTTATTTTTATTTCATCTT
1 TTTATTTTCATTTCATCTT
37459 TT
1 TT
37461 ACTTTTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCATTTCATCTT
Found at i:38173 original size:43 final size:42
Alignment explanation
Indices: 38088--38188 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
38078 TAGAAAGCTC
* * * *
38088 ATACAATGCCAAC-GTCCCAGACGTGGTCTTACATGTATTCAA
1 ATACAATGCC-ACTGTCCCAAACGTGGTCTTACACGGAATCAA
38130 ATATCAATGCCACTGTCCCAAACAG-GGTCTTACACGGAATCAA
1 ATA-CAATGCCACTGTCCCAAAC-GTGGTCTTACACGGAATCAA
*
38173 ATACGATGCCATCTGT
1 ATACAATGCCA-CTGT
38189 AACATCCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 12 0.24
43 37 0.74
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACAATGCCACTGTCCCAAACGTGGTCTTACACGGAATCAA
Found at i:43854 original size:39 final size:39
Alignment explanation
Indices: 43809--43929 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
43799 ATGGAAGACA
*
43809 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43848 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
43887 CTGGAAATGTGTCCAGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
43926 CTGG
1 CTGG
43930 TGCTGGTAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:47328 original size:52 final size:51
Alignment explanation
Indices: 47197--47388 Score: 200
Period size: 52 Copynumber: 3.8 Consensus size: 51
47187 TAGGAATGAA
* * * *
47197 ATAGCTTTGGACACAAGTGTGGTATTATGTAAAGGCCAC-TTTG-AGAAGAG
1 ATAGCTTTGGTCAGAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAA-AG
47247 ATAGC-TTGGTCACG-AGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAG
1 ATAGCTTTGGTCA-GAAGTGTGGTACTATGTGAAGGCCACTTT-TGAAGAAAG
* *
47298 ATAGCTTTGGTCAGAACTGTGATACTATGTGAAGGCCACTTTGTGAAG-AAG
1 ATAGCTTTGGTCAGAAGTGTGGTACTATGTGAAGGCCACTTT-TGAAGAAAG
* * *
47349 GTAGCTTTGACTACA-AAG-GTGGTACTATGTGCAGGCCACT
1 ATAGCTTTG-GT-CAGAAGTGTGGTACTATGTGAAGGCCACT
47389 GGGTATTCGT
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
49 28 0.23
50 7 0.06
51 41 0.34
52 44 0.36
53 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
ATAGCTTTGGTCAGAAGTGTGGTACTATGTGAAGGCCACTTTTGAAGAAAG
Found at i:47377 original size:51 final size:50
Alignment explanation
Indices: 47197--47388 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 50
47187 TAGGAATGAA
* * *
47197 ATAGCTTTGGACACAAGTGTGGTATTATGTAAAGGCCACTTTGAGAAG-AG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* * * *
47247 ATAGCTTGGTCACGAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAG
1 ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAG
* * * *
47298 ATAGCTTTGGTCAGAACTGTGATACTATGTGAAGGCCACTTTGTGAAGAAG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* *
47349 GTAGCTTTGACTACAAAG-GTGGTACTATGTGCAGGCCACT
1 ATAGCTTTGAC-AC-AAGTGTGGTACTATGTGAAGGCCACT
47389 GGGTATTCGT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 33 0.28
50 9 0.08
51 40 0.34
52 36 0.31
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (50 bp):
ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
Found at i:51339 original size:39 final size:40
Alignment explanation
Indices: 51188--51357 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
51178 GGACTAAGAT
* * *
51188 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
51228 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
**
51268 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACA-TC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTA-AGTC
* * * * *
51308 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
51347 CCGAAGGCATT
1 CCGAAGGCATT
51358 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.28
40 79 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:51377 original size:79 final size:79
Alignment explanation
Indices: 51210--51392 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 79
51200 GTGCGAGATA
* * * *
51210 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAA-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51275 CATTCGTGCGAGTTG
65 CATTCGAACGAGGAG
* * * *
51290 TTAAATCCGGGTTACATCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTA-ATCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51354 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
*
51369 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTT-AATCCCGAAGG
51393 TACGTGATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.16
79 48 0.56
80 23 0.27
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (79 bp):
CTAAATCCGGGTTAATCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:53404 original size:38 final size:37
Alignment explanation
Indices: 53361--53495 Score: 119
Period size: 37 Copynumber: 3.6 Consensus size: 37
53351 ACAAGACTTG
* * *
53361 CCTACATGGCGTGATCTAGGGTGATCCGCCCAAACTCA
1 CCTACATGGCATGATCCAGGGAGATCCG-CCAAACTCA
* * * *
53399 CCTACATGTCATGATCCAGGGAGGTTCGCCAAACTCG
1 CCTACATGGCATGATCCAGGGAGATCCGCCAAACTCA
* * * *
53436 CCTATATGGCATGATCCAGGGAGGTCCGTCAGACTCGA
1 CCTACATGGCATGATCCAGGGAGATCCGCCAAACTC-A
* * *
53474 -CTATATGGCATAATCCATGGAG
1 CCTACATGGCATGATCCAGGGAG
53496 GTTAGTGAGA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
37 59 0.73
38 22 0.27
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (37 bp):
CCTACATGGCATGATCCAGGGAGATCCGCCAAACTCA
Found at i:53449 original size:37 final size:37
Alignment explanation
Indices: 53390--53498 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 37
53380 GGTGATCCGC
* * *
53390 CCAAACTCACCTACATGTCATGATCCAGGGAGGTTCG
1 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTTCG
*
53427 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTCCG
1 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTTCG
* * * * *
53464 TCAGACTCGACTATATGGCATAATCCATGGAGGTT
1 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTT
53499 AGTGAGATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (37 bp):
CCAAACTCGCCTATATGGCATGATCCAGGGAGGTTCG
Found at i:61747 original size:13 final size:13
Alignment explanation
Indices: 61719--61761 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
61709 TATTTCCCAA
*
61719 AATAAATATTATTT
1 AATAAAT-TAATTT
*
61733 AATCAATTAATTT
1 AATAAATTAATTT
61746 AATAAATTAATTT
1 AATAAATTAATTT
61759 AAT
1 AAT
61762 TCTTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:67231 original size:27 final size:27
Alignment explanation
Indices: 67184--67359 Score: 217
Period size: 27 Copynumber: 6.5 Consensus size: 27
67174 ATACTTTAGT
* * *
67184 TTACCAAAACACCACTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * * *
67211 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
*
67238 TCACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
67265 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
67292 TTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* * *
67319 TTACCAAAATATCCCTGATTTGTGAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
**
67346 TTACTGAAATACCC
1 TTACCAAAATACCC
67360 TCGACCTGTA
Statistics
Matches: 126, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTTTGTAAAA
Found at i:67341 original size:54 final size:53
Alignment explanation
Indices: 67184--67416 Score: 225
Period size: 54 Copynumber: 4.3 Consensus size: 53
67174 ATACTTTAGT
* * * * *
67184 TTACCAAAACACCACTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-TGGTTTGTAAAA
* *
67238 TCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTGGTTTGTAAAA
* * *
67292 TTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGATTTGTGAAA
1 TTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTGGTTTGTAAAA
** * ** *** **
67346 TTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCT-GGTTTGTAAAA
*
67400 TTACCAAAGTACCCCTA
1 TTACCAAAATACCCCTA
67417 ATTTACAGAA
Statistics
Matches: 147, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
53 9 0.06
54 131 0.89
55 7 0.05
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
TTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTGGTTTGTAAAA
Found at i:67370 original size:81 final size:81
Alignment explanation
Indices: 67204--67420 Score: 215
Period size: 81 Copynumber: 2.7 Consensus size: 81
67194 ACCACTAGTT
* * * * * *
67204 TGTAAAATTA-CTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTA
1 TGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTA
***
67268 CCAAAATACCCCTGGTT
65 CCAAAATACCCCTGACC
* *
67285 TGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGATTTGTGAAATTAC
1 TGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTAC
**
67350 TGAAATA-CCCTCGACC
66 CAAAATACCCCT-GACC
** * * * *
67366 TGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCTAATTT
1 TGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTT
67421 ACAGAATTAC
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
80 9 0.08
81 103 0.91
82 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
TGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTAC
CAAAATACCCCTGACC
Found at i:67412 original size:27 final size:27
Alignment explanation
Indices: 67184--67413 Score: 182
Period size: 27 Copynumber: 8.5 Consensus size: 27
67174 ATACTTTAGT
* *
67184 TTACCAAAACACCACTAG-TTTGTAAAA
1 TTACCAAAATACC-CTCGATTTGTAAAA
* * * * *
67211 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
* *
67238 TCACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCTC-GATTTGTAAAA
*
67265 TTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCTC-GATTTGTAAAA
* *
67292 TTATCAAAATACCC-CTAGTTTGTAAAA
1 TTACCAAAATACCCTCGA-TTTGTAAAA
*
67319 TTACCAAAATATCCCT-GATTTGTGAAA
1 TTACCAAAATA-CCCTCGATTTGTAAAA
** **
67346 TTACTGAAATACCCTCGACCTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*** *
67373 TTATTGAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*
67400 TTACCAAAGTACCC
1 TTACCAAAATACCC
67414 CTAATTTACA
Statistics
Matches: 169, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.04
27 158 0.93
28 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TTACCAAAATACCCTCGATTTGTAAAA
Found at i:67482 original size:27 final size:27
Alignment explanation
Indices: 67460--67727 Score: 378
Period size: 27 Copynumber: 10.0 Consensus size: 27
67450 AAAATTACTA
67460 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
67487 AAATATCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
67514 GAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
67541 GAATACCCCTGTAGGGTAGAATTATC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
67567 AGAATACCCCTATAGGGTAGAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
*
67595 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
67622 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
67649 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
67676 AAATATCCCTGTAGGGTGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
67703 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
67728 ATTTTACCCC
Statistics
Matches: 218, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 16 0.07
27 201 0.92
28 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:68397 original size:25 final size:26
Alignment explanation
Indices: 68369--68424 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
68359 TGCCACGTAT
* *
68369 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
68394 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
68420 TCTGT
1 TCTGT
68425 ACCTGGTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:68413 original size:26 final size:27
Alignment explanation
Indices: 68377--68449 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
68367 ATTCTGTTAA
* * *
68377 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTACCTG
68403 GTGGCTCTGCCACAATATCTGTACCTG
1 GTGGCTCTGCCACAATATCTGTACCTG
* *
68430 GTGACTCTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
68450 AATAACTGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTACCTG
Found at i:68619 original size:31 final size:31
Alignment explanation
Indices: 68581--68712 Score: 187
Period size: 31 Copynumber: 4.3 Consensus size: 31
68571 TTGCATTCAC
68581 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
**
68612 ATTCTGATTTTGATTCTGTTACCTGATGTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
68643 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
68674 ATTTTGATTCTGATTCTGATT--CTGATTCTG
1 ATTCTGATTTTGATTCTG-TTACCTGATACTG
68704 ATTCTGATT
1 ATTCTGATT
68713 CTAGTTCTGA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
30 16 0.18
31 72 0.80
32 2 0.02
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:68620 original size:6 final size:6
Alignment explanation
Indices: 68581--68723 Score: 116
Period size: 6 Copynumber: 23.3 Consensus size: 6
68571 TTGCATTCAC
* * *
68581 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
68630 -TTACCTG ATGT-TG ATTCTG ATTTTG ATTC-G GTTACCTG ATACTG ATTTTG
1 ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
68680 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
68724 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 26
0.73 0.09 0.17
Matches are distributed among these distances:
5 9 0.08
6 88 0.80
7 8 0.07
8 4 0.04
9 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:70777 original size:27 final size:27
Alignment explanation
Indices: 70746--70923 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70736 TAAATTGTAC
70746 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
70773 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70799 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
70827 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
70855 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70882 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
70909 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70924 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:70860 original size:82 final size:81
Alignment explanation
Indices: 70747--70902 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70737 AAATTGTACA
* *
70747 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
70811 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
70828 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
70893 TGCGAGTTGA
65 TGCGAATTGA
70903 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:70914 original size:82 final size:81
Alignment explanation
Indices: 70743--70923 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
70733 GATTAAATTG
* *
70743 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
70808 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
70824 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
70888 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
70906 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
70924 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:83937 original size:46 final size:46
Alignment explanation
Indices: 83887--84062 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
83877 TGATTGAGCA
83887 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
83933 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
83978 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84026 -CCTGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84063 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.54
47 29 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84043 original size:93 final size:93
Alignment explanation
Indices: 83884--84055 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
83874 GGATGATTGA
83884 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
83949 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
83977 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
84041 TTGAGTCCAAGTTCG
65 TTGAGTCCAAGTTCG
84056 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:85413 original size:22 final size:22
Alignment explanation
Indices: 85364--85405 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
85354 GTGGGGGCGT
85364 TACA-CACATAGCCATAAACAG
1 TACAGCACATAGCCATAAACAG
*
85385 TACAGCACATAGCCGTAAACA
1 TACAGCACATAGCCATAAACA
85406 TCGCAGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.29, G:0.12, T:0.14
Consensus pattern (22 bp):
TACAGCACATAGCCATAAACAG
Found at i:85642 original size:22 final size:22
Alignment explanation
Indices: 85608--85672 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
85598 ACAAATATGT
*
85608 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
85630 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
85652 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
85673 AATAATTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:85873 original size:41 final size:41
Alignment explanation
Indices: 85816--85936 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
85806 AAAGCCATCG
* *
85816 GTGGATCCACGGTCGTCAAGCAACCATGTGATCATTAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCATCAATCA
* * * *
85857 GTGGATCCACAGTCGTCAAGCAACCATGGGATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCATCAATCA
* * *
85898 GTGGATTCACGGTCGTCAATCAACCATGCGATCCTCAAT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCATCAAT
85937 TTCTTCCTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCATCAATCA
Found at i:86223 original size:27 final size:26
Alignment explanation
Indices: 86193--86405 Score: 160
Period size: 27 Copynumber: 7.9 Consensus size: 26
86183 GGTAAATCTA
86193 CAAACTAAGGGTATTTCGATAATTTTG
1 CAAACTAAGGGTATTTCG-TAATTTTG
* * * *
86220 CAAACCAATGGTATTTTTGTAATTTTT
1 CAAACTAAGGGTA-TTTCGTAATTTTG
* *
86247 TAAAGTTAAGGGTATTTCGTAATTTTG
1 CAAA-CTAAGGGTATTTCGTAATTTTG
* * *
86274 TAAA-TCAGGGGTATTTCTGTAATTTTT
1 CAAACT-AAGGGTATTTC-GTAATTTTG
*
86301 CAAA-TCAAGGGTATTTCAGTAATTTTC
1 CAAACT-AAGGGTATTTC-GTAATTTTG
* * * *
86328 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAACTAAGGGTA-TTTCGTAATTTTG
* *
86355 CAAACTAGGGGTATTTTGGTAATTTTG
1 CAAACTAAGGGTA-TTTCGTAATTTTG
* *
86382 TAAACCAAGGGTATTTCAGTAATT
1 CAAACTAAGGGTATTTC-GTAATT
86406 CTACCCTACA
Statistics
Matches: 154, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 13 0.08
27 126 0.82
28 14 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (26 bp):
CAAACTAAGGGTATTTCGTAATTTTG
Found at i:86295 original size:54 final size:53
Alignment explanation
Indices: 86193--86405 Score: 212
Period size: 54 Copynumber: 3.9 Consensus size: 53
86183 GGTAAATCTA
* * *
86193 CAAACTAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTT
1 CAAATTAAGGGTATTTCG-TAATTTTGCAAACCAAGGGTATTTCTGTAATTTTT
* * * *
86247 TAAAGTTAAGGGTATTTCGTAATTTTGTAAATCAGGGGTATTTCTGTAATTTTT
1 CAAA-TTAAGGGTATTTCGTAATTTTGCAAACCAAGGGTATTTCTGTAATTTTT
* * ** * *
86301 CAAATCAAGGGTATTTCAGTAATTTTCCAAATTAGGGGTATTT-TGGTAATTTTA
1 CAAATTAAGGGTATTTC-GTAATTTTGCAAACCAAGGGTATTTCT-GTAATTTTT
* * * * *
86355 CAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATT
1 CAAATTAAGGGTA-TTTCGTAATTTTGCAAACCAAGGGTATTTCTGTAATT
86406 CTACCCTACA
Statistics
Matches: 131, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
53 13 0.10
54 102 0.78
55 16 0.12
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (53 bp):
CAAATTAAGGGTATTTCGTAATTTTGCAAACCAAGGGTATTTCTGTAATTTTT
Found at i:86314 original size:81 final size:81
Alignment explanation
Indices: 86191--86405 Score: 242
Period size: 81 Copynumber: 2.7 Consensus size: 81
86181 TTGGTAAATC
* * * ** **
86191 TACAAACTAAGGGTATTTC-GATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTTAAAGTTA
1 TACAAACTAGGGGTATTTCTG-TAATTTTTCAAACCAAGGGTATTTCAGTAATTTTCCAAA-TTA
86255 AGGGTA-TTTCGTAATTT
64 AGGGTATTTTCGTAATTT
** * *
86272 TGTAAA-TCAGGGGTATTTCTGTAATTTTTCAAATCAAGGGTATTTCAGTAATTTTCCAAATTAG
1 TACAAACT-AGGGGTATTTCTGTAATTTTTCAAACCAAGGGTATTTCAGTAATTTTCCAAATTAA
*
86336 GGGTATTTTGGTAATTT
65 GGGTATTTTCGTAATTT
86353 TACAAACTAGGGGTATTT-TGGTAATTTTGT-AAACCAAGGGTATTTCAGTAATT
1 TACAAACTAGGGGTATTTCT-GTAATTTT-TCAAACCAAGGGTATTTCAGTAATT
86406 CTACCCTACA
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
80 10 0.09
81 100 0.88
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
TACAAACTAGGGGTATTTCTGTAATTTTTCAAACCAAGGGTATTTCAGTAATTTTCCAAATTAAG
GGTATTTTCGTAATTT
Found at i:86424 original size:27 final size:27
Alignment explanation
Indices: 86394--86497 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
86384 AACCAAGGGT
* *
86394 ATTTCAGTAATTCTACCCTACAGTGGC
1 ATTTCAATAATTCTACCCTACAGGGGC
*
86421 ATTTCAATAATTCTATCCTACAGGGGC
1 ATTTCAATAATTCTACCCTACAGGGGC
86448 ATTTCAATAATTCTACCCTACAGGGGC
1 ATTTCAATAATTCTACCCTACAGGGGC
* * * *
86475 ATTTTAGTAAATCTAGCCTACAG
1 ATTTCAATAATTCTACCCTACAG
86498 ATATGAGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTTCAATAATTCTACCCTACAGGGGC
Found at i:92915 original size:46 final size:43
Alignment explanation
Indices: 92847--92968 Score: 139
Period size: 46 Copynumber: 2.9 Consensus size: 43
92837 CCTACAATGG
*
92847 CGATTTTTAGAGAAAAAATATTGTAGTATTCCAATCTTATAGTGAA
1 CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTAT--T-AA
* *
92893 TGATTTCTAGAGAAAAAATA-T-T-GTATT---ATCTCATTAA
1 CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTATTAA
92930 CGATTTCTAGAGAAAAAAATATTGTAGTATTCCAATCTT
1 CGATTTCTAGAG-AAAAAATATTGTAGTATTCCAATCTT
92969 GAAAATTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
37 13 0.20
38 9 0.14
39 1 0.02
40 7 0.11
41 5 0.08
43 5 0.08
44 5 0.08
45 1 0.02
46 18 0.28
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (43 bp):
CGATTTCTAGAGAAAAAATATTGTAGTATTCCAATCTTATTAA
Found at i:93292 original size:58 final size:58
Alignment explanation
Indices: 93188--93321 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 58
93178 TTTAATTCAT
* *
93188 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * * *
93246 GTAATAATTATGTTAA-AATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
93304 ATAATAATCT-TATTAAGA
1 ATAATAAT-TATATTAAGA
93322 TTTAATAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 19 0.29
58 44 0.68
59 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (58 bp):
ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:93508 original size:16 final size:16
Alignment explanation
Indices: 93487--93538 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
93477 TAAATTACTG
*
93487 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTAC
** *
93503 ATTACAACTCTATTAA
1 ATTACAGTTCTATTAC
* *
93519 ATTACAGTTCCATTTC
1 ATTACAGTTCTATTAC
93535 ATTA
1 ATTA
93539 TATTGAACTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGTTCTATTAC
Found at i:96699 original size:21 final size:19
Alignment explanation
Indices: 96675--96715 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
96665 TTGTTAATTG
96675 AAGATTAATGAATAATTAAAT
1 AAGATTAA--AATAATTAAAT
*
96696 AAGATTAAACTAATTAAAT
1 AAGATTAAAATAATTAAAT
96715 A
1 A
96716 TGTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
AAGATTAAAATAATTAAAT
Found at i:97812 original size:19 final size:19
Alignment explanation
Indices: 97776--97886 Score: 80
Period size: 19 Copynumber: 5.9 Consensus size: 19
97766 GTACGGGTTT
*
97776 ATGCGCTT-ATGCGCCAGG
1 ATGCGCTTCGTGCGCCAGG
*
97794 ATGCGCTTCGTGCGTCAGG
1 ATGCGCTTCGTGCGCCAGG
* * *
97813 ATGCACTTCCTGTGCCAGG
1 ATGCGCTTCGTGCGCCAGG
* * * *
97832 ATACGCTTTGTGCACTAGG
1 ATGCGCTTCGTGCGCCAGG
* * * *
97851 ATGCACTTTGTGCGACAAG
1 ATGCGCTTCGTGCGCCAGG
* *
97870 ATGCACTTCATGCGCCA
1 ATGCGCTTCGTGCGCCA
97887 ATATTCACTA
Statistics
Matches: 70, Mismatches: 22, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
18 8 0.11
19 62 0.89
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (19 bp):
ATGCGCTTCGTGCGCCAGG
Found at i:99640 original size:21 final size:21
Alignment explanation
Indices: 99614--99669 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
99604 TGTGGTCCAA
99614 GGGACACGCCCGTGTGACCCT
1 GGGACACGCCCGTGTGACCCT
*
99635 GGGACACGTCCGTGTGACCCT
1 GGGACACGCCCGTGTGACCCT
99656 GGGACACGCCCGTG
1 GGGACACGCCCGTG
99670 CTGGAGGCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.14, C:0.36, G:0.36, T:0.14
Consensus pattern (21 bp):
GGGACACGCCCGTGTGACCCT
Found at i:99863 original size:42 final size:42
Alignment explanation
Indices: 99785--99865 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
99775 GTGCAGGTTT
* * * *
99785 CACACGGCTAAGACACATGCCCGTGTTGTAGGCCGTGTGGCA
1 CACACGGCTAAGACACAAGCCCATGTTCTAGCCCGTGTGGCA
*
99827 CACACGGCTGAGACACAAGCCCATGTCTCT-GCCCGTGTG
1 CACACGGCTAAGACACAAGCCCATGT-TCTAGCCCGTGTG
99866 CTCAATTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.21, C:0.32, G:0.28, T:0.19
Consensus pattern (42 bp):
CACACGGCTAAGACACAAGCCCATGTTCTAGCCCGTGTGGCA
Found at i:104776 original size:46 final size:46
Alignment explanation
Indices: 104709--105064 Score: 471
Period size: 46 Copynumber: 7.7 Consensus size: 46
104699 GCTTTCTGAA
* * *
104709 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
104755 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** ** *
104801 GGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGAT
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
104848 ATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
104894 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
104940 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
104986 GGGAAAATGAATAAGACCATGGTTGGAAGATACCATGGCAACATGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
105033 A-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATAC
105065 TATGACATTA
Statistics
Matches: 275, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
46 194 0.71
47 81 0.29
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:104829 original size:93 final size:93
Alignment explanation
Indices: 104712--105064 Score: 539
Period size: 93 Copynumber: 3.8 Consensus size: 93
104702 TTCTGAAATG
* *
104712 AAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGT
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGT
104777 TGAAAGATACCATGGCAACATGACGGGA
66 TGAAAGATACCATGGCAACATGACGGGA
** * * *
104805 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGTGTAAGATCATGGT
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGT
* ***
104870 TGAAAGATACCATGGCAACGTGATATG-
66 TGAAAGATACCATGGCAACATGACGGGA
104897 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGT
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGT
104962 TGAAAGATACCATGGCAACATGACGGGA
66 TGAAAGATACCATGGCAACATGACGGGA
* * * * *
104990 AAATGAATAAGACCATGGTTGGAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAG
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAGTAAGACCATGG
105054 TTGAAAGATAC
65 TTGAAAGATAC
105065 TATGACATTA
Statistics
Matches: 235, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
92 84 0.36
93 151 0.64
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (93 bp):
AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACGGGA
Found at i:105059 original size:185 final size:185
Alignment explanation
Indices: 104709--105064 Score: 597
Period size: 185 Copynumber: 1.9 Consensus size: 185
104699 GCTTTCTGAA
*
104709 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCAT
1 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCAT
104774 GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGG
66 GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGG
** * * * * * *
104839 CAATGTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACGTGAT
131 CAACATGACATGAAACGAGTAAAACCATAGTTGAAAGATACCATGGCAACGTGAT
*
104894 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCAT
1 ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCAT
*
104959 GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGGAAGATACCATGG
66 GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGG
105024 CAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
131 CAACATGACATG-AAACGAGTAAAACCATAGTTGAAAGATAC
105065 TATGACATTA
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
184 1 0.01
185 158 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (185 bp):
ATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGG
CAACATGACATGAAACGAGTAAAACCATAGTTGAAAGATACCATGGCAACGTGAT
Found at i:109268 original size:35 final size:35
Alignment explanation
Indices: 109229--109299 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
109219 GAGTGAGCTT
109229 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
1 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
109264 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
1 TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
109299 T
1 T
109300 CATCATGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (35 bp):
TTTCACTCTTAAGCAACTCAAGTTTCTTTCCATGA
Found at i:119018 original size:49 final size:47
Alignment explanation
Indices: 118941--119075 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 47
118931 AGAAATTTCA
* * *
118941 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAA-AAACTACGTG
1 GCACTATGTGTGCGAGATTA-ACAGCACTATGTGTGCAAGAAA--ACGTG
* *
118990 GCACTATGTGTGCGAGATTACATAGCACTATGTGTGCAAGGAAACGTG
1 GCACTATGTGTGCGAGATTA-ACAGCACTATGTGTGCAAGAAAACGTG
* *
119038 GCACTATGTGTGCGAATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCG-A-GATTAACAGCACTATGTGTGC
119076 GGACCTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 19 0.25
49 50 0.67
50 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTAACAGCACTATGTGTGCAAGAAAACGTG
Found at i:119022 original size:24 final size:24
Alignment explanation
Indices: 118940--119076 Score: 98
Period size: 24 Copynumber: 5.6 Consensus size: 24
118930 AAGAAATTTC
* * *
118940 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACGT
* * * *
118964 GGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-GAGATTACGT
* *
118989 GGCACTATGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACGT
* *
119013 AGCACTATGTGTGCAAGGA-AACGT
1 AGCACTATGTGTGCGA-GATTACGT
* * *
119037 GGCACTATGTGTGCGAATGAGTAAG-
1 AGCACTATGTGTGCG-A-GATTACGT
119062 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
119077 GACCTTTAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
24 49 0.56
25 37 0.42
26 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACGT
Found at i:121170 original size:46 final size:46
Alignment explanation
Indices: 121103--121196 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
121093 ACTTGTAGCT
121103 TCCATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTG
1 TCCATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTG
121149 TCCATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTG
1 TCCATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTG
121195 TC
1 TC
121197 TTTAGAGTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.39
Consensus pattern (46 bp):
TCCATATTGGATATCTTGAGGATCTTCTCTCTTAGTGGTAAAACTG
Found at i:122225 original size:20 final size:20
Alignment explanation
Indices: 122177--122255 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
122167 GACTTGCTTG
*
122177 AAAATCATTTTGA-TGTG-TT
1 AAAATCATTTTCACT-TGATT
* *
122196 AAAATGATTTTAACTTGATT
1 AAAATCATTTTCACTTGATT
* *
122216 GAAATCATTTTCACTTGGTT
1 AAAATCATTTTCACTTGATT
*
122236 AAAATCATTTGCACTTGATT
1 AAAATCATTTTCACTTGATT
122256 CTAAAATTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (20 bp):
AAAATCATTTTCACTTGATT
Found at i:122237 original size:40 final size:40
Alignment explanation
Indices: 122168--122255 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
122158 AGAAATTCTG
* * * *
122168 ACTTGCTTGAAAATCATTTTGATGTGTTAAAATGATTTTA
1 ACTTGATTGAAAATCATTTTCATGTGTTAAAATCATTTGA
*
122208 ACTTGATTG-AAATCATTTTCACT-TGGTTAAAATCATTTGC
1 ACTTGATTGAAAATCATTTTCA-TGT-GTTAAAATCATTTGA
122248 ACTTGATT
1 ACTTGATT
122256 CTAAAATTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 12 0.29
40 29 0.71
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (40 bp):
ACTTGATTGAAAATCATTTTCATGTGTTAAAATCATTTGA
Found at i:126716 original size:28 final size:28
Alignment explanation
Indices: 126650--126777 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
126640 CATGAGATTG
* * **
126650 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
126679 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
126707 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
126736 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
126764 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
126778 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:126739 original size:57 final size:57
Alignment explanation
Indices: 126650--126777 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
126640 CATGAGATTG
*
126650 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
126707 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
126764 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
126778 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:128426 original size:27 final size:27
Alignment explanation
Indices: 128396--128579 Score: 260
Period size: 27 Copynumber: 6.8 Consensus size: 27
128386 ATTACCAAAG
*
128396 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
128423 TACCCTCGATTTACTAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
128450 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
128477 TACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
128504 TACCCTCGATTTATAAAATTACGGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
128531 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
128558 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
128580 TAAAATACCC
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:128497 original size:81 final size:81
Alignment explanation
Indices: 128377--128579 Score: 291
Period size: 81 Copynumber: 2.5 Consensus size: 81
128367 AATGTCATCC
* ***
128377 ATTTGTAAAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACT-AAA
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTA-TAAAA
*
128441 TTACCGTTTTACCCTCG
65 TTACCGTTTTACCCTCA
* *
128458 ATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTATAAAAT
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTATAAAAT
*
128523 TACGGTTTTACCCTCA
66 TACCGTTTTACCCTCA
* * *
128539 ATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTAC
128580 TAAAATACCC
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 107 0.99
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (81 bp):
ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTATAAAAT
TACCGTTTTACCCTCA
Found at i:128603 original size:81 final size:79
Alignment explanation
Indices: 128377--128607 Score: 264
Period size: 81 Copynumber: 2.8 Consensus size: 79
128367 AATGTCATCC
* *** *
128377 ATTTGTAAAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACTAAAT
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTA-C-TTTTACCCTCGATTTACAAAAT
*
128442 TACCGTTTTACCCTCG
64 TACCGTTTTACCCTCA
* *
128458 ATTTATAAAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTATAAAAT
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTA-C-TTTTACCCTCGATTTACAAAAT
*
128523 TACGGTTTTACCCTCA
64 TACCGTTTTACCCTCA
* * * ** * *
128539 ATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAAT
1 ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACT--TTTACCCTCGATTTACAAAAT
128604 TACC
64 TACC
128608 AAAATACCCC
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 126 0.98
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (79 bp):
ATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACTTTTACCCTCGATTTACAAAATTA
CCGTTTTACCCTCA
Found at i:128747 original size:29 final size:28
Alignment explanation
Indices: 128702--128783 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
128692 ATACACCTAA
*
128702 TTTAAAAAATTACAGAAATACCCTTGAC
1 TTTAAAAAATTATAGAAATACCCTTGAC
* *
128730 TTTCAAAAAATTATAGAAATACCATT-AG
1 TTT-AAAAAATTATAGAAATACCCTTGAC
*
128758 TTTACAAAATTACT-GAAATACCCTTG
1 TTTAAAAAATTA-TAGAAATACCCTTG
128784 GTTTGTAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 18 0.39
28 8 0.17
29 20 0.43
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (28 bp):
TTTAAAAAATTATAGAAATACCCTTGAC
Found at i:128787 original size:27 final size:27
Alignment explanation
Indices: 128558--128787 Score: 144
Period size: 27 Copynumber: 8.4 Consensus size: 27
128548 ATTACCGTTT
* *
128558 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
128585 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
128612 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** *
128639 TACCAC-TGGTTTGTGAAATTACTGAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** ** *
128666 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
** *
128693 TACACC-TAATTTAAAAAATTAC-AGAAA
1 TAC-CCTTGGTTTACAAAATTACTA-AAA
* *
128720 TACCCTTGACTTTCAAAAAATTA-TAGAAA
1 TACCCTTG-GTTT-ACAAAATTACTA-AAA
* * *
128749 TACCATTAGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
128776 TACCCTTGGTTT
1 TACCCTTGGTTT
128788 GTAGATTTAC
Statistics
Matches: 165, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.02
27 131 0.79
28 10 0.06
29 20 0.12
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:128915 original size:26 final size:26
Alignment explanation
Indices: 128828--128909 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
128818 AAATGACTAA
* *
128828 AATACCCCT-AATAGGTAAAAAGACCG
1 AATACCCCTGTAT-GGTAAAATGACCG
* * *
128854 TAA-AGCCCCTGTAGGGTAAAGTGACCT
1 -AATA-CCCCTGTATGGTAAAATGACCG
128881 AATACCCCTGTATGGTAAAATGA-CG
1 AATACCCCTGTATGGTAAAATGACCG
128906 AATA
1 AATA
128910 TGCCCTTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
25 5 0.11
26 20 0.45
27 18 0.41
28 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (26 bp):
AATACCCCTGTATGGTAAAATGACCG
Found at i:129265 original size:17 final size:19
Alignment explanation
Indices: 129224--129268 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
129214 ATGGTAAGTT
129224 GGGCCTCAATGGGCTATAATC
1 GGGCC-CAATGGGCTAT-ATC
129245 GGGCCCAATGGGCT-T-TC
1 GGGCCCAATGGGCTATATC
129262 GGGCCCA
1 GGGCCCA
129269 TTTGGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.38
19 1 0.04
20 9 0.38
21 5 0.21
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (19 bp):
GGGCCCAATGGGCTATATC
Found at i:129752 original size:25 final size:24
Alignment explanation
Indices: 129714--129783 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
129704 AGGAAGTGCT
* *
129714 AAAAGGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCC-CAGTTTACCA
*
129739 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCC-AGTTTACCA
129764 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTG-CCCAGTT
129784 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.90
26 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCAGTTTACCA
Found at i:129796 original size:24 final size:24
Alignment explanation
Indices: 129739--129810 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
129729 CAGTTTACCG
*
129739 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
129763 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
129787 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
129811 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:130052 original size:31 final size:31
Alignment explanation
Indices: 130004--130084 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
129994 GCTTACAGTC
*
130004 AAGGCTTCAG-CCAGTGATATCATTTATGAA
1 AAGGCTTCGGCCCAGTGATATCATTTATGAA
*
130034 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATCATTTATGAA
130065 AAGGCTTCGGCCCAGT-ATAT
1 AAGGCTTCGGCCCAGTGATAT
130085 GTCGAGACTG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 13 0.27
31 35 0.73
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATCATTTATGAA
Found at i:133460 original size:15 final size:17
Alignment explanation
Indices: 133440--133472 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
133430 TATCATTATG
133440 GATTCGTT-CGGC-AAA
1 GATTCGTTACGGCGAAA
133455 GATTCGTTACGGCGAAA
1 GATTCGTTACGGCGAAA
133472 G
1 G
133473 TCCCGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (17 bp):
GATTCGTTACGGCGAAA
Found at i:137246 original size:47 final size:46
Alignment explanation
Indices: 137097--137271 Score: 151
Period size: 47 Copynumber: 3.8 Consensus size: 46
137087 CATTTGTTTG
* * * *
137097 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACA
1 TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCAAGATA
* * * *
137143 TAAGTCAGTGTAAGACATGTC-AAGACATGCATC-AGCTACAAGATGA
1 TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCT-CAAGAT-A
* * **
137189 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTTAGATA
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACCTCAAGATA
*
137235 TGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCG
1 TGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG
137272 GCACCTTACC
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 3 0.03
45 27 0.25
46 28 0.26
47 41 0.38
48 7 0.07
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (46 bp):
TGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCAAGATA
Found at i:138989 original size:9 final size:9
Alignment explanation
Indices: 138962--138992 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
138952 AACCCAAACA
138962 CTCCACCTC
1 CTCCACCTC
*
138971 ATCCACCTC
1 CTCCACCTC
138980 CTCCACCTC
1 CTCCACCTC
138989 CTCC
1 CTCC
138993 GATTCCTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.65, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCCACCTC
Found at i:147384 original size:56 final size:56
Alignment explanation
Indices: 147294--147551 Score: 358
Period size: 56 Copynumber: 4.6 Consensus size: 56
147284 GTATATGTGA
* *
147294 CATCGATATGTGACTCTAATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * * *
147350 CATCGATATGTGATTCTGGTATATGTGTGTGAGTAAGTCCACG-CTACATACGTCGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGG
* * *
147406 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACATTTAATATGTTGG
1 CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
*
147462 CATCGATATGTGATT-TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
1 CATCGATATGTGATTCT-GATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * * *
147518 CATCAATATGTAATTCCGATATATGTGTACGAGT
1 CATCGATATGTGATTCTGATATATGTGTGCGAGT
147552 GAGACCCTGT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
55 3 0.02
56 172 0.97
57 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (56 bp):
CATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
Found at i:149660 original size:23 final size:22
Alignment explanation
Indices: 149626--149668 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
149616 GCTAATGTCG
149626 TATATTTGAAATTGTTGATATAT
1 TATATTTGAAATTGTT-ATATAT
*
149649 TATATTTTAAATTGTTATAT
1 TATATTTGAAATTGTTATAT
149669 GTGAACGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (22 bp):
TATATTTGAAATTGTTATATAT
Found at i:154079 original size:109 final size:111
Alignment explanation
Indices: 153942--154196 Score: 347
Period size: 109 Copynumber: 2.3 Consensus size: 111
153932 GTATATGTGA
* *
153942 CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACGTTTAATGCATTGGCATCGATA-
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACATTGGCATCGATAG
* ** * *
154006 T-GTTCTGGTATATGTGTGTGAGTAAG-TC-CATGTTACATACGTTGG
66 TGGTTCTGATATATGTGTGCAAGGAAGACCACAT-TTA-ATACGTTGG
* *
154051 CATCGATATGTGACTCTAATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCGATAT
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACATTGGCATCGATA-
154116 GTGGTTCTGATATATGTGTGCAAGGAAGACCACATTTAATACGTTGG
65 GTGGTTCTGATATATGTGTGCAAGGAAGACCACATTTAATACGTTGG
* * *
154163 CATCGATATGTAATTCTGATATATGTGTACGAGT
1 CATCGATATGTGACTCTGATATATGTGTGCGAGT
154197 GAGACCCTGT
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
109 60 0.47
111 1 0.01
112 60 0.47
113 4 0.03
114 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (111 bp):
CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACATTGGCATCGATAG
TGGTTCTGATATATGTGTGCAAGGAAGACCACATTTAATACGTTGG
Found at i:154088 original size:56 final size:56
Alignment explanation
Indices: 153942--154196 Score: 329
Period size: 56 Copynumber: 4.6 Consensus size: 56
153932 GTATATGTGA
* * *
153942 CATCGATATGTGACTCTGATATATGTGTGTGAGTAAGTCCACGTTTAATGCATTGG
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * *
153998 CATCGATATGT---TCTGGTATATGTGTGTGAGTAAGTCCATG-TTACATACGTTGG
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGG
*
154051 CATCGATATGTGACTCTAATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
** * * * *
154107 CATCGATATGTGGTTCTGATATATGTGTGCAAGGAAGACCACATTTAATACGTTGG
1 CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
* * *
154163 CATCGATATGTAATTCTGATATATGTGTACGAGT
1 CATCGATATGTGACTCTGATATATGTGTGCGAGT
154197 GAGACCCTGT
Statistics
Matches: 174, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.02
53 45 0.26
56 123 0.71
57 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
CATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGG
Found at i:158727 original size:46 final size:47
Alignment explanation
Indices: 158578--158846 Score: 230
Period size: 46 Copynumber: 5.7 Consensus size: 47
158568 ATTTGTTTGT
* * *
158578 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGA-GATGA
* * * ** *
158624 GAGCCAGTGTAAGACCATTTCTAGGACATGGCATCAGCATTAAGACGA
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCGAGATGA
* * *
158672 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGAGATG-A
* *
158719 -AGCCAGTGTAAGA-CATGTTTAGGACATGTATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCT-CGAGATGA
* * * * * * *
158764 TAGTCAATGTAAGACCATGTCTGGGACATGGCAT-TGACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCGAGATGA
158810 TGAGCCAGTGTAAGACCATGTCTAGGACATGCCATCG
1 -GAGCCAGTGTAAGACCATGTCTAGGACATG-CATCG
158847 ATACCTTACC
Statistics
Matches: 179, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 75 0.42
47 72 0.40
48 28 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGAGATGA
Found at i:158838 original size:140 final size:141
Alignment explanation
Indices: 158583--158846 Score: 331
Period size: 140 Copynumber: 1.9 Consensus size: 141
158573 TTTGTGAGCT
* * *
158583 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATTTCTAG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTAG
* *
158648 GACATGGCATCAGCATTAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCG
66 GACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCCATCGGCCTCG
158712 AGACGTAAGCC
131 AGACGTAAGCC
* * * * * *
158723 AGTGTAAGACATGTTTAGGACATGTATCGGCTACGA-GATGATAGTCAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGCCAATGTAAGACCATGTCTA
* * *
158787 GGACATGGCAT-TG-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATGCCATCG
65 GGACATGGCATCAGCA-TTAAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGACATGCCATCG
158847 ATACCTTACC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 78 0.74
141 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGTCTAG
GACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCCATCGGCCTCG
AGACGTAAGCC
Found at i:160374 original size:19 final size:19
Alignment explanation
Indices: 160350--160387 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
160340 TGGAAAGAGA
160350 AAGGAGATAAGGATTTCTT
1 AAGGAGATAAGGATTTCTT
160369 AAGGAGATAAGGATTTCTT
1 AAGGAGATAAGGATTTCTT
160388 GAAAAACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (19 bp):
AAGGAGATAAGGATTTCTT
Found at i:163773 original size:40 final size:40
Alignment explanation
Indices: 163718--163972 Score: 190
Period size: 40 Copynumber: 6.2 Consensus size: 40
163708 TATCTCACAT
* * *
163718 ACTAAGTACCGTACATAGCCGAAGCTATTTCAAGTCGCAC
1 ACTAAGTGCCTTACATAGCCGAAGCTATTTCAAATCGCAC
* * **
163758 ACTAAGCGCCTTACATAGCC-AATGCTATCTCATTTCTCGCAC
1 ACTAAGTGCCTTACATAGCCGAA-GCTATTTCA--AATCGCAC
* *
163800 ACTAAGTGCCGTACATAGCCGAAGTTATTTCAAATCGCAC
1 ACTAAGTGCCTTACATAGCCGAAGCTATTTCAAATCGCAC
* * * **
163840 ACTAAGTGCCTTACGTAGCAGAAGCTATCTCATTTCTCGCAC
1 ACTAAGTGCCTTACATAGCCGAAGCTATTTCA--AATCGCAC
* ** * * *
163882 ACTAAGTGCCATATGTAGCTGAAGCTATCTC-ATTCCTGCAC
1 ACTAAGTGCCTTACATAGCCGAAGCTATTTCAAAT-C-GCAC
* * * * * * *
163923 ATTAAGTGTCATATATAGCAGAAGCTATCTCAAATTGCAC
1 ACTAAGTGCCTTACATAGCCGAAGCTATTTCAAATCGCAC
163963 ACTAAGTGCC
1 ACTAAGTGCC
163973 ACAAGTAGCC
Statistics
Matches: 174, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 71 0.41
41 31 0.18
42 67 0.39
43 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (40 bp):
ACTAAGTGCCTTACATAGCCGAAGCTATTTCAAATCGCAC
Found at i:163867 original size:82 final size:82
Alignment explanation
Indices: 163718--163909 Score: 278
Period size: 82 Copynumber: 2.3 Consensus size: 82
163708 TATCTCACAT
* * *
163718 ACTAAGTACCGTACATAGCCGAAGCTATTTCAAGTCGCACACTAAGCGCCTTACATAGCCAATGC
1 ACTAAGTGCCGTACATAGCCGAAGCTATTTCAAATCGCACACTAAGCGCCTTACATAGCCAAAGC
163783 TATCTCATTTCTCGCAC
66 TATCTCATTTCTCGCAC
* * *
163800 ACTAAGTGCCGTACATAGCCGAAGTTATTTCAAATCGCACACTAAGTGCCTTACGTAG-CAGAAG
1 ACTAAGTGCCGTACATAGCCGAAGCTATTTCAAATCGCACACTAAGCGCCTTACATAGCCA-AAG
163864 CTATCTCATTTCTCGCAC
65 CTATCTCATTTCTCGCAC
* ** *
163882 ACTAAGTGCCATATGTAGCTGAAGCTAT
1 ACTAAGTGCCGTACATAGCCGAAGCTAT
163910 CTCATTCCTG
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 2 0.02
82 96 0.98
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (82 bp):
ACTAAGTGCCGTACATAGCCGAAGCTATTTCAAATCGCACACTAAGCGCCTTACATAGCCAAAGC
TATCTCATTTCTCGCAC
Found at i:163936 original size:41 final size:42
Alignment explanation
Indices: 163781--163954 Score: 183
Period size: 42 Copynumber: 4.2 Consensus size: 42
163771 CATAGCCAAT
* * ** *
163781 GCTATCTCATTTCTCGCACACTAAGTGCCGTACATAGCCGAA
1 GCTATCTCATTCCTCGCACACTAAGTGCCATATGTAGCAGAA
* * ** * *
163823 GTTATTTCA--AATCGCACACTAAGTGCCTTACGTAGCAGAA
1 GCTATCTCATTCCTCGCACACTAAGTGCCATATGTAGCAGAA
* *
163863 GCTATCTCATTTCTCGCACACTAAGTGCCATATGTAGCTGAA
1 GCTATCTCATTCCTCGCACACTAAGTGCCATATGTAGCAGAA
* * *
163905 GCTATCTCATTCCT-GCACATTAAGTGTCATATATAGCAGAA
1 GCTATCTCATTCCTCGCACACTAAGTGCCATATGTAGCAGAA
163946 GCTATCTCA
1 GCTATCTCA
163955 AATTGCACAC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 33 0.30
41 32 0.29
42 46 0.41
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
GCTATCTCATTCCTCGCACACTAAGTGCCATATGTAGCAGAA
Found at i:165299 original size:39 final size:39
Alignment explanation
Indices: 165240--165431 Score: 339
Period size: 39 Copynumber: 4.9 Consensus size: 39
165230 ATTTGATGTG
*
165240 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAGTTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
165279 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
165318 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
165357 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
165396 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
165432 ATATGGCCGG
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:165455 original size:39 final size:39
Alignment explanation
Indices: 165243--165468 Score: 184
Period size: 39 Copynumber: 5.8 Consensus size: 39
165233 TGATGTGTAT
** * ** *
165243 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAGTTATAT
1 CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
* ** * * *
165282 CTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
* ** * * *
165321 CCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
** * * *
165360 CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
* *
165399 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGG
1 CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
* * *
165438 CCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 CCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
165469 TATTATACTG
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
38 5 0.03
39 167 0.97
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (39 bp):
CCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATAG
Found at i:165455 original size:117 final size:117
Alignment explanation
Indices: 165240--165459 Score: 325
Period size: 117 Copynumber: 1.9 Consensus size: 117
165230 ATTTGATGTG
* * *
165240 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAGTTATATCTGGACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
* * * **
165305 TGTGCTGGAATTATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
66 CGTGCTGGAAATATAGCCAGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
165357 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
* * *
165422 CGTGCTGGAAATATGGCCGGGC-TAAAGTCCCGCAGGCT
66 CGTGCTGGAAATATAGCCAGACTTAAAGT-CCGCAGGCT
165460 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
116 4 0.04
117 87 0.96
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (117 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATATAGCCAGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
Found at i:165495 original size:117 final size:117
Alignment explanation
Indices: 165240--165511 Score: 291
Period size: 117 Copynumber: 2.3 Consensus size: 117
165230 ATTTGATGTG
** * * *
165240 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAGTTATATCTGGACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
* * * ** *
165305 TGTGCTGGAATTATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
66 CGTGCTGGAAATATAGCCAGACTTAAAGTCCGCAGGCTATGAGCTGGAATTA
**
165357 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
* * * *
165422 CGTGCTGGAAATATGGCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTATTA
66 CGTGCTGGAAATATAGCCAGACTTAAAGT-CCGCAGGCTAT-GAGCTGGAATTA
* ** *
165474 TA-CTGGGTTTAAATTCTCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGACTTAAAGTC-CGCAGGCTATGTGCTGG-AATT
165512 GGTTTCAAGT
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
116 21 0.16
117 111 0.84
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (117 bp):
TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATATAGCCAGACTTAAAGTCCGCAGGCTATGAGCTGGAATTA
Found at i:167541 original size:27 final size:27
Alignment explanation
Indices: 167511--167688 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
167501 ATATTGAGTC
* * * *
167511 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
167538 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
167565 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
167593 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
167620 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
167647 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
167674 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
167689 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:167650 original size:82 final size:81
Alignment explanation
Indices: 167532--167687 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
167522 TGCTATATAA
* *
167532 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
167597 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
167614 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
167678 CACTTAGTGC
65 CACTTAGTGC
167688 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:169847 original size:12 final size:12
Alignment explanation
Indices: 169830--169861 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
169820 TCTCCAAGTG
169830 ACACTTTAAGAA
1 ACACTTTAAGAA
169842 ACACTTTAAGAA
1 ACACTTTAAGAA
169854 ACACTTTA
1 ACACTTTA
169862 TCTCCCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (12 bp):
ACACTTTAAGAA
Done.