Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 338 of 349
Found at i:111810370 original size:86 final size:86
Alignment explanation
Indices: 111810267--111810506 Score: 302
Period size: 86 Copynumber: 2.8 Consensus size: 86
111810257 TAGCCTGTTA
** * * * * *
111810267 CCCTACTATTTAGGGGTTTAGATCTATAAATTCAGCCTGTTATCCTACTGCTTAGGGGTTTGAGG
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
**
111810332 CCCATCGTCGTCGATCTG-CT
66 CCCATCACCGTCGATCTGTCT
*
111810352 CCACTACTGCTTAGGGGTTAAGATTTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CC-CTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
** * *
111810417 TACCATCACCTTCGATCTGTTT
65 GCCCATCACCGTCGATCTGTCT
* * *
111810439 TCTTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
111810504 GCC
65 GCC
111810507 TGTGAATTTA
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
85 2 0.02
86 77 0.58
87 53 0.40
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (86 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
CCCATCACCGTCGATCTGTCT
Found at i:111810399 original size:215 final size:216
Alignment explanation
Indices: 111810050--111810501 Score: 586
Period size: 215 Copynumber: 2.1 Consensus size: 216
111810040 CAATCTATTT
* * * * *
111810050 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTACCCTACTACTTAGGGGTTTAAG
1 CCCTACTACTTAGGG-GTTTAGATCTATAAATTCAGCCTATTACCCTACTACTTAGGGGTTTAAG
* * * * *
111810115 GCCCTTCGTCTTCGATTTGTTTCCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCTTGTTA
65 GCCCATCGTCGTCGATCTGTCTCCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCCTGTTA
* * *
111810180 CCCTACTGCTTAGGGATTTAAGGCCCTTCATCGTCGATCTG-CTCCACTACTGCTTAGGGGGTTA
130 CCCTACTGCTTAGGGATTTAAGGACCATCACCGTCGATCTGTCTCC-CTACTGCTTAGGGGGTTA
*
111810244 AAATCTGTAAATTTAGCCTGTTA
194 AAATCTGTAAATTTAACCTGTTA
* * * * *
111810267 CCCTACTATTTAGGGGTTTAGATCTATAAATTCAGCCTGTTATCCTACTGCTTAGGGGTTTGAGG
1 CCCTACTACTTAGGGGTTTAGATCTATAAATTCAGCCTATTACCCTACTACTTAGGGGTTTAAGG
* * *
111810332 CCCATCGTCGTCGATCTG-CTCCACTACTGCTTAGGG-GTTAAGATTTGTAAATTTAGCCTGTTA
66 CCCATCGTCGTCGATCTGTCTCC-CTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCCTGTTA
* * * * * *
111810395 CCCTACTGCTTAGGGGTTTAAGTACCATCACCTTCGATCTGTTTTCTTACTGCTTAGGGGGTTAA
130 CCCTACTGCTTAGGGATTTAAGGACCATCACCGTCGATCTGTCTCCCTACTGCTTAGGGGGTTAA
*
111810460 GATCTGTAAATTTAACCTGTTA
195 AATCTGTAAATTTAACCTGTTA
*
111810482 CCCTACTGCTTAGGGGTTTA
1 CCCTACTACTTAGGGGTTTA
111810502 AGGCCTGTGA
Statistics
Matches: 202, Mismatches: 31, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
215 118 0.58
216 71 0.35
217 13 0.06
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (216 bp):
CCCTACTACTTAGGGGTTTAGATCTATAAATTCAGCCTATTACCCTACTACTTAGGGGTTTAAGG
CCCATCGTCGTCGATCTGTCTCCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCCTGTTAC
CCTACTGCTTAGGGATTTAAGGACCATCACCGTCGATCTGTCTCCCTACTGCTTAGGGGGTTAAA
ATCTGTAAATTTAACCTGTTA
Found at i:111810412 original size:42 final size:42
Alignment explanation
Indices: 111810050--111810499 Score: 200
Period size: 43 Copynumber: 10.4 Consensus size: 42
111810040 CAATCTATTT
* *
111810050 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTA
1 CCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGCCTGTTA
* ** ** * ** *
111810093 CCCTACTACTTAGGGGTTTAAGGCCCT-T-CGTCTTCGATTTGTTT
1 CCCTACTGCTTAGGGG-TTAA-GATCTGTAAAT-TTAG-CCTGTTA
* * *
111810137 CCCTACTGCTGAGGGTGATAAGATCTGTAAATTTAGCTTGTTA
1 CCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGCCTGTTA
* ** * * * * *
111810180 CCCTACTGCTTAGGGATTTAAGGCCCT-T-CATCGTCGATCTGCT-
1 CCCTACTGCTTAGGG-GTTAA-GATCTGTAAAT-TTAG-CCTGTTA
*
111810223 CCACTACTGCTTAGGGGGTTAAAATCTGTAAATTTAGCCTGTTA
1 CC-CTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGCCTGTTA
** * * *
111810267 CCCTACTATTTAGGGGTTTAGATCTATAAATTCAGCCTGTTA
1 CCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTA
* * ** ** * *
111810309 TCCTACTGCTTAGGGGTTTGAGGCCCATC-GT-CGTCGA-TCTGCT-
1 CCCTACTGCTTAGGGG-TT-AAG---ATCTGTAAATTTAGCCTGTTA
*
111810352 CCACTACTGCTTAGGGGTTAAGATTTGTAAATTTAGCCTGTTA
1 CC-CTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTA
** * ** * * *
111810395 CCCTACTGCTTAGGGGTTTAAG-TACCATCACCTTCGATCTGTTT
1 CCCTACTGCTTAGGGG-TTAAGAT-CTGTAAATTTAG-CCTGTTA
* * *
111810439 TCTTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGTTA
1 CCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGCCTGTTA
111810482 CCCTACTGCTTAGGGGTT
1 CCCTACTGCTTAGGGGTT
111810500 TAAGGCCTGT
Statistics
Matches: 286, Mismatches: 91, Indels: 61
0.65 0.21 0.14
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 2 0.01
42 70 0.24
43 97 0.34
44 95 0.33
45 14 0.05
46 1 0.00
47 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTA
Found at i:111811728 original size:30 final size:30
Alignment explanation
Indices: 111811694--111811779 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
111811684 AAAACCCTAG
*
111811694 CCACCTTGCCTCCCACTTGCATCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
111811724 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
111811754 CCACCTTGTCTCACACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
111811780 ACCATCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:111812356 original size:3 final size:3
Alignment explanation
Indices: 111812350--111812401 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
111812340 TTCTGACTAC
*
111812350 TAT TAT TA- TAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
111812396 TAT TAT
1 TAT TAT
111812402 CACCCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 33 0.77
4 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:111821080 original size:52 final size:49
Alignment explanation
Indices: 111820995--111821361 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
111820985 TTTGAGTACT
* **
111820995 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
111821041 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111821093 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111821139 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
111821185 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111821237 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
111821289 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111821335 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
111821362 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:111821115 original size:98 final size:97
Alignment explanation
Indices: 111820995--111821361 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
111820985 TTTGAGTACT
* *
111820995 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
111821060 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
111821093 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
111821153 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
111821185 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
111821250 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
111821289 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
111821354 GATAAGTG
65 GA-AAGTG
111821362 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:111821343 original size:196 final size:196
Alignment explanation
Indices: 111821009--111821361 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
111820999 ATCAAGTGAT
* * *
111821009 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
111821074 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
111821139 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
111821204 G
196 G
* *
111821205 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
111821270 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
111821335 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
111821362 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:111821369 original size:37 final size:37
Alignment explanation
Indices: 111821325--111821470 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
111821315 GATAGCTTTA
*
111821325 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
111821362 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
111821399 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
111821436 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
111821471 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:111821398 original size:150 final size:149
Alignment explanation
Indices: 111820995--111821350 Score: 467
Period size: 150 Copynumber: 2.4 Consensus size: 149
111820985 TTTGAGTACT
* * * * *
111820995 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
111821060 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
111821118 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
111821139 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
111821204 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
111821268 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
111821289 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
111821351 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:111823404 original size:21 final size:22
Alignment explanation
Indices: 111823367--111823409 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
111823357 TTGATCCTGC
*
111823367 ATCTCTTTTTGCATTTGTTCCA
1 ATCTCTTTTTGCATTTGGTCCA
*
111823389 ATCTCTTTTT-CCTTTGGTCCA
1 ATCTCTTTTTGCATTTGGTCCA
111823410 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (22 bp):
ATCTCTTTTTGCATTTGGTCCA
Found at i:111823938 original size:22 final size:22
Alignment explanation
Indices: 111823895--111823938 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
111823885 GCAGCGCTGC
* *
111823895 TTTAAGTTCTTCTATCTTCTCT
1 TTTAAGTTCTTCAATCTACTCT
111823917 TTTAA-TTCTTCAACTCTACTCT
1 TTTAAGTTCTTCAA-TCTACTCT
111823939 AACTAGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.18, C:0.25, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAGTTCTTCAATCTACTCT
Found at i:111827556 original size:3 final size:3
Alignment explanation
Indices: 111827548--111827870 Score: 154
Period size: 3 Copynumber: 106.7 Consensus size: 3
111827538 TGGGAAAAAT
* * * *
111827548 ATA ATA ATA AT- ATA ATA ATA ATA TTA GTA ATA A-A A-A AT- AGA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
111827592 ACAA ATA ATA ATA ATA CATTA ATA AAA ATA ATA AGA AT- GTG TTA ATA
1 A-TA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
111827639 ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATAA ATA A-A
1 ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A AT-A ATA ATA
* * * * * *
111827683 CACA AAA ATA A-A AT- ATA ATT ATA ATA GTA ATA TTA ACA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
111827726 ATA GTA GTA ATA ATA ATA ATA ATA CATTA ATA AAA ATA ATA AGA ATGCG
1 ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA AT--A
* *
111827775 TTA ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A AT-A
*
111827820 ATA A-A AT- ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111827866 ATA AT
1 ATA AT
111827871 GTGATAAAGC
Statistics
Matches: 251, Mismatches: 41, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
2 25 0.10
3 184 0.73
4 35 0.14
5 7 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:111827661 original size:16 final size:17
Alignment explanation
Indices: 111827640--111827682 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
111827630 GTGTTAATAA
*
111827640 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
111827656 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
111827672 AAATAAATAAA
1 TAATAAATAAA
111827683 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:111827803 original size:16 final size:17
Alignment explanation
Indices: 111827782--111827826 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
111827772 GCGTTAATAA
*
111827782 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
111827798 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
111827814 AAATAAATAAAAT
1 TAATAAATAAAAT
111827827 ATTATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:111830373 original size:15 final size:15
Alignment explanation
Indices: 111830355--111830393 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
111830345 TTAGTCTTAA
111830355 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
111830370 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
111830385 TTAACTTAA
1 TTAA-TTAA
111830394 ATTTAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:111834273 original size:19 final size:18
Alignment explanation
Indices: 111834219--111834296 Score: 50
Period size: 22 Copynumber: 4.1 Consensus size: 18
111834209 AATTGTCCAT
* *
111834219 TTATAAAATTTTAATAAA
1 TTATAAAAATATAATAAA
*
111834237 TTAAAAAATATTGAATAATAAA
1 TTATAAAA-A-T--ATAATAAA
*
111834259 TTATAAATAATATAAATAAT
1 TTATAAA-AATAT-AATAAA
*
111834279 TTTTAAAAATATAA-AAA
1 TTATAAAAATATAATAAA
111834296 T
1 T
111834297 AATATGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
17 3 0.06
18 9 0.19
19 7 0.15
20 12 0.26
21 1 0.02
22 14 0.30
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (18 bp):
TTATAAAAATATAATAAA
Found at i:111837387 original size:30 final size:31
Alignment explanation
Indices: 111837319--111837379 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
111837309 TTAAAGTAGT
*
111837319 AATGAT-AAAATTGTACTTTAACTCCTCTAA
1 AATGATAAAAATTGTAATTTAACTCCTCTAA
*
111837349 AATGATAAAAATT-TAATTTAA-TCCTTTAA
1 AATGATAAAAATTGTAATTTAACTCCTCTAA
111837378 AA
1 AA
111837380 ATTATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (31 bp):
AATGATAAAAATTGTAATTTAACTCCTCTAA
Found at i:111844701 original size:14 final size:15
Alignment explanation
Indices: 111844682--111844714 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
111844672 AAACTAAAAT
111844682 CATTAAATATTA-CA
1 CATTAAATATTATCA
*
111844696 CATTAAATTTTATCA
1 CATTAAATATTATCA
111844711 CATT
1 CATT
111844715 CATAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (15 bp):
CATTAAATATTATCA
Found at i:111850915 original size:42 final size:42
Alignment explanation
Indices: 111850856--111850941 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
111850846 ATCGAGCTAA
* * *
111850856 TACTCAATTGGTGATGCGTTTTGTTCTTAAATTTAGTTCTTT
1 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAGATCTTT
111850898 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAGATCTTT
1 TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAGATCTTT
111850940 TA
1 TA
111850942 TTTAAAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (42 bp):
TACTCAATTGGTAATGCGTTTTATTCTTAAATTTAGATCTTT
Found at i:111853488 original size:40 final size:40
Alignment explanation
Indices: 111853409--111853519 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
111853399 TTGAAGGAAT
111853409 ATATCCGGGTTAAATCCCGCAGGC-TTGTGCTGGTAATAG
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
111853448 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
* *
111853488 ATATCTGGGTTAAATCCCACAGGCTTTGTGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCT
111853520 AGAAATTGGA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 24 0.35
40 45 0.65
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATAG
Found at i:111855469 original size:13 final size:13
Alignment explanation
Indices: 111855453--111855486 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
111855443 TTATTTTGTT
111855453 TTATTTAGTTTTA
1 TTATTTAGTTTTA
*
111855466 TTATTTATTTTTA
1 TTATTTAGTTTTA
111855479 TTAATTTA
1 TT-ATTTA
111855487 AGATTAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:111858946 original size:25 final size:27
Alignment explanation
Indices: 111858918--111858982 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 27
111858908 TAAAATAAAA
111858918 TAATATATTTATAT-TATTTTTAAT-T
1 TAATATATTTATATATATTTTTAATAT
*
111858943 TAATA-ATTTA-ATATATTTTTTATAT
1 TAATATATTTATATATATTTTTAATAT
*
111858968 TAAAAT-TTTATATAT
1 TAATATATTTATATAT
111858983 GGTCATCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.06
24 14 0.41
25 14 0.41
26 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TAATATATTTATATATATTTTTAATAT
Found at i:111861761 original size:11 final size:11
Alignment explanation
Indices: 111861745--111861774 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
111861735 ACAGTGTTGA
111861745 AAGGAATACTT
1 AAGGAATACTT
111861756 AAGGAATACTT
1 AAGGAATACTT
*
111861767 AACGAATA
1 AAGGAATA
111861775 GGAATACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (11 bp):
AAGGAATACTT
Found at i:111861779 original size:17 final size:17
Alignment explanation
Indices: 111861757--111861791 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
111861747 GGAATACTTA
111861757 AGGAATACTTAACGAAT
1 AGGAATACTTAACGAAT
111861774 AGGAATACTTAACGAAT
1 AGGAATACTTAACGAAT
111861791 A
1 A
111861792 AGAACGGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (17 bp):
AGGAATACTTAACGAAT
Found at i:111868204 original size:17 final size:17
Alignment explanation
Indices: 111868182--111868217 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
111868172 AAAAAAATCG
111868182 TTTAATACATAAATTTA
1 TTTAATACATAAATTTA
*
111868199 TTTAATAGATAAATTTA
1 TTTAATACATAAATTTA
111868216 TT
1 TT
111868218 AAAGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATACATAAATTTA
Found at i:111873290 original size:18 final size:18
Alignment explanation
Indices: 111873264--111873299 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
111873254 AAGTGAAATT
111873264 TTAAAATATAATTTTATA
1 TTAAAATATAATTTTATA
*
111873282 TTAACATATAATTTTATA
1 TTAAAATATAATTTTATA
111873300 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATAATTTTATA
Found at i:111879994 original size:9 final size:9
Alignment explanation
Indices: 111879980--111880011 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
111879970 TTTATAAAAA
111879980 TAATTCGGT
1 TAATTCGGT
*
111879989 TAATTCGGG
1 TAATTCGGT
111879998 TAATTCGGT
1 TAATTCGGT
111880007 TAATT
1 TAATT
111880012 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:111883534 original size:4 final size:4
Alignment explanation
Indices: 111883525--111883555 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
111883515 TTCGGACTAA
111883525 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
111883556 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:111887050 original size:18 final size:18
Alignment explanation
Indices: 111887027--111887084 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
111887017 TAATGACTTG
111887027 TTTTATTAAATTTTAAAA
1 TTTTATTAAATTTTAAAA
* *
111887045 TTTTATGT-ACTTTT-TAA
1 TTTTAT-TAAATTTTAAAA
111887062 TTTTATTAAGATTTTTAAAA
1 TTTTATTAA-A-TTTTAAAA
111887082 TTT
1 TTT
111887085 GTAAGATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 11 0.35
19 5 0.16
20 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTATTAAATTTTAAAA
Found at i:111889284 original size:22 final size:21
Alignment explanation
Indices: 111889226--111889284 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
111889216 ATAATAATAC
*
111889226 ATTAAATTTAAAAAATAAATT
1 ATTAATTTTAAAAAATAAATT
* *
111889247 CTTAATTTAAAGAAAATAAATGT
1 ATTAATTTTAA-AAAATAAAT-T
111889270 AATT-ATTTTAAAAAA
1 -ATTAATTTTAAAAAA
111889285 ATTAACTAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 8 0.27
22 13 0.43
23 7 0.23
24 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (21 bp):
ATTAATTTTAAAAAATAAATT
Found at i:111898229 original size:13 final size:13
Alignment explanation
Indices: 111898211--111898235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111898201 TATGTGATAT
111898211 GTGTGAAAATTTC
1 GTGTGAAAATTTC
111898224 GTGTGAAAATTT
1 GTGTGAAAATTT
111898236 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:111899453 original size:42 final size:43
Alignment explanation
Indices: 111899392--111899490 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 43
111899382 GATTTGAGAT
* * *
111899392 TTACGTGTAAGACCATGTTTAGGACATTGGCGTCG-TATATGA
1 TTACATGTAAGACCATGTTTAGGACAGTGGCATCGATATATGA
* * * *
111899434 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTTTAGGACAGTGGCATCGATATATGA
111899477 TTACATGTAAGACC
1 TTACATGTAAGACC
111899491 TCGTCTGGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTTTAGGACAGTGGCATCGATATATGA
Found at i:111899500 original size:43 final size:43
Alignment explanation
Indices: 111899353--111899509 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
111899343 TGTGATTTTG
* * * * * *
111899353 TGTAAGACCACGTCTGGGATATTGGTATCGAT-TTGAGATTTACG
1 TGTAAGACCTCGTCTGGGACAGTGGCATCGATATT-TGA-TTACA
* * * * * *
111899397 TGTAAGACCAT-GTTTAGGACATTGGCGTCG-TATATGATTTCA
1 TGTAAGACC-TCGTCTGGGACAGTGGCATCGATATTTGATTACA
*
111899439 TGTAAGACC-CTGTTTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCTC-GTCTGGGACAGTGGCATCGATATTTGATTACA
111899482 TGTAAGACCTCGTCTGGGAC-GTTGGCAT
1 TGTAAGACCTCGTCTGGGACAG-TGGCAT
111899510 TGTACAAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 29 0.32
43 36 0.40
44 25 0.28
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCTCGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:111905746 original size:37 final size:38
Alignment explanation
Indices: 111905677--111905766 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 38
111905667 TTTTGATATG
* * *
111905677 ACAATATTAAAAACCAATTATGAACAAGAAAATTTTGAA
1 ACAAGATTAAAAA-CAATTACGAACAAAAAAATTTTGAA
* *
111905716 ACAGGATTAAAAA-AATTACGAATAAAAAAATTTTGAA
1 ACAAGATTAAAAACAATTACGAACAAAAAAATTTTGAA
111905753 ACAAGATTAAAAAC
1 ACAAGATTAAAAAC
111905767 CAAATACAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 33 0.75
39 11 0.25
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (38 bp):
ACAAGATTAAAAACAATTACGAACAAAAAAATTTTGAA
Found at i:111913142 original size:50 final size:50
Alignment explanation
Indices: 111913018--111913266 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
111913008 GATAATAACA
* * ** * *
111913018 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
111913069 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
111913119 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
111913169 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
111913224 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
111913267 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:111913196 original size:100 final size:104
Alignment explanation
Indices: 111913017--111913266 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
111913007 TGATAATAAC
**
111913017 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
111913082 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
111913119 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
111913182 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
111913224 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
111913267 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:111913382 original size:13 final size:13
Alignment explanation
Indices: 111913361--111913392 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
111913351 GCTTGGATCA
*
111913361 TCATCAAATAAAT
1 TCATAAAATAAAT
111913374 TCATAAAATAAAT
1 TCATAAAATAAAT
111913387 TCATAA
1 TCATAA
111913393 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:111913639 original size:30 final size:30
Alignment explanation
Indices: 111913604--111913661 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
111913594 CCTCGACTCT
*
111913604 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
111913634 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
111913662 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:111920731 original size:50 final size:50
Alignment explanation
Indices: 111920607--111920855 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
111920597 GATAATAACA
* * ** * *
111920607 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
111920658 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
111920708 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
111920758 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
111920813 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
111920856 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:111920785 original size:100 final size:104
Alignment explanation
Indices: 111920606--111920855 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
111920596 TGATAATAAC
**
111920606 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
111920671 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
111920708 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
111920771 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
111920813 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
111920856 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:111920971 original size:13 final size:13
Alignment explanation
Indices: 111920950--111920981 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
111920940 GCTTGGATCA
*
111920950 TCATCAAATAAAT
1 TCATAAAATAAAT
111920963 TCATAAAATAAAT
1 TCATAAAATAAAT
111920976 TCATAA
1 TCATAA
111920982 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:111921228 original size:30 final size:30
Alignment explanation
Indices: 111921193--111921250 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
111921183 CCTCGACTCT
*
111921193 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
111921223 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
111921251 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:111928057 original size:55 final size:56
Alignment explanation
Indices: 111927921--111928043 Score: 194
Period size: 56 Copynumber: 2.2 Consensus size: 56
111927911 GGGTGTTGAG
* *
111927921 ATATTATCTTTTAGCAATTTGATTCCT-ATGGGATATTATAAGATATTACTATGGA
1 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGGA
* * *
111927976 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAGGATATTATTATGGT
1 ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGGA
111928032 ATATTATCTTTT
1 ATATTATCTTTT
111928044 GTAATCCGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
55 27 0.44
56 35 0.56
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (56 bp):
ATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTACAAGATATTACTATGGA
Found at i:111938042 original size:30 final size:30
Alignment explanation
Indices: 111937980--111938045 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
111937970 ATAATTCCCG
*
111937980 AGTTTAGGGGTAAAAGTGTAAATATGTAAA
1 AGTTTAGGGGTAAAAGTGTAAATATGCAAA
* * * *
111938010 AGTTTAGGGGTAAAATTGTAATTTTGCCAA
1 AGTTTAGGGGTAAAAGTGTAAATATGCAAA
111938040 AGTTTA
1 AGTTTA
111938046 AGTTAAGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
AGTTTAGGGGTAAAAGTGTAAATATGCAAA
Found at i:111942116 original size:15 final size:15
Alignment explanation
Indices: 111942096--111942128 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
111942086 ACTCCATTTT
111942096 ATTTATATTAGGATA
1 ATTTATATTAGGATA
111942111 ATTTATATTAGGATA
1 ATTTATATTAGGATA
111942126 ATT
1 ATT
111942129 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:111944998 original size:17 final size:17
Alignment explanation
Indices: 111944978--111945037 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
111944968 AAAGTAATTT
111944978 TTTAAAAAATTTAAAAA
1 TTTAAAAAATTTAAAAA
* *
111944995 TTTAAAAACTCTTTAAAA
1 TTTAAAAAAT-TTAAAAA
**
111945013 -TT-AAAAATAAAAAAA
1 TTTAAAAAATTTAAAAA
111945028 TTTTAAAAAA
1 -TTTAAAAAA
111945038 CATTTAGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 4 0.12
16 5 0.15
17 13 0.39
18 11 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTAAAAAATTTAAAAA
Found at i:111951635 original size:9 final size:9
Alignment explanation
Indices: 111951621--111951649 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
111951611 AAACATTCTT
111951621 TTAAAAATA
1 TTAAAAATA
111951630 TTAAAAATA
1 TTAAAAATA
111951639 TTAAAAATA
1 TTAAAAATA
111951648 TT
1 TT
111951650 TCAAAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:111956564 original size:35 final size:35
Alignment explanation
Indices: 111956440--111956570 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
111956430 CCTCATTGAA
* * *
111956440 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
** **
111956475 ATGTCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
111956512 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
*
111956550 ATACCATACGTACATTTCACA
1 ATACCATACCTACATTTCACA
111956571 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:111960718 original size:52 final size:49
Alignment explanation
Indices: 111960633--111960999 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
111960623 TTTGAGTACT
* **
111960633 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
111960679 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111960731 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111960777 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
111960823 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111960875 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
111960927 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111960973 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
111961000 GCTACGCTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:111960753 original size:98 final size:97
Alignment explanation
Indices: 111960633--111960999 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
111960623 TTTGAGTACT
* *
111960633 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
111960698 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
111960731 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
111960791 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
111960823 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
111960888 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
111960927 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
111960992 GATAAGTG
65 GA-AAGTG
111961000 GCTACGCTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:111960981 original size:196 final size:196
Alignment explanation
Indices: 111960647--111960999 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
111960637 ATCAAGTGAT
* * *
111960647 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
111960712 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
111960777 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
111960842 G
196 G
* *
111960843 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
111960908 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
111960973 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
111961000 GCTACGCTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:111961010 original size:37 final size:37
Alignment explanation
Indices: 111960963--111961108 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
111960953 GATAGCTTTA
*
111960963 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
111961000 GCTACGCTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
111961037 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
111961074 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
111961109 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:111961036 original size:150 final size:149
Alignment explanation
Indices: 111960633--111960988 Score: 485
Period size: 150 Copynumber: 2.4 Consensus size: 149
111960623 TTTGAGTACT
* * * * *
111960633 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * *
111960698 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAAGT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
111960756 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
111960777 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
111960842 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAAGT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
111960906 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
111960927 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
111960989 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAAGTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:111962423 original size:49 final size:49
Alignment explanation
Indices: 111962362--111962554 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
111962352 ATGTGAACAT
111962362 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
111962412 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
111962461 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCAGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* ** * *
111962510 GTGATTTGTGATTATGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
111962555 AGAAAACGAA
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 130 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:111963898 original size:130 final size:130
Alignment explanation
Indices: 111963618--111964266 Score: 960
Period size: 130 Copynumber: 5.0 Consensus size: 130
111963608 TTTAGAGAAT
* * *
111963618 CATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAACAAAC-AGAAAATCGCAACCCAGCAC
1 CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAG-AAATCGTAACCCAGCAC
* * ** ** *
111963682 GATAAGGCACGATTCCCCGAATTTCCAAACATC-GAGTATTACCTTCGTTTCGAAGAGTTTTTAA
65 GATAGGGCACGATT-CCCGAATTGCCAAACATCGGA-TATCGCCTTCGTTTTAAAGAATTTTTAA
111963746 AGA
128 AGA
* * * * *
111963749 TATGAGTGAAATTCCAAAGGAATATTTGATTGTTTTTAACAAACGGGAAATCGTAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
* * *
111963814 ATAGGGCACGATTCCCGAATTGACAAACATCGGGTATTGCCTTCGTTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
*
111963879 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
* *
111963944 ATAGCGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCATTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
* *
111964009 CATGAGCAAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
* * *
111964074 ATAGGGCACGATTCCCGAATTGCCAAACATCAGATATGGCTTTCGTTTTAAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
* *
111964139 CATGAGCGAAATTCCAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
* * * * *
111964204 ATAAGGCACGATTCCCGAATTGCTAAACATTGAATATCGCCTTTGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAA
111964267 TGAATAGGTA
Statistics
Matches: 473, Mismatches: 43, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
130 402 0.85
131 70 0.15
132 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
CATGAGCGAAATTCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCGTAACCCAGCACG
ATAGGGCACGATTCCCGAATTGCCAAACATCGGATATCGCCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:111964570 original size:31 final size:31
Alignment explanation
Indices: 111964534--111964596 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
111964524 AATTCAATAC
111964534 AACCAAAACAATACACATAATACATAGCATG
1 AACCAAAACAATACACATAATACATAGCATG
111964565 AACCAAAACAATACACATAATACATAGCATG
1 AACCAAAACAATACACATAATACATAGCATG
111964596 A
1 A
111964597 TATAAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.16
Consensus pattern (31 bp):
AACCAAAACAATACACATAATACATAGCATG
Found at i:111965486 original size:29 final size:28
Alignment explanation
Indices: 111965425--111965486 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
111965415 CTAAAAAACC
* *
111965425 TAATTGAAATCACATAAAGAAAAGGGCT
1 TAATTGAAATCACATAAAGAAAAAGGCA
*
111965453 TAATTGAAATCACATTAAAATAAAAAGG-A
1 TAATTGAAATCACA-T-AAAGAAAAAGGCA
111965482 TAATT
1 TAATT
111965487 TACAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.48
29 6 0.21
30 9 0.31
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (28 bp):
TAATTGAAATCACATAAAGAAAAAGGCA
Found at i:111967154 original size:133 final size:133
Alignment explanation
Indices: 111966916--111967320 Score: 560
Period size: 133 Copynumber: 3.0 Consensus size: 133
111966906 ATTGGAGACG
* * * * *
111966916 AGATCTGCAATTTTTAGCCTACTCTACTACAATTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
1 AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * * * *
111966981 TTCACTGCAACTTCAAGAATACAAGATTCGCCGTTTTCGATCTGCTCCACTACAGCTTCAGGGGA
66 TTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGGA
111967046 ACA
131 ACA
* *
111967049 AGATCTACAATATTCAGCCTACTCCATTACAACTTTAGGGAGATAGAATGGTGGCTTAAATCTGC
1 AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * * *
111967114 TTCACTGTAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGTTCCACTGCAATTTCAGGGAA
66 TTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGGA
111967179 ACA
131 ACA
* * * * *
111967182 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATTGTGACTTAAATCTAC
1 AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * ** *
111967247 TTCACTGCAGCTTCAGGAAGACTAGATTCGCTATCTTCGATCTGCTCCGCTGCAACTTCA-GGGA
66 TTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGGA
111967311 GACA
131 -ACA
111967315 AGATCT
1 AGATCT
111967321 GTAGAATCGG
Statistics
Matches: 239, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
132 3 0.01
133 236 0.99
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (133 bp):
AGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
TTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAGGGGA
ACA
Found at i:111967449 original size:64 final size:64
Alignment explanation
Indices: 111967348--111967532 Score: 318
Period size: 64 Copynumber: 2.9 Consensus size: 64
111967338 GGCCTATGCG
* * *
111967348 TATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAGTG-TTCTTAACTAGATGTGGTGCT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTC-TAACTAAATGTGGTGCT
111967412 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
*
111967476 TATGTCAAATAATTAAAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATG
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATG
111967533 AATGATCATG
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
64 113 0.97
65 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (64 bp):
TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTTCTAACTAAATGTGGTGCT
Found at i:111975560 original size:19 final size:20
Alignment explanation
Indices: 111975523--111975563 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
111975513 TATGGCCTTT
111975523 AATGCATAATGATGTAATGC
1 AATGCATAATGATGTAATGC
111975543 AATGCA-AATGCATG-AATGC
1 AATGCATAATG-ATGTAATGC
111975562 AA
1 AA
111975564 AGGAGGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (20 bp):
AATGCATAATGATGTAATGC
Found at i:111978441 original size:131 final size:130
Alignment explanation
Indices: 111978274--111978792 Score: 745
Period size: 130 Copynumber: 4.0 Consensus size: 130
111978264 TTTAGAGAAT
* *
111978274 CATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-AGAAAATCACAACCCAGCAC
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAG-AAATCACAACCCAGCAC
* * *
111978338 GATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTCAAAGAGTTTTTAAA
65 GATAGGGCACGATT-CCCGAATTGACAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
111978403 GA
129 GA
* * * * **
111978405 TATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAATGGGAAATTGCAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACG
* *
111978470 ATAGGGCACGATTCCCGAATTGACAAACATCGGGTATTACCTTCGTTTTAAAGAAATTTTAAAGA
66 ATAGGGCACGATTCCCGAATTGACAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAGA
111978535 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACG
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACG
* * * ** *
111978600 ATAGGGCACGATTCTCAAATTGTCAAACATCG-GATATCGCTTTCGTTTTAAAGAATTTTTAAAG
66 ATAGGGCACGATTCCCGAATTGACAAACATCGAG-TATTACCTTCGTTTTAAAGAATTTTTAAAG
111978664 A
130 A
* *
111978665 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCATCACG
1 CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACG
* * * *** *
111978730 ATAGGGCACGATTCTCGAATTGGCAAACATCGAATATCGTCTTTGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCCCGAATTGACAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
111978793 TGAATAGGTA
Statistics
Matches: 353, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
129 1 0.00
130 281 0.80
131 70 0.20
132 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
CATGAGCGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACG
ATAGGGCACGATTCCCGAATTGACAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:111979987 original size:29 final size:28
Alignment explanation
Indices: 111979926--111979987 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
111979916 CTAAAAAACC
* *
111979926 TAATTGAAATCACATAAAGAAAAGGGCC
1 TAATTGAAATCACATAAAGAAAAAGGCA
*
111979954 TAATTGAAATCACATTAAAATAAAAAGG-A
1 TAATTGAAATCACA-T-AAAGAAAAAGGCA
111979983 TAATT
1 TAATT
111979988 TACAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.48
29 6 0.21
30 9 0.31
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (28 bp):
TAATTGAAATCACATAAAGAAAAAGGCA
Found at i:111981142 original size:14 final size:14
Alignment explanation
Indices: 111981123--111981149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
111981113 TAATGGACTG
111981123 TTATAATATTTTTA
1 TTATAATATTTTTA
111981137 TTATAATATTTTT
1 TTATAATATTTTT
111981150 TTTGGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATAATATTTTTA
Found at i:111986347 original size:29 final size:29
Alignment explanation
Indices: 111986305--111986363 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
111986295 AAATAAAAGG
* * *
111986305 TTAATATTTTATTTGGTATTTAAGTTTTT
1 TTAATATTTAATTTAGTATTTAAATTTTT
* *
111986334 TTAATGTTTAATTTAGTGTTTAAATTTTT
1 TTAATATTTAATTTAGTATTTAAATTTTT
111986363 T
1 T
111986364 GTCTTAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (29 bp):
TTAATATTTAATTTAGTATTTAAATTTTT
Found at i:111989335 original size:27 final size:27
Alignment explanation
Indices: 111989303--111989383 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 27
111989293 CACGGCTTCA
111989303 CACACAGCCTATCACATGGTCGTGTGT-
1 CACACAGCCTATCACA-GGTCGTGTGTC
111989330 CACACATGGCCTATCACA-GTCGTGTGTC
1 CACACA--GCCTATCACAGGTCGTGTGTC
*
111989358 GCACACAGCCTGTCACACGGTCGTGT
1 -CACACAGCCTATCACA-GGTCGTGT
111989384 ATCGCACATG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
27 24 0.51
29 23 0.49
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.23
Consensus pattern (27 bp):
CACACAGCCTATCACAGGTCGTGTGTC
Found at i:111989335 original size:29 final size:28
Alignment explanation
Indices: 111989300--111989383 Score: 107
Period size: 29 Copynumber: 3.0 Consensus size: 28
111989290 ACACACGGCT
111989300 TCACACACAGCCTATCACATGGTCGTGTG
1 TCACACACAGCCTATCACA-GGTCGTGTG
**
111989329 TCACACATGGCCTATCACA-GTCGTGTG
1 TCACACACAGCCTATCACAGGTCGTGTG
* *
111989356 TCGCACACAGCCTGTCACACGGTCGTGT
1 TCACACACAGCCTATCACA-GGTCGTGT
111989384 ATCGCACATG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 23 0.49
29 24 0.51
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (28 bp):
TCACACACAGCCTATCACAGGTCGTGTG
Found at i:111989397 original size:29 final size:29
Alignment explanation
Indices: 111989309--111989413 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
111989299 TTCACACACA
* * *
111989309 GCCTATCACATGGTCGTGTGTCACACATG
1 GCCTATCACACGGTCGTGTATCGCACATG
* **
111989338 GCCTATCACA--GTCGTGTGTCGCACACA
1 GCCTATCACACGGTCGTGTATCGCACATG
*
111989365 GCCTGTCACACGGTCGTGTATCGCACATG
1 GCCTATCACACGGTCGTGTATCGCACATG
** *
111989394 GCCTGGCACACGGCCGTGTA
1 GCCTATCACACGGTCGTGTA
111989414 GTGTCGACAG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.35
29 42 0.65
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (29 bp):
GCCTATCACACGGTCGTGTATCGCACATG
Found at i:111991463 original size:15 final size:15
Alignment explanation
Indices: 111991439--111991470 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
111991429 ATAATAGTTT
*
111991439 AAATATAAAATAAAA
1 AAATAAAAAATAAAA
111991454 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
111991469 AA
1 AA
111991471 GGAAATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:111993328 original size:44 final size:44
Alignment explanation
Indices: 111993266--111993417 Score: 127
Period size: 45 Copynumber: 3.5 Consensus size: 44
111993256 ATCCTACTCT
* * * *
111993266 ACTGCAACTTCAGTGAGATAAGGATGGTGGCTTC-GATTTGCTCC
1 ACTGCAACTTCAGAGAGATAAGGATGCTAGCTTCAG-TCTGCTCC
* * *
111993310 ACTGCAACTTCAGGGAGATAAGATATGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAG-GATGCTAGCTTCAGTCTGCTCC
* * *
111993355 ACTGCAACTTTAGAGAGATAAGG-T--TTG-TT-ATGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGGATGCTAGCTTCA-G-TCTGCTCC
*
111993396 ACTGCAACTTCAGAAAGATAAG
1 ACTGCAACTTCAGAGAGATAAG
111993418 ATTTATTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 28 0.31
43 1 0.01
44 21 0.23
45 35 0.39
46 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGGATGCTAGCTTCAGTCTGCTCC
Found at i:111993556 original size:44 final size:45
Alignment explanation
Indices: 111993439--111993557 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 45
111993429 TATTGTTTCG
* *
111993439 ATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGACTCGTTATCTTCA
1 ATCTGCTT-CACTGCAACTTCA-GGAAGATAAGACTCGGTAGCTTCA
* * ** * *
111993484 GTCTGCTCCACTATAATTTCAAGG-AGATAAGACT-GGTGGCTTCA
1 ATCTGCTTCACTGCAACTTC-AGGAAGATAAGACTCGGTAGCTTCA
111993528 ATCTGCTTCACTGCAACTTCAGGAAGATAA
1 ATCTGCTTCACTGCAACTTCAGGAAGATAA
111993558 TATCTGTTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
43 3 0.05
44 29 0.51
45 23 0.40
46 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTGCTTCACTGCAACTTCAGGAAGATAAGACTCGGTAGCTTCA
Found at i:111993600 original size:52 final size:52
Alignment explanation
Indices: 111993536--111993669 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 52
111993526 CAATCTGCTT
* *
111993536 CACTGCAACTTCAGGAAGATAATATCTGTTTAAACATAGCTTCGATCTATTC
1 CACTGTAACTTCAGGAAGATAAGATCTGTTTAAACATAGCTTCGATCTATTC
*** *
111993588 CACTGTAACTTCA-GAGAGATAAGATCTGTTTATTTATAGCTTCGATCTGTTC
1 CACTGTAACTTCAGGA-AGATAAGATCTGTTTAAACATAGCTTCGATCTATTC
*
111993640 CACTGTAACTTTAAGG-AGATAAGATCTGTT
1 CACTGTAAC-TTCAGGAAGATAAGATCTGTT
111993670 ATCTTCAGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
51 2 0.03
52 66 0.92
53 3 0.04
54 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
CACTGTAACTTCAGGAAGATAAGATCTGTTTAAACATAGCTTCGATCTATTC
Found at i:111996295 original size:46 final size:46
Alignment explanation
Indices: 111996231--111996499 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
111996221 TTTGAGTACT
* *
111996231 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111996277 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
111996323 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
111996375 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
111996427 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
111996473 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
111996500 GCTACACTTA
Statistics
Matches: 206, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 112 0.54
52 94 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:111996350 original size:98 final size:92
Alignment explanation
Indices: 111996231--111996536 Score: 360
Period size: 98 Copynumber: 3.3 Consensus size: 92
111996221 TTTGAGTACT
* * *
111996231 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
111996296 GATAAGTGATAGCTTCAGCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
111996323 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
111996388 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
**
111996427 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
111996492 GATAA--G-T-G-----GCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
111996510 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
111996537 GCTACACTTA
Statistics
Matches: 193, Mismatches: 9, Indels: 33
0.82 0.04 0.14
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
92 23 0.12
98 89 0.46
104 43 0.22
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTACACTTA
Found at i:111996356 original size:52 final size:51
Alignment explanation
Indices: 111996291--111996499 Score: 302
Period size: 52 Copynumber: 4.1 Consensus size: 51
111996281 ATCAAGTGAC
111996291 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
111996343 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
111996394 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
111996441 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
111996493 ATAAGTG
1 A-AAGTG
111996500 GCTACACTTA
Statistics
Matches: 142, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 94 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:111996507 original size:37 final size:37
Alignment explanation
Indices: 111996463--111996608 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
111996453 GATAGCTTTA
**
111996463 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
111996500 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
111996537 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
111996574 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
111996609 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:111997923 original size:49 final size:49
Alignment explanation
Indices: 111997862--111998054 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
111997852 ATGTGAACAT
111997862 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
111997912 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
111997961 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
111998010 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
111998055 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:112001241 original size:46 final size:46
Alignment explanation
Indices: 112001177--112001445 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
112001167 TTTGAGTACT
* *
112001177 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
112001223 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
112001269 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
112001321 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
112001373 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
112001419 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
112001446 GCTACACTTA
Statistics
Matches: 206, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 112 0.54
52 94 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:112001296 original size:98 final size:92
Alignment explanation
Indices: 112001177--112001482 Score: 360
Period size: 98 Copynumber: 3.3 Consensus size: 92
112001167 TTTGAGTACT
* * *
112001177 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
112001242 GATAAGTGATAGCTTCAGCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
112001269 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
112001334 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
**
112001373 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
112001438 GATAA--G-T-G-----GCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
112001456 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
112001483 GCTACACTTA
Statistics
Matches: 193, Mismatches: 9, Indels: 33
0.82 0.04 0.14
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
92 23 0.12
98 89 0.46
104 43 0.22
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTACACTTA
Found at i:112001302 original size:52 final size:51
Alignment explanation
Indices: 112001237--112001445 Score: 302
Period size: 52 Copynumber: 4.1 Consensus size: 51
112001227 ATCAAGTGAC
112001237 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
112001289 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
112001340 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
112001387 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
112001439 ATAAGTG
1 A-AAGTG
112001446 GCTACACTTA
Statistics
Matches: 142, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 94 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:112001453 original size:37 final size:37
Alignment explanation
Indices: 112001409--112001554 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
112001399 GATAGCTTTA
**
112001409 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
112001446 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
112001483 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
112001520 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
112001555 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:112011463 original size:55 final size:55
Alignment explanation
Indices: 112011355--112011484 Score: 136
Period size: 55 Copynumber: 2.4 Consensus size: 55
112011345 CCCGTGTCAA
* ** * *
112011355 TTTAACAGGTTCGACCACGGTTCTTCCAAACGGGTGTGTCGAATGCCCTTGTTGT
1 TTTAACAGGTTCGACCACGGTTCTTCCAAACAGGCATGTCGAACGCCCCTGTTGT
* * * *
112011410 TTTAATAGGTTCGCCCATGGTTCTTCCACACAGGCATGTC-ATACGCCCCTGTTGT
1 TTTAACAGGTTCGACCACGGTTCTTCCAAACAGGCATGTCGA-ACGCCCCTGTTGT
** *
112011465 TTTGGCAGGCTCGACCACGG
1 TTTAACAGGTTCGACCACGG
112011485 CCATATCACA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
54 1 0.02
55 58 0.98
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.31
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGTTCTTCCAAACAGGCATGTCGAACGCCCCTGTTGT
Found at i:112013363 original size:18 final size:18
Alignment explanation
Indices: 112013342--112013507 Score: 130
Period size: 18 Copynumber: 9.3 Consensus size: 18
112013332 TCGGTTATCT
112013342 AGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
112013360 AGTAA-A-TCAGA-TATTC
1 AGTAACAGTCA-ATTATTC
*
112013376 AGTAACTA-TTAAGTTATTC
1 AGTAAC-AGTCAA-TTATTC
*
112013395 AGTAGCAGTC-ATTCATTC
1 AGTAACAGTCAATT-ATTC
* *
112013413 AGTGAC-GATCAGTTATTC
1 AGTAACAG-TCAATTATTC
* * *
112013431 AGTAATATTCAGTTATTC
1 AGTAACAGTCAATTATTC
*
112013449 AGTAACAGTCTAA-TATCC
1 AGTAACAGTC-AATTATTC
*
112013467 AGTAACAGTCAATTATCC
1 AGTAACAGTCAATTATTC
* *
112013485 GGTAACAGTGAATTATTC
1 AGTAACAGTCAATTATTC
112013503 AGTAA
1 AGTAA
112013508 TAATCAGTTA
Statistics
Matches: 119, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
16 13 0.11
17 8 0.07
18 84 0.71
19 14 0.12
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (18 bp):
AGTAACAGTCAATTATTC
Found at i:112013470 original size:36 final size:36
Alignment explanation
Indices: 112013425--112013519 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
112013415 TGACGATCAG
* * *
112013425 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATCCAGTAATAATCAGTTATTCAGTAACAGT-GAA
* * * * *
112013462 -TATCCAGTAACAGTCAATTATCCGGTAACAGTGAA
1 TTATCCAGTAATAATCAGTTATTCAGTAACAGTGAA
*
112013497 TTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAATAATCAGTTATT
112013520 TTTATACCTT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
35 2 0.04
36 43 0.96
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (36 bp):
TTATCCAGTAATAATCAGTTATTCAGTAACAGTGAA
Found at i:112014633 original size:27 final size:27
Alignment explanation
Indices: 112014587--112014756 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 27
112014577 CAAATTATTG
* * *
112014587 AAATATCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
** * * *
112014614 AAGCACCCCCAATTTATAAAATTACCC
1 AAATACCCTCGATTTATAAAATTACCA
* *
112014641 AAATATCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
* * *
112014668 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
**
112014695 AAATACCCTCGATCAATAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
*
112014722 AAATACCC-CTAGTTTATAAAATTACCA
1 AAATACCCTCGA-TTTATAAAATTACCA
112014749 AAATACCC
1 AAATACCC
112014757 CTAATTTGTG
Statistics
Matches: 114, Mismatches: 28, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
26 2 0.02
27 112 0.98
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATACCCTCGATTTATAAAATTACCA
Found at i:112014660 original size:54 final size:54
Alignment explanation
Indices: 112014587--112014753 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
112014577 CAAATTATTG
* ** * * *
112014587 AAATATCCTCGACTTGTAAAATTACCAAAGCACCCCCAATTTATAAAATTACCC
1 AAATATCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
* * *
112014641 AAATATCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA
1 AAATATCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
* ***
112014695 AAATACCCTCGATCAATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
1 AAATATCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
112014749 AAATA
1 AAATA
112014754 CCCCTAATTT
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (54 bp):
AAATATCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCA
Found at i:112014757 original size:27 final size:27
Alignment explanation
Indices: 112014603--112014785 Score: 156
Period size: 27 Copynumber: 6.8 Consensus size: 27
112014593 CCTCGACTTG
** * *
112014603 TAAAATTACCAAAGCACCCCCAATTTA
1 TAAAATTACCAAAATACCCCTAGTTTA
* * * *
112014630 TAAAATTACCCAAATA-TCCTCGATTTG
1 TAAAATTACCAAAATACCCCTAG-TTTA
* *
112014657 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTAGTTTA
* * **
112014684 CAAAATTACCAAAATA-CCCTCGATCAA
1 TAAAATTACCAAAATACCCCTAG-TTTA
112014711 TAAAATTACCAAAATACCCCTAGTTTA
1 TAAAATTACCAAAATACCCCTAGTTTA
* *
112014738 TAAAATTACCAAAATACCCCTAATTTG
1 TAAAATTACCAAAATACCCCTAGTTTA
* *
112014765 TGAAATTA-TAGAAATACCCCT
1 TAAAATTACCA-AAATACCCCT
112014786 GTAGGGTAGA
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 7 0.06
27 110 0.88
28 8 0.06
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTA
Found at i:112014798 original size:27 final size:27
Alignment explanation
Indices: 112014767--112014827 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
112014757 CTAATTTGTG
*
112014767 AAATTATAGAAATACCCCTGTAGGGTA
1 AAATTACAGAAATACCCCTGTAGGGTA
* * * *
112014794 GAATTACCGAAATACCCTTGTGGGGTA
1 AAATTACAGAAATACCCCTGTAGGGTA
112014821 AAATTAC
1 AAATTAC
112014828 CATTTTGCCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATTACAGAAATACCCCTGTAGGGTA
Found at i:112014828 original size:27 final size:27
Alignment explanation
Indices: 112014775--112014828 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
112014765 TGAAATTATA
*
112014775 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAAAATTACC
* *
112014802 GAAATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAAAATTACC
112014829 ATTTTGCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAAAATTACC
Found at i:112015276 original size:37 final size:37
Alignment explanation
Indices: 112015243--112015314 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
112015233 TGATTCTGTT
112015243 ACCTGATACTGATTCAGATTCAGATTCTAATTCTATC
1 ACCTGATACTGATTCAGATTCAGATTCTAATTCTATC
* *
112015280 ACCTGATTCTGATTCTGATT-ATGATTCTAATTCTA
1 ACCTGATACTGATTCAGATTCA-GATTCTAATTCTA
112015315 GTTCTGATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (37 bp):
ACCTGATACTGATTCAGATTCAGATTCTAATTCTATC
Found at i:112015291 original size:6 final size:6
Alignment explanation
Indices: 112015223--112015322 Score: 62
Period size: 6 Copynumber: 16.3 Consensus size: 6
112015213 TTGCATTCAC
* * * * *
112015223 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCAG ATTCAG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
112015272 ATTCT- ATCACCTG ATTCTG ATTCTG ATTATG ATTCTA ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
112015321 AT
1 AT
112015323 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 5 0.07
6 60 0.81
7 6 0.08
8 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:112015319 original size:24 final size:24
Alignment explanation
Indices: 112015292--112015337 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
112015282 CTGATTCTGA
*
112015292 TTCTGATTATGATTCTAATTCTAG
1 TTCTGATAATGATTCTAATTCTAG
* *
112015316 TTCTGATAATGTTTCTTATTCT
1 TTCTGATAATGATTCTAATTCT
112015338 GTAATGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (24 bp):
TTCTGATAATGATTCTAATTCTAG
Found at i:112016012 original size:45 final size:44
Alignment explanation
Indices: 112015962--112016096 Score: 225
Period size: 45 Copynumber: 3.0 Consensus size: 44
112015952 TTGGGGTGTT
* *
112015962 ACAATATTCGACACACACAGTGCCGAATCGATAATAGTAGCAGTA
1 ACAATATTCGACACACAAAGTGCCGAATCG-TAACAGTAGCAGTA
112016007 ACAATATTCGACACACAAAGTGCCGAATCTGTAACAGTAGCAGTA
1 ACAATATTCGACACACAAAGTGCCGAATC-GTAACAGTAGCAGTA
112016052 ACAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGTA
1 ACAATATTCGACACACAAAGTGCCGAATC-GTAACAGTAGCAGTA
112016097 GCGGTAATAA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
45 85 0.99
46 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (44 bp):
ACAATATTCGACACACAAAGTGCCGAATCGTAACAGTAGCAGTA
Found at i:112016928 original size:21 final size:21
Alignment explanation
Indices: 112016903--112016963 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
112016893 TTCAATTTCC
112016903 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
112016924 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
112016945 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
112016964 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:112036918 original size:29 final size:30
Alignment explanation
Indices: 112036847--112036983 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 30
112036837 GTGCCCACTG
**
112036847 ACCGATCTCGCACACATAGTG-CTCGGTTGA
1 ACCGATCTCGCACACATAGTGCCTCAATT-A
* *
112036877 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACATAGTGCCTCAATTA
**
112036904 ACCGATCTCGCACACATAGTG-CTCGGTTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
** * *
112036933 AAGGAAT-TTGCACACACAGTGCCTCAATT-
1 ACCG-ATCTCGCACACATAGTGCCTCAATTA
*
112036962 ACCGATCTTGCACACATAGTGC
1 ACCGATCTCGCACACATAGTGC
112036984 TCGGTTAAAG
Statistics
Matches: 83, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.01
28 23 0.28
29 51 0.61
30 8 0.10
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (30 bp):
ACCGATCTCGCACACATAGTGCCTCAATTA
Found at i:112036969 original size:58 final size:58
Alignment explanation
Indices: 112036847--112037015 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
112036837 GTGCCCACTG
* * *
112036847 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
112036904 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
*
112036962 ACCGATCTTGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
112037016 TAATCATTCG
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 30 0.28
58 77 0.72
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
Found at i:112037001 original size:29 final size:29
Alignment explanation
Indices: 112036913--112037012 Score: 114
Period size: 29 Copynumber: 3.4 Consensus size: 29
112036903 TACCGATCTC
*
112036913 GCACACATAGTGCTCGGTTAAAGGAATTT
1 GCACACACAGTGCTCGGTTAAAGGAATTT
** **
112036942 GCACACACAGTGCCTCAATT-ACCG-ATCTT
1 GCACACACAGTG-CTCGGTTAAAGGAAT-TT
*
112036971 GCACACATAGTGCTCGGTTAAAGGAATTT
1 GCACACACAGTGCTCGGTTAAAGGAATTT
112037000 GCACACACAGTGC
1 GCACACACAGTGC
112037013 CTCTAATCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
28 7 0.12
29 42 0.75
30 7 0.12
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (29 bp):
GCACACACAGTGCTCGGTTAAAGGAATTT
Found at i:112037231 original size:43 final size:43
Alignment explanation
Indices: 112037181--112037302 Score: 217
Period size: 43 Copynumber: 2.8 Consensus size: 43
112037171 CACCAGCATT
*
112037181 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
112037224 AATCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
112037267 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCAC
112037303 TGAGTTCATG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.32, C:0.34, G:0.23, T:0.11
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:112039945 original size:25 final size:26
Alignment explanation
Indices: 112039917--112040014 Score: 155
Period size: 25 Copynumber: 3.8 Consensus size: 26
112039907 CCTCTTTAAT
**
112039917 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
112039942 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
112039967 AACTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCAATA
112039994 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
112040015 GGACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
25 33 0.48
26 10 0.14
27 26 0.38
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:112040089 original size:20 final size:21
Alignment explanation
Indices: 112040064--112040130 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 21
112040054 TTATGAGTAC
112040064 ATCATGTGCATATTC-TACAT
1 ATCATGTGCATATTCATACAT
112040084 ATCATGTGCATA-TCATACAT
1 ATCATGTGCATATTCATACAT
*
112040104 ATCATGAGCATA-TCATATCA-
1 ATCATGTGCATATTCATA-CAT
112040124 ATCATGT
1 ATCATGT
112040131 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.05
20 39 0.91
21 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
ATCATGTGCATATTCATACAT
Found at i:112041534 original size:14 final size:15
Alignment explanation
Indices: 112041511--112041545 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
112041501 CGGTCCAAGT
*
112041511 GAAAAGAAAG-AAAA
1 GAAAAAAAAGAAAAA
112041525 GAAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
112041540 GAAAAA
1 GAAAAA
112041546 TGCCACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:112062937 original size:34 final size:34
Alignment explanation
Indices: 112062892--112062978 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
112062882 CATATTATTT
*
112062892 TATATAAATTTTTTCTTTTAAATCTATTTATGTA
1 TATATATATTTTTTCTTTTAAATCTATTTATGTA
*
112062926 TATATATATTTTTTCTTTTAAATTTATTTATGTA
1 TATATATATTTTTTCTTTTAAATCTATTTATGTA
*
112062960 TATA-AT-TTGTTTCTTTTAA
1 TATATATATTTTTTCTTTTAA
112062979 GGACCCTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 12 0.24
33 2 0.04
34 36 0.72
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (34 bp):
TATATATATTTTTTCTTTTAAATCTATTTATGTA
Found at i:112063100 original size:22 final size:20
Alignment explanation
Indices: 112063075--112063114 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
112063065 TTCATTTCAT
112063075 ATATATCATTATTTTTAAATCA
1 ATATAT-ATTA-TTTTAAATCA
*
112063097 ATATATTTTATTTTAAAT
1 ATATATATTATTTTAAAT
112063115 TATTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATATTATTTTAAATCA
Found at i:112065163 original size:29 final size:29
Alignment explanation
Indices: 112065129--112065194 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
112065119 ATAGAGGTTA
* * * *
112065129 GATCAAATTAATCTTTCTATTATTAAATG
1 GATCAAATTAATCTATATACTATTAAAAG
*
112065158 GATCAAATTAGTCTATATACTATTAAAAG
1 GATCAAATTAATCTATATACTATTAAAAG
112065187 GAATCAAA
1 G-ATCAAA
112065195 CAATAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (29 bp):
GATCAAATTAATCTATATACTATTAAAAG
Found at i:112066899 original size:36 final size:36
Alignment explanation
Indices: 112066852--112066926 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
112066842 GAACATTTGT
*
112066852 TAAAGCATGATTGTGAATGAATTAAACCAAGAATTG
1 TAAAGCATGATTGTGAACGAATTAAACCAAGAATTG
* *
112066888 TAAAGCATGATTGTGAACGAATTAAATCAAGAGTTG
1 TAAAGCATGATTGTGAACGAATTAAACCAAGAATTG
112066924 TAA
1 TAA
112066927 TTGTTCTAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (36 bp):
TAAAGCATGATTGTGAACGAATTAAACCAAGAATTG
Found at i:112083019 original size:21 final size:22
Alignment explanation
Indices: 112082990--112083036 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
112082980 CAGAAGGAGT
*
112082990 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
112083012 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
112083033 GAGT
1 GAGT
112083037 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:112084978 original size:24 final size:25
Alignment explanation
Indices: 112084946--112084994 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
112084936 AAGTACGACG
*
112084946 CCATTGTTGAATTTTCAG-AACAAT
1 CCATTGTTGAATTTTAAGAAACAAT
112084970 CCATTGTTGAATTTTAAGAAACAAT
1 CCATTGTTGAATTTTAAGAAACAAT
112084995 GTCACACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (25 bp):
CCATTGTTGAATTTTAAGAAACAAT
Found at i:112087285 original size:18 final size:20
Alignment explanation
Indices: 112087262--112087299 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
112087252 ACGTGGCAGT
112087262 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
112087280 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
112087300 AGATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:112088612 original size:18 final size:18
Alignment explanation
Indices: 112088576--112088614 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
112088566 ACCAGTTTAA
*
112088576 TTAAAAATTATTAAGATT
1 TTAAAAATTATTAAAATT
*
112088594 TTAAAAATT-TTAAAAAT
1 TTAAAAATTATTAAAATT
112088611 TTAA
1 TTAA
112088615 TCATCTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAAAAATTATTAAAATT
Found at i:112089727 original size:2 final size:2
Alignment explanation
Indices: 112089720--112089751 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112089710 AACAATAAAG
112089720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112089752 ATTTGATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112094382 original size:30 final size:30
Alignment explanation
Indices: 112094330--112094387 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
112094320 CATGGCCATG
* *
112094330 ACACACGGGTGTGTGGTCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCATGTGTC
*
112094360 ACACATGGGCGTGTGGAT-TACCCATGTG
1 ACACACGGGCGTGTGG-TCTACCCATGTG
112094388 GAACTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCATGTGTC
Found at i:112097113 original size:13 final size:14
Alignment explanation
Indices: 112097095--112097235 Score: 62
Period size: 15 Copynumber: 10.1 Consensus size: 14
112097085 TAAAAATGAC
112097095 ATAATA-ATATAAA
1 ATAATATATATAAA
112097108 ATAATATATAT--A
1 ATAATATATATAAA
*
112097120 AT-ATGTATA-AAA
1 ATAATATATATAAA
* *
112097132 ATAATGTATAGTATAT
1 ATAATATATA-TA-AA
* *
112097148 ATATTAATATATAAT
1 ATAAT-ATATATAAA
* * * *
112097163 ATAAGCACAAATATA
1 ATAA-TATATATAAA
*
112097178 ATAACCATATAT-AA
1 ATAA-TATATATAAA
*
112097192 ATAATA-ATGTAAA
1 ATAATATATATAAA
112097205 ATAATAATAATATAAA
1 ATAAT-AT-ATATAAA
*
112097221 ATAATATATTTAAA
1 ATAATATATATAAA
112097235 A
1 A
112097236 CGTAAGATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
11 6 0.06
12 9 0.09
13 21 0.22
14 17 0.18
15 22 0.23
16 18 0.19
17 4 0.04
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (14 bp):
ATAATATATATAAA
Found at i:112097209 original size:30 final size:30
Alignment explanation
Indices: 112097175--112097235 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
112097165 AAGCACAAAT
*
112097175 ATAATAACCATATATAAATAATA-ATGTAAA
1 ATAATAACAATATA-AAATAATATATGTAAA
* *
112097205 ATAATAATAATATAAAATAATATATTTAAA
1 ATAATAACAATATAAAATAATATATGTAAA
112097235 A
1 A
112097236 CGTAAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAACAATATAAAATAATATATGTAAA
Found at i:112097212 original size:16 final size:16
Alignment explanation
Indices: 112097191--112097226 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
112097181 ACCATATATA
*
112097191 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
112097207 AATAATAATATAAAAT
1 AATAATAATATAAAAT
112097223 AATA
1 AATA
112097227 TATTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:112097223 original size:10 final size:11
Alignment explanation
Indices: 112097095--112097228 Score: 50
Period size: 10 Copynumber: 12.0 Consensus size: 11
112097085 TAAAAATGAC
112097095 ATAATAATATA
1 ATAATAATATA
112097106 A-AATAATATA
1 ATAATAATATA
*
112097116 TATAATATGTATA
1 -ATAATA-ATATA
* *
112097129 AAAATAATGT-
1 ATAATAATATA
112097139 ATAGTATATATATTA
1 ATA--ATA-ATA-TA
112097154 ATATATAATATA
1 ATA-ATAATATA
*
112097166 AGCACA-AATATA
1 A-TA-ATAATATA
**
112097178 ATAACCATAT-
1 ATAATAATATA
112097188 AT-A-AATAATA
1 ATAATAAT-ATA
* *
112097198 AT-GTAAAATA
1 ATAATAATATA
112097208 ATAATAATATA
1 ATAATAATATA
112097219 A-AATAATATA
1 ATAATAATATA
112097229 TTTAAAACGT
Statistics
Matches: 94, Mismatches: 15, Indels: 29
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.02
9 3 0.03
10 30 0.32
11 18 0.19
12 22 0.23
13 11 0.12
14 5 0.05
15 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (11 bp):
ATAATAATATA
Found at i:112097351 original size:25 final size:25
Alignment explanation
Indices: 112097317--112097370 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
112097307 ATAATATATG
112097317 ATAAAAATATAAGTAGTA-TTTTTTA
1 ATAAAAATATAAGTA-TAGTTTTTTA
* *
112097342 ATAATAATATATGTATAGTTTTTT-
1 ATAAAAATATAAGTATAGTTTTTTA
112097366 ATAAA
1 ATAAA
112097371 TAGATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (25 bp):
ATAAAAATATAAGTATAGTTTTTTA
Found at i:112100541 original size:18 final size:18
Alignment explanation
Indices: 112100520--112100562 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
112100510 ATAATTTAAA
112100520 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
112100538 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
112100556 ATGTAAA
1 ATATAAA
112100563 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:112100665 original size:19 final size:20
Alignment explanation
Indices: 112100641--112100683 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
112100631 CCAAACATTG
112100641 GAAAAGTAAATCATTTTC-A
1 GAAAAGTAAATCATTTTCTA
112100660 GAAAAGTAAATCATTTTCTA
1 GAAAAGTAAATCATTTTCTA
112100680 GAAA
1 GAAA
112100684 TTATTTTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (20 bp):
GAAAAGTAAATCATTTTCTA
Found at i:112109569 original size:13 final size:13
Alignment explanation
Indices: 112109551--112109577 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112109541 GAAGTAATCG
112109551 CACATGGGCGTGT
1 CACATGGGCGTGT
112109564 CACATGGGCGTGT
1 CACATGGGCGTGT
112109577 C
1 C
112109578 CTTACTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:112117134 original size:9 final size:9
Alignment explanation
Indices: 112117122--112117147 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
112117112 TTTGTGAGAT
112117122 TTTTGAGCC
1 TTTTGAGCC
112117131 TTTTGAGCC
1 TTTTGAGCC
112117140 TTTTGAGC
1 TTTTGAGC
112117148 ATCTATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (9 bp):
TTTTGAGCC
Done.