Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1611
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: 240859
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:4908 original size:43 final size:43
Alignment explanation
Indices: 4860--4952 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
4850 ATTCTAGAAA
4860 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* * *
4903 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGACTAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
4946 TATTTTC
1 TATTTTC
4953 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:9629 original size:43 final size:43
Alignment explanation
Indices: 9581--9673 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
9571 ATTCTAGAAA
9581 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
9624 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
9667 TATTTTC
1 TATTTTC
9674 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:17530 original size:29 final size:29
Alignment explanation
Indices: 17488--17545 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
17478 CAAAAGACTA
* *
17488 TTGCTAGATCTACCCACATTGTATTAAGT
1 TTGCTAGAGCTACCAACATTGTATTAAGT
17517 TTGCTAGAGCTACCAACATTGTATTAAGT
1 TTGCTAGAGCTACCAACATTGTATTAAGT
17546 AGTGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (29 bp):
TTGCTAGAGCTACCAACATTGTATTAAGT
Found at i:18377 original size:99 final size:100
Alignment explanation
Indices: 18165--18403 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
18155 TTTATAAAAC
* * * * * * *
18165 AATCAGATATG-AAAGTGTTAACATATCATGTTGCATACTTGTTATTCTATGTGATTGCTAAAGT
1 AATCAGGTATGAAAAGTGTTAACATATTATGTTGCGTACTTGTTATTCCATATGATCGATAAAGT
* *
18229 GTCTTCACTTATTATGTCAAAAATGAATGAAAATG
66 GTCTACACTTATTATATCAAAAATGAATGAAAATG
*
18264 AATCAGGTAT-AAAAGTATTAACATATTATGTTGCGTACTTGTTATTCCATATGATCGAT-AAGT
1 AATCAGGTATGAAAAGTGTTAACATATTATGTTGCGTACTTGTTATTCCATATGATCGATAAAGT
** **
18327 GTCTACACTTATTATATTGAAAATGAATGGGAATG
66 GTCTACACTTATTATATCAAAAATGAATGAAAATG
* *
18362 AATTAGGTATGAAAAGTGTTAACATATTATGTGGCGTACTTG
1 AATCAGGTATGAAAAGTGTTAACATATTATGTTGCGTACTTG
18404 ATATACAGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 42 0.35
99 79 0.65
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (100 bp):
AATCAGGTATGAAAAGTGTTAACATATTATGTTGCGTACTTGTTATTCCATATGATCGATAAAGT
GTCTACACTTATTATATCAAAAATGAATGAAAATG
Found at i:19785 original size:12 final size:13
Alignment explanation
Indices: 19767--19819 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
19757 ATAAAATATG
19767 ATATTTAATAATA
1 ATATTTAATAATA
19780 AT-TTTAA-AATA
1 ATATTTAATAATA
*
19791 GTATTTAAT-ATA
1 ATATTTAATAATA
*
19803 ATATATAATATATA
1 ATATTTAATA-ATA
19817 ATA
1 ATA
19820 ACAAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 5 0.15
12 20 0.61
13 2 0.06
14 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:19800 original size:24 final size:25
Alignment explanation
Indices: 19758--19804 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
19748 ATAATACAAA
19758 TAAAATATGATATTTAATAATAATTT
1 TAAAATATGATATTTAAT-ATAATTT
19784 TAAAATA-G-TATTTAATATAAT
1 TAAAATATGATATTTAATATAAT
19805 ATATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 1 0.05
26 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAAATATGATATTTAATATAATTT
Found at i:19948 original size:21 final size:19
Alignment explanation
Indices: 19911--19951 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19901 TATGTAAAAA
*
19911 AATTATATTTATAATAAAT
1 AATTATATATATAATAAAT
19930 AATTATATAATATATATAAAT
1 AATTATAT-ATATA-ATAAAT
19951 A
1 A
19952 TAAGTTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATATATATAATAAAT
Found at i:20150 original size:14 final size:15
Alignment explanation
Indices: 20144--20176 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
20134 TAATAGTATA
20144 AAAATAATATAATAT
1 AAAATAATATAATAT
20159 AAAATAATTATAATAT
1 AAAATAA-TATAATAT
20175 AA
1 AA
20177 TATGAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAATATAATAT
Found at i:20151 original size:37 final size:37
Alignment explanation
Indices: 20109--20214 Score: 100
Period size: 37 Copynumber: 2.9 Consensus size: 37
20099 CTTTAATGAT
20109 AATAATATATAGATAAAAATATATATAATAGTATA-AA
1 AATAATATATAGATAAAAATATATATAATA-TATAGAA
*
20146 AATAATATA-ATAT-AAAATA-ATTATAATATAATATGAA
1 AATAATATATAGATAAAAATATA-TATAATAT-ATA-GAA
*
20183 AGT-ATATAT-G-TAAAAATAATATATAATATATA
1 AATAATATATAGATAAAAAT-ATATATAATATATA
20215 TATATAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
34 2 0.03
35 17 0.29
36 16 0.28
37 22 0.38
38 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (37 bp):
AATAATATATAGATAAAAATATATATAATATATAGAA
Found at i:20161 original size:16 final size:17
Alignment explanation
Indices: 20109--20212 Score: 81
Period size: 19 Copynumber: 5.9 Consensus size: 17
20099 CTTTAATGAT
*
20109 AATAATATATAGATAAA
1 AATAATATATATATAAA
20126 AATATATATAATAGTATAAA
1 AATA-ATAT-ATA-TATAAA
20146 AATAATATA-ATAT-AA
1 AATAATATATATATAAA
20161 AATAAT-TATAATATAATA
1 AATAATATAT-ATATAA-A
* *
20179 TGAA-AGTATATATGTAAA
1 --AATAATATATATATAAA
20197 AATAATATATAATATA
1 AATAATATAT-ATATA
20213 TATATATAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 23
0.71 0.05 0.23
Matches are distributed among these distances:
14 2 0.03
15 8 0.11
16 9 0.13
17 12 0.17
18 11 0.16
19 14 0.20
20 14 0.20
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AATAATATATATATAAA
Found at i:20165 original size:21 final size:20
Alignment explanation
Indices: 20110--20179 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
20100 TTTAATGATA
20110 ATAATATATAGATAAAAATATAT
1 ATAATATA-A-ATAAAAATA-AT
20133 ATAATAGT--ATAAAAATAAT
1 ATAATA-TAAATAAAAATAAT
**
20152 ATAATATAAAATAATTATAAT
1 ATAATAT-AAATAAAAATAAT
20173 ATAATAT
1 ATAATAT
20180 GAAAGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 1 0.02
19 8 0.20
20 9 0.22
21 16 0.39
23 6 0.15
24 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAATATAAATAAAAATAAT
Found at i:20209 original size:58 final size:60
Alignment explanation
Indices: 20147--20288 Score: 152
Period size: 58 Copynumber: 2.4 Consensus size: 60
20137 TAGTATAAAA
* * *
20147 ATAATATAATATAAAATAATT-AT-AATATAATATGA-AAGTATATATGTAAAAATAATAT
1 ATAATATAATATAAAATAATTAATAAATATAATAT-ACAAGTAAAAATATAAAAATAATAT
* * *
20205 ATAATAT-ATAT-ATATAATTAATAAATATATTATACAAGTAAAAATATAATAATAATAT
1 ATAATATAATATAAAATAATTAATAAATATAATATACAAGTAAAAATATAAAAATAATAT
*
20263 ATAAATAATAATGTAAAATAA-TAATA
1 AT-AAT-ATAATATAAAATAATTAATA
20289 TTTCGTGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
56 7 0.10
57 7 0.10
58 37 0.54
59 3 0.04
60 2 0.03
61 8 0.12
62 5 0.07
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.36
Consensus pattern (60 bp):
ATAATATAATATAAAATAATTAATAAATATAATATACAAGTAAAAATATAAAAATAATAT
Found at i:20210 original size:7 final size:7
Alignment explanation
Indices: 20198--20365 Score: 72
Period size: 7 Copynumber: 24.1 Consensus size: 7
20188 ATATGTAAAA
20198 ATAATAT
1 ATAATAT
20205 ATAATAT
1 ATAATAT
20212 AT-ATAT
1 ATAATAT
20218 ATAAT-T
1 ATAATAT
20224 AATAA-AT
1 -ATAATAT
*
20231 ATATTAT
1 ATAATAT
*
20238 ACAAGTA-
1 ATAA-TAT
20245 A-AA-AT
1 ATAATAT
20250 ATAATA-
1 ATAATAT
20256 ATAATAT
1 ATAATAT
20263 ATAA-AT
1 ATAATAT
*
20269 AATAATGT
1 -ATAATAT
*
20277 AAAATA-
1 ATAATAT
20283 ATAATAT
1 ATAATAT
* ** *
20290 TTCGTGAAA
1 ATAAT--AT
20299 AGTAATAT
1 A-TAATAT
20307 ATAATCA-
1 ATAAT-AT
20314 ATAATAAT
1 ATAAT-AT
20322 ATCAA-A-
1 AT-AATAT
20328 ATAATAT
1 ATAATAT
*
20335 ATAATAAA
1 ATAAT-AT
20343 ATAATTAT
1 ATAA-TAT
20351 ATAATAT
1 ATAATAT
20358 ATAATAT
1 ATAATAT
20365 A
1 A
20366 AAAATAAGGT
Statistics
Matches: 121, Mismatches: 18, Indels: 44
0.66 0.10 0.24
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 30 0.25
7 63 0.52
8 18 0.15
9 4 0.03
10 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:20232 original size:13 final size:12
Alignment explanation
Indices: 20107--20273 Score: 59
Period size: 11 Copynumber: 13.6 Consensus size: 12
20097 ACCTTTAATG
20107 ATAATAATATATA
1 ATAATAA-ATATA
20120 GATAA-AAATATA
1 -ATAATAAATATA
*
20132 TATAAT-AGTATA
1 -ATAATAAATATA
*
20144 AAAAT-AATATA
1 ATAATAAATATA
20155 AT-ATAAA-ATA
1 ATAATAAATATA
*
20165 ATTAT-AATATA
1 ATAATAAATATA
20176 AT-ATGAAAGTATA
1 ATAAT-AAA-TATA
20189 TATGTAA-AAATAATA
1 -A--TAATAAAT-ATA
*
20204 TATAATATATATA
1 -ATAATAAATATA
*
20217 TATAATTAATA-A
1 -ATAATAAATATA
* *
20229 AT-ATATTATACA
1 ATAATA-AATATA
20241 AGTAA-AAATATA
1 A-TAATAAATATA
20253 ATAATAATATATAA
1 ATAATAA-ATAT-A
20267 ATAATAA
1 ATAATAA
20274 TGTAAAATAA
Statistics
Matches: 121, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
10 13 0.11
11 27 0.22
12 26 0.21
13 27 0.22
14 18 0.15
15 8 0.07
16 1 0.01
17 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:20332 original size:28 final size:24
Alignment explanation
Indices: 20296--20363 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 24
20286 ATATTTCGTG
20296 AAAAGTAATATATAATCAATAATAATAT
1 AAAA-TAATATATAAT-AA-AATAAT-T
20324 CAAAATAATATATAATAAAATAATT
1 -AAAATAATATATAATAAAATAATT
*
20349 -ATATAATATATAATA
1 AAAATAATATATAATA
20364 TAAAAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
23 14 0.37
25 1 0.03
26 6 0.16
27 2 0.05
28 11 0.29
29 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (24 bp):
AAAATAATATATAATAAAATAATT
Found at i:20353 original size:16 final size:15
Alignment explanation
Indices: 20109--20365 Score: 92
Period size: 15 Copynumber: 16.6 Consensus size: 15
20099 CTTTAATGAT
20109 AATAATATATAGATAAA
1 AATAATATATA-AT-AA
20126 AATATATATAATAGTATAAA
1 AATA-ATAT-ATA--AT-AA
20146 AATAATATA-ATATAA
1 AATAATATATA-ATAA
20161 AATAAT-TATAATATA
1 AATAATATATAATA-A
*
20176 ATATGAAAGTATATATGTAAA
1 A-AT--AA-TATATA-AT-AA
20197 AATAATATATAAT-A
1 AATAATATATAATAA
* *
20211 TAT-ATATATAAT-T
1 AATAATATATAATAA
*
20224 AATAAATATATTATACA
1 AAT-AATATATAATA-A
* *
20241 AGTAA-AAAT-ATAA
1 AATAATATATAATAA
*
20254 TAATAATATATAA-AT
1 -AATAATATATAATAA
* *
20269 AATAATGTA-AA-AT
1 AATAATATATAATAA
* **
20282 AATAATATTTCGTGAA
1 AATAATATATAAT-AA
*
20298 AAGTAATATATAAT-C
1 AA-TAATATATAATAA
20313 AATAATA-AT-ATCAA
1 AATAATATATAAT-AA
20327 AATAATATATAATAA
1 AATAATATATAATAA
20342 AATAATTATATAAT-A
1 AATAA-TATATAATAA
*
20357 TATAATATA
1 AATAATATA
20366 AAAATAAGGT
Statistics
Matches: 187, Mismatches: 25, Indels: 59
0.69 0.09 0.22
Matches are distributed among these distances:
12 2 0.01
13 25 0.13
14 39 0.21
15 42 0.22
16 22 0.12
17 21 0.11
18 9 0.05
19 8 0.04
20 15 0.08
21 3 0.02
22 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (15 bp):
AATAATATATAATAA
Found at i:20354 original size:23 final size:26
Alignment explanation
Indices: 20109--20422 Score: 137
Period size: 26 Copynumber: 11.7 Consensus size: 26
20099 CTTTAATGAT
* *
20109 AATAATATATAGATAAAAAT-ATATAT
1 AATAATATATA-ATAATAATAATATAA
* *
20135 AATAGTATAAAAATAAT-ATAATATAA
1 AATAATAT-ATAATAATAATAATATAA
*
20161 AATAAT-TATAAT-ATAAT-AT-GAA
1 AATAATATATAATAATAATAATATAA
* * *
20183 AGTATATATGTAAAAATAAT-ATATAA
1 AATA-ATATATAATAATAATAATATAA
*
20209 TATATATATATAATTAATAAATATATTATACA
1 AATA-ATATATAA-TAAT-AATA-A-TATA-A
* *
20241 AGTAAAAATATAATAATAAT-ATATAAA
1 AAT-AATATATAATAATAATAATAT-AA
* * * *
20268 TAATAATGTAAAATAATAATATTTCGTGAA
1 -AATAATATATAATAATAATA-AT-AT-AA
20298 AAGTAATATATAATCAATAATAATATCAA
1 AA-TAATATATAAT-AATAATAATAT-AA
*
20327 AATAATATATAATAA-AATAATTATAT
1 AATAATATATAATAATAATAA-TATAA
* ***
20353 AATATATAATATAAAAATAAGGTTA-AA
1 AATA-AT-ATATAATAATAATAATATAA
* *
20380 AATAAAACA-AATAATAATAATAATAA
1 AATAATATATAATAATAATAAT-ATAA
* *
20406 ATTTATATATAATAATA
1 AATAATATATAATAATA
20423 GAAATAAATA
Statistics
Matches: 214, Mismatches: 46, Indels: 55
0.68 0.15 0.17
Matches are distributed among these distances:
22 5 0.02
23 6 0.03
24 18 0.08
25 13 0.06
26 51 0.24
27 41 0.19
28 28 0.13
29 10 0.05
30 17 0.08
31 15 0.07
32 9 0.04
33 1 0.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (26 bp):
AATAATATATAATAATAATAATATAA
Found at i:20372 original size:18 final size:19
Alignment explanation
Indices: 20107--20436 Score: 80
Period size: 20 Copynumber: 16.5 Consensus size: 19
20097 ACCTTTAATG
20107 ATAATA-ATATATAGATAAAA
1 ATAATATATA-ATA-ATAAAA
20127 AT-ATATATAATAGTATAAAA
1 ATAATATATAATA--ATAAAA
*
20147 ATAATATA-ATATAA-AATA
1 ATAATATATA-ATAATAAAA
* *
20165 ATTATAATATAAT-ATGAAA
1 ATAAT-ATATAATAATAAAA
* * * *
20184 GTATATATGTAAAAATAATAT
1 ATA-ATATATAATAATAA-AA
*
20205 ATAATATAT-ATATATAATTA
1 ATAATATATAATA-ATAA-AA
*
20225 ATAAATATATTATACAAGTAAAA
1 AT-AATATA-TA-ATAA-TAAAA
20248 AT-ATA-ATAATAATATATAA
1 ATAATATATAATAATA-A-AA
* *
20267 ATAATAATGTAA-AATAATA
1 ATAAT-ATATAATAATAAAA
* * *
20286 AT-ATTTCGTGAA-AAGTAATAT
1 ATAATAT-AT-AATAA-TAA-AA
20307 ATAATCA-ATAATAATATCAAA
1 ATAAT-ATATAATAATA--AAA
*
20328 ATAATATATAATAAAATAATTAT
1 ATAATATATAAT--AATAA--AA
20351 ATAATATATAAT-ATAAAA
1 ATAATATATAATAATAAAA
** *
20369 ATAAGGT-TAAAAATAAAA
1 ATAATATATAATAATAAAA
20387 CA-AATA-ATAATAATAATAA
1 -ATAATATATAATAATAA-AA
* *
20406 ATTTATATATAATAATAGAA
1 A-TAATATATAATAATAAAA
20426 ATAAATATATA
1 AT-AATATATA
20437 GGGTTAGATT
Statistics
Matches: 229, Mismatches: 38, Indels: 86
0.65 0.11 0.24
Matches are distributed among these distances:
17 6 0.03
18 39 0.17
19 39 0.17
20 61 0.27
21 51 0.22
22 7 0.03
23 21 0.09
24 5 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
ATAATATATAATAATAAAA
Found at i:20404 original size:21 final size:20
Alignment explanation
Indices: 20307--20406 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 20
20297 AAAGTAATAT
**
20307 ATAATCAATAATAATATCAAA
1 ATAAT-AATAATAATAAAAAA
20328 ATAAT-AT-ATAATAAAATAA
1 ATAATAATAATAATAAAA-AA
* *
20347 TTATATAATATATAATATAAAA
1 ATA-ATAATA-ATAATAAAAAA
*** *
20369 ATAAGGTTAAAAATAAAACAA
1 ATAATAATAATAATAAAA-AA
20390 ATAATAATAATAATAAA
1 ATAATAATAATAATAAA
20407 TTTATATATA
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
18 7 0.12
19 6 0.10
20 9 0.15
21 25 0.42
22 4 0.07
23 8 0.14
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAATAAAAAA
Found at i:20417 original size:24 final size:24
Alignment explanation
Indices: 20390--20436 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20380 AATAAAACAA
*
20390 ATAATAATA-ATAATAAATTTATAT
1 ATAATAATAGA-AATAAATATATAT
20414 ATAATAATAGAAATAAATATATA
1 ATAATAATAGAAATAAATATATA
20437 GGGTTAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATAATAGAAATAAATATATAT
Found at i:22545 original size:206 final size:206
Alignment explanation
Indices: 22127--22674 Score: 834
Period size: 206 Copynumber: 2.7 Consensus size: 206
22117 AAATCTGCTT
* *
22127 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * *
22192 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCATAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
** * * * * * *
22257 GGATCTTGTTTCAGTGAAATTATCTGAAGGTGAGATCTGTTATGTGTCTGCTCTCTGTTGAAATG
131 GGATCTACTTTCAGTGAAATCATCTGAAGGTGAGATCTGCTACGTGTCTGCCCTCTATCGAAATG
*
22322 GAGATGCCAGA
196 GAGATACCAGA
22333 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
22398 GTGAAAGCCAAATCAACTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
22463 GGATCTACTTT-AGTGTAAA-CATCTGAAGGGTG-GATTTGCTACGTGTCTGCCCT-TCATCGAA
131 GGATCTACTTTCAGTG-AAATCATCTGAA-GGTGAGATCTGCTACGTGTCTGCCCTCT-ATCGAA
* *
22524 GTGGAGAATACCAGG
193 ATGGAG-ATACCAGA
*
22539 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGATTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
22604 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
22669 GGATCT
131 GGATCT
22675 GCTTCAACTA
Statistics
Matches: 315, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
204 1 0.00
205 37 0.12
206 277 0.88
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTTCAGTGAAATCATCTGAAGGTGAGATCTGCTACGTGTCTGCCCTCTATCGAAATG
GAGATACCAGA
Found at i:34500 original size:12 final size:13
Alignment explanation
Indices: 34482--34534 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
34472 ATAAAATATG
34482 ATATTTAATAATA
1 ATATTTAATAATA
34495 AT-TTTAA-AATA
1 ATATTTAATAATA
*
34506 GTATTTAAT-ATA
1 ATATTTAATAATA
*
34518 ATATATAATATATA
1 ATATTTAATA-ATA
34532 ATA
1 ATA
34535 ACAAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 5 0.15
12 20 0.61
13 2 0.06
14 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:34515 original size:24 final size:25
Alignment explanation
Indices: 34473--34519 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
34463 ATAATACAAA
34473 TAAAATATGATATTTAATAATAATTT
1 TAAAATATGATATTTAAT-ATAATTT
34499 TAAAATA-G-TATTTAATATAAT
1 TAAAATATGATATTTAATATAAT
34520 ATATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 1 0.05
26 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAAATATGATATTTAATATAATTT
Found at i:34693 original size:21 final size:23
Alignment explanation
Indices: 34635--34693 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
34625 AAATTATATT
*
34635 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
34656 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
34679 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
34694 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:34867 original size:14 final size:13
Alignment explanation
Indices: 34848--35140 Score: 67
Period size: 14 Copynumber: 21.5 Consensus size: 13
34838 TAAAAAATAT
*
34848 ATAATAGTATAAAA
1 ATAATAATAT-AAA
34862 ATAATAATATAAA
1 ATAATAATATAAA
*
34875 ATAATTATATATAAT
1 ATAA-TA-ATATAAA
34890 ATGAAAGTATATATGTAAAA
1 AT--AA-TA-ATA--T-AAA
*
34910 ATAAT-ATATAAT
1 ATAATAATATAAA
34922 ATATATAAT-TAATA
1 ATA-ATAATATAA-A
*
34936 A-ATATATTATACAA
1 ATA-ATAATATA-AA
* * *
34950 GTAAAAATGT-A-
1 ATAATAATATAAA
34961 ATAATAATATATAA
1 ATAATAATATA-AA
*
34975 ATAATAATGTAAA
1 ATAATAATATAAA
34988 ATAATAATATTTTGTGAAA
1 ATAATAATA-----T-AAA
35007 AGTAAT-ATATAATAA
1 A-TAATAATAT-A-AA
35022 ATAATAATAT-AA
1 ATAATAATATAAA
35034 AT-ATATATAATAAA
1 ATAATA-AT-ATAAA
* *
35048 ATAATTATATAAT
1 ATAATAATATAAA
35061 AT-ATAATAT-AA
1 ATAATAATATAAA
** *
35072 A-AATAAGGTTAA
1 ATAATAATATAAA
35084 A-AATAA-A-ACAA
1 ATAATAATATA-AA
*
35095 ATAATAATA-ATA
1 ATAATAATATAAA
35107 ATAATAATAATAAA
1 ATAATAAT-ATAAA
* * *
35121 TTTATATATATATA
1 ATAATA-ATATAAA
35135 ATAATA
1 ATAATA
35141 GAAATAAATA
Statistics
Matches: 210, Mismatches: 32, Indels: 74
0.66 0.10 0.23
Matches are distributed among these distances:
11 20 0.10
12 40 0.19
13 41 0.20
14 57 0.27
15 24 0.11
17 9 0.04
18 3 0.01
19 8 0.04
20 8 0.04
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:34901 original size:52 final size:51
Alignment explanation
Indices: 34823--34982 Score: 123
Period size: 52 Copynumber: 3.1 Consensus size: 51
34813 ACCTTTAATG
* *
34823 ATAATAATATATAGATA-AAAAATATATAATAGTATAAA-AATA-ATAATATAAA
1 ATAATTATATATA-ATATAAAAATATAT-AT-GTAAAAATAATATATAATAT-AA
* * *
34875 ATAATTATATATAATATGAAAGTATATATGTAAAAATAATATATAATATAT
1 ATAATTATATATAATATAAAAATATATATGTAAAAATAATATATAATATAA
* * * * * *
34926 ATAATTAATAAATATATTATACAAGTAAAAATGTAATAATAATATATAA-AT-A
1 ATAATT-AT--ATATAATATAAAAATATATATGTAAAAATAATATATAATATAA
34978 ATAAT
1 ATAAT
34983 GTAAAATAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
50 6 0.07
51 16 0.18
52 34 0.38
53 2 0.02
54 32 0.36
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (51 bp):
ATAATTATATATAATATAAAAATATATATGTAAAAATAATATATAATATAA
Found at i:34926 original size:54 final size:55
Alignment explanation
Indices: 34862--35058 Score: 154
Period size: 54 Copynumber: 3.5 Consensus size: 55
34852 TAGTATAAAA
*
34862 ATAATAAT-ATAAAATAATTATATATAATATGAAAGTATATATGTAAAAATAATAT
1 ATAATAATAATAAAATAA-TATATATATTATGAAAGTATATATGTAAAAATAATAT
* * * * *
34917 ATAAT-AT-ATATAATTAATAAATATATTAT-ACAAGTAAAAATGTAATAATAATAT
1 ATAATAATAATA-AAATAATATATATATTATGA-AAGTATATATGTAAAAATAATAT
* * *
34971 ATAAATAATAATGTAAAATAATA-ATATTTTGTGAAAAGTAATATATAATAAATAATAATAT
1 AT-AATAATAA--TAAAATAATATATATATTATG-AAAGT-ATATAT-GTAAA-AATAATAT
*
35032 AAATATATATAATAAAATAAT-TATATA
1 ATA-ATA-ATAATAAAATAATATATATA
35059 ATATATAATA
Statistics
Matches: 112, Mismatches: 15, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
53 1 0.01
54 37 0.33
55 13 0.12
56 2 0.02
57 8 0.07
58 11 0.10
59 7 0.06
60 17 0.15
61 12 0.11
62 4 0.04
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.37
Consensus pattern (55 bp):
ATAATAATAATAAAATAATATATATATTATGAAAGTATATATGTAAAAATAATAT
Found at i:34938 original size:27 final size:26
Alignment explanation
Indices: 34902--35154 Score: 99
Period size: 27 Copynumber: 9.7 Consensus size: 26
34892 GAAAGTATAT
34902 ATGTAA-AAATAATATATAATATATATA
1 ATGTAATAAATAATATATAA-ATA-ATA
*
34929 AT-TAATAAAT-ATATTATACAAGTAAAA
1 ATGTAATAAATAATA-TATA-AA-TAATA
34956 ATGTAAT-AATAATATATAAATAATA
1 ATGTAATAAATAATATATAAATAATA
* *
34981 ATGTAAAATAATAATATTTTGTGAAAAGTAAT-
1 ATGTAATA-AATAATA---TAT--AAA-TAATA
*
35013 ATATAATAAATAATAATATAAAT-AT-
1 ATGTAATAAATAAT-ATATAAATAATA
*
35038 ATATAATAAAATAAT-TATATAATATATA
1 ATGTAAT-AAATAATATATA-AATA-ATA
* **
35066 ATATAA-AAATAAGGT-TAAA-AATA
1 ATGTAATAAATAATATATAAATAATA
*
35089 A---AACAAATAATA-AT-AATAATA
1 ATGTAATAAATAATATATAAATAATA
* * *
35110 ATAATAATAAATTTATATATATATAATA
1 AT-GTAATAAA-TAATATATAAATAATA
*
35138 ATAGAAATAAAT-ATATA
1 AT-GTAATAAATAATATA
35155 GGGTTAGATT
Statistics
Matches: 180, Mismatches: 15, Indels: 63
0.70 0.06 0.24
Matches are distributed among these distances:
20 4 0.02
21 12 0.07
23 4 0.02
24 5 0.03
25 29 0.16
26 33 0.18
27 38 0.21
28 31 0.17
29 2 0.01
30 2 0.01
31 6 0.03
32 10 0.06
33 4 0.02
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (26 bp):
ATGTAATAAATAATATATAAATAATA
Found at i:34955 original size:113 final size:114
Alignment explanation
Indices: 34840--35154 Score: 280
Period size: 113 Copynumber: 2.8 Consensus size: 114
34830 TATATAGATA
*
34840 AAAAATAT-ATAATAGTATAAAAATAATAATATAAAATAATTATATATAATATG-AAAGT-ATAT
1 AAAAATATAATAATAATATAAAAATAATAATATAAAATAA-TA-ATATAATATGAAAAGTAATAT
*
34902 AT-GTAAA-AATAATATATAATATATATAATTAATAAATATATTATACAAGT
64 ATAATAAATAATAATATA-AATATATATAATTAATAAATATATTATACAAGT
* * * ** *
34952 AAAAATGTAATAATAATATATAAATAATAATGTAAAATAATAATATTTTGTGAAAAGTAATATAT
1 AAAAATATAATAATAATATAAAAATAATAATATAAAATAATAATATAATATGAAAAGTAATATAT
*
35017 AATAAATAATAATATAAATATATATAA-T-A-AAATA-ATTATATAA-T
66 AATAAATAATAATATAAATATATATAATTAATAAATATATTATACAAGT
* * * * *
35061 ATATAATATAAAAATAAGGT-TAAAAATAA-AACA-AATAATAATAATAATAATAATAATAAATT
1 A-AAAATATAATAATAA--TATAAAAATAATAATATAA-AATAATAAT-ATAAT-ATGA-AAAGT
* *
35123 TATATAT-ATATAATAATAGAAATAAATATATA
59 AATATATAATA-AATAATA-ATATAAATATATA
35155 GGGTTAGATT
Statistics
Matches: 167, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
109 4 0.02
110 31 0.19
111 23 0.14
112 21 0.13
113 52 0.31
114 27 0.16
115 9 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (114 bp):
AAAAATATAATAATAATATAAAAATAATAATATAAAATAATAATATAATATGAAAAGTAATATAT
AATAAATAATAATATAAATATATATAATTAATAAATATATTATACAAGT
Found at i:35035 original size:12 final size:12
Alignment explanation
Indices: 35018--35147 Score: 76
Period size: 12 Copynumber: 10.7 Consensus size: 12
35008 GTAATATATA
35018 ATAAATAATAAT
1 ATAAATAATAAT
35030 ATAAAT-AT-AT
1 ATAAATAATAAT
*
35040 ATAATAAAATAATT
1 ATAA-ATAATAA-T
35054 ATATAATATATAAT
1 ATA-AATA-ATAAT
35068 ATAAA-AATAAGGT
1 ATAAATAATAA--T
*
35081 -TAAA-AATAAA
1 ATAAATAATAAT
*
35091 ACAAATAATAAT
1 ATAAATAATAAT
35103 A-ATAATAATAAT
1 ATA-AATAATAAT
*
35115 AATAAAT-TTATAT
1 -ATAAATAATA-AT
*
35128 ATATATAATAAT
1 ATAAATAATAAT
*
35140 AGAAATAA
1 ATAAATAA
35148 ATATATAGGG
Statistics
Matches: 93, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
10 6 0.06
11 11 0.12
12 48 0.52
13 12 0.13
14 11 0.12
15 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:35045 original size:18 final size:18
Alignment explanation
Indices: 35009--35152 Score: 70
Period size: 18 Copynumber: 7.9 Consensus size: 18
34999 TTGTGAAAAG
35009 TAATATATAATA-A-ATAA
1 TAATATA-AATATATATAA
35026 TAATATAAATATATATAA
1 TAATATAAATATATATAA
* *
35044 TAAAATAATTATATAATATA
1 TAATATAAATATAT-ATA-A
*
35064 TAATATAAAAATA-AGGTTAA
1 TAATATAAATATATA---TAA
* *
35084 -AA-ATAAA-ACAAATAA
1 TAATATAAATATATATAA
35099 TAATA-ATAATA-ATAATAA
1 TAATATA-AATATAT-ATAA
* *
35117 TAAATTTATATATATATAA
1 T-AATATAAATATATATAA
* *
35136 TAATAGAAATAAATATA
1 TAATATAAATATATATA
35153 TAGGGTTAGA
Statistics
Matches: 98, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
15 3 0.03
16 7 0.07
17 14 0.14
18 41 0.42
19 16 0.16
20 15 0.15
21 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
TAATATAAATATATATAA
Found at i:35140 original size:3 final size:3
Alignment explanation
Indices: 35009--35119 Score: 63
Period size: 3 Copynumber: 37.0 Consensus size: 3
34999 TTGTGAAAAG
*
35009 TAA TATA TAA TAAA TAA TAA T-A TAA -ATA TATA TAA TAA -AA TAA TTA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA
* *** * *
35055 T-A TAA TATA TAA T-A TAA AAA TAA GGT TAA AAA TAA -AA CAAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
35099 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
35120 ATTTATATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 22
0.71 0.10 0.18
Matches are distributed among these distances:
2 11 0.13
3 58 0.68
4 16 0.19
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:39459 original size:20 final size:20
Alignment explanation
Indices: 39434--39477 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
39424 CCTCACACTA
39434 ATTTAACACT-TATTATACTC
1 ATTTAACA-TATATTATACTC
39454 ATTTAACATATATTATACTC
1 ATTTAACATATATTATACTC
39474 ATTT
1 ATTT
39478 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAACATATATTATACTC
Found at i:42397 original size:35 final size:35
Alignment explanation
Indices: 42358--42657 Score: 415
Period size: 35 Copynumber: 8.6 Consensus size: 35
42348 TATGGCAAAG
42358 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
42393 TGTGAAACGTAAGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
42428 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
42463 TGTGCAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
42498 TATGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
42533 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
42568 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** ** * *
42603 TAAG-AACGTAGGTATGACAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACTGAGT
* *
42637 TGTGAAATGTAGATATGGTAT
1 TGTGAAACGTAGGTATGGTAT
42658 TTCAATAAGG
Statistics
Matches: 232, Mismatches: 31, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
33 1 0.00
34 26 0.11
35 205 0.88
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:42545 original size:105 final size:105
Alignment explanation
Indices: 42358--42657 Score: 476
Period size: 105 Copynumber: 2.9 Consensus size: 105
42348 TATGGCAAAG
* *
42358 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTATGAAACGTAGGTATGGTATTAACCATAC
*
42423 CGAGTTGTGAAACGTAGGTATGGTATCATCCATACTGAGT
66 CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGT
*
42463 TGTGCAACGTAGGTATGGTATCATCCATACTGAGTTATGAAACGTAGGTATGGTATTAACCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTATGAAACGTAGGTATGGTATTAACCATAC
*
42528 TGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGT
66 CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * ** **
42568 TGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAG-AACGTAGGTATGACATTTCCCATAC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTATGAAACGTAGGTATGGTATTAACCATAC
* *
42632 CGAGTTGTGAAATGTAGATATGGTAT
66 CGAGTTGTGAAACGTAGGTATGGTAT
42658 TTCAATAAGG
Statistics
Matches: 180, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
104 44 0.24
105 136 0.76
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (105 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTATGAAACGTAGGTATGGTATTAACCATAC
CGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:56102 original size:43 final size:42
Alignment explanation
Indices: 56031--56178 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
56021 CCAATGCCAT
* * * *
56031 ATCCCAGATATGGTCTTACA-TAGGATCTCGTTTCGATGCTA-
1 ATCCCAGATATGGTCTTACACGA-AATCTCATATCGATGCTAC
*
56072 ATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATGCTAC
1 AT--CCCAGATATGGTCTTACACGAAATCTCATATCGATGCTAC
* * * * *
56116 ATCCCAAATATGATCTTACACGAAGTCTCATA-CTGATGCCAT
1 ATCCCAGATATGGTCTTACACGAAATCTCATATC-GATGCTAC
*
56158 ATCCCAAATATGGTCTTACAC
1 ATCCCAGATATGGTCTTACAC
56179 ATAGTCTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.03
42 52 0.58
43 32 0.36
44 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCTAC
Found at i:56145 original size:42 final size:42
Alignment explanation
Indices: 56082--56186 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
56072 ATAGCCCAGC
* *
56082 TATGGTCTTACACGAAATCTCATA-TCGATGCTACATCCCAAA
1 TATGGTCTTACACGAAGTCTCATACT-GATGCCACATCCCAAA
* *
56124 TATGATCTTACACGAAGTCTCATACTGATGCCATATCCCAAA
1 TATGGTCTTACACGAAGTCTCATACTGATGCCACATCCCAAA
56166 TATGGTCTTACAC-ATAGTCTC
1 TATGGTCTTACACGA-AGTCTC
56187 GATAACCTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (42 bp):
TATGGTCTTACACGAAGTCTCATACTGATGCCACATCCCAAA
Found at i:58156 original size:51 final size:51
Alignment explanation
Indices: 58094--58229 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
58084 TGGAAACATG
* *
58094 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAGAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * * ** * *
58145 ATTTTATAAGATATTATTTTATAAGATTATATATCTTAGATAAGATATGTA
1 ATCTTAGAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
*
58196 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAGAAGATATGATTTTATAATCTTAGAGAT
58230 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.44
Consensus pattern (51 bp):
ATCTTAGAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:58165 original size:15 final size:16
Alignment explanation
Indices: 58145--58192 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
58135 ATGATATGTA
58145 ATTTTATAAGATAT-T
1 ATTTTATAAGATATAT
58160 ATTTTATAAGATTATAT
1 ATTTTATAAGA-TATAT
*
58177 ATCTTAGATAAGATAT
1 AT-TT-TATAAGATAT
58193 GTAATCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 3 0.11
18 5 0.18
19 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (16 bp):
ATTTTATAAGATATAT
Found at i:58189 original size:19 final size:19
Alignment explanation
Indices: 58165--58203 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58155 ATATTATTTT
58165 ATAAGAT-TATATATCTTAG
1 ATAAGATATATA-ATCTTAG
*
58184 ATAAGATATGTAATCTTAG
1 ATAAGATATATAATCTTAG
58203 A
1 A
58204 AGATATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (19 bp):
ATAAGATATATAATCTTAG
Found at i:58208 original size:17 final size:17
Alignment explanation
Indices: 58126--58210 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
58116 AATCTTAGAG
58126 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGTA
* *
58145 ATTTTATAAGATAT-T-
1 ATCTTAGAAGATATGTA
* * *
58160 ATTTTATAAGAT-TATA
1 ATCTTAGAAGATATGTA
58176 TATCTTAGATAAGATATGTA
1 -ATCTTAG--AAGATATGTA
58196 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
58211 ATTTTATATT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.02
15 13 0.24
16 1 0.02
17 18 0.33
18 1 0.02
19 18 0.33
20 3 0.05
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.44
Consensus pattern (17 bp):
ATCTTAGAAGATATGTA
Found at i:63351 original size:51 final size:51
Alignment explanation
Indices: 63296--63431 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 51
63286 TGGAAACATG
* *
63296 ATCTTAAAAGATGTGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * ** * *
63347 ATCTTATAAGATATTATTTTATAAAATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * *
63398 ATCTTAGAAGATATGATTTTGTATTCTTAGAGAT
1 ATCTTAAAAGATATGATTTTATAATCTTAGAGAT
63432 TTGATTGTAA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:63431 original size:22 final size:23
Alignment explanation
Indices: 63394--63437 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
63384 AGATAAGATA
63394 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATGATTT
* *
63417 TGTATTCTTAG-AGATTTGATT
1 TGTAATCTTAGAAGATATGATT
63438 GTAAATGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATGATTT
Found at i:64323 original size:26 final size:27
Alignment explanation
Indices: 64275--64327 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
64265 CAAAATAAAA
64275 AAAATAATTAACATAATTCAAATATAT
1 AAAATAATTAACATAATTCAAATATAT
*
64302 AAAATAATTTA-ATAATTCAAATATAT
1 AAAATAATTAACATAATTCAAATATAT
64328 TACCAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (27 bp):
AAAATAATTAACATAATTCAAATATAT
Found at i:65590 original size:30 final size:30
Alignment explanation
Indices: 65554--65616 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
65544 ATTTATTTTA
65554 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
65584 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
65614 TTG
1 TTG
65617 CTTGTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:70867 original size:47 final size:48
Alignment explanation
Indices: 70797--71056 Score: 174
Period size: 49 Copynumber: 5.4 Consensus size: 48
70787 CCGACTCCAA
* * *
70797 GTCCCAGACATCGTCTTTCACTGG-CT-AGTATATTAAAGTCGATGCCGT
1 GTCCCAGACA-GGTCTTACACTGGCCTCA-TATATTAAAGTCGATGCCAT
* ***
70845 GTCCCAGACAGGTCTTACACTGGCCCTCATCTATTGGTGTCGATGCCAT
1 GTCCCAGACAGGTCTTACACTGG-CCTCATATATTAAAGTCGATGCCAT
* * *** ** * * *
70894 GTCCCAGATAGGTCTTACATTGAATTTCATATATCGAGGTTGATGCCAA
1 GTCCCAGACAGGTCTTACACTG-GCCTCATATATTAAAGTCGATGCCAT
* ****
70943 GTCCCAGACAGGTCTTACACTGGCCCTCATCTATCGGTGTCGATGCCAT
1 GTCCCAGACAGGTCTTACACTGG-CCTCATATATTAAAGTCGATGCCAT
* * * * *
70992 GTCCTAGACAGGTCTTACACT-GACACACA-A-T-AAG-CTGACGCCAT
1 GTCCCAGACAGGTCTTACACTGGCCTCATATATTAAAGTC-GATGCCAT
71036 GTCCCAGACAGGTCTTACACT
1 GTCCCAGACAGGTCTTACACT
71057 AGCTTGTATA
Statistics
Matches: 168, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
46 1 0.01
47 14 0.08
48 11 0.07
49 112 0.67
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GTCCCAGACAGGTCTTACACTGGCCTCATATATTAAAGTCGATGCCAT
Found at i:70897 original size:49 final size:49
Alignment explanation
Indices: 70834--71013 Score: 236
Period size: 49 Copynumber: 3.7 Consensus size: 49
70824 GTATATTAAA
* *
70834 GTCGATGCCGTGTCCCAGACAGGTCTTACACTGGCCCTCATCTATTGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCGGT
* * **** *
70883 GTCGATGCCATGTCCCAGATAGGTCTTACATTGAATTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCG-GT
* *
70932 GTTGATGCCAAGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCGGT
*
70981 GTCGATGCCATGTCCTAGACAGGTCTTACACTG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTG
71014 ACACACAATA
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.01
49 106 0.98
50 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCGGT
Found at i:85530 original size:16 final size:18
Alignment explanation
Indices: 85504--85543 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
85494 AACAATTAAT
85504 TAAATTAA-TTTCTCAAC
1 TAAATTAATTTTCTCAAC
85521 TAAA-TAATTTTCTCAAC
1 TAAATTAATTTTCTCAAC
*
85538 TTAATT
1 TAAATT
85544 TTAATTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 16 0.80
18 1 0.05
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAC
Found at i:93150 original size:26 final size:26
Alignment explanation
Indices: 93121--93170 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
93111 CTATTTATTT
93121 ATTTTAAAATATTTTATTT-ATTATCC
1 ATTTTAAAAT-TTTTATTTCATTATCC
* *
93147 ATTTTAAGATTTTTCTTTCATTAT
1 ATTTTAAAATTTTTATTTCATTAT
93171 ACTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTAAAATTTTTATTTCATTATCC
Found at i:93176 original size:25 final size:26
Alignment explanation
Indices: 93121--93177 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
93111 CTATTTATTT
*
93121 ATTTTAAAATATTTTATTTATTATCC
1 ATTTTAAAATATTTTATTTATTATAC
* *
93147 ATTTTAAGAT-TTTTCTTTCATTATAC
1 ATTTTAAAATATTTTATTT-ATTATAC
93173 -TTTTA
1 ATTTTA
93178 TATATATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTAAAATATTTTATTTATTATAC
Found at i:96249 original size:20 final size:20
Alignment explanation
Indices: 96221--96258 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96211 TTTAATGAAA
96221 TTATAGTATATA-ATTTTATT
1 TTATAGTAT-TACATTTTATT
*
96241 TTATTGTATTACATTTTA
1 TTATAGTATTACATTTTA
96259 ACATTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATAGTATTACATTTTATT
Found at i:98000 original size:31 final size:31
Alignment explanation
Indices: 97965--98048 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
97955 ACTTAATAGC
* * *
97965 TCAGTGACATAAATAAAAACTTTCAAATAAT
1 TCAGTAACTTAAATGAAAACTTTCAAATAAT
97996 TCAGTAACTTAAATGAAAACTTTCAAATAAT
1 TCAGTAACTTAAATGAAAACTTTCAAATAAT
98027 TCAGTAACTTAAATGAAAACTT
1 TCAGTAACTTAAATGAAAACTT
98049 CTTGAAGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (31 bp):
TCAGTAACTTAAATGAAAACTTTCAAATAAT
Found at i:103954 original size:48 final size:50
Alignment explanation
Indices: 103850--104027 Score: 185
Period size: 48 Copynumber: 3.7 Consensus size: 50
103840 TCATTTTTGC
* * *
103850 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCAC--A-CTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGGAGATATGAGA
* * * **
103896 GCCATTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA-A-ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATATGAGA
* *
103944 GCTAGTGTAAGA-CATGTCTGGGGCAT-GCATCGGCACGGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATATGAGA
*
103992 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
104028 CTCGATTTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
46 20 0.19
47 30 0.28
48 37 0.34
49 14 0.13
50 7 0.06
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATATGAGA
Found at i:104014 original size:96 final size:94
Alignment explanation
Indices: 103850--104021 Score: 247
Period size: 96 Copynumber: 1.8 Consensus size: 94
103840 TCATTTTTGC
* * *
103850 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACACTATGAGAGCCATTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCCAGTGTAAGACCATGTC
103915 TGGGACATGGCATTGGCATTGAAATGAGA
66 TGGGACATGGCATTGGCATTGAAATGAGA
* * * *
103944 GCTAGTGTAAGACATGTCTGGGGCATGCATC-GGCACGGAGATGTGAGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC--A-ATATGAGAGCCAGTGTAAGACCAT
104008 GTCTGGGACATGGC
63 GTCTGGGACATGGC
104022 GTCGGCCTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
93 4 0.06
94 29 0.43
95 1 0.01
96 34 0.50
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATTGGCATTGAAATGAGA
Found at i:109854 original size:23 final size:23
Alignment explanation
Indices: 109824--109869 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
109814 TGAGAGTATA
109824 ACTCACACGAAGATAATAAATTC
1 ACTCACACGAAGATAATAAATTC
109847 ACTCACACGAAGATAATAAATTC
1 ACTCACACGAAGATAATAAATTC
109870 CTGAAGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22
Consensus pattern (23 bp):
ACTCACACGAAGATAATAAATTC
Found at i:110847 original size:48 final size:48
Alignment explanation
Indices: 110795--111127 Score: 170
Period size: 48 Copynumber: 7.0 Consensus size: 48
110785 TTACACAATG
* * *
110795 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
* * * * * *
110843 TCTCA-ACTTGGTGCCGATGCCATATCCTAGATACT-GTCTTATACGAGA
1 TCTCATA-TCGATGCCGATGCCATGTCCCAGACA-TGGTCTTATACGGGA
* * * * * * *
110891 CCTCATA-AGATGTCGATGCCAGGTCCTAGACGTGGTCTAATACGAGG-
1 TCTCATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACG-GGA
* * *
110938 CCTCATAAT-GATGCTGATGCCATGTCCCAGACATGGTCTTATACAGGA
1 TCTCAT-ATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
* * ** * * **
110986 TCTCATATC-A-----ATGCTATATCTTAGATATGGT-AT-TACTTGA
1 TCTCATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
* * * * *
111026 TATTATATATCGATGCCGATGCCATATCCCAAATATGGTCTTATACGGGA
1 T-CT-CATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
* * ** *
111076 TCGCACATATTGATGCTAATGCCATGTCCCAGACATGGTCTTATATGGGA
1 T--CTCATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
111126 TC
1 TC
111128 ACACATACTG
Statistics
Matches: 210, Mismatches: 55, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
40 6 0.03
41 2 0.01
42 21 0.10
43 1 0.00
46 1 0.00
47 39 0.19
48 93 0.44
49 3 0.01
50 44 0.21
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (48 bp):
TCTCATATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGA
Found at i:110918 original size:47 final size:47
Alignment explanation
Indices: 110857--110981 Score: 132
Period size: 47 Copynumber: 2.6 Consensus size: 47
110847 AACTTGGTGC
*
110857 CGATGCCATATCCTAGATACT-GTCTTATACGAGACCTCATAA-GATG
1 CGATGCCATGTCCTAGA-ACTGGTCTTATACGAGACCTCATAATGATG
* * *
110903 TCGATGCCAGGTCCTAG-ACGTGGTCTAATACGAGGCCTCATAATGATG
1 -CGATGCCATGTCCTAGAAC-TGGTCTTATACGAGACCTCATAATGATG
*
110951 CTGATGCCATGTCCCAG-ACATGGTCTTATAC
1 C-GATGCCATGTCCTAGAAC-TGGTCTTATAC
110982 AGGATCTCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.03
46 1 0.02
47 34 0.52
48 29 0.44
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCTAGAACTGGTCTTATACGAGACCTCATAATGATG
Found at i:121437 original size:49 final size:49
Alignment explanation
Indices: 121365--121548 Score: 235
Period size: 49 Copynumber: 3.7 Consensus size: 49
121355 CGAAGCTATT
* *
121365 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCTACCAATTATC
* * * *
121414 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACG-TGATCACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCT-A-C-CAATTATC
* * *
121465 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCTACCAATTATC
* *
121514 CGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
121549 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 73 0.63
50 2 0.02
51 39 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCTACCAATTATC
Found at i:121480 original size:100 final size:100
Alignment explanation
Indices: 121366--121553 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
121356 GAAGCTATTT
* *
121366 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
121431 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
121466 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
121531 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
121554 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:123131 original size:20 final size:21
Alignment explanation
Indices: 123106--123145 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
123096 CCTTAGAAAC
123106 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
123126 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
123146 CCGTTAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:127632 original size:18 final size:18
Alignment explanation
Indices: 127598--127875 Score: 157
Period size: 18 Copynumber: 15.1 Consensus size: 18
127588 TCATTAACAA
* *
127598 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
127615 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
127633 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
127651 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
* *
127669 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
127693 ATCCAGTAACAGTCAATTAT
1 -T-CAGTAACAATCAATTAT
*
127713 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
127730 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* * *
127749 TCAGTAATAGTCATTTAT
1 TCAGTAACAATCAATTAT
* *
127767 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
* **
127785 TCAATAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
127803 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
127821 TCAGTAACAGTCTATTAT
1 TCAGTAACAATCAATTAT
* *
127839 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
127857 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
127875 T
1 T
127876 TTATACCTAT
Statistics
Matches: 195, Mismatches: 53, Indels: 25
0.71 0.19 0.09
Matches are distributed among these distances:
17 17 0.09
18 148 0.76
19 14 0.07
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:128038 original size:6 final size:6
Alignment explanation
Indices: 128027--128057 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
128017 ACAAATTCGA
128027 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
128058 TTCAACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:128095 original size:45 final size:45
Alignment explanation
Indices: 128038--128147 Score: 168
Period size: 45 Copynumber: 2.4 Consensus size: 45
128028 ACAGTAACAG
*
128038 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
* * *
128083 TAAC-GATAACAGTAACAGTATTCGACACACAAAGTGTCGAATTGG
1 TAACAG-TAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
128128 TAACAGTAACAGTAACAGTA
1 TAACAGTAACAGTAACAGTA
128148 GTCGGCACAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGA
Found at i:129900 original size:5 final size:5
Alignment explanation
Indices: 129890--129934 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
129880 TTACTTATTT
129890 ATATA ATATAAA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATAT--A ATATA ATATA ATATA ATATA ATATA ATATA ATA
129935 ACAATTTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 33 0.87
7 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:130066 original size:21 final size:22
Alignment explanation
Indices: 130027--130079 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
130017 CATACAATTG
*
130027 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
130049 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
130069 ATAAAATAATA
1 TTAAAATAATA
130080 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:135918 original size:21 final size:21
Alignment explanation
Indices: 135892--135957 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
135882 ACATAAGTGC
135892 TAAACGGAAACCCGAAAGGGT
1 TAAACGGAAACCCGAAAGGGT
* * *
135913 TAAACGGAAGCTC-ATAAGAGT
1 TAAACGGAAACCCGA-AAGGGT
** *
135934 TAAATTGAAACCCGTAAGGGT
1 TAAACGGAAACCCGAAAGGGT
135955 TAA
1 TAA
135958 CTGAAACTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (21 bp):
TAAACGGAAACCCGAAAGGGT
Found at i:135929 original size:42 final size:42
Alignment explanation
Indices: 135877--135957 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
135867 GAGGCTAACT
*
135877 GAAGCACATAAGTGCTAAACGGAAACCCGAAAGGGTTAAACG
1 GAAGCACATAAGAGCTAAACGGAAACCCGAAAGGGTTAAACG
* * ** *
135919 GAAGCTCATAAGAGTTAAATTGAAACCCGTAAGGGTTAA
1 GAAGCACATAAGAGCTAAACGGAAACCCGAAAGGGTTAA
135958 CTGAAACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (42 bp):
GAAGCACATAAGAGCTAAACGGAAACCCGAAAGGGTTAAACG
Found at i:138519 original size:13 final size:14
Alignment explanation
Indices: 138495--138523 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
138485 TAAAAAATGG
138495 ATTTGTAAATATTT
1 ATTTGTAAATATTT
138509 ATTTG-AAATATTT
1 ATTTGTAAATATTT
138522 AT
1 AT
138524 GAAGTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
ATTTGTAAATATTT
Found at i:138752 original size:28 final size:30
Alignment explanation
Indices: 138721--138789 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 30
138711 AATTAAATAC
138721 ATATATTAGT-AAT-TATTAT-TTACTTATA
1 ATATATTAGTAAATATATTATATTA-TTATA
138749 ATATA--AGTAAATATATTATATTATTATA
1 ATATATTAGTAAATATATTATATTATTATA
138777 ATATTATTA-TAAA
1 ATA-TATTAGTAAA
138790 CATAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 19 0.54
29 5 0.14
30 4 0.11
31 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATATTAGTAAATATATTATATTATTATA
Found at i:138945 original size:18 final size:17
Alignment explanation
Indices: 138912--138951 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
138902 ATACATATGT
138912 AAATAATAATAATTAAG
1 AAATAATAATAATTAAG
*
138929 AAATAATTAATATTTAAG
1 AAATAA-TAATAATTAAG
*
138947 TAATA
1 AAATA
138952 TATATTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AAATAATAATAATTAAG
Found at i:139067 original size:17 final size:17
Alignment explanation
Indices: 139047--139083 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
139037 AAAAATAGAG
*
139047 AAGAAAAGAAGGAAAGA
1 AAGAAAAGAAAGAAAGA
139064 AAGAAAAGAAAGAAAGA
1 AAGAAAAGAAAGAAAGA
139081 AAG
1 AAG
139084 GGAAATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAGAAAGA
Found at i:139079 original size:13 final size:13
Alignment explanation
Indices: 139058--139082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139048 AGAAAAGAAG
139058 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
139071 GAAAGAAAGAAA
1 GAAAGAAAGAAA
139083 GGGAAATTAG
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:146943 original size:20 final size:20
Alignment explanation
Indices: 146906--146957 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
146896 CCAGTTTATG
* * *
146906 GACAAACCACTAGTAATGCA
1 GACAAACTACCAGAAATGCA
* *
146926 GATAAACTACCAGAAATGTA
1 GACAAACTACCAGAAATGCA
*
146946 GACAAGCTACCA
1 GACAAACTACCA
146958 ATATTGCGAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (20 bp):
GACAAACTACCAGAAATGCA
Found at i:150382 original size:22 final size:21
Alignment explanation
Indices: 150357--150397 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
150347 AAGGTGTTAA
*
150357 ATGAATATAGAAATATAAATTT
1 ATGAATATA-AAAGATAAATTT
*
150379 ATGAATTTAAAAGATAAAT
1 ATGAATATAAAAGATAAAT
150398 ATACCGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
ATGAATATAAAAGATAAATTT
Found at i:156457 original size:27 final size:27
Alignment explanation
Indices: 156438--156567 Score: 131
Period size: 27 Copynumber: 4.8 Consensus size: 27
156428 CGATTTGTAG
* *
156438 AATTACCATTTTACCTTCGATTTATAG
1 AATTACCATTTTACCTTCGATTTACAA
* * *
156465 AATTACCGTTTCA-CTCTCAATTTACAA
1 AATTACCATTTTACCT-TCGATTTACAA
*
156492 AATTACCGTTTTACCCTT-GATTTACAA
1 AATTACCATTTTA-CCTTCGATTTACAA
*
156519 AATTACCATTTTACCCTC-AGTTTACAA
1 AATTACCATTTTACCTTCGA-TTTACAA
* *
156546 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCTTCGATT
156568 GTGAAATTAC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.07
27 77 0.89
28 2 0.02
29 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCTTCGATTTACAA
Found at i:156504 original size:54 final size:54
Alignment explanation
Indices: 156438--156567 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
156428 CGATTTGTAG
* * * * *
156438 AATTACCATTTTACCTTCGATTTATAGAATTACCGTTTCACTCTCAATTTACAA
1 AATTACCGTTTTACCTTCGATTTACAAAATTACCATTTCACCCTCAATTTACAA
* *
156492 AATTACCGTTTTACCCTT-GATTTACAAAATTACCATTTTACCCTCAGTTTACAA
1 AATTACCGTTTTA-CCTTCGATTTACAAAATTACCATTTCACCCTCAATTTACAA
*
156546 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCTTCGATT
156568 GTGAAATTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.05
54 59 0.89
55 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (54 bp):
AATTACCGTTTTACCTTCGATTTACAAAATTACCATTTCACCCTCAATTTACAA
Found at i:156629 original size:27 final size:26
Alignment explanation
Indices: 156599--156749 Score: 140
Period size: 27 Copynumber: 5.6 Consensus size: 26
156589 TGTAGGATAG
* *
156599 AATTACCATAATACCCCCAACTTGTAA
1 AATTACCA-AATACCCCTAATTTGTAA
*
156626 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACC-AAATACCCCTAATTTGTAA
* * *
156653 AATTATCGAAATACCACTAGTTTGTAA
1 AATTA-CCAAATACCCCTAATTTGTAA
*
156680 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACC-AAATACCCCTAATTTGTAA
* * **
156707 AATTATCAAAATACCCCTGATTTACAA
1 AATTA-CCAAATACCCCTAATTTGTAA
*
156734 AATTACAGAAATACCC
1 AATTAC-CAAATACCC
156750 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 99 0.95
28 3 0.03
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAATACCCCTAATTTGTAA
Found at i:156736 original size:54 final size:54
Alignment explanation
Indices: 156624--156807 Score: 194
Period size: 54 Copynumber: 3.4 Consensus size: 54
156614 CCCAACTTGT
* * * **
156624 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACT-AGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGA-TTTAC
* *
156678 AAAATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGATTTAC
* * * *
156732 AAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTAT-AGAAATACCATTGGTTTAC
1 AAAATTACCA-AAATACCCTT-AATTTGT-AAAATTATCA-AAATACCACTGATTTAC
*
156788 AAAATTACTAAAATACCCTT
1 AAAATTACCAAAATACCCTT
156808 GGTTTGTAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 62 0.56
55 7 0.06
56 39 0.35
57 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAATTTGTAAAATTATCAAAATACCACTGATTTAC
Found at i:156801 original size:27 final size:27
Alignment explanation
Indices: 156651--156812 Score: 107
Period size: 27 Copynumber: 5.9 Consensus size: 27
156641 CCTAGTTTGT
* * **
156651 AAAATTATCGAAATACCAC-TAGTTTGT
1 AAAATTATAGAAATACC-CTTGGTTTAC
** ** **
156678 AAAATTACCGAAATACCCTTAATTTGT
1 AAAATTATAGAAATACCCTTGGTTTAC
* *
156705 AAAATTATCA-AAATACCCCTGATTTAC
1 AAAATTAT-AGAAATACCCTTGGTTTAC
* *
156732 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTATAGAAATACCCTTG-GTTTAC
*
156759 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTATAGAAATACCCTTGGTTTAC
156788 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCCTTGGTTT
156813 GTAGATTTAC
Statistics
Matches: 112, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
26 2 0.02
27 82 0.73
28 8 0.07
29 20 0.18
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTATAGAAATACCCTTGGTTTAC
Found at i:157774 original size:25 final size:24
Alignment explanation
Indices: 157736--157802 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
157726 AGGAAGTGCT
*
157736 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
157760 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
157785 AGAAAGGGCTTTGACCCA
1 A-AAAGGGCTTTGCCCCA
157803 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:157818 original size:24 final size:24
Alignment explanation
Indices: 157736--157818 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
157726 AGGAAGTGCT
* * * *
157736 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGACCCAGATTATC
* *
157760 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGACCCAGATTATC
*
157785 AGAAAGGGCTTTGACCCA-ATTATT
1 A-AAAGGGCTTTGACCCAGATTATC
157809 AAAAGAGGCT
1 AAAAG-GGCT
157819 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 37 0.73
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGACCCAGATTATC
Found at i:158074 original size:31 final size:31
Alignment explanation
Indices: 158025--158107 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
158015 CGCTTACAGT
158025 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
158055 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
158086 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
158108 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:158993 original size:46 final size:47
Alignment explanation
Indices: 158943--159041 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 47
158933 TTACATTGAC
158943 ACATCTCGTA-GCCGATGCATAT-CTCAGACATGTCTTACACTAGCT-T
1 ACATCTCG-AGGCCGATGCATATACT-AGACATGTCTTACACTAGCTCT
* *
158989 ACATCGCGAGGCCGATGCATGTACTAGACATGTCTTACACTAGCTCT
1 ACATCTCGAGGCCGATGCATATACTAGACATGTCTTACACTAGCTCT
159036 -CATCTC
1 ACATCTC
159042 AATGCCAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
45 1 0.02
46 43 0.91
47 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
ACATCTCGAGGCCGATGCATATACTAGACATGTCTTACACTAGCTCT
Found at i:173220 original size:20 final size:20
Alignment explanation
Indices: 173187--173244 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
173177 AATTTAGGAT
* *
173187 TTATTTCTATTTATCTTTAA
1 TTATTTGTAATTATCTTTAA
* *
173207 TTATGTT-TAATTATCCTTAT
1 TTAT-TTGTAATTATCTTTAA
*
173227 TTATTTGTATTTATCTTT
1 TTATTTGTAATTATCTTT
173245 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATTTGTAATTATCTTTAA
Found at i:179076 original size:4 final size:4
Alignment explanation
Indices: 179062--179110 Score: 80
Period size: 4 Copynumber: 11.8 Consensus size: 4
179052 TTTTATTAAT
179062 TTTA TTTTA TTTA TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
179111 TATTATGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 35 0.81
5 8 0.19
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:179114 original size:9 final size:9
Alignment explanation
Indices: 179047--179110 Score: 73
Period size: 8 Copynumber: 7.3 Consensus size: 9
179037 CAACCCAATT
179047 TTTATTTTTA
1 TTTA-TTTTA
*
179057 TTAATTTTA
1 TTTATTTTA
179066 TTT-TATTTA
1 TTTAT-TTTA
179075 TTTATTTTA
1 TTTATTTTA
179084 TTTA-TTTA
1 TTTATTTTA
179092 TTTA-TTTA
1 TTTATTTTA
179100 TTTA-TTTA
1 TTTATTTTA
179108 TTT
1 TTT
179111 TATTATGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
8 24 0.48
9 22 0.44
10 4 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:179392 original size:14 final size:14
Alignment explanation
Indices: 179373--179401 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
179363 TTCAACCAAA
179373 TAAAACCCCAAACC
1 TAAAACCCCAAACC
179387 TAAAACCCCAAACC
1 TAAAACCCCAAACC
179401 T
1 T
179402 TGCATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.10
Consensus pattern (14 bp):
TAAAACCCCAAACC
Found at i:182582 original size:14 final size:13
Alignment explanation
Indices: 182563--182600 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
182553 ATTTAATGTT
182563 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
182577 TAATTATTAAGGA
1 TAATTATTTAGGA
182590 TAATTATTTAG
1 TAATTATTTAG
182601 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:182639 original size:10 final size:10
Alignment explanation
Indices: 182626--182673 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
182616 TTATTTCTAT
182626 TTATCTTTAA
1 TTATCTTTAA
182636 TTATCTTTAA
1 TTATCTTTAA
* *
182646 TTATCCTTAT
1 TTATCTTTAA
*
182656 TTAT-TTGTAT
1 TTATCTT-TAA
182666 TTATCTTT
1 TTATCTTT
182674 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.91
11 2 0.06
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:182649 original size:20 final size:20
Alignment explanation
Indices: 182616--182673 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
182606 AATTTAGGAT
* *
182616 TTATTTCTATTTATCTTTAA
1 TTATTTGTAATTATCTTTAA
* *
182636 TTATCTT-TAATTATCCTTAT
1 TTAT-TTGTAATTATCTTTAA
*
182656 TTATTTGTATTTATCTTT
1 TTATTTGTAATTATCTTT
182674 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTGTAATTATCTTTAA
Found at i:184984 original size:40 final size:40
Alignment explanation
Indices: 184890--185113 Score: 199
Period size: 40 Copynumber: 5.6 Consensus size: 40
184880 TATTCGAATG
* *
184890 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGGGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GAGACT
* * * * *
184931 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-AGACT
*
184971 ATATCCGGGCTAAGA-CTCGAAGG-ATTTGTGCTAGCA-ATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAG-AGACT
* * * *
185010 ATATCCGGGCTAAAACCCGAAGGCATTTGTTCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGAGACT
* * *
185050 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGAGACT
* *
185090 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
185114 CTTGTGCAAG
Statistics
Matches: 149, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
39 31 0.21
40 89 0.60
41 28 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGAGACT
Found at i:185102 original size:119 final size:120
Alignment explanation
Indices: 184890--185149 Score: 312
Period size: 119 Copynumber: 2.2 Consensus size: 120
184880 TATTCGAATG
* * *
184890 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGGGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * * *
184955 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACTCGAAGGATTTGTGCTAGCAATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGACTTGTGCAAGCAATT
* * * *
185010 ATATCCGGGCTAAAACCCGAAGGCATTTGTTCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * * * *
185073 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGACTTGTGCAAGCAATT
185129 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
185150 ATTACTTGAG
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 17 0.14
119 72 0.61
120 30 0.25
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGACTTGTGCAAGCAATT
Found at i:185132 original size:79 final size:79
Alignment explanation
Indices: 184890--185149 Score: 265
Period size: 79 Copynumber: 3.3 Consensus size: 79
184880 TATTCGAATG
* * * * *
184890 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGGGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGACCCGAAGGC
* *
184955 ATTCGTGCGAGTTGCT
65 ATT-GTGCAAGTAGCT
* * * * *
184971 ATATCCGGGCTAAGACTCGAAGG-ATTTGTGCTAGCAATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
185035 TTTGTTCTAG-CGACT
66 -TTGTGCAAGTAG-CT
* * * * *
185050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
*
185115 TTGTGCAAGTAGTT
66 TTGTGCAAGTAGCT
*
185129 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
185150 ATTACTTGAG
Statistics
Matches: 147, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
78 15 0.10
79 66 0.45
80 45 0.31
81 21 0.14
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCAAGTAGCT
Found at i:193145 original size:40 final size:40
Alignment explanation
Indices: 193051--193275 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
193041 TATTCGAATG
*
193051 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
193092 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
193132 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
193172 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
193212 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
193252 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
193276 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:193231 original size:80 final size:80
Alignment explanation
Indices: 193051--193311 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
193041 TATTCGAATG
* * * *
193051 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
193116 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
193132 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
193197 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
193212 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
193277 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
193291 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
193312 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:193265 original size:120 final size:120
Alignment explanation
Indices: 193051--193311 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
193041 TATTCGAATG
* * *
193051 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
193116 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
193172 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
193235 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
193291 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
193312 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:196318 original size:52 final size:50
Alignment explanation
Indices: 196254--196372 Score: 141
Period size: 50 Copynumber: 2.3 Consensus size: 50
196244 ATGAACAAAT
* * *
196254 GAGTTACTTAATGCATGGCTTAATTTAATGATGCAAATTTTAACTAACAT-A
1 GAGTTACATAATGCATGGCATAATTT-ATGATGCAAA-CTTAACTAACATGA
* ** *
196305 GGAGTTACATAATGTATATCATAATTTATGGTGCAAACTTAACTAACATGA
1 -GAGTTACATAATGCATGGCATAATTTATGATGCAAACTTAACTAACATGA
196356 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
196373 ACTTTATTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 26 0.46
51 10 0.18
52 21 0.37
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGGCATAATTTATGATGCAAACTTAACTAACATGA
Found at i:198182 original size:46 final size:45
Alignment explanation
Indices: 198132--198305 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
198122 GTTGAGCATC
198132 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTT
*** * * *
198178 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTT
* * *
198225 CGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTT
*
198271 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
198306 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTT
Found at i:198286 original size:93 final size:93
Alignment explanation
Indices: 198127--198297 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
198117 GGATGGTTGA
* * *
198127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
198192 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
198220 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
198285 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
198298 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:202210 original size:23 final size:21
Alignment explanation
Indices: 202179--202222 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
202169 TCTCTATAGT
202179 TTTAGGGTTTTAGTTTATGTTTC
1 TTTAGGGTTTTA-TTTA-GTTTC
*
202202 TTTATGGTTTTATTTAGTTTC
1 TTTAGGGTTTTATTTAGTTTC
202223 ATAGTTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (21 bp):
TTTAGGGTTTTATTTAGTTTC
Found at i:203120 original size:20 final size:19
Alignment explanation
Indices: 203097--203144 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
203087 TAGATTAAAT
* *
203097 TTAAAATAATCACTTTAATA
1 TTAAAATAATAAC-ATAATA
* *
203117 TTAAATTAATAACATACTA
1 TTAAAATAATAACATAATA
203136 TTAAAATAA
1 TTAAAATAA
203145 GTATTAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATAATAACATAATA
Found at i:203181 original size:17 final size:17
Alignment explanation
Indices: 203146--203178 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
203136 TTAAAATAAG
*
203146 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
203163 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
203179 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:206621 original size:11 final size:11
Alignment explanation
Indices: 206596--206633 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
206586 GAAAGAAAGG
206596 TTGATTTTA-C
1 TTGATTTTAGC
206606 TTGATTTTAGC
1 TTGATTTTAGC
206617 TTGATTCTT-GC
1 TTGATT-TTAGC
206628 TTGATT
1 TTGATT
206634 GAAGGAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 15 0.58
12 2 0.08
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (11 bp):
TTGATTTTAGC
Found at i:208160 original size:25 final size:27
Alignment explanation
Indices: 208126--208184 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
208116 CTCTATTTGA
* * *
208126 ATTTTGAAAATAT-ATTTTTGTTTTC-
1 ATTTTTAAAATATAATATTTATTTTCT
208151 ATTTTTAAAATATAATATTTATTTTCT
1 ATTTTTAAAATATAATATTTATTTTCT
208178 ATTTTTA
1 ATTTTTA
208185 TCAAATTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.41
26 10 0.34
27 7 0.24
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTTAAAATATAATATTTATTTTCT
Found at i:209783 original size:23 final size:23
Alignment explanation
Indices: 209757--209800 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
209747 CAGGAGAACC
*
209757 AAACAAATGCAAA-CAGAAAAACA
1 AAAC-AATGAAAACCAGAAAAACA
*
209780 AAACGATGAAAACCAGAAAAA
1 AAACAATGAAAACCAGAAAAA
209801 TGTTTGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.68, C:0.16, G:0.11, T:0.05
Consensus pattern (23 bp):
AAACAATGAAAACCAGAAAAACA
Found at i:216791 original size:16 final size:17
Alignment explanation
Indices: 216770--216802 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
216760 TTATATATTA
*
216770 TAAATATTA-CTAAATT
1 TAAATATCATCTAAATT
216786 TAAATATCATCTAAATT
1 TAAATATCATCTAAATT
216803 AATTTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATCATCTAAATT
Found at i:218359 original size:19 final size:19
Alignment explanation
Indices: 218331--218375 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
218321 AAATTATAAA
*
218331 AAAAAATATA-TAAATAACT
1 AAAAATTATATTAAAT-ACT
218350 AAAAATTATATTAAATACT
1 AAAAATTATATTAAATACT
218369 AAAAATT
1 AAAAATT
218376 TAAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTATATTAAATACT
Found at i:218414 original size:15 final size:14
Alignment explanation
Indices: 218385--218412 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
218375 TTAAAAAATT
218385 TAAAATTTTTAAAA
1 TAAAATTTTTAAAA
218399 TAAAATTTTTAAAA
1 TAAAATTTTTAAAA
218413 ATTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAATTTTTAAAA
Found at i:218431 original size:32 final size:31
Alignment explanation
Indices: 218320--218434 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 31
218310 AAAGATATAG
* * * *
218320 AAAATTATAAAAA-AAAATATATAAATAACTA
1 AAAATTATAAAAATAAAA-ATTTAAAAAATTT
218351 AAAATTATATTAAATACTAAAAATTTAAAAAATTT
1 AAAATTATA--AAA-A-TAAAAATTTAAAAAATTT
* * * *
218386 AAAATTTTTAAAATAAAATTTTTAAAAATTAT
1 AAAATTATAAAAATAAAAATTTAAAAAATT-T
*
218418 ATAATTATAAAAATAAA
1 AAAATTATAAAAATAAA
218435 TGAATTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
31 24 0.36
32 16 0.24
33 6 0.09
34 1 0.01
35 16 0.24
36 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATTATAAAAATAAAAATTTAAAAAATTT
Found at i:218555 original size:9 final size:9
Alignment explanation
Indices: 218299--218558 Score: 62
Period size: 9 Copynumber: 28.6 Consensus size: 9
218289 GAAAAGTAAA
218299 AAAAATTAT
1 AAAAATTAT
*
218308 AAAAAGATAT
1 AAAAA-TTAT
218318 AGAAAATTAT
1 A-AAAATTAT
*
218328 AAAAAAAAATAT
1 ---AAAAATTAT
* *
218340 ATAAATAACT
1 AAAAATTA-T
218350 AAAAATTAT
1 AAAAATTAT
*
218359 ATTAAA-TACT
1 A-AAAATTA-T
218369 AAAAATT-T
1 AAAAATTAT
218377 AAAAAATT-T
1 -AAAAATTAT
218386 -AAAATT-T
1 AAAAATTAT
**
218393 TTAAA--AT
1 AAAAATTAT
* *
218400 AAAATTTTT
1 AAAAATTAT
218409 AAAAATTAT
1 AAAAATTAT
*
218418 -ATAATTAT
1 AAAAATTAT
218426 AAAAA-TA-
1 AAAAATTAT
*
218433 AATGAATTA-
1 AA-AAATTAT
**
218442 AAAAAGAAAT
1 AAAAA-TTAT
*
218452 AAAAATTGT
1 AAAAATTAT
218461 AAAAATTAT
1 AAAAATTAT
218470 GGAAAAATT-T
1 --AAAAATTAT
*
218480 -AAAAGTAT
1 AAAAATTAT
218488 ATAAAATTAT
1 A-AAAATTAT
*
218498 TAAAA-TATT
1 AAAAATTA-T
*
218507 ACAAATTAAT
1 AAAAATT-AT
* *
218517 AAAATTTAC
1 AAAAATTAT
*
218526 AATATATTAT
1 AA-AAATTAT
* **
218536 GAAAAGCAT
1 AAAAATTAT
218545 AAAAATTAT
1 AAAAATTAT
218554 AAAAA
1 AAAAA
218559 AATTAAAAAT
Statistics
Matches: 178, Mismatches: 45, Indels: 56
0.64 0.16 0.20
Matches are distributed among these distances:
7 17 0.10
8 20 0.11
9 76 0.43
10 45 0.25
11 12 0.07
12 7 0.04
13 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:218797 original size:11 final size:11
Alignment explanation
Indices: 218776--218808 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
218766 CGAAAGAAGC
218776 ATATAAATTTTT
1 ATAT-AATTTTT
218788 -TATAATTTTT
1 ATATAATTTTT
218798 ATATAATTTTT
1 ATATAATTTTT
218809 GTATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATAATTTTT
Found at i:218908 original size:27 final size:26
Alignment explanation
Indices: 218862--218962 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 26
218852 TTATCTACAT
*
218862 TTTTAA-ATATTTTTTTATA-TTTTTA
1 TTTTAATA-ATTTTTTAATATTTTTTA
*
218887 TTTTTCATAATTTATTTAATATTTTTTCA
1 -TTTTAATAATTT-TTTAATATTTTTT-A
*
218916 TTTTAATAAATTTTTAATATTTTTTGCAA
1 TTTTAATAATTTTTTAATATTTTTT---A
*
218945 TTTTAATAATTTTATAAT
1 TTTTAATAATTTTTTAAT
218963 TTATATAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.15
27 20 0.32
28 15 0.24
29 18 0.29
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTAATAATTTTTTAATATTTTTTA
Found at i:218924 original size:28 final size:29
Alignment explanation
Indices: 218888--218962 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
218878 ATATTTTTAT
*
218888 TTTTCATAATTTATTTAATATTTTTT-C-A
1 TTTTAATAATTT-TTTAATATTTTTTGCAA
*
218916 TTTTAATAAATTTTTAATATTTTTTGCAA
1 TTTTAATAATTTTTTAATATTTTTTGCAA
*
218945 TTTTAATAATTTTATAAT
1 TTTTAATAATTTTTTAAT
218963 TTATATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 13 0.32
28 11 0.27
29 17 0.41
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTAATAATTTTTTAATATTTTTTGCAA
Found at i:218927 original size:29 final size:31
Alignment explanation
Indices: 218895--218959 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 31
218885 TATTTTTCAT
218895 AATTTATTTAATATTTTTT-C-ATTTTAATA
1 AATTTATTTAATATTTTTTGCAATTTTAATA
218924 AA-TT-TTTAATATTTTTTGCAATTTTAATA
1 AATTTATTTAATATTTTTTGCAATTTTAATA
*
218953 ATTTTAT
1 AATTTAT
218960 AATTTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 13 0.42
28 3 0.10
29 12 0.39
30 2 0.06
31 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (31 bp):
AATTTATTTAATATTTTTTGCAATTTTAATA
Found at i:218962 original size:29 final size:26
Alignment explanation
Indices: 218862--218962 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 26
218852 TTATCTACAT
* *
218862 TTTTAAATATTTTTTTATA-TTTTT-A
1 TTTT-AATAATTTTTAATATTTTTTCA
*
218887 TTTTTCATAATTTATTTAATATTTTTTCA
1 -TTTTAATAA-TT-TTTAATATTTTTTCA
218916 TTTTAATAAATTTTTAATATTTTTTGCAA
1 TTTTAAT-AATTTTTAATATTTTTT-C-A
218945 TTTTAATAATTTTATAAT
1 TTTTAATAATTTT-TAAT
218963 TTATATAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.05
26 6 0.10
27 19 0.30
28 20 0.32
29 15 0.24
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTAATAATTTTTAATATTTTTTCA
Found at i:219023 original size:64 final size:65
Alignment explanation
Indices: 218888--219027 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 65
218878 ATATTTTTAT
* * *
218888 TTTTCATAATTTATTTAATATTTTTTCATTTTAATAAATTTTTAATATTTTTTGCAATTTTAATA
1 TTTT-ATAATTTATATAATATTTTGTCATTTTAATAAATTTTTAATATTTTTTGCAACTTTAATA
218953 A
65 A
* * *
218954 TTTTATAATTTATATAAT-TTTTGTCATTTATAAT-CATTTTT-ATATTTTTTTCCACTTT-ATA
1 TTTTATAATTTATATAATATTTTGTCATTT-TAATAAATTTTTAATATTTTTTGCAACTTTAATA
219015 TA
65 -A
219017 TATTTATAATT
1 T-TTTATAATT
219028 GTTTTTAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.05
63 16 0.25
64 25 0.38
65 17 0.26
66 4 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (65 bp):
TTTTATAATTTATATAATATTTTGTCATTTTAATAAATTTTTAATATTTTTTGCAACTTTAATAA
Found at i:219047 original size:9 final size:9
Alignment explanation
Indices: 218873--219059 Score: 73
Period size: 9 Copynumber: 20.7 Consensus size: 9
218863 TTTAAATATT
218873 TTTTTAT-A
1 TTTTTATAA
218881 TTTTTAT--
1 TTTTTATAA
*
218888 TTTTCATAA
1 TTTTTATAA
218897 TTTATT-TAA
1 TTT-TTATAA
* *
218906 TATTTTTTCA
1 T-TTTTATAA
*
218916 TTTTAATAAA
1 TTTTTAT-AA
*
218926 TTTTTAATAT
1 TTTTT-ATAA
**
218936 TTTTTGCAA
1 TTTTTATAA
*
218945 TTTTAATAA
1 TTTTTATAA
218954 -TTTTATAA
1 TTTTTATAA
*
218962 TTTATATAA
1 TTTTTATAA
* *
218971 TTTTTGTCA
1 TTTTTATAA
* *
218980 TTTATAATCA
1 TTT-TTATAA
218990 TTTTTAT-A
1 TTTTTATAA
* *
218998 TTTTTTTCCA
1 TTTTTAT-AA
*
219008 -CTTTATATA
1 TTTTTATA-A
*
219017 TATTTATAA
1 TTTTTATAA
*
219026 TTGTTTTTAA
1 TT-TTTATAA
219036 TTTTTATAA
1 TTTTTATAA
* *
219045 TTTCTATAG
1 TTTTTATAA
219054 TTTTTA
1 TTTTTA
219060 ATATAAAATG
Statistics
Matches: 132, Mismatches: 33, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
7 6 0.05
8 21 0.16
9 64 0.48
10 39 0.30
11 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:220144 original size:18 final size:18
Alignment explanation
Indices: 220123--220158 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
220113 CTCACAAATT
220123 TTTAAAATATTA-AAAAAG
1 TTTAAAA-ATTATAAAAAG
220141 TTTAAAAATTATAAAAAG
1 TTTAAAAATTATAAAAAG
220159 ATATCCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
TTTAAAAATTATAAAAAG
Found at i:220711 original size:17 final size:17
Alignment explanation
Indices: 220685--220744 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
220675 TTTATACTTA
220685 TTTAATAATTTTAAATAT
1 TTTAA-AATTTTAAATAT
*
220703 TTTAAAATTTATTGAAT-T
1 TTTAAAA-TT-TTAAATAT
* *
220721 TTTAAAATTTTTAACAT
1 TTTAAAATTTTAAATAT
220738 TTTAAAA
1 TTTAAAA
220745 AAATTAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.11
17 12 0.33
18 15 0.42
19 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAAATTTTAAATAT
Found at i:221404 original size:19 final size:20
Alignment explanation
Indices: 221358--221411 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
221348 ATATTTAAAA
*
221358 AATAATATTTAT-ATTTTTT
1 AATAATTTTTATAATTTTTT
*
221377 AATACTTTTTATAATTTTTT
1 AATAATTTTTATAATTTTTT
*
221397 AA-AATTTTTAAAATT
1 AATAATTTTTATAATT
221412 AATTAATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
AATAATTTTTATAATTTTTT
Done.