Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008530.1 Hibiscus syriacus cultivar Beakdansim tig00111408_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 724678
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:240 original size:18 final size:18
Alignment explanation
Indices: 217--265 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
207 TCTCATTCGT
217 CTTCATCTTCATCCTCCG
1 CTTCATCTTCATCCTCCG
* * * *
235 CTTCATCATCGTCATCGG
1 CTTCATCTTCATCCTCCG
253 CTTC-TCTTCATCC
1 CTTCATCTTCATCC
266 ACGGAAGCGG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.12, C:0.41, G:0.08, T:0.39
Consensus pattern (18 bp):
CTTCATCTTCATCCTCCG
Found at i:1300 original size:26 final size:27
Alignment explanation
Indices: 1271--1326 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
1261 GTTGTCAGGA
*
1271 TATTTCACATG-TTTATTTTGTTTATG
1 TATTTCACATGTTTTATTTAGTTTATG
1297 TATTTCACATGTTTTATTTAGTTTATG
1 TATTTCACATGTTTTATTTAGTTTATG
1324 TAT
1 TAT
1327 ATTTTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (27 bp):
TATTTCACATGTTTTATTTAGTTTATG
Found at i:2258 original size:48 final size:49
Alignment explanation
Indices: 2152--2346 Score: 320
Period size: 49 Copynumber: 4.0 Consensus size: 49
2142 ATGACTTGAA
2152 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
*
2201 TTACACAAGCATAGAGAATCTATGTTCATCTTTC-TTTACTCTTGTATG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
* *
2249 TTACACAAGCATAGAGAATCTATGTTCATCTTTCTTTTACTCTTTTATG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
* * * *
2298 TTACACAACCATAGAGTATCTATGTTCATCTGTCTTTTATTCTTATATG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
2347 AACATCTTCA
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 48 0.35
49 90 0.65
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (49 bp):
TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATG
Found at i:2302 original size:97 final size:97
Alignment explanation
Indices: 2152--2334 Score: 321
Period size: 97 Copynumber: 1.9 Consensus size: 97
2142 ATGACTTGAA
*
2152 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATGTTACACAAGCATAGAG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATGTTACACAACCATAGAG
*
2217 AATCTATGTTCATCTTTCTTTACTCTTGTATG
66 AATCTATGTTCATCTGTCTTTACTCTTGTATG
* *
2249 TTACACAAGCATAGAGAATCTATGTTCATCTTTCTTTTACTCTTTTATGTTACACAACCATAGAG
1 TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATGTTACACAACCATAGAG
*
2314 TATCTATGTTCATCTGTCTTT
66 AATCTATGTTCATCTGTCTTT
2335 TATTCTTATA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 81 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (97 bp):
TTACACAAGCATAGAGAATCTATGTTCATCTGTCTTTTACTCTTGTATGTTACACAACCATAGAG
AATCTATGTTCATCTGTCTTTACTCTTGTATG
Found at i:4889 original size:2 final size:2
Alignment explanation
Indices: 4882--4915 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4872 CGTATTCCCA
* *
4882 CT CT CT CT CG CT TT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4916 TATTCTCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7970 original size:19 final size:19
Alignment explanation
Indices: 7946--8018 Score: 146
Period size: 19 Copynumber: 3.8 Consensus size: 19
7936 ATTAAAACAT
7946 GAGTGCATCGATGCATGGA
1 GAGTGCATCGATGCATGGA
7965 GAGTGCATCGATGCATGGA
1 GAGTGCATCGATGCATGGA
7984 GAGTGCATCGATGCATGGA
1 GAGTGCATCGATGCATGGA
8003 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
8019 AAACTGCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (19 bp):
GAGTGCATCGATGCATGGA
Found at i:7975 original size:65 final size:64
Alignment explanation
Indices: 7838--7976 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 64
7828 TGCACTAAGT
* * * * * * *
7838 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAAGTGCATTGATGCATGGTGT
1 GTGCATCGATACATAAAATGCATTCGATGTTTTCAATAAACATAAGTGCATCGATGCATGGAGA
* * * *
7902 GTGCATCGATACATAAAATGTATTTGATGTTTTCATTAAAACATGAGTGCATCGATGCATGGAGA
1 GTGCATCGATACATAAAATGCATTCGATGTTTTCAAT-AAACATAAGTGCATCGATGCATGGAGA
7967 GTGCATCGAT
1 GTGCATCGAT
7977 GCATGGAGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 32 0.51
65 31 0.49
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATACATAAAATGCATTCGATGTTTTCAATAAACATAAGTGCATCGATGCATGGAGA
Found at i:8071 original size:20 final size:20
Alignment explanation
Indices: 8046--8083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8036 CAATTTATTC
*
8046 ATTGGTGTATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
8066 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
8084 CCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:10710 original size:23 final size:21
Alignment explanation
Indices: 10684--10726 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10674 TTGATGCATA
10684 TTCAAGGAGTACATCGATGCACC
1 TTCAAGGAGT--ATCGATGCACC
* *
10707 TTCATGGTGTATCGATGCAC
1 TTCAAGGAGTATCGATGCAC
10727 TGTGAAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
TTCAAGGAGTATCGATGCACC
Found at i:16264 original size:64 final size:64
Alignment explanation
Indices: 16141--16265 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
16131 GGTGCACTAA
* * * * * * *
16141 GTGTGGATCGATGCATAAAATGCATTTGGTGTTTTGAATAAGCCTAAGTGCATTAATGCATGGT
1 GTGTGCATCGATGAATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCAATGCATGGT
* * *
16205 GTGTGCATCGATGAATAAAATGCATTCGATGTTTTCATTAAACCTGAGTGCATCGATGCAT
1 GTGTGCATCGATGAATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCAATGCAT
16266 AAACTGCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (64 bp):
GTGTGCATCGATGAATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCAATGCATGGT
Found at i:16318 original size:20 final size:20
Alignment explanation
Indices: 16293--16330 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16283 CAATTTATTC
16293 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
16313 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
16331 CCATTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:16926 original size:24 final size:24
Alignment explanation
Indices: 16899--16962 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
16889 GATATCAGAA
*
16899 ATCAAAACAGAATTCAGATTATAT
1 ATCAAAACAGAATTCAGATAATAT
* * * *
16923 ATCAGAACATAATTCAGGTAATGT
1 ATCAAAACAGAATTCAGATAATAT
* *
16947 ATCATAATAGAATTCA
1 ATCAAAACAGAATTCA
16963 AGTCGGAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATAATAT
Found at i:21489 original size:3 final size:3
Alignment explanation
Indices: 21483--21543 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
21473 CGACAACAAC
* * * * * * *
21483 AGG AGG AGG AAG AGG AGG AGG AAG AAG AAG AAG AAG AAG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
21531 AGG AGG AGG AGG A
1 AGG AGG AGG AGG A
21544 AGATGAAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:22791 original size:23 final size:23
Alignment explanation
Indices: 22764--22808 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22754 GTGTTCATTC
*
22764 GTTTAGCGATCGTGAACATGTTT
1 GTTTAACGATCGTGAACATGTTT
* *
22787 GTTTAACGTTTGTGAACATGTT
1 GTTTAACGATCGTGAACATGTT
22809 CATCAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.42
Consensus pattern (23 bp):
GTTTAACGATCGTGAACATGTTT
Found at i:29804 original size:21 final size:21
Alignment explanation
Indices: 29776--29825 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
29766 ATGAATACAT
29776 AATA-ATAACA-ATAATAATTA
1 AATATATAACATATAA-AATTA
*
29796 AATATATAAACATATAAATTTA
1 AATATAT-AACATATAAAATTA
29818 AA-ATATAA
1 AATATATAA
29826 ATAAACAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 10 0.38
23 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATAACATATAAAATTA
Found at i:29879 original size:37 final size:37
Alignment explanation
Indices: 29809--29879 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
29799 ATATAAACAT
* *
29809 ATAAATTTAAAATATAAATAAACAATGACTAAAATAA
1 ATAAAATTAAAATATAAATAAAAAATGACTAAAATAA
29846 ATAAAATTAAAACTAT-AATAAAAAAATGA-TAAAA
1 ATAAAATTAAAA-TATAAAT-AAAAAATGACTAAAA
29880 CTTGTATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGACTAAAATAA
Found at i:29881 original size:22 final size:21
Alignment explanation
Indices: 29836--29881 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
29826 ATAAACAATG
29836 ACTAAAATAAATAAAATTAAA
1 ACTAAAATAAATAAAATTAAA
*
29857 ACTATAATAAA-AAAATGATAAA
1 ACTAAAATAAATAAAAT--TAAA
29879 ACT
1 ACT
29882 TGTATCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (21 bp):
ACTAAAATAAATAAAATTAAA
Found at i:31493 original size:9 final size:9
Alignment explanation
Indices: 31479--31533 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
31469 GGCCTGTTTG
31479 TAATAATAT
1 TAATAATAT
31488 TAATAA-A-
1 TAATAATAT
*
31495 TAATAATAA
1 TAATAATAT
31504 TAATAATAT
1 TAATAATAT
*
31513 T-ATAATAA
1 TAATAATAT
*
31521 TAGTAAT-T
1 TAATAATAT
31529 TAATA
1 TAATA
31534 TGTAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.16
8 13 0.34
9 19 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TAATAATAT
Found at i:31499 original size:3 final size:3
Alignment explanation
Indices: 31479--31527 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
31469 GGCCTGTTTG
* * *
31479 TAA TAA TAT TAA TAAA TAA TAA TAA TAA TAA T-A TTA TAA TAA TAG
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31524 TAA T
1 TAA T
31528 TTAATATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:31533 original size:14 final size:14
Alignment explanation
Indices: 31479--31522 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
31469 GGCCTGTTTG
31479 TAATAATA-T-TAA
1 TAATAATATTATAA
31491 TAAATAATA--ATAA
1 T-AATAATATTATAA
31504 TAATAATATTATAA
1 TAATAATATTATAA
31518 TAATA
1 TAATA
31523 GTAATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.29
13 11 0.39
14 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATAATATTATAA
Found at i:32653 original size:13 final size:14
Alignment explanation
Indices: 32628--32656 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32618 GTCGTGTAAC
32628 TGGATGAAAAAAAA
1 TGGATGAAAAAAAA
32642 TGGATGAAAAAAAA
1 TGGATGAAAAAAAA
32656 T
1 T
32657 TAGTATCTTC
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:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (14 bp):
TGGATGAAAAAAAA
Found at i:45762 original size:14 final size:14
Alignment explanation
Indices: 45743--45789 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
45733 CGCTGGGCAT
45743 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
45757 CCGAGGGCATCCGA
1 CCGAGGCCATCCGA
*
45771 CCGAGGCTATCCGA
1 CCGAGGCCATCCGA
*
45785 GCGAG
1 CCGAG
45790 CTATGCGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.21, C:0.36, G:0.34, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:45884 original size:29 final size:29
Alignment explanation
Indices: 45842--45935 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
45832 CAAGAGGGAA
*
45842 TGCATGGTGACCTACAAGGTCGCCAGGAG
1 TGCATGGAGACCTACAAGGTCGCCAGGAG
**
45871 TGCATGGAGACCTACAAGGTCGCTTGGAG
1 TGCATGGAGACCTACAAGGTCGCCAGGAG
* * *
45900 TGCATGGCGACCTATAAGGTCGCCCGGAG
1 TGCATGGAGACCTACAAGGTCGCCAGGAG
*
45929 GGCATGG
1 TGCATGG
45936 TGACATATGC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.22, C:0.23, G:0.36, T:0.18
Consensus pattern (29 bp):
TGCATGGAGACCTACAAGGTCGCCAGGAG
Found at i:46344 original size:14 final size:14
Alignment explanation
Indices: 46325--46370 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
46315 GCTGGGCATT
*
46325 CGAGGGCATCTGAC
1 CGAGGGCATCCGAC
46339 CGAGGGCATCCGAC
1 CGAGGGCATCCGAC
*
46353 CGA-GGCTATCCGAG
1 CGAGGGC-ATCCGAC
46367 CGAG
1 CGAG
46371 CTATGCGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (14 bp):
CGAGGGCATCCGAC
Found at i:46484 original size:28 final size:29
Alignment explanation
Indices: 46419--46493 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
46409 GGAGCAGGAG
*
46419 GGAGTGCATGGCGACCTACAAGGTCGCCA
1 GGAGTGCATGGCGACCTACAAGATCGCCA
* * *
46448 GGAGTGCATGGAGACC-ATAAGATCGCCC
1 GGAGTGCATGGCGACCTACAAGATCGCCA
*
46476 GGAGGGCATGGCGACCTA
1 GGAGTGCATGGCGACCTA
46494 TGCTTGGGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.13
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGATCGCCA
Found at i:46631 original size:551 final size:560
Alignment explanation
Indices: 45552--46653 Score: 1745
Period size: 581 Copynumber: 1.9 Consensus size: 560
45542 GATAATGGGC
*
45552 TAAACTCTCGAGATAACGTTCTCGAACAAATTATTTCACGAGATAATGCTCTCCCAAGATTAATT
1 TAAACTCTCGAGATAACGTTCTCGAACAAATTATTTCACGAGATAATGCTATCCCAAGATTAATT
*
45617 GCTCAAATAGGGTGAAATCTACAGTGTTGGTCGTAGGTCGCCATGCCATCTACTAGGTCGCCATG
66 GCTCAAATAGGGTGAAATCTACAGTGTTGGCCGTAGGTCGCCATGCCATCTACTAGGTCGCCATG
* *
45682 TCTTCCCGGCGAGCTATGAGAGAGATTGCGTGTGTCATGCACGTTCCAACACGCTGGGCATCCGA
131 TCTTCCAGGCGAGCTATGAGAGAGATTGCGTGTGCCATGCACGTTCCAACACGCTGGGCATCCGA
* *
45747 GGCCATCCGACCGAGGGCATCCGACCGAGGCTATCCGAGCGAGCTATGCGAGGGGATCCGAGGGT
196 GGCCATCCGACCGAGGGCATCCGACCGAGGCTATCCGAGCGAGCTATGCGAGGGCATCCGAGGGC
*
45812 AAGAGAAATCACGCGAGGAGCAAGAGGGAATGCATGGTGACCTACAAGGTCGCCAGGAGTGCATG
261 AAGAGAAATCACGCGAGGAGCAAGAGGGAATGCATGGCGACCTACAAGGTCGCCAGGAGTGCATG
*
45877 GAGACCTACAAGGTCGCTTGGAGTGCATGGCGACCTATAAGGTCGCCCGGAGGGCATGGTGACAT
326 GAGACC-ACAA----G--T-GA--G-A--G-G------AA-GTCGCCCGGAGGGCATGGCGACAT
* *
45942 ATGCTTGGGGACGTGCATGGCTGGCCACGTAGTAGGTCGCCCGGAAGGCATGGCGACCTACGGCC
370 ATGCTTGGGGACGTGCATGGCTGGCCACGTAGCAGGTCCCCCGGAAGGCATGGCGACCTACGGCC
46007 AACACTGTAGATTTCACCCTATTTGAACAATTAATCTTGGGAGAACATTATCTCGTGAAATAATT
435 AACACTGTAGATTTCACCCTATTTGAACAATTAATCTTGGGAGAACATTATCTCGTGAAATAATT
46072 TGTTTGAGAACGTTATCTCGAGAGTTTAGCCAGTTTAATGGATGTGTTCCATATGGATGGT
500 TGTTTGAGAACGTTATCTCGAGAGTTTAGCCAGTTTAATGGATGTGTTCCATATGGATGGT
46133 TAAACTCTCGAGATAACGTTCTCGAACAAATTATTTCACGAGATAATGCTATCCCAAGATTAATT
1 TAAACTCTCGAGATAACGTTCTCGAACAAATTATTTCACGAGATAATGCTATCCCAAGATTAATT
* *
46198 GCTCAAATAGGGTGAAATCTATAGTGTTGGCCGTAGGTCGCCATGTCATCTACTAGGTCGCCATG
66 GCTCAAATAGGGTGAAATCTACAGTGTTGGCCGTAGGTCGCCATGCCATCTACTAGGTCGCCATG
* *
46263 TCTTCCAGGCGAGCTATGAGAGAGATTGTGTGTGCCATGCACGTTCCAACACGCTGGGCATTCGA
131 TCTTCCAGGCGAGCTATGAGAGAGATTGCGTGTGCCATGCACGTTCCAACACGCTGGGCATCCGA
* *
46328 GGGCATCTGACCGAGGGCATCCGACCGAGGCTATCCGAGCGAGCTATGCGAGGGCATCCGAGGGC
196 GGCCATCCGACCGAGGGCATCCGACCGAGGCTATCCGAGCGAGCTATGCGAGGGCATCCGAGGGC
* * *
46393 AAGAGGAATCACGCGAGGAGCAGGAGGGAGTGCATGGCGACCTACAAGGTCGCCAGGAGTGCATG
261 AAGAGAAATCACGCGAGGAGCAAGAGGGAATGCATGGCGACCTACAAGGTCGCCAGGAGTGCATG
* *
46458 GAGA-C-C-A-T-A-A-G-A-TCGCCCGGAGGGCATGGCGACCTATGCTTGGGGATGTGCATGGC
326 GAGACCACAAGTGAGAGGAAGTCGCCCGGAGGGCATGGCGACATATGCTTGGGGACGTGCATGGC
*
46514 TGGTCACGTAGCAGGTCCCCCGGAAGGCATGGCGACCTACGGCCAACACTGTAGATTTCACCCTA
391 TGGCCACGTAGCAGGTCCCCCGGAAGGCATGGCGACCTACGGCCAACACTGTAGATTTCACCCTA
*
46579 TTTGAACAATTAATCTTGGGAGAGCATTATCTCGTGAAATAATTTGTTTGAGAACGTTATCTCGA
456 TTTGAACAATTAATCTTGGGAGAACATTATCTCGTGAAATAATTTGTTTGAGAACGTTATCTCGA
46644 GAGTTTAGCC
521 GAGTTTAGCC
46654 CATGATAATG
Statistics
Matches: 498, Mismatches: 23, Indels: 30
0.90 0.04 0.05
Matches are distributed among these distances:
551 177 0.36
553 1 0.00
560 1 0.00
564 1 0.00
568 1 0.00
570 1 0.00
577 1 0.00
578 1 0.00
580 1 0.00
581 313 0.63
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (560 bp):
TAAACTCTCGAGATAACGTTCTCGAACAAATTATTTCACGAGATAATGCTATCCCAAGATTAATT
GCTCAAATAGGGTGAAATCTACAGTGTTGGCCGTAGGTCGCCATGCCATCTACTAGGTCGCCATG
TCTTCCAGGCGAGCTATGAGAGAGATTGCGTGTGCCATGCACGTTCCAACACGCTGGGCATCCGA
GGCCATCCGACCGAGGGCATCCGACCGAGGCTATCCGAGCGAGCTATGCGAGGGCATCCGAGGGC
AAGAGAAATCACGCGAGGAGCAAGAGGGAATGCATGGCGACCTACAAGGTCGCCAGGAGTGCATG
GAGACCACAAGTGAGAGGAAGTCGCCCGGAGGGCATGGCGACATATGCTTGGGGACGTGCATGGC
TGGCCACGTAGCAGGTCCCCCGGAAGGCATGGCGACCTACGGCCAACACTGTAGATTTCACCCTA
TTTGAACAATTAATCTTGGGAGAACATTATCTCGTGAAATAATTTGTTTGAGAACGTTATCTCGA
GAGTTTAGCCAGTTTAATGGATGTGTTCCATATGGATGGT
Found at i:58782 original size:66 final size:66
Alignment explanation
Indices: 58672--58795 Score: 203
Period size: 66 Copynumber: 1.9 Consensus size: 66
58662 TAATAACATA
* * * * *
58672 TGTTATTATAGGTATTATGGTTATAAAATAACAATTTTGGATGACATCTTACCATTATGTAACGA
1 TGTTATTATAGGAATCATGATTATAAAATAACAATTTTGAATGACATCTTAACATTATGTAACGA
58737 T
66 T
58738 TGTTATTATAGGAATCATGATTATAAAATAACAATTTTGAATGACATCTTAACATTAT
1 TGTTATTATAGGAATCATGATTATAAAATAACAATTTTGAATGACATCTTAACATTAT
58796 ATCCGATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (66 bp):
TGTTATTATAGGAATCATGATTATAAAATAACAATTTTGAATGACATCTTAACATTATGTAACGA
T
Found at i:69100 original size:22 final size:22
Alignment explanation
Indices: 69075--69174 Score: 76
Period size: 22 Copynumber: 4.4 Consensus size: 22
69065 TTTTAAAATA
69075 ATTTATTATAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
* ** *
69097 ATTTATTTTAAAATAATTTATTTTA
1 ATTTATTATAAAAT-ATGGA--TTG
* * * *
69122 AATAATT-TATTAGTATGGATTG
1 ATTTATTATA-AAATATGGATTG
*
69144 ATTTATTTTAAAATATGGATTG
1 ATTTATTATAAAATATGGATTG
69166 ATTTATTAT
1 ATTTATTAT
69175 TGTAGTTGTA
Statistics
Matches: 57, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
22 38 0.67
23 5 0.09
24 5 0.09
25 9 0.16
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
ATTTATTATAAAATATGGATTG
Found at i:69126 original size:14 final size:15
Alignment explanation
Indices: 69060--69132 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 15
69050 TAATAAGCTT
69060 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
69075 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
69094 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
69112 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
69126 ATTTATT
1 ATTTATT
69133 AGTATGGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 12 0.24
15 16 0.33
16 4 0.08
17 2 0.04
18 1 0.02
19 1 0.02
20 2 0.04
21 4 0.08
22 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:69147 original size:47 final size:48
Alignment explanation
Indices: 69060--69535 Score: 208
Period size: 54 Copynumber: 9.2 Consensus size: 48
69050 TAATAAGCTT
* *
69060 ATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATTTT-AAATAATTTAGT-T--AGTATGGATTGATTTATTTTAAAATA
69112 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATA
1 ATTTATTTTAAATAATTTAGTTAGTATGGATTGATTTATTTTAAAATA
* *
69159 TGGATTGA-TTT--ATTATTGTAGTT-GTATGGATTGATTTATTTT-AAATA
1 ---ATTTATTTTAAATAATT-TAGTTAGTATGGATTGATTTATTTTAAAATA
* * * * * *
69206 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATT
1 ATTTATT--T-T-AAATAATTTA-GTT--AGTATGGATTGATTTA-T-TT-TA-----A---AAT
69271 A
48 A
69272 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGA
1 ATTTATTTTAAATAATTTAGTTAGTATGGATTGATTTATTTT-AAA-AT--A
69323 TTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGA
1 ---ATTTATTTTAAATAATTTAGTTAGTATGGATTGATTTATTTT-AAA-AT-A
* *
69376 ATTTA-TTT--ATTATTGTAGTT-GTATAGATTGATTTATTTT-AAATA
1 ATTTATTTTAAATAATT-TAGTTAGTATGGATTGATTTATTTTAAAATA
* * * * * * *
69420 ATGTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGA
1 ATTTATT--T-T-AAATAATTTA-GTT--AGTATGGATTGATTTATTTT-AAA-AT--A
*
69479 TTGATTTATTTTAAATAATTTA-TTAGTATGTATTGATTTATTTT-AAATA
1 ---ATTTATTTTAAATAATTTAGTTAGTATGGATTGATTTATTTTAAAATA
69528 ATTTATTT
1 ATTTATTT
69536 GTATGATTGA
Statistics
Matches: 340, Mismatches: 28, Indels: 118
0.70 0.06 0.24
Matches are distributed among these distances:
44 9 0.03
45 4 0.01
46 10 0.03
47 42 0.12
48 44 0.13
49 13 0.04
50 14 0.04
51 26 0.08
52 11 0.03
53 2 0.01
54 97 0.29
55 2 0.01
56 9 0.03
57 4 0.01
58 22 0.06
59 2 0.01
60 3 0.01
62 13 0.04
63 2 0.01
64 1 0.00
66 10 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (48 bp):
ATTTATTTTAAATAATTTAGTTAGTATGGATTGATTTATTTTAAAATA
Found at i:69206 original size:80 final size:80
Alignment explanation
Indices: 69112--69653 Score: 629
Period size: 80 Copynumber: 6.8 Consensus size: 80
69102 TTTTAAAATA
69112 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
69177 TAGTT-GTATGGATTG
66 TA-TTAGTATGGATTG
69192 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
69257 TAGTT-GTATGGATTA
66 TA-TTAGTATGGATTG
69272 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
*
69337 ATAATTTATTAGTATGGATTG
62 AT--TGTATTAGTATGGATTG
** ** * * *
69358 ATTTATTTTAAA-ATATGAATT--TATTTATT-ATTGTAGTTGTATAGAT-T-GATTTATTTTAA
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TA-TTTTA-AAATATGGATTGA-TTT-A
* *
69417 ATAATGTATTAGTATGGATTG
60 TTATTGTATTAGTATGGATTG
69438 ATTTATTTT--A-AA---A-TA-TA--GATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* *
69493 ATAATTTATTAGTATGTATTG
62 AT--TGTATTAGTATGGATTG
*
69514 ATTTATTTTAAATAATTTATTTGTAT-GATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
69578 TAGTT-GTATGGATTG
66 TA-TTAGTATGGATTG
69593 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
69654 TTAAATAATT
Statistics
Matches: 403, Mismatches: 25, Indels: 68
0.81 0.05 0.14
Matches are distributed among these distances:
70 4 0.01
71 8 0.02
72 11 0.03
73 4 0.01
74 4 0.01
76 24 0.06
77 1 0.00
78 3 0.01
79 39 0.10
80 199 0.49
81 2 0.00
82 4 0.01
83 6 0.01
84 18 0.04
85 43 0.11
86 33 0.08
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TATTAGTATGGATTG
Found at i:69229 original size:18 final size:18
Alignment explanation
Indices: 69206--69253 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
69196 ATTTTAAATA
*
69206 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
69224 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
69246 ATTTATTA
1 ATTTATTA
69254 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:69308 original size:32 final size:32
Alignment explanation
Indices: 69262--69369 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 32
69252 TATTGTAGTT
*
69262 GTATGGATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
69294 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
69317 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
69348 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
69370 ATATGAATTT
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.54
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:69311 original size:22 final size:22
Alignment explanation
Indices: 69295--69337 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
69285 AATTTATTAG
69295 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
69317 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
69338 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:69338 original size:134 final size:133
Alignment explanation
Indices: 69183--69653 Score: 540
Period size: 134 Copynumber: 3.5 Consensus size: 133
69173 ATTGTAGTTG
69183 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
69248 TTATTATTGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTAT-GATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
69313 AAAA
130 AAAA
* *
69317 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
69382 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTAT-GATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
69447 AAAA
130 AAAA
* **
69451 TATAGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTT-AAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* * * * * *
69505 TATGTATTGATT-TA-TT-T-TAAATAATTTATTTGTATGATTGATTTATTTTAAAATATGGATT
64 -ATTTATT-ATTGTAGTTGTATGATTAATTTATTT-TA--AATAATTTA--TT--AGTATGGATT
***
69566 GATTTATTATTGTAGTTG
120 GATTTA-T-TT-TA-AAA
69584 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
69649 TTATT
66 TTATT
69654 TTAAATAATT
Statistics
Matches: 287, Mismatches: 24, Indels: 45
0.81 0.07 0.13
Matches are distributed among these distances:
122 10 0.03
123 7 0.02
124 24 0.08
125 9 0.03
126 8 0.03
127 6 0.02
129 15 0.05
130 4 0.01
131 2 0.01
132 2 0.01
133 16 0.06
134 145 0.51
137 3 0.01
140 1 0.00
141 6 0.02
142 2 0.01
143 23 0.08
144 4 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (133 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
AAA
Found at i:69450 original size:214 final size:210
Alignment explanation
Indices: 69112--69525 Score: 702
Period size: 214 Copynumber: 2.0 Consensus size: 210
69102 TTTTAAAATA
*
69112 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTG
* * *
69177 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
66 TAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATAG
***
69242 ATTGATTTATTATTGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATT
131 ATTGATTTA-T-TT-TA-AAATATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATT
69307 TATTTTAAAATATGGATTG
192 TATTTTAAAATATGGATTG
*
69326 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTTATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTG
69391 TAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATAG
66 TAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATAG
* *
69456 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATT
131 ATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
69521 TTAAA
196 TTAAA
69526 TAATTTATTT
Statistics
Matches: 190, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
210 51 0.27
211 2 0.01
212 2 0.01
213 1 0.01
214 134 0.71
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (210 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTG
TAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATAG
ATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
TTAAAATATGGATTG
Found at i:69461 original size:22 final size:22
Alignment explanation
Indices: 69433--69493 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
69423 TATTAGTATG
69433 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
*
69455 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATA
69477 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
69494 TAATTTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:69554 original size:22 final size:22
Alignment explanation
Indices: 69529--69602 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
69519 TTTTAAATAA
69529 TTTATTTGTAT-GATTGATTTAT
1 TTTA-TTGTATGGATTGATTTAT
***
69551 TTTAAAATATGGATTGATTTATT
1 TTTATTGTATGGATTGATTTA-T
69574 ATTGTAGTTGTATGGATTGATTTAT
1 -TT-TA-TTGTATGGATTGATTTAT
69599 TTTA
1 TTTA
69603 AATAATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.07
22 14 0.34
23 3 0.07
24 4 0.10
25 3 0.07
26 14 0.34
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (22 bp):
TTTATTGTATGGATTGATTTAT
Found at i:69559 original size:32 final size:31
Alignment explanation
Indices: 69477--69556 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 31
69467 TTAAAATATG
69477 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
*
69508 GTATTGATTTATTTTAAATAATTTATTTGTAT
1 G-ATTGATTTATTTTAAATAATTTATTAGTAT
69540 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
69557 ATATGGATTG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 17 0.36
32 30 0.64
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (31 bp):
GATTGATTTATTTTAAATAATTTATTAGTAT
Found at i:69581 original size:187 final size:188
Alignment explanation
Indices: 69317--69658 Score: 614
Period size: 187 Copynumber: 1.8 Consensus size: 188
69307 TATTTTAAAA
*
69317 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
69382 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT
69447 AAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 AAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
* * *
69505 TATGTATTGATTTATTTTAAATAATTTATTTGTAT-GATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
* *
69569 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT
*
69634 AAAATATGGATTGATTTATTTTAAA
131 AAAATATAGATTGATTTATTTTAAA
69659 TAATTTATTA
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
187 114 0.78
188 33 0.22
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (188 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTT
AAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:69616 original size:111 final size:108
Alignment explanation
Indices: 69139--69636 Score: 503
Period size: 111 Copynumber: 4.7 Consensus size: 108
69129 TATTAGTATG
*
69139 GATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTA
1 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA
* *
69197 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
65 TTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATA
*** *
69241 GATTGATTTATTATTGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 GATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* ** * ** * * * *
69306 TTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATG
62 TTATTTTAAATA-ATGTATTAGTATGGA-TTGATTTATTTTA-AAATATA
* *
69353 GATTGATTTATTTTAAAATAT-GA---ATTTA-TTT--ATTATTGTAGTT-GTATAGATTGATTT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTT
69410 ATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATA
64 ATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATA
*
69455 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTAT
1 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
* * *
69520 TTTAAATAATTTATTTGTAT-GATTGATTTATTTTAAAATATG
66 TTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATA
***
69562 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 GATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
69627 TTATTTTAAA
62 TTATTTTAAA
69637 ATATGGATTG
Statistics
Matches: 325, Mismatches: 40, Indels: 53
0.78 0.10 0.13
Matches are distributed among these distances:
101 5 0.02
102 64 0.20
103 19 0.06
104 10 0.03
105 2 0.01
106 18 0.06
107 38 0.12
108 40 0.12
109 9 0.03
110 9 0.03
111 66 0.20
112 45 0.14
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (108 bp):
GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
TTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATA
Found at i:69641 original size:22 final size:22
Alignment explanation
Indices: 69616--69658 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
69606 AATTTATTAG
69616 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
69638 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
69659 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:69718 original size:31 final size:31
Alignment explanation
Indices: 69683--69741 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
69673 AGTTGTATGG
*
69683 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
69714 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
69742 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:74914 original size:49 final size:49
Alignment explanation
Indices: 74842--74942 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
74832 CTGGATGATC
74842 TTCCTTTAAGAACTTAGCATAGTTCATTGTGGTCAGATAGAAAAACATG
1 TTCCTTTAAGAACTTAGCATAGTTCATTGTGGTCAGATAGAAAAACATG
74891 TTCCTTTAAGAACTTAGCATAGTTCATTGTGGTCAGATAGAAAAACATG
1 TTCCTTTAAGAACTTAGCATAGTTCATTGTGGTCAGATAGAAAAACATG
74940 TTC
1 TTC
74943 TGTTACCAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (49 bp):
TTCCTTTAAGAACTTAGCATAGTTCATTGTGGTCAGATAGAAAAACATG
Found at i:75563 original size:24 final size:25
Alignment explanation
Indices: 75535--75591 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
75525 TAATAGCACA
75535 ACTCCAAT-AAAAATAGGTATTGAC
1 ACTCCAATAAAAAATAGGTATTGAC
* *
75559 ACTCCAATAAAAAATGGGTATTGAT
1 ACTCCAATAAAAAATAGGTATTGAC
75584 ACTCCAAT
1 ACTCCAAT
75592 TAGAGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (25 bp):
ACTCCAATAAAAAATAGGTATTGAC
Found at i:82111 original size:20 final size:18
Alignment explanation
Indices: 82070--82108 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
82060 CGTATGAAAG
82070 TTTAAAATTATTATATAT
1 TTTAAAATTATTATATAT
*
82088 TTTAAAATTTTTATATAT
1 TTTAAAATTATTATATAT
82106 TTT
1 TTT
82109 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAAAATTATTATATAT
Found at i:82640 original size:22 final size:23
Alignment explanation
Indices: 82596--82640 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
82586 AAACATAATT
**
82596 TATTTTTCTTAAACACTTTTTAA
1 TATTTTTCTTAAACACTGATTAA
82619 TATTTTTCTTAAACA-TGATTAA
1 TATTTTTCTTAAACACTGATTAA
82641 CGTGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTTCTTAAACACTGATTAA
Found at i:82973 original size:45 final size:44
Alignment explanation
Indices: 82909--83002 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 44
82899 GTTCCTCTTG
82909 CAATTCTTTTCCATCTATTGGAACTTGTTTCCCCCCCTCAAATTT
1 CAATTCTTTTCCATCTATTGGAACTTGTTT-CCCCCCTCAAATTT
*
82954 CAATTCTTTTCCATCTATTGGAACTTGTTTTCCCCCTCAAATTT
1 CAATTCTTTTCCATCTATTGGAACTTGTTTCCCCCCTCAAATTT
82998 CAATT
1 CAATT
83003 ATTTAATTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 18 0.38
45 30 0.62
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (44 bp):
CAATTCTTTTCCATCTATTGGAACTTGTTTCCCCCCTCAAATTT
Found at i:83526 original size:2 final size:2
Alignment explanation
Indices: 83519--83547 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
83509 TCAGTAGTAT
83519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83548 TTTATTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86585 original size:3 final size:3
Alignment explanation
Indices: 86577--86625 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
86567 TCAACTGTTA
* * *
86577 TAT TAT TAT TAT TTT TAT TAA TAT TAT TAT TAT TAAA TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT
86624 TA
1 TA
86626 CAAACCCAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
3 33 0.87
4 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:86601 original size:15 final size:15
Alignment explanation
Indices: 86577--86621 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
86567 TCAACTGTTA
*
86577 TATTATTATTATTTT
1 TATTAATATTATTTT
*
86592 TATTAATATTATTAT
1 TATTAATATTATTTT
86607 TATTAAATATTATTT
1 TATT-AATATTATTT
86622 ATTACAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTAATATTATTTT
Found at i:86673 original size:19 final size:19
Alignment explanation
Indices: 86649--86686 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86639 AATATTCAAG
86649 TCCAATACTCAATTACAAA
1 TCCAATACTCAATTACAAA
86668 TCCAATACTCAATTACAAA
1 TCCAATACTCAATTACAAA
86687 CCCAGACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (19 bp):
TCCAATACTCAATTACAAA
Found at i:89762 original size:12 final size:12
Alignment explanation
Indices: 89747--89777 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
89737 GTGTACAGTA
89747 ATGAACAATACT
1 ATGAACAATACT
89759 ATGAACAATACT
1 ATGAACAATACT
89771 ATGAACA
1 ATGAACA
89778 GTGAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.23
Consensus pattern (12 bp):
ATGAACAATACT
Found at i:90506 original size:31 final size:31
Alignment explanation
Indices: 90455--90545 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 31
90445 GACCTATCCA
* * *
90455 GAAGAACCTCAG-CAATTGTCCATAGGTCCT
1 GAAGAACCTAAGTAAATTGTCCATATGTCCT
*
90485 GAAGAACCTAAGTAAATTGTCCATATGTTCT
1 GAAGAACCTAAGTAAATTGTCCATATGTCCT
** * * *
90516 TTAGAACATAGGTATATTGTCCATATGTCC
1 GAAGAACCTAAGTAAATTGTCCATATGTCC
90546 CGAAAGACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 11 0.22
31 39 0.78
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (31 bp):
GAAGAACCTAAGTAAATTGTCCATATGTCCT
Found at i:90926 original size:26 final size:26
Alignment explanation
Indices: 90897--90947 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
90887 TATGTTCATA
* *
90897 TCAATCATGTCACATAAAATAACATG
1 TCAAACATATCACATAAAATAACATG
*
90923 TCAAACATATCACATATAATAACAT
1 TCAAACATATCACATAAAATAACAT
90948 ATAACACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (26 bp):
TCAAACATATCACATAAAATAACATG
Found at i:92774 original size:20 final size:22
Alignment explanation
Indices: 92741--92780 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
92731 CATTATATTT
*
92741 TTAAGAATTTATATT-TTAATC
1 TTAAGAATTAATATTATTAATC
92762 TTAA-AATTAATATTATTAA
1 TTAAGAATTAATATTATTAA
92781 ATAATATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (22 bp):
TTAAGAATTAATATTATTAATC
Found at i:102832 original size:18 final size:18
Alignment explanation
Indices: 102809--102867 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
102799 AGAACAACAC
102809 GAGGAACAGGCTCCACCA
1 GAGGAACAGGCTCCACCA
102827 GAGGAACAGGCTCCACCA
1 GAGGAACAGGCTCCACCA
* * *
102845 GAGGAACAAGCACGACCA
1 GAGGAACAGGCTCCACCA
102863 GAGGA
1 GAGGA
102868 TCAAATGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.37, C:0.29, G:0.31, T:0.03
Consensus pattern (18 bp):
GAGGAACAGGCTCCACCA
Found at i:103640 original size:12 final size:12
Alignment explanation
Indices: 103623--103647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103613 AATGAATTTT
103623 AAGATTTTCTAA
1 AAGATTTTCTAA
103635 AAGATTTTCTAA
1 AAGATTTTCTAA
103647 A
1 A
103648 GTATATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAGATTTTCTAA
Found at i:110761 original size:16 final size:17
Alignment explanation
Indices: 110736--110768 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
110726 GAGGGAGGTA
*
110736 GATCAGGGGAG-TTTCC
1 GATCAAGGGAGCTTTCC
110752 GATCAAGGGAGCTTTCC
1 GATCAAGGGAGCTTTCC
110769 AGCGCCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24
Consensus pattern (17 bp):
GATCAAGGGAGCTTTCC
Found at i:113919 original size:14 final size:14
Alignment explanation
Indices: 113900--113939 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
113890 CTGGGCATCT
113900 GAGGCCATCCGACC
1 GAGGCCATCCGACC
113914 GAGGCCATCCGACC
1 GAGGCCATCCGACC
113928 GAGGCCATCCGA
1 GAGGCCATCCGA
113940 AAGCATCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (14 bp):
GAGGCCATCCGACC
Found at i:113951 original size:20 final size:20
Alignment explanation
Indices: 113926--113979 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
113916 GGCCATCCGA
113926 CCGAGGCCATCCGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
* *
113946 CCGAGGCCATCTGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
*
113966 CCGAGGTCATCCGA
1 CCGAGGCCATCCGA
113980 CCGAGGCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:114013 original size:23 final size:23
Alignment explanation
Indices: 113981--114039 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
113971 GTCATCCGAC
* *
113981 CGAGGCCATCCGAATGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
*
114004 CGAGGGCATCCGAGCGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
*
114027 CGAGGGAATCCGA
1 CGAGGGCATCCGA
114040 GGGCAACCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (23 bp):
CGAGGGCATCCGAACGAGCTATG
Found at i:114125 original size:31 final size:33
Alignment explanation
Indices: 114087--114178 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
114077 GCGACCTACC
*
114087 CTCGCTCGGTTG-CC-CGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
*
114118 CTCGCTCGGTTGCCCTCGGATGCCCTTGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * * *
114151 CTCGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCG
114179 GATGCTTTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
31 12 0.23
32 2 0.04
33 38 0.73
ACGTcount: A:0.09, C:0.36, G:0.28, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:114654 original size:30 final size:30
Alignment explanation
Indices: 114618--114695 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
114608 TCCCATGGAT
114618 CACCTGGCGACCTTCATTGGTCGCCCAGAA
1 CACCTGGCGACCTTCATTGGTCGCCCAGAA
114648 CACCTGGCGACCTTCATTGGTCGCCCAGAA
1 CACCTGGCGACCTTCATTGGTCGCCCAGAA
*
114678 CACCCGGCGACCTTCATT
1 CACCTGGCGACCTTCATT
114696 CGAACTGTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.19, C:0.38, G:0.22, T:0.21
Consensus pattern (30 bp):
CACCTGGCGACCTTCATTGGTCGCCCAGAA
Found at i:117001 original size:28 final size:28
Alignment explanation
Indices: 116969--117025 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
116959 GTCTCTATTT
*
116969 ACATTATGA-CATTGAGTCAATGCTTGAA
1 ACATTAT-ATCATCGAGTCAATGCTTGAA
* *
116997 ACATTATATCGTCGAGTCAGTGCTTGAA
1 ACATTATATCATCGAGTCAATGCTTGAA
117025 A
1 A
117026 GCACTGGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (28 bp):
ACATTATATCATCGAGTCAATGCTTGAA
Found at i:124969 original size:18 final size:18
Alignment explanation
Indices: 124946--124996 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
124936 GGATTATCAG
*
124946 TGGTCCTTCGGGACATAC
1 TGGTCCTTCGGGACACAC
*
124964 TGGTCCTTCGGGACACAG
1 TGGTCCTTCGGGACACAC
*
124982 TGGTCCTACGGGACA
1 TGGTCCTTCGGGACA
124997 AATTTCTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (18 bp):
TGGTCCTTCGGGACACAC
Found at i:129225 original size:18 final size:18
Alignment explanation
Indices: 129139--129228 Score: 108
Period size: 18 Copynumber: 5.0 Consensus size: 18
129129 CGAGGATTAT
* *
129139 TAGTTGTCCTTCGGAACA
1 TAGTGGTCCTTCGGGACA
*
129157 TAGTGGTCTTTCGGGACA
1 TAGTGGTCCTTCGGGACA
* * *
129175 CATTGGTCCTTCGGAACA
1 TAGTGGTCCTTCGGGACA
*
129193 CAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
*
129211 TAGTGGTCCTACGGGACA
1 TAGTGGTCCTTCGGGACA
129229 AATTTCTACG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (18 bp):
TAGTGGTCCTTCGGGACA
Found at i:131356 original size:9 final size:11
Alignment explanation
Indices: 131328--131360 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
131318 TATCATTTTA
131328 AAAACACACTT
1 AAAACACACTT
131339 AAAACACACTT
1 AAAACACACTT
131350 AAAACACACTT
1 AAAACACACTT
131361 CTCCCCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACACACTT
Found at i:133559 original size:8 final size:8
Alignment explanation
Indices: 133546--133570 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
133536 CGGCGGAATA
133546 GGTTTTGG
1 GGTTTTGG
133554 GGTTTTGG
1 GGTTTTGG
133562 GGTTTTGG
1 GGTTTTGG
133570 G
1 G
133571 TGTTCTTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (8 bp):
GGTTTTGG
Found at i:133638 original size:20 final size:21
Alignment explanation
Indices: 133601--133659 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
133591 AAAACCCCAA
*
133601 GGGGATATCGATTCCC-CTGTGG
1 GGGGA-ATCGATTCCCTC-ATGG
*
133623 GGGGAATCGGTTCCCTCATGG
1 GGGGAATCGATTCCCTCATGG
133644 GGGG-ATCGATTCCCTC
1 GGGGAATCGATTCCCTC
133660 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.33
21 16 0.48
22 6 0.18
ACGTcount: A:0.14, C:0.25, G:0.36, T:0.25
Consensus pattern (21 bp):
GGGGAATCGATTCCCTCATGG
Found at i:137504 original size:22 final size:21
Alignment explanation
Indices: 137462--137501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
137452 GAGTTTGTTT
*
137462 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
137483 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
137502 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:141927 original size:38 final size:38
Alignment explanation
Indices: 141885--141957 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
141875 AAAATTAGCA
*
141885 TATGAATTTATGACATAACAATAAAGCGTAAATATGTT
1 TATGAATTTATGACATAACAATAAAGAGTAAATATGTT
141923 TATGAATTTATGACATAACAATAAAGAGTAAATAT
1 TATGAATTTATGACATAACAATAAAGAGTAAATAT
141958 ATTTTTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (38 bp):
TATGAATTTATGACATAACAATAAAGAGTAAATATGTT
Found at i:148989 original size:21 final size:20
Alignment explanation
Indices: 148968--149007 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
148958 TTCCCCTTCA
148968 AAGGGAGAATCGGTTCCCTC
1 AAGGGAGAATCGGTTCCCTC
* * *
148988 AAGGGGGGATCGATTCCCTC
1 AAGGGAGAATCGGTTCCCTC
149008 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.20
Consensus pattern (20 bp):
AAGGGAGAATCGGTTCCCTC
Found at i:159543 original size:23 final size:20
Alignment explanation
Indices: 159509--159551 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
159499 GGTTCCCATC
159509 AACCTTTATTTCATAATCTGT
1 AACCTTTATTTC-TAATCTGT
*
159530 AACCTCTTCATTTCTTATCTGT
1 AACCT-TT-ATTTCTAATCTGT
159552 TGTAGCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (20 bp):
AACCTTTATTTCTAATCTGT
Found at i:163206 original size:45 final size:45
Alignment explanation
Indices: 163107--163210 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
163097 ATGCACAGGA
* * *
163107 AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAATGCAGTT
1 AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGAAATT
* * *
163152 AGTGCATCGATGCACCCCTTTAAAGTGAAAACATCGAAGGTAAATT
1 AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGG-AAATT
*
163198 -GTGTATCGATGCA
1 AGTGCATCGATGCA
163211 TGGGTAGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 48 0.94
46 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGAAATT
Found at i:164326 original size:23 final size:23
Alignment explanation
Indices: 164281--164326 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
164271 ACATTTTATA
* *
164281 TGGCACTTCGGTGCAATCCTACG
1 TGGCACTACGGTGCAATCATACG
* *
164304 TGGCACTACGGTGTAATTATACG
1 TGGCACTACGGTGCAATCATACG
164327 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATCATACG
Found at i:167877 original size:20 final size:20
Alignment explanation
Indices: 167852--167889 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
167842 CACATGTTAA
167852 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
167872 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
167890 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:168909 original size:23 final size:23
Alignment explanation
Indices: 168860--168909 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
168850 TTTTATATGG
* * *
168860 CACTTCGGTGCAATCCTACGTGG
1 CACTACGGTGCAATCCTACGCGA
* *
168883 CACTACGGTGCATTTCTACGCGA
1 CACTACGGTGCAATCCTACGCGA
168906 CACT
1 CACT
168910 TCAGTTTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (23 bp):
CACTACGGTGCAATCCTACGCGA
Found at i:170696 original size:18 final size:18
Alignment explanation
Indices: 170673--170739 Score: 125
Period size: 18 Copynumber: 3.7 Consensus size: 18
170663 AAATATTTGT
170673 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
170691 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
*
170709 CCAAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
170727 CCGAAGGACCACT
1 CCGAAGGACCACT
170740 GATAATCCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:173359 original size:24 final size:24
Alignment explanation
Indices: 173315--173361 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
173305 TTTAAAAGTT
*
173315 CATATTTAAACACTTGAAGACTCA
1 CATATTTAAACAATTGAAGACTCA
173339 CATATTTAAACAATATG-AGACTC
1 CATATTTAAACAAT-TGAAGACTC
173362 GAAAATCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (24 bp):
CATATTTAAACAATTGAAGACTCA
Found at i:181448 original size:15 final size:15
Alignment explanation
Indices: 181430--181462 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
181420 ATCAACAAAT
181430 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
181445 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
181460 ATA
1 ATA
181463 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:182316 original size:27 final size:25
Alignment explanation
Indices: 182285--182345 Score: 61
Period size: 29 Copynumber: 2.3 Consensus size: 25
182275 TATTTATCTT
182285 TTTAATTTTGTAAA-AAAATTATATGAA
1 TTTAATTTT-TAAAGAAAA-TATAT-AA
182312 TTTAAAATTTTTAAAGAAAATATATAA
1 TTT--AATTTTTAAAGAAAATATATAA
*
182339 ATTAATT
1 TTTAATT
182346 ATAGTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
25 4 0.13
27 7 0.23
28 9 0.30
29 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (25 bp):
TTTAATTTTTAAAGAAAATATATAA
Found at i:182543 original size:18 final size:18
Alignment explanation
Indices: 182503--182548 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
182493 AATATTCTCA
* *
182503 GTAATCTTATTTCCGCCG
1 GTAATCTTATTCCCACCG
182521 GTAATCTTATTCCCACCG
1 GTAATCTTATTCCCACCG
* *
182539 TTAATTTTAT
1 GTAATCTTAT
182549 ATTTCGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:193858 original size:35 final size:36
Alignment explanation
Indices: 193771--193858 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
193761 TTGAAATCAT
193771 TTTG-AAA-TTAT-AATATATAGTCTTTTAAAACAC
1 TTTGAAAACTTATAAATATATAGTCTTTTAAAACAC
* * *
193804 TTTGAAAACTGATATAATATATGGT-TTTTAAAATA-
1 TTTGAAAACTTATA-AATATATAGTCTTTTAAAACAC
193839 TTTGAAAAACTTATAAATAT
1 TTTG-AAAACTTATAAATAT
193859 TTTTAAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 4 0.09
34 3 0.07
35 12 0.26
36 18 0.39
37 9 0.20
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (36 bp):
TTTGAAAACTTATAAATATATAGTCTTTTAAAACAC
Found at i:193877 original size:34 final size:34
Alignment explanation
Indices: 193839--193946 Score: 112
Period size: 34 Copynumber: 3.1 Consensus size: 34
193829 TTTTAAAATA
193839 TTTGAAAAACTTATAAATATTTTTAAAAACATTT
1 TTTGAAAAACTTATAAATATTTTTAAAAACATTT
* *
193873 TTTGAAAAAATTATATAAATAAAATTTTAAAAACATTT
1 TTTG-AAAAACT-TATAAAT--ATTTTTAAAAACATTT
* *
193911 TCTT--AAAACATATATAATATTTTTAAAATCATTT
1 T-TTGAAAAACTTATA-AATATTTTTAAAAACATTT
193945 TT
1 TT
193947 GAATACTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
33 1 0.02
34 19 0.31
35 10 0.16
36 14 0.23
38 16 0.26
39 2 0.03
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (34 bp):
TTTGAAAAACTTATAAATATTTTTAAAAACATTT
Found at i:193989 original size:32 final size:32
Alignment explanation
Indices: 193764--194035 Score: 106
Period size: 32 Copynumber: 8.0 Consensus size: 32
193754 TTATAGTTTG
* * *
193764 AAATCATTTTGAAATTATAATATATAGTCTTTTA
1 AAAT-ATTTTAAAAATATAATATATAGT-TTTAA
* * * *
193798 AAACACTTTGAAAACTGATATAATATATGGTTTTTA
1 AAATA-TTTTAAAA---ATATAATATATAGTTTTAA
*
193834 AAATATTTGAAAAACTTATAA-ATAT--TTTTAAA
1 AAATATTTTAAAAA--TATAATATATAGTTTT-AA
* * * *
193866 AACATTTTTTGAAAAAATTATATAAATAAAATTTTAAA
1 AA-ATATTTT--AAAAA-TATA-ATATATAGTTTT-AA
* *
193904 AACATTTTCTTAAAACATAT-ATA-ATA-TTTTTA
1 AA-ATATT-TTAAAA-ATATAATATATAGTTTTAA
* * *
193936 AAATCATTTTTGAATACTATAATATATAGTTTTGA
1 AAAT-A-TTTT-AAAAATATAATATATAGTTTTAA
* * *
193971 AACTTTTTTAAAAATATAATATATAGTTTAAA
1 AAATATTTTAAAAATATAATATATAGTTTTAA
*
194003 AAATATTTTAGAAATATATATATTATAGTTTTA
1 AAATATTTTAAAAATATA-ATA-TATAGTTTTA
194036 TATCATATTA
Statistics
Matches: 187, Mismatches: 27, Indels: 48
0.71 0.10 0.18
Matches are distributed among these distances:
31 6 0.03
32 46 0.25
33 29 0.16
34 33 0.18
35 24 0.13
36 12 0.06
37 19 0.10
38 16 0.09
39 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (32 bp):
AAATATTTTAAAAATATAATATATAGTTTTAA
Found at i:194053 original size:22 final size:22
Alignment explanation
Indices: 194018--194069 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
194008 TTTTAGAAAT
194018 ATATATATTATAGT-T-TTATATC
1 ATAT-TATTATAGTATATTATA-C
194040 ATATTATTATTAGTATATTATAC
1 ATATTATTA-TAGTATATTATAC
194063 A-ATTATT
1 ATATTATT
194070 TATCTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 3 0.11
24 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
ATATTATTATAGTATATTATAC
Found at i:195521 original size:14 final size:14
Alignment explanation
Indices: 195449--195521 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
195439 TATATATATA
195449 TATATATATATCTTT
1 TATAT-TATATCTTT
* *
195464 TATCTTTTATCTTT
1 TATATTATATCTTT
*
195478 TAT-TT-TATTTTAT
1 TATATTATATCTT-T
*
195491 TATATTA-ATACTAT
1 TATATTATAT-CTTT
*
195505 TATATTATATTTTT
1 TATATTATATCTTT
195519 TAT
1 TAT
195522 TTTCTCATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
12 5 0.11
13 6 0.13
14 28 0.61
15 7 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATTATATCTTT
Found at i:199010 original size:30 final size:30
Alignment explanation
Indices: 198976--199044 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
198966 TTATATGAGT
* *
198976 TATGTGATAAATGTATGG-AAATGATATGTC
1 TATGTGATAAAGGTA-GGAAAATAATATGTC
199006 TATGTGATAAAGGTAGGAAAATAATATGTC
1 TATGTGATAAAGGTAGGAAAATAATATGTC
*
199036 TACGTGATA
1 TATGTGATA
199045 CAAATTATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTAGGAAAATAATATGTC
Found at i:199288 original size:23 final size:23
Alignment explanation
Indices: 199255--199345 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
199245 ATTATTATAT
*
199255 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
199278 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
199301 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
199324 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
199346 AGCTGTGGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:204610 original size:2 final size:2
Alignment explanation
Indices: 204603--204637 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
204593 AGATGTATCA
204603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
204638 GACTTATACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:204814 original size:11 final size:11
Alignment explanation
Indices: 204798--204822 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
204788 AAAGAACAAC
204798 TGATCTGATAT
1 TGATCTGATAT
204809 TGATCTGATAT
1 TGATCTGATAT
204820 TGA
1 TGA
204823 CTTGACCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (11 bp):
TGATCTGATAT
Found at i:218620 original size:23 final size:23
Alignment explanation
Indices: 218552--218620 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
218542 CATTATTATA
* *
218552 TGGCACTACGGTGCAATTCTACA
1 TGGCACTTCGGTGCAATTCTACG
** *
218575 CAGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
218598 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
218621 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:225133 original size:13 final size:13
Alignment explanation
Indices: 225115--225142 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
225105 AATAGAATAA
225115 CAAGTTAATGAAT
1 CAAGTTAATGAAT
225128 CAAGTTAATGAAT
1 CAAGTTAATGAAT
225141 CA
1 CA
225143 TTGACATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (13 bp):
CAAGTTAATGAAT
Found at i:226228 original size:23 final size:23
Alignment explanation
Indices: 226189--226256 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
226179 ATTATTATAT
*
226189 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* * *
226212 GGTACTCCGGTGTAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
226235 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
226257 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:231197 original size:23 final size:23
Alignment explanation
Indices: 231163--231254 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
231153 CATTATTATA
*
231163 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
231186 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
231209 AGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* * *
231232 TGGCACTTCGATGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
231255 AGCTGTGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:232037 original size:28 final size:29
Alignment explanation
Indices: 232003--232067 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
231993 TAATAAAAGT
232003 AAATAAAAAAGA-GA-ATAAAAAGAAAAAA
1 AAATAAAAAAGATGAGATAAAAA-AAAAAA
* * *
232031 AAATAAACAAGATGAGATAAAAAATAAGA
1 AAATAAAAAAGATGAGATAAAAAAAAAAA
232060 AAATAAAA
1 AAATAAAA
232068 GGAATAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 11 0.35
29 13 0.42
30 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (29 bp):
AAATAAAAAAGATGAGATAAAAAAAAAAA
Found at i:232120 original size:16 final size:14
Alignment explanation
Indices: 232101--232166 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 14
232091 AGAACCTAAT
232101 AATAATATAATAAATA
1 AATAA-ATAA-AAATA
*
232117 AATAAAATAAAATAAA
1 AAT-AAATAAAA-ATA
232133 AATAAATAAAAATA
1 AATAAATAAAAATA
*
232147 AATAAGAAACAAAATA
1 AATAA-ATA-AAAATA
232163 AATA
1 AATA
232167 TAAAGGAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 7 0.16
15 12 0.28
16 22 0.51
17 2 0.05
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AATAAATAAAAATA
Found at i:232180 original size:26 final size:26
Alignment explanation
Indices: 232109--232181 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
232099 ATAATAATAT
*
232109 AATAAATAAATA-AAATAA-AATA-AA
1 AATAAATAAAAAGAAATAAGAA-ACAA
*
232133 AATAAATAAAAATAAATAAGAAACAA
1 AATAAATAAAAAGAAATAAGAAACAA
*
232159 AATAAATATAAAGGAAAT-AGAAA
1 AATAAATA-AAAAGAAATAAGAAA
232182 ATAAGTAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.26
25 7 0.17
26 17 0.40
27 7 0.17
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (26 bp):
AATAAATAAAAAGAAATAAGAAACAA
Found at i:232414 original size:13 final size:14
Alignment explanation
Indices: 232381--232422 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
232371 CAAAGTATAT
*
232381 AAAAATATAAGTAA
1 AAAAATATAAATAA
*
232395 TAAAATA-AAATAA
1 AAAAATATAAATAA
232408 AAAAATAGTAAATAA
1 AAAAATA-TAAATAA
232423 TAATAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 11 0.48
14 6 0.26
15 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAAATATAAATAA
Found at i:232417 original size:24 final size:25
Alignment explanation
Indices: 232379--232434 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
232369 AACAAAGTAT
*
232379 ATAAAAATATAAGTAATAAAATAA-A
1 ATAAAAAAATAAGTAA-AAAATAATA
*
232404 ATAAAAAAAT-AGTAAATAATAATA
1 ATAAAAAAATAAGTAAAAAATAATA
232428 ATAAAAA
1 ATAAAAA
232435 GGATTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.21
24 13 0.46
25 9 0.32
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
ATAAAAAAATAAGTAAAAAATAATA
Found at i:232421 original size:25 final size:26
Alignment explanation
Indices: 232379--232428 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
232369 AACAAAGTAT
*
232379 ATAAAAATATAAGTAATAA-AATAAA
1 ATAAAAAAATAAGTAATAATAATAAA
232404 ATAAAAAAAT-AGTAAATAATAATAA
1 ATAAAAAAATAAGT-AATAATAATAA
232429 TAAAAAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.64
26 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAAAAAAATAAGTAATAATAATAAA
Found at i:233664 original size:23 final size:24
Alignment explanation
Indices: 233621--233671 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
233611 GTATGTATTT
233621 ATTATATAATACAATACATAT-AC
1 ATTATATAATACAATACATATCAC
233644 ATTATATACCATA-AATA-ATATCAC
1 ATTATATA--ATACAATACATATCAC
233668 ATTA
1 ATTA
233672 ACATATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 12 0.48
24 10 0.40
25 3 0.12
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTATATAATACAATACATATCAC
Found at i:240534 original size:20 final size:20
Alignment explanation
Indices: 240506--240575 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 20
240496 ATTTTATAGT
240506 ATTTATATAAAT-TTATTAATA
1 ATTT-TATAAATATT-TTAATA
*
240527 ATTTTAT-AATCTTTTAATAA
1 ATTTTATAAATATTTTAAT-A
* *
240547 ATTTAATAAGTATTTT-ATA
1 ATTTTATAAATATTTTAATA
*
240566 ATTTTTTAAA
1 ATTTTATAAA
240576 CTTTATTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 16 0.40
20 14 0.35
21 10 0.25
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
ATTTTATAAATATTTTAATA
Found at i:240534 original size:31 final size:30
Alignment explanation
Indices: 240488--240574 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
240478 TTTGATAATA
*
240488 TAATAATTATTTTATAGTA-TTTATATAAATT
1 TAATAA-TATTTTATAATATTTTA-ATAAATT
* *
240519 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAATAAATT
*
240550 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATATTTTAA
240575 ACTTTATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 42 0.88
32 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAATAAATT
Found at i:240545 original size:19 final size:20
Alignment explanation
Indices: 240521--240570 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
240511 TATAAATTTA
*
240521 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
240540 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
240561 TT-ATAATTTT
1 TTAATAATTTT
240571 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:240566 original size:11 final size:10
Alignment explanation
Indices: 240490--240573 Score: 57
Period size: 11 Copynumber: 8.1 Consensus size: 10
240480 TGATAATATA
240490 ATAATTATTTT
1 ATAA-TATTTT
*
240501 ATAGTATTTAT
1 ATAATATTT-T
240512 ATAA-A-TTT
1 ATAATATTTT
240520 ATTAATAATTTT
1 A-TAAT-ATTTT
*
240532 ATAATCTTTT
1 ATAATATTTT
*
240542 AATAA-ATTTA
1 -ATAATATTTT
240552 ATAAGTATTTT
1 ATAA-TATTTT
*
240563 ATAATTTTTT
1 ATAATATTTT
240573 A
1 A
240574 AACTTTATTG
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
8 2 0.03
9 9 0.16
10 19 0.33
11 24 0.41
12 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (10 bp):
ATAATATTTT
Found at i:241141 original size:22 final size:22
Alignment explanation
Indices: 241094--241141 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
241084 CAATAAAGTT
*
241094 TAAAAAATTATAAAATACTTAT
1 TAAAAAATTATAAAATACTTAA
* *
241116 TAAAAGATTATTAAATTA-TTAA
1 TAAAAAATTA-TAAAATACTTAA
241138 TAAA
1 TAAA
241142 TTTATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAAAATTATAAAATACTTAA
Found at i:243950 original size:41 final size:41
Alignment explanation
Indices: 243893--243975 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
243883 ACAAACTAGT
243893 GACTGAAATACAAAACACGCGTAATCTACAAGGACCTAAGA
1 GACTGAAATACAAAACACGCGTAATCTACAAGGACCTAAGA
243934 GACTGAAATACAAAACACGCGTAATCTACAAGGACCTAAGA
1 GACTGAAATACAAAACACGCGTAATCTACAAGGACCTAAGA
243975 G
1 G
243976 TAATTTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.14
Consensus pattern (41 bp):
GACTGAAATACAAAACACGCGTAATCTACAAGGACCTAAGA
Found at i:256392 original size:52 final size:52
Alignment explanation
Indices: 256330--256435 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
256320 GGCAGCTGGG
256330 TACGTTCTTGATGGGGAGGTCTTATACAAGAAAAGCCATAGTCAAGTTCTGT
1 TACGTTCTTGATGGGGAGGTCTTATACAAGAAAAGCCATAGTCAAGTTCTGT
256382 TACGTTCTTGATGGGGAGGTCTTATACAAGAAAAGCCATAGTCAAGTTCTGT
1 TACGTTCTTGATGGGGAGGTCTTATACAAGAAAAGCCATAGTCAAGTTCTGT
256434 TA
1 TA
256436 AGATGCGTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (52 bp):
TACGTTCTTGATGGGGAGGTCTTATACAAGAAAAGCCATAGTCAAGTTCTGT
Found at i:258531 original size:109 final size:109
Alignment explanation
Indices: 258340--258667 Score: 541
Period size: 109 Copynumber: 3.0 Consensus size: 109
258330 AACATCCACG
*
258340 ATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGAAAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAA
258405 GGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGCCA
66 GGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGCCA
* * *
258449 ATTTCAACTCCATGACGGAAGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAATGAA
1 ATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAA
*
258514 GGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGCCG
66 GGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGCCA
* * *
258558 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAA
* * *
258623 GGGACGGCTAGTTGTCAATGAACAA-TTTCCCAATTTCAAAGCCA
66 GGGACGGCTGGTTGTCAACGAACAACTTT-CCAATTTCAGAGCCA
258667 A
1 A
258668 AGATATTGGA
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 3 0.01
109 200 0.99
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (109 bp):
ATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAA
GGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGCCA
Found at i:258783 original size:43 final size:43
Alignment explanation
Indices: 258669--258792 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
258659 CAAAGCCAAA
* *
258669 GATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGAAG
1 GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
*** *
258712 G--GGCGG-CT-GACTGTCAACA-AA---CAACTTCACAGCGAAG
1 GATATTGGACTCGA--GACAACACAAGCTCAACTTCACAGCGAAG
258749 GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
1 GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
258792 G
1 G
258793 GGCAGCTGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
37 17 0.28
39 9 0.15
40 8 0.13
41 9 0.15
43 18 0.30
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
Found at i:264751 original size:21 final size:21
Alignment explanation
Indices: 264725--264772 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
264715 GTCTTGAGGA
* *
264725 GTGACTGGCAGTGTGACGGTG
1 GTGACTGGCAGCGCGACGGTG
*
264746 GTGACTGGCGGCGCGACGGTG
1 GTGACTGGCAGCGCGACGGTG
264767 GTGACT
1 GTGACT
264773 AGCGTGCCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.19, G:0.48, T:0.21
Consensus pattern (21 bp):
GTGACTGGCAGCGCGACGGTG
Found at i:265003 original size:84 final size:82
Alignment explanation
Indices: 264870--265130 Score: 278
Period size: 84 Copynumber: 3.2 Consensus size: 82
264860 GCGGCATTGC
* * * ** *
264870 AATAACAAACGCCACTAACG-TGCACCTCTACTGCGGCGTTTCAACAACAAACGCCACTAAGGTA
1 AATAACAAACACCACTAA-GTTG--CCTCTATTGCGGCATTTTTATAACAAACGCCACTAAGGTA
264934 CGGATCTATTGCGGCGTTTT
63 CGGATCTATTGCGGCGTTTT
* * **
264954 AATACCAAACACCACTAAGATTCGCCTCTCTTGCGGTGTTTTTATAACAAACGCCACTAAGGTAC
1 AATAACAAACACCACTAAG-TT-GCCTCTATTGCGGCATTTTTATAACAAACGCCACTAAGGTAC
*
265019 -GACTCTATAGCGGCGTTTT
64 GGA-TCTATTGCGGCGTTTT
* * * *
265038 AGTAACAAACGCCACTAAGTTGCCTCTATTGCGGCATTTTTATAACAAACGCCACTAA-GT-TGT
1 AATAACAAACACCACTAAGTTGCCTCTATTGCGGCATTTTTATAACAAACGCCACTAAGGTACGG
*
265101 CTCTATTGCGGCGTTTT
66 ATCTATTGCGGCGTTTT
* *
265118 ATTGACAAACACC
1 AATAACAAACACC
265131 GCCAATTTTG
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
80 25 0.17
81 2 0.01
82 34 0.23
83 5 0.03
84 82 0.55
85 1 0.01
86 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (82 bp):
AATAACAAACACCACTAAGTTGCCTCTATTGCGGCATTTTTATAACAAACGCCACTAAGGTACGG
ATCTATTGCGGCGTTTT
Found at i:265084 original size:40 final size:41
Alignment explanation
Indices: 264871--265117 Score: 241
Period size: 42 Copynumber: 6.0 Consensus size: 41
264861 CGGCATTGCA
* * **
264871 ATAACAAACGCCACTAACG-TGCACCTCTACTGCGGCGTTTCA
1 ATAACAAACGCCACTAAGGTTG--CCTCTATTGCGGCGTTTTT
* * ** *
264913 ACAACAAACGCCACTAAGGTACGGATCTATTGCGGCGTTTTA
1 ATAACAAACGCCACTAAGGT-TGCCTCTATTGCGGCGTTTTT
* * * * *
264955 ATACCAAACACCACTAAGATTCGCCTCTCTTGCGGTGTTTTT
1 ATAACAAACGCCACTAAGGTT-GCCTCTATTGCGGCGTTTTT
* * *
264997 ATAACAAACGCCACTAAGGTACGACTCTATAGCGGCG-TTTT
1 ATAACAAACGCCACTAAGGT-TGCCTCTATTGCGGCGTTTTT
*
265038 AGTAACAAACGCCACTAA-GTTGCCTCTATTGCGGCATTTTT
1 A-TAACAAACGCCACTAAGGTTGCCTCTATTGCGGCGTTTTT
*
265079 ATAACAAACGCCACTAA-GTTGTCTCTATTGCGGCGTTTT
1 ATAACAAACGCCACTAAGGTTGCCTCTATTGCGGCGTTTT
265118 ATTGACAAAC
Statistics
Matches: 168, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
40 48 0.29
41 12 0.07
42 107 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (41 bp):
ATAACAAACGCCACTAAGGTTGCCTCTATTGCGGCGTTTTT
Found at i:271017 original size:2 final size:2
Alignment explanation
Indices: 271010--271047 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
271000 AGTGTTATTA
271010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
271048 GCATGTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:271529 original size:60 final size:60
Alignment explanation
Indices: 271400--271545 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 60
271390 TCATGATCCA
* * * * *
271400 CATTTTAAATTGGTTCTTAAACTTTTGAATATTCTAATTTCATCTTCAAACTATGATATT
1 CATTTTAAATTGGTCCTTAAACTTTTGAATATTCTAATTGCATCCTCAAACTAGGACATT
* *
271460 TATTTTAAATTAGTCCTTAAACTTTTGAATATT-TCAATTGCATCCTCAAACTAGGACCA-T
1 CATTTTAAATTGGTCCTTAAACTTTTGAATATTCT-AATTGCATCCTCAAACTAGGA-CATT
* **
271520 CATTCTAAATTGGTCCCAAAACTTTT
1 CATTTTAAATTGGTCCTTAAACTTTT
271546 AAATCTTCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
59 1 0.01
60 70 0.97
61 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (60 bp):
CATTTTAAATTGGTCCTTAAACTTTTGAATATTCTAATTGCATCCTCAAACTAGGACATT
Found at i:271793 original size:60 final size:59
Alignment explanation
Indices: 271719--271849 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 59
271709 GGAATGTTCA
* * * * * *
271719 AAAAGTTTGTGGACTAATATAGAATGACGGTCATAGTTTGAGGATGAAATTGAAATGCTT
1 AAAAGTTTGAGGACTAATATAAAAT-ACAGCCATAGTTTAAGGATGAAATTGAAATACTT
* * *
271779 AAAAGTTTGAGGACTAATTTAAAATATAGCCATAGTTTAAGGATGAAATTGAAATATTT
1 AAAAGTTTGAGGACTAATATAAAATACAGCCATAGTTTAAGGATGAAATTGAAATACTT
271838 AAAAGTTT-AGGA
1 AAAAGTTTGAGGA
271850 ATCAATTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 4 0.06
59 36 0.58
60 22 0.35
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
AAAAGTTTGAGGACTAATATAAAATACAGCCATAGTTTAAGGATGAAATTGAAATACTT
Found at i:271826 original size:59 final size:59
Alignment explanation
Indices: 271750--271862 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
271740 GAATGACGGT
* * *
271750 CATAGTTTGAGGATGAAATTGAAATGCTTAAAAGTTTGAGGACT-AATTTAAAATATAGC
1 CATAGTTTAAGGATGAAATTGAAATACTTAAAAGTTT-AGGAATCAATTTAAAATATAGC
*
271809 CATAGTTTAAGGATGAAATTGAAATATTTAAAAGTTTAGGAATCAATTTAAAAT
1 CATAGTTTAAGGATGAAATTGAAATACTTAAAAGTTTAGGAATCAATTTAAAAT
271863 GAGAATTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (59 bp):
CATAGTTTAAGGATGAAATTGAAATACTTAAAAGTTTAGGAATCAATTTAAAATATAGC
Found at i:271846 original size:29 final size:29
Alignment explanation
Indices: 271753--271846 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
271743 TGACGGTCAT
* **
271753 AGTTTGAGGATGAAATTGAAATGCTTAAA
1 AGTTTAAGGATGAAATTGAAATATTTAAA
* * * *** *
271782 AGTTTGAGGACT-AATTTAAAATATAGCCAT
1 AGTTTAAGGA-TGAAATTGAAATAT-TTAAA
271812 AGTTTAAGGATGAAATTGAAATATTTAAA
1 AGTTTAAGGATGAAATTGAAATATTTAAA
271841 AGTTTA
1 AGTTTA
271847 GGAATCAATT
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 26 0.55
30 21 0.45
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (29 bp):
AGTTTAAGGATGAAATTGAAATATTTAAA
Done.