Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004872.1 Hibiscus syriacus cultivar Beakdansim tig00010981_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: 97870
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:4192 original size:20 final size:20
Alignment explanation
Indices: 4167--4204 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4157 ATTGGGAAGG
4167 GATGCATCGATGCACTCATT
1 GATGCATCGATGCACTCATT
*
4187 GATGCATTGATGCACTCA
1 GATGCATCGATGCACTCA
4205 CCATATCAAA
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:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
GATGCATCGATGCACTCATT
Found at i:4287 original size:63 final size:62
Alignment explanation
Indices: 4213--4364 Score: 182
Period size: 63 Copynumber: 2.4 Consensus size: 62
4203 CACCATATCA
* *
4213 AATGCAATTTATGCATCGATGCACTACCATGCATCGATGAACTCAAG-TT-TTATGAAAACATCG
1 AATGCATTTTATGCATCGATGCACTACCA-GCATCGATGAACTCAAGCTTGTT-T-AAAACATCC
* * * * **
4276 AATGCATTTTATGTATCGATGCACAGACCAGTATCGATGCACTCTGGCTTGTTTAAAACATCC
1 AATGCATTTTATGCATCGATGCAC-TACCAGCATCGATGAACTCAAGCTTGTTTAAAACATCC
4339 AATGCATTTTATGCATCGATGCACTA
1 AATGCATTTTATGCATCGATGCACTA
4365 AGGGTACAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
63 66 0.87
64 7 0.09
65 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (62 bp):
AATGCATTTTATGCATCGATGCACTACCAGCATCGATGAACTCAAGCTTGTTTAAAACATCC
Found at i:5122 original size:30 final size:31
Alignment explanation
Indices: 5066--5123 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
5056 ATAACTCTGC
5066 TAGGTTCAATCACTGCTGGCAATTCCTTGTA
1 TAGGTTCAATCACTGCTGGCAATTCCTTGTA
*
5097 TAGGTTCAA-CAC-GACTGGTAATTCCTT
1 TAGGTTCAATCACTG-CTGGCAATTCCTT
5124 ATGGACCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.60
31 9 0.36
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (31 bp):
TAGGTTCAATCACTGCTGGCAATTCCTTGTA
Found at i:7582 original size:987 final size:980
Alignment explanation
Indices: 5676--7642 Score: 3862
Period size: 987 Copynumber: 2.0 Consensus size: 980
5666 GTGGAGTACG
5676 GTGCATGTGATTAGGGGGTATGTAGCTTGTATTTTGTTTTTATCTGAGTCTGGAATCTGTTTTAT
1 GTGCATGTGATTAGGGGGTATGTAGCTTGTATTTTGTTTTTATCTGAGTCTGGAATCTGTTTTAT
5741 TTCTGAATATTCTTAAATTTTACTTTAGTGTTTAAATGGTTTTATGATTTTACATGTTTAACAAA
66 TTCTGAATATTCTTAAATTTTACTTTAGTGTTTAAATGGTTTTATGATTTTACATGTTTAACAAA
5806 AAAATTAAATTTTCTGGGATTTTTACTGTGGGTCACTATGGTGGCCCTAATGTTACACCTCGGAT
131 AAAATTAAATTTTCTGGGATTTTTACTGTGGGTCACTATGGTGGCCCTAATGTTACACCTCGGAT
*
5871 CGGATCGGGTCACTCGTATCGGTCTATGGGTGTTATATGTCTCTTGTATGTTGTCTTAGTCATGG
196 CGGATCGAGTCACTCGTATCGGTCTATGGGTGTTATATGTCTCTTGTATGTTGTCTTAGTCATGG
5936 AAGTTATGGATTCGAGTCCAAAATTAGCTTGCAGTCCTTTCATTGAACATTGATTATTTTATTTT
261 AAGTTATGGATTCGAGTCCAAAATTAGCTTGCAGTCCTTTCATTGAACATTGATTATTTTATTTT
6001 TCATTATTTATGTAAATAGTTGTATGATGTTTAAATTCATGTTTACGGATTAATTGAATTTTCAT
326 TCATTATTTATGTAAATAGTTGTATGATGTTTAAATTCATGTTTACGGATTAATTGAATTTTCAT
6066 TTCAAAAAGTGTTTATCTTTGTTTTATGTTTGGTCAAAGGTTTGAATGTTATTCTCAGACACTTC
391 TTCAAAAAGTGTTTATCTTTGTTTTATGTTTGGTCAAAGGTTTGAATGTTATTCTCAGACACTTC
6131 ATTGCATTACATGACATAATATTTATACCCGAGCTCTGTCCCGATTAAATAGAGATGAATGTTAT
456 ATTGCATTACATGACATAATATTTATACCCGAGCTCTGTCCCGATTAAATAGAGATGAATGTTAT
6196 GTTTTCATGGTGAATTATTCCCGTATGAGCTATAGCTACTAGCCTATGAGATACATACCTTGTAC
521 GTTTTCATGGTGAATTATTCCCGTATGAGCTATAGCTACTAGCCTATGAGATACATACCTTGTAC
6261 CTCCGTGGGAATTTATTTTCTCCTATGGGTACAAGGAGGTGGATCTTCTAAAATTAAATTCATTC
586 CTCCGTGGGAATTTATTTTCTCCTATGGGTACAAGGAGGTGGATCTTCTAAAATTAAATTCATTC
6326 CATTTGAAGAATGTGATGGGTGATGATCGAAGGTTTGGCAACCCAAAGGGCACCGACATCAAGGA
651 CATTTGAAGAATGTGATGGGTGATGATCGAAGGTTTGGCAACCCAAAGGGCACCGACATCAAGGA
6391 AAATTCAAGGATCTTTCCTATAGAACCAAAACCTGCATATAGTGAACCATAGACTGGTCACCCTA
716 AAATTCAAGGATCTTTCCTATAGAACCAAAACCTGCATATAGTGAACCATAGACTGGTCACCCTA
6456 GGTAGAGCCATACCGAACCTTTATCCGTTAGTATGTACCAAAATAGGTGTTCACAAAGGAGGAAC
781 GGTAGAGCCATACCGAACCTTTATCCGTTAGTATGTACCAAAATAGGTGTTCACAAAGGAGGAAC
6521 AATTCTAAACCATTACAATTTACTTTAAATTCATAGAAAGCATGAAAGTTAGATACCATGCGGTT
846 AATTCTAAACCATTACAATTTACTTTAAATTCATAGAAAGCATGAAAGTTAGATACCATGCGGTT
6586 AGGTTTAATTTCTTCAAATAAAGCATTGGCGGGTAGAAAACATGTCTGGTAGGACCTATTTCAAT
911 AGGTTTAATTTCTTCAAATAAAGCATTGGCGGGTAGAAAACATGTCTGGTAGGACCTATTTCAAT
6651 AAACC
976 AAACC
6656 GTGCATGTGATTAGGGGGTATGTAGCTTGTATTTTGTTTTTATCTGAGTCTGGAATCTGTTTTAT
1 GTGCATGTGATTAGGGGGTATGTAGCTTGTATTTTGTTTTTATCTGAGTCTGGAATCTGTTTTAT
6721 TTCTGAATATTCTTAAATTTTACTTTAGTGTTTTAAATGGTTTTATGATTTTACATGTTTTAACA
66 TTCTGAATATTCTTAAATTTTACTTTAGTG-TTTAAATGGTTTTATGATTTTACATG-TTTAACA
6786 AAAAAATTAAATTTTCTGGGATTTTTACTGTGGGTCACTATGGTGGCCCTAATGTTACACCTCGG
129 AAAAAATTAAATTTTCTGGGATTTTTACTGTGGGTCACTATGGTGGCCCTAATGTTACACCTCGG
6851 ATCGGATCGAGTCACTCGTATCGGTCTATGGGTGTTATATGTCTCTTGTATGTTGTCTTAGTCAT
194 ATCGGATCGAGTCACTCGTATCGGTCTATGGGTGTTATATGTCTCTTGTATGTTGTCTTAGTCAT
6916 GGAAGTTATGGATTCGAGTCCAAAATTAGCTTGCAGTCCTTTTCATTGAACATTGATTATTTTAT
259 GGAAGTTATGGATTCGAGTCCAAAATTAGCTTGCAGTCC-TTTCATTGAACATTGATTATTTTAT
6981 TTTTCATTATTTATGTAAATAGTTGTACTGATGTTTAAATTCATGTTTACGGATTAATTGAATTT
323 TTTTCATTATTTATGTAAATAGTTGTA-TGATGTTTAAATTCATGTTTACGGATTAATTGAATTT
7046 TCATTTCAAAAAGTGTTTATCTTTGTTTTATGTTTGGTCAAAGGTTTGAATGTTATTCTCAGACA
387 TCATTTCAAAAAGTGTTTATCTTTGTTTTATGTTTGGTCAAAGGTTTGAATGTTATTCTCAGACA
7111 CTTCATTTGCATTACATGACATAATATTTATACCCGAGCTCTGTCCCGATTAAATAGAGATGAAT
452 CTTCA-TTGCATTACATGACATAATATTTATACCCGAGCTCTGTCCCGATTAAATAGAGATGAAT
7176 GTTATGTTTTCATGGTGAATTTATTCCCGTATGAGCTATAGCTACTAGCCTATGAGATACATACC
516 GTTATGTTTTCATGGTGAA-TTATTCCCGTATGAGCTATAGCTACTAGCCTATGAGATACATACC
7241 TTGTACCTCCGTGGGAATTTATTTTCTCCTATGGGTACAAGGAGGTGGATCTTCTAAAATTAAAT
580 TTGTACCTCCGTGGGAATTTATTTTCTCCTATGGGTACAAGGAGGTGGATCTTCTAAAATTAAAT
7306 TCATTCCATTTGAAGAATGTGATGGGTGATGATCGAAGGTTTGGCAACCCAAAGGGCACCGACAT
645 TCATTCCATTTGAAGAATGTGATGGGTGATGATCGAAGGTTTGGCAACCCAAAGGGCACCGACAT
7371 CAAGGAAAATTCAAGGATCTTTTCCTATAGAACCAAAACCTGCATATAGTGAACCATAGACTGGT
710 CAAGGAAAATTCAAGGATC-TTTCCTATAGAACCAAAACCTGCATATAGTGAACCATAGACTGGT
7436 CACCCTAGGTAGAGCCATACCGAACCTTTATCCGTTAGTATGTACCAAAATAGGTGTTCACAAAG
774 CACCCTAGGTAGAGCCATACCGAACCTTTATCCGTTAGTATGTACCAAAATAGGTGTTCACAAAG
7501 GAGGAACAATTCTAAACCATTACAATTTACTTTAAATTCATAGAAAGCATGAAAGTTAGATACCA
839 GAGGAACAATTCTAAACCATTACAATTTACTTTAAATTCATAGAAAGCATGAAAGTTAGATACCA
7566 TGCGGTTAGGTTTAATTTCTTCAAATAAAGCATTGGCGGGTAGAAAACATGTCTGGTAGGACCTA
904 TGCGGTTAGGTTTAATTTCTTCAAATAAAGCATTGGCGGGTAGAAAACATGTCTGGTAGGACCTA
7631 TTTCAATAAACC
969 TTTCAATAAACC
7643 ATGTTGGGCA
Statistics
Matches: 979, Mismatches: 1, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
980 95 0.10
981 26 0.03
982 175 0.18
983 52 0.05
984 107 0.11
985 78 0.08
986 194 0.20
987 252 0.26
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (980 bp):
GTGCATGTGATTAGGGGGTATGTAGCTTGTATTTTGTTTTTATCTGAGTCTGGAATCTGTTTTAT
TTCTGAATATTCTTAAATTTTACTTTAGTGTTTAAATGGTTTTATGATTTTACATGTTTAACAAA
AAAATTAAATTTTCTGGGATTTTTACTGTGGGTCACTATGGTGGCCCTAATGTTACACCTCGGAT
CGGATCGAGTCACTCGTATCGGTCTATGGGTGTTATATGTCTCTTGTATGTTGTCTTAGTCATGG
AAGTTATGGATTCGAGTCCAAAATTAGCTTGCAGTCCTTTCATTGAACATTGATTATTTTATTTT
TCATTATTTATGTAAATAGTTGTATGATGTTTAAATTCATGTTTACGGATTAATTGAATTTTCAT
TTCAAAAAGTGTTTATCTTTGTTTTATGTTTGGTCAAAGGTTTGAATGTTATTCTCAGACACTTC
ATTGCATTACATGACATAATATTTATACCCGAGCTCTGTCCCGATTAAATAGAGATGAATGTTAT
GTTTTCATGGTGAATTATTCCCGTATGAGCTATAGCTACTAGCCTATGAGATACATACCTTGTAC
CTCCGTGGGAATTTATTTTCTCCTATGGGTACAAGGAGGTGGATCTTCTAAAATTAAATTCATTC
CATTTGAAGAATGTGATGGGTGATGATCGAAGGTTTGGCAACCCAAAGGGCACCGACATCAAGGA
AAATTCAAGGATCTTTCCTATAGAACCAAAACCTGCATATAGTGAACCATAGACTGGTCACCCTA
GGTAGAGCCATACCGAACCTTTATCCGTTAGTATGTACCAAAATAGGTGTTCACAAAGGAGGAAC
AATTCTAAACCATTACAATTTACTTTAAATTCATAGAAAGCATGAAAGTTAGATACCATGCGGTT
AGGTTTAATTTCTTCAAATAAAGCATTGGCGGGTAGAAAACATGTCTGGTAGGACCTATTTCAAT
AAACC
Found at i:13441 original size:13 final size:14
Alignment explanation
Indices: 13423--13452 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13413 GTCAAAGAAA
13423 GTCAACGGTC-ACG
1 GTCAACGGTCAACG
13436 GTCAACGGTCAACG
1 GTCAACGGTCAACG
13450 GTC
1 GTC
13453 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:13459 original size:5 final size:5
Alignment explanation
Indices: 13449--13494 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
13439 AACGGTCAAC
*
13449 GGTCG GGTCG GGTCAG CGGTCG GGTCG AGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC-G -GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
13495 AAACCGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 31 0.84
6 2 0.05
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:13469 original size:7 final size:7
Alignment explanation
Indices: 13423--13452 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13413 GTCAAAGAAA
13423 GTCAACG
1 GTCAACG
13430 GTC-ACG
1 GTCAACG
13436 GTCAACG
1 GTCAACG
13443 GTCAACG
1 GTCAACG
13450 GTC
1 GTC
13453 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:17463 original size:14 final size:14
Alignment explanation
Indices: 17440--17491 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
17430 TCTATCTATA
*
17440 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
17453 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
17468 TGCAGGGATTTATT
1 TGCAGGGATTTATT
*
17482 TACAGGGATT
1 TGCAGGGATT
17492 ACTTCCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
13 1 0.03
14 31 0.89
15 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:22385 original size:21 final size:21
Alignment explanation
Indices: 22361--22414 Score: 99
Period size: 21 Copynumber: 2.5 Consensus size: 21
22351 TTTGCTTTTT
22361 GGTTTTGTTGTAGGGTTGTTG
1 GGTTTTGTTGTAGGGTTGTTG
22382 GGTTTTGTTGTAGGGTTGTTG
1 GGTTTTGTTGTAGGGTTGTTG
22403 GGTTTATGTTGT
1 GGTTT-TGTTGT
22415 GGTGGATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.54
Consensus pattern (21 bp):
GGTTTTGTTGTAGGGTTGTTG
Found at i:26496 original size:25 final size:23
Alignment explanation
Indices: 26439--26506 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
26429 ATATTAAAGG
* *
26439 ATAAATTTATAAAAATTT-AATG
1 ATAAATTTATAAAATTTTAAATA
*
26461 ATGAATTTATAAAATTTTAAGGATA
1 ATAAATTTATAAAATTTTAA--ATA
**
26486 ATAAATTTATATTATTTTAAA
1 ATAAATTTATAAAATTTTAAA
26507 AAGACGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 16 0.43
23 2 0.05
25 19 0.51
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
ATAAATTTATAAAATTTTAAATA
Found at i:26775 original size:29 final size:29
Alignment explanation
Indices: 26743--26806 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
26733 AATTAAGACT
26743 TTAAAAAACAA-ATATTTCTTTCGATTATA
1 TTAAAAAACAATA-ATTTCTTTCGATTATA
*
26772 TT-AAAAACTATAATTTCTTTCGATTATA
1 TTAAAAAACAATAATTTCTTTCGATTATA
26800 TTAAAAA
1 TTAAAAA
26807 TTTACTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (29 bp):
TTAAAAAACAATAATTTCTTTCGATTATA
Found at i:27017 original size:60 final size:60
Alignment explanation
Indices: 26906--27019 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
26896 CTATAGGGTA
* * **
26906 TTATTTTATCAAGTCTATCAACTATTAAAAGTTATAAAATACTCATTTAACTATGGAATG
1 TTATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTATGGAATG
* * * **
26966 TTATTTTGTTAAGTCCATCGACTATTAAAAGTTACAAAATGGTCACCTAACTAT
1 TTATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTAT
27020 TTATTATATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (60 bp):
TTATTTTATCAAGTCCATCAACTATTAAAAGTTACAAAATACTCACCTAACTATGGAATG
Found at i:31377 original size:18 final size:18
Alignment explanation
Indices: 31344--31386 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
31334 TTTTTGAAAT
31344 ATAAAAACATATAAAGTC
1 ATAAAAACATATAAAGTC
*
31362 ATTAAAAACGTA-AAAGTC
1 A-TAAAAACATATAAAGTC
31380 ATAAAAA
1 ATAAAAA
31387 ATGAGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 9 0.39
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.21
Consensus pattern (18 bp):
ATAAAAACATATAAAGTC
Found at i:31387 original size:19 final size:19
Alignment explanation
Indices: 31346--31387 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
31336 TTTGAAATAT
*
31346 AAAAACATATAAAGTCATT
1 AAAAACATATAAAGTCATA
*
31365 AAAAACGTA-AAAGTCATA
1 AAAAACATATAAAGTCATA
31383 AAAAA
1 AAAAA
31388 TGAGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.64, C:0.10, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAAACATATAAAGTCATA
Found at i:32355 original size:20 final size:19
Alignment explanation
Indices: 32330--32383 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
32320 GCGAAATAAA
32330 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
32350 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
32370 AATCGCAACGCGAT
1 AATCGCAACGCGAT
32384 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:32394 original size:21 final size:21
Alignment explanation
Indices: 32368--32465 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
32358 ATCAGTTCCC
32368 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
*
32389 AGAATCGCAATGCGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
32409 CA-AATTCGCATTGCGATTTTCC
1 -AGAA-TCGCAACGCGATTATGA
*
32431 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
32452 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
32466 ACATATAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.30
21 38 0.63
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:32458 original size:20 final size:20
Alignment explanation
Indices: 32433--32708 Score: 116
Period size: 20 Copynumber: 13.7 Consensus size: 20
32423 GATTTTCCAG
32433 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
32453 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * * *
32473 AATAGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* *
32493 TATCGCAA--CGACTATCCGTAA
1 AATCGCAACGCGAATAT--G-AA
* ** *
32514 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
*
32534 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* *
32555 AATCGCAACGCGTATATGTA
1 AATCGCAACGCGAATATGAA
* * * *
32575 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* *
32595 AATCGCAACGCGTATCT-ATA
1 AATCGCAACGCGAATATGA-A
* *
32615 AATCGCAACGAGAATACT-TA
1 AATCGCAACGCGAATA-TGAA
* * ** *
32635 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
*
32655 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* * ** *
32676 AATCACAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
32696 AATCGCAACGCGA
1 AATCGCAACGCGA
32709 TTTTTAAAGG
Statistics
Matches: 188, Mismatches: 52, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
18 5 0.03
19 1 0.01
20 137 0.73
21 42 0.22
23 3 0.02
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:32609 original size:40 final size:41
Alignment explanation
Indices: 32494--32705 Score: 302
Period size: 41 Copynumber: 5.2 Consensus size: 41
32484 GATTCTGACT
* *
32494 ATCGCAACGACTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
**
32535 ATCGCAACGACAATACGTAAAATCGCAACGCGTATATGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * **
32576 ATCACAACGAGAATACGT-AAATCGCAACGCGTATCTATAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
32616 ATCGCAACGAGAATAC-TTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
32656 ATCGCAACGACAATACGTAAAATCACAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
32697 ATCGCAACG
1 ATCGCAACG
32706 CGATTTTTAA
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.45
41 83 0.54
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:33326 original size:21 final size:21
Alignment explanation
Indices: 33265--33343 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
33255 TTCTAAACTT
33265 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
33285 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
33305 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
33326 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
33344 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:33366 original size:19 final size:19
Alignment explanation
Indices: 33265--33386 Score: 83
Period size: 20 Copynumber: 6.5 Consensus size: 19
33255 TTCTAAACTT
**
33265 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
33285 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
33305 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
33326 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
33340 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
* **
33359 AAAATCGCAACGTGAAACC
1 AAAATCGCAACGCGAAATG
33378 AAAATCGCA
1 AAAATCGCA
33387 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 25 0.30
20 28 0.34
21 13 0.16
22 1 0.01
ACGTcount: A:0.49, C:0.20, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:33446 original size:33 final size:33
Alignment explanation
Indices: 33404--33478 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
33394 TTTCATTTCG
*
33404 CGTTGCGATTTTAATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTAATTTCGCGTTGCGATTATCT
*
33437 CGTTGCGATTTTCATTTCGCGTTGCGATTATCT
1 CGTTGCGATTTTAATTTCGCGTTGCGATTATCT
*
33470 TGTTGCGAT
1 CGTTGCGAT
33479 AGTCATTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTAATTTCGCGTTGCGATTATCT
Found at i:33485 original size:33 final size:33
Alignment explanation
Indices: 33417--33498 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
33407 TGCGATTTTA
* **
33417 ATTTCGCGTTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTATCTCGTTGCGATAGTC
*
33450 ATTTCGCGTTGCGATTATCTTGTTGCGATAGTC
1 ATTTCGCGTTGCGATTATCTCGTTGCGATAGTC
*
33483 ATTTCCACGTTGCGAT
1 ATTT-CGCGTTGCGAT
33499 AGTCATTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.77
34 10 0.23
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTATCTCGTTGCGATAGTC
Found at i:33496 original size:20 final size:20
Alignment explanation
Indices: 33471--33518 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
33461 CGATTATCTT
33471 GTTGCGATAGTCATT-TCCAC
1 GTTGCGATAGTCATTAT-CAC
*
33491 GTTGCGATAGTCATTATCTC
1 GTTGCGATAGTCATTATCAC
33511 GTTGCGAT
1 GTTGCGAT
33519 TTTCATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGTCATTATCAC
Found at i:33524 original size:20 final size:19
Alignment explanation
Indices: 33382--33527 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
33372 GAAACCAAAA
*
33382 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
33401 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
33420 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
33434 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
33453 TCGCGTTGCGATTATC--T
1 TCGCGTTGCGATTTTCATT
**
33470 T---GTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* **
33486 TCCACGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
33506 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
33526 TC
1 TC
33528 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.19
16 5 0.05
17 4 0.04
19 44 0.42
20 30 0.29
21 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:35158 original size:21 final size:21
Alignment explanation
Indices: 35134--35200 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
35124 TCATTCCTCG
35134 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
35155 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
35176 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
35197 AGAG
1 AGAG
35201 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:36571 original size:14 final size:14
Alignment explanation
Indices: 36552--36587 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
36542 ATTGTTTAAT
36552 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
36566 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
36580 TGATTTGT
1 TGATTTGT
36588 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:36716 original size:19 final size:18
Alignment explanation
Indices: 36694--36792 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 18
36684 AAAAATTACT
36694 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
36713 ATCGCAA-C--AA-GAGA
1 ATCGCAAGCGAAATGAAA
*
36727 ATCGCAATGCGAAATAAAA
1 ATCGCAA-GCGAAATGAAA
*
36746 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
36760 ATCGCAACGCGAAACT-AAA
1 ATCGCAA-GCGAAA-TGAAA
36779 ATCGCAACGCGAAA
1 ATCGCAA-GCGAAA
36793 CTAAATTCGC
Statistics
Matches: 65, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
14 20 0.31
15 3 0.05
16 3 0.05
17 3 0.05
18 3 0.05
19 33 0.51
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:36787 original size:33 final size:33
Alignment explanation
Indices: 36694--36787 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
36684 AAAAATTACT
* * * *
36694 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
36727 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
*
36760 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TAAAAATCGCAACG
36788 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGACAAA
Found at i:36809 original size:19 final size:19
Alignment explanation
Indices: 36726--36802 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
36716 GCAACAAGAG
*
36726 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACT-AA
36745 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
36759 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
36778 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
36797 ATTCGC
1 AATCGC
36803 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 34 0.67
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:36820 original size:19 final size:19
Alignment explanation
Indices: 36798--36946 Score: 120
Period size: 19 Copynumber: 8.3 Consensus size: 19
36788 CGAAACTAAA
36798 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
36817 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
36832 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
36850 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
36865 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
36883 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
* *
36903 TTCGCCTTGCGATATTCAT
1 TTCGCGTTGCGATTTTCAT
36922 ATTCGCGTTGCGATTTTCAT
1 -TTCGCGTTGCGATTTTCAT
36942 TTCGC
1 TTCGC
36947 ATTAAGATGA
Statistics
Matches: 101, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
14 17 0.17
16 6 0.06
17 6 0.06
19 38 0.38
20 34 0.34
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:36844 original size:33 final size:33
Alignment explanation
Indices: 36802--36895 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
36792 ACTAAATTCG
*
36802 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
36835 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
36868 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
36896 AGTCATTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:36907 original size:20 final size:20
Alignment explanation
Indices: 36870--36949 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
36860 GATTCTCTCG
*
36870 TTGCGATTTTCA-TTTCGCA
1 TTGCGATATTCATTTTCGCA
* *
36889 TTGCGATAGTCATTTTCGCC
1 TTGCGATATTCATTTTCGCA
* *
36909 TTGCGATATTCATATTCGCG
1 TTGCGATATTCATTTTCGCA
*
36929 TTGCGATTTTCA-TTTCGCA
1 TTGCGATATTCATTTTCGCA
36948 TT
1 TT
36950 AAGATGATTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.33
20 34 0.67
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.45
Consensus pattern (20 bp):
TTGCGATATTCATTTTCGCA
Found at i:40382 original size:20 final size:20
Alignment explanation
Indices: 40357--40423 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
40347 AAATTCAGTA
40357 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
40377 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
40397 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
40417 TTGCGAT
1 TTGCGAT
40424 TTACGTATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:40433 original size:20 final size:20
Alignment explanation
Indices: 40410--40502 Score: 150
Period size: 20 Copynumber: 4.7 Consensus size: 20
40400 CGATAGTCAG
40410 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
40430 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
40450 ATTCGCGTTACGATTTACGT
1 ATTCGCGTTGCGATTTACGT
* * *
40470 ATTTGCATTGCGATTTATGT
1 ATTCGCGTTGCGATTTACGT
40490 ATTCGCGTTGCGA
1 ATTCGCGTTGCGA
40503 ATTAGGAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:40439 original size:40 final size:40
Alignment explanation
Indices: 40357--40483 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
40347 AAATTCAGTA
* * * *
40357 TTGCGATAGTCAGAATCGCGTTGCGATAGT-CAG-AATCTCG
1 TTGCGATAGTCAGATTCGCGTTGCGAT-TTAC-GTATTCGCG
40397 TTGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCG
1 TTGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCG
* * * *
40437 TTGCGAT--TTACGTATTCGCGTTACGATTTACGTATTTGCA
1 TTGCGATAGTCA-G-ATTCGCGTTGCGATTTACGTATTCGCG
40477 TTGCGAT
1 TTGCGAT
40484 TTATGTATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 70 0.93
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
TTGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCG
Found at i:41052 original size:81 final size:81
Alignment explanation
Indices: 40739--41044 Score: 377
Period size: 81 Copynumber: 3.8 Consensus size: 81
40729 TGGTCTACAA
* *
40739 TAAAAGATAAATGGCCTAGATGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
40804 GTTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * *
40820 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAAGGTGTCAATTGTCCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
40885 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
40901 TAAAGGATAAGTGGCATAGCA-GTGCAACTGACAGAAATGTGTCAATTATGCCAGTTTA-CTGAA
1 TAAAAGATAAATGGCCTAG-ATGTGCAATTGACAGAAATGTGTCAATTATGCCAG-TTAGATGAA
*
40964 CGGTTAAAGACTGTTGAG
64 CGGTTAAAGACCGTTGAG
* * ** * * *
40982 TAAAAGATAAATGGGCTA-ACTGTGCATTTGGTAGAAAAGTGT-AAGTCATGCGAGTTAGATGAA
1 TAAAAGATAAATGGCCTAGA-TGTGCAATTGACAGAAATGTGTCAA-TTATGCCAGTTAGATGAA
41045 AAGTTAAATG
Statistics
Matches: 192, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 5 0.03
81 182 0.95
82 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGATGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
GTTAAAGACCGTTGAG
Found at i:41156 original size:49 final size:45
Alignment explanation
Indices: 41102--41219 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 45
41092 GGATAAAATG
* *
41102 TGCATAAGTGGTATGAAAGGATGTCATATAGGTATAAAATGTACAACAA
1 TGCATAA-TGGTATGAAAGGATGTCATAAAGG-A-AAAACGTA-AACAA
*
41151 TGCATAATTGGTATGAATGGATGTCATAAAGGAAAAACGTAAACAA
1 TGCATAA-TGGTATGAAAGGATGTCATAAAGGAAAAACGTAAACAA
** *
41197 TAAATAATGGGTATGAAATGATG
1 TGCATAAT-GGTATGAAAGGATG
41220 CCCAAATGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.02
46 22 0.37
47 7 0.12
48 1 0.02
49 29 0.48
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (45 bp):
TGCATAATGGTATGAAAGGATGTCATAAAGGAAAAACGTAAACAA
Found at i:41213 original size:46 final size:49
Alignment explanation
Indices: 41111--41219 Score: 134
Period size: 46 Copynumber: 2.3 Consensus size: 49
41101 GTGCATAAGT
* * ** *
41111 GGTATGAAAGGATGTCATATAGGTATAAAATGTACAACAATGCATAATT
1 GGTATGAAAGGATGTCATAAAGGTATAAAACGTACAACAATAAATAATG
*
41160 GGTATGAATGGATGTCATAAAGG-A-AAAACGTA-AACAATAAATAATG
1 GGTATGAAAGGATGTCATAAAGGTATAAAACGTACAACAATAAATAATG
*
41206 GGTATGAAATGATG
1 GGTATGAAAGGATG
41220 CCCAAATGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
46 23 0.44
47 7 0.13
48 1 0.02
49 21 0.40
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (49 bp):
GGTATGAAAGGATGTCATAAAGGTATAAAACGTACAACAATAAATAATG
Found at i:43594 original size:27 final size:28
Alignment explanation
Indices: 43557--43622 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
43547 TTGGAGGTAC
*
43557 TTTGAGTCATTTTA-TACTTCAGGGGCCT
1 TTTG-GTCATTTTACTACTTCAGGGGCAT
* *
43585 TTTGGTCA-TTTACTATTTCATGGGCAT
1 TTTGGTCATTTTACTACTTCAGGGGCAT
43612 TTTGGTCATTT
1 TTTGGTCATTT
43623 CCTTCAATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 4 0.12
27 23 0.70
28 6 0.18
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (28 bp):
TTTGGTCATTTTACTACTTCAGGGGCAT
Found at i:58322 original size:6 final size:6
Alignment explanation
Indices: 58311--58343 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
58301 GACACGTATT
58311 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
58344 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:59015 original size:6 final size:6
Alignment explanation
Indices: 59004--59036 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
58994 GTTCTGTTCG
*
59004 GGTCGT GGTCGT GGTCGT GGTCGT GGTTGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
59037 AGTACGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.52, T:0.36
Consensus pattern (6 bp):
GGTCGT
Found at i:59277 original size:28 final size:28
Alignment explanation
Indices: 59237--59297 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
59227 CATTGCGATT
59237 TAGTTGGTCATTTTGGCAAATCCAAAAA
1 TAGTTGGTCATTTTGGCAAATCCAAAAA
59265 TAGTTGGTCATTTTGGCAAATCCAAAAA
1 TAGTTGGTCATTTTGGCAAATCCAAAAA
*
59293 AAGTT
1 TAGTT
59298 TGTTAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTTGGTCATTTTGGCAAATCCAAAAA
Found at i:61711 original size:25 final size:25
Alignment explanation
Indices: 61683--61737 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
61673 AATAATAAAA
*
61683 TATCTCATCC-CGCGATTTAGGATAT
1 TATCT-ATCCGCGCAATTTAGGATAT
*
61708 TATCTTTCCGCGCAATTTAGGATAT
1 TATCTATCCGCGCAATTTAGGATAT
61733 TATCT
1 TATCT
61738 TATTCATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (25 bp):
TATCTATCCGCGCAATTTAGGATAT
Found at i:61719 original size:23 final size:24
Alignment explanation
Indices: 61692--61738 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
61682 ATATCTCATC
61692 CCGCG-ATTTAGGATATTATCTTT
1 CCGCGAATTTAGGATATTATCTTT
61715 CCGCGCAATTTAGGATATTATCTT
1 CCGCG-AATTTAGGATATTATCTT
61739 ATTCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
25 17 0.77
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
CCGCGAATTTAGGATATTATCTTT
Found at i:61903 original size:12 final size:12
Alignment explanation
Indices: 61887--62134 Score: 55
Period size: 12 Copynumber: 20.7 Consensus size: 12
61877 ACATACATAC
61887 ATACGTACGTAT
1 ATACGTACGTAT
* *
61899 GTACGTACGTAC
1 ATACGTACGTAT
** *
61911 GCACGTACCTAT
1 ATACGTACGTAT
* *
61923 ATACATACATAT
1 ATACGTACGTAT
* *
61935 ATACGTACCTAC
1 ATACGTACGTAT
* *
61947 ATACATACGTAC
1 ATACGTACGTAT
* * * *
61959 CTACATACATAC
1 ATACGTACGTAT
* * * *
61971 GTACCTACATAA
1 ATACGTACGTAT
* *
61983 ATACGTACCTAC
1 ATACGTACGTAT
* *
61995 ATACATACGTAC
1 ATACGTACGTAT
* * *
62007 CTACATACGTAC
1 ATACGTACGTAT
* * *
62019 CTACATACGTAC
1 ATACGTACGTAT
* *
62031 ATACGTACATAC
1 ATACGTACGTAT
* * *
62043 GTACATACGTAC
1 ATACGTACGTAT
* *
62055 ATACGTACATAC
1 ATACGTACGTAT
* * *
62067 GTACATACGTAC
1 ATACGTACGTAT
* *
62079 ATACGTACATAC
1 ATACGTACGTAT
* * *
62091 GTACATACGTAC
1 ATACGTACGTAT
* *
62103 ATACGTACATAC
1 ATACGTACGTAT
* * *
62115 GTACATACGTAC
1 ATACGTACGTAT
62127 ATACGTAC
1 ATACGTAC
62135 ACACGTACAT
Statistics
Matches: 184, Mismatches: 52, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 184 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.26
Consensus pattern (12 bp):
ATACGTACGTAT
Found at i:62223 original size:8 final size:8
Alignment explanation
Indices: 61876--62265 Score: 474
Period size: 8 Copynumber: 48.8 Consensus size: 8
61866 AATAATAAAA
*
61876 TACATACA
1 TACATACG
61884 TACATACG
1 TACATACG
* *
61892 TACGTATG
1 TACATACG
*
61900 TACGTACG
1 TACATACG
**
61908 TACGCACG
1 TACATACG
* **
61916 TACCTATA
1 TACATACG
*
61924 TACATACA
1 TACATACG
*
61932 TATATACG
1 TACATACG
* *
61940 TACCTACA
1 TACATACG
61948 TACATACG
1 TACATACG
* *
61956 TACCTACA
1 TACATACG
61964 TACATACG
1 TACATACG
* *
61972 TACCTACA
1 TACATACG
*
61980 TAAATACG
1 TACATACG
* *
61988 TACCTACA
1 TACATACG
61996 TACATACG
1 TACATACG
* *
62004 TACCTACA
1 TACATACG
* *
62012 TACGTACC
1 TACATACG
62020 TACATACG
1 TACATACG
62028 TACATACG
1 TACATACG
62036 TACATACG
1 TACATACG
62044 TACATACG
1 TACATACG
62052 TACATACG
1 TACATACG
62060 TACATACG
1 TACATACG
62068 TACATACG
1 TACATACG
62076 TACATACG
1 TACATACG
62084 TACATACG
1 TACATACG
62092 TACATACG
1 TACATACG
62100 TACATACG
1 TACATACG
62108 TACATACG
1 TACATACG
62116 TACATACG
1 TACATACG
62124 TACATACG
1 TACATACG
*
62132 TACACACG
1 TACATACG
62140 TACATACG
1 TACATACG
62148 TACATACG
1 TACATACG
*
62156 TACACACG
1 TACATACG
62164 TACATACG
1 TACATACG
*
62172 TACACACG
1 TACATACG
62180 TACATACG
1 TACATACG
*
62188 TACACACG
1 TACATACG
62196 TACATACG
1 TACATACG
*
62204 TACACACG
1 TACATACG
62212 TACATACG
1 TACATACG
*
62220 TACACACG
1 TACATACG
*
62228 TACACACG
1 TACATACG
*
62236 TACATACA
1 TACATACG
*
62244 TACATACA
1 TACATACG
*
62252 TACATACA
1 TACATACG
62260 TACATA
1 TACATA
62266 TGGGATAGAG
Statistics
Matches: 331, Mismatches: 51, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 331 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.24
Consensus pattern (8 bp):
TACATACG
Found at i:68966 original size:47 final size:47
Alignment explanation
Indices: 68913--69019 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 47
68903 ATGGAATATA
* * *
68913 AATATCAAATCTTGAAG-GA-ATGATATGTTCCTCTT-CTTTTTGAAGGG
1 AATATCAAATCTCGAAGAGAGA-GACATGTTCCTCTTAC--TCTGAAGGG
68960 AATATCAAATCTCGAAGAAGAGAGACATGTTCCTCTTACTCTGAAGGG
1 AATATCAAATCTCGAAG-AGAGAGACATGTTCCTCTTACTCTGAAGGG
*
69008 AATATCAGATCT
1 AATATCAAATCT
69020 GGGGAAGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
47 16 0.31
48 19 0.37
49 15 0.29
50 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (47 bp):
AATATCAAATCTCGAAGAGAGAGACATGTTCCTCTTACTCTGAAGGG
Found at i:69111 original size:48 final size:48
Alignment explanation
Indices: 69047--69570 Score: 581
Period size: 48 Copynumber: 10.9 Consensus size: 48
69037 CAATCGAGGC
* *
69047 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * *
69095 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTT-AAAAAAAA
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * *
69142 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* *
69190 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAA-AG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGA-AAAGAG
* *
69238 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTT-TAAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAA-AAGAG
* * * *
69286 AGACATGTTCCTCTTACTCTGAAGGCAATATCAAATCTTTGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * * * * **
69334 AGACATGTTTCACTTACTTTGAAGGGAATATCATATCTGGGGTAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * * * * *
69382 AGACCTGTTTCGTTTACTCTGAAGGGAATATCAAATATTTGAGAAGAG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* * * * ***
69430 AGACCTGTTCCGCTTACTTTGAAGGGAATATCATATCTGGGGGAGTTGATG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCT--TGGAAAAGA-G
* * * * *
69481 AGACATGTTACACTTACTATGAAGGGAATATCAAATCTTGGAGAAGCG
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
* *
69529 AGAC-TGTTTCGCTTACTCTGAAGGGAATATCAGATC-TGGAAA
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAA
69571 GATATGTGAT
Statistics
Matches: 409, Mismatches: 59, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
46 6 0.01
47 74 0.18
48 282 0.69
49 8 0.02
50 5 0.01
51 34 0.08
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (48 bp):
AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAG
Found at i:69287 original size:96 final size:96
Alignment explanation
Indices: 69047--69572 Score: 641
Period size: 96 Copynumber: 5.5 Consensus size: 96
69037 CAATCGAGGC
* * * *
69047 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTAC
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACATGTTCCTCTTAC
* * * *
69112 TCTGAAGGGAATATCAAATC-TTAAAAAAAA
66 TCTGAAGGGAATATCAAATCTTTGAGAAGAG
* *
69142 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACATGTTCCTCTTAC
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACATGTTCCTCTTAC
*
69207 TCTGAAGGGAATATCAAATCTTTGAGAAAAG
66 TCTGAAGGGAATATCAAATCTTTGAGAAGAG
* **
69238 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCTCTTAC
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACATGTTCCTCTTAC
*
69303 TCTGAAGGCAATATCAAATCTTTGAGAAGAG
66 TCTGAAGGGAATATCAAATCTTTGAGAAGAG
* * * * * * *
69334 AGACATGTTTCACTTACTTTGAAGGGAATATCATATC-TGGGGTAAGAGAGACCTGTTTCGT-TT
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAG-AAGAGAGACATG-TTCCTCTT
*
69397 ACTCTGAAGGGAATATCAAATATTTGAGAAGAG
64 ACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
* * * * ** * *
69430 AGACCTGTTCCGCTTACTTTGAAGGGAATATCATATCTGGGGGAGTTGATGAGACATGTTACACT
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCT--TGGAGAAGA-GAGACATGTTCCTCT
* * *
69495 TACTATGAAGGGAATATCAAATCTTGGAGAAGCG
63 TACTCTGAAGGGAATATCAAATCTTTGAGAAGAG
* *
69529 AGAC-TGTTTCGCTTACTCTGAAGGGAATATCAGATC-TGGA-AAGA
1 AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGA
69573 TATGTGATCC
Statistics
Matches: 379, Mismatches: 44, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
94 2 0.01
95 86 0.23
96 209 0.55
97 4 0.01
98 33 0.09
99 45 0.12
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (96 bp):
AGACATGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACATGTTCCTCTTAC
TCTGAAGGGAATATCAAATCTTTGAGAAGAG
Found at i:69363 original size:144 final size:144
Alignment explanation
Indices: 69047--69565 Score: 668
Period size: 144 Copynumber: 3.6 Consensus size: 144
69037 CAATCGAGGC
*
69047 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA-AAAGAGAGACATGTTCCGCTTA
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAA-AGAGACATGTTCCGCTTA
* * * *
69111 CTCTGAAGGGAATATCAAATC-TTAAAAAAAAAGACTTGTTCCGCTTACTCTGAAGGGAATATCA
65 CTCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCA
69175 AATCTTTGAGAAGAG
130 AATCTTTGAGAAGAG
* * *
69190 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTTGAGAAAAGAGACATGTTCCTCTTAC
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAAGAGACATGTTCCGCTTAC
* *
69255 TCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCTCTTACTCTGAAGGCAATATCAA
66 TCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAA
69320 ATCTTTGAGAAGAG
131 ATCTTTGAGAAGAG
* * * * * * * *
69334 AGACATGTTTCACTTACTTTGAAGGGAATATCATATC-TGGGGTAAGAGAGACCTGTTTCGTTTA
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAG-AAAAGAGACATGTTCCGCTTA
* * * *
69398 CTCTGAAGGGAATATCAAATATTTGAGAAGAGAGACCTGTTCCGCTTACTTTGAAGGGAATATCA
65 CTCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCA
* ** **
69463 TATCTGGGGGAGTTGATG
130 AATCT--TTGAGAAGA-G
* * ** *
69481 AGACATGTTACACTTACTATGAAGGGAATATCAAATCTTGGAGAAGCGAGAC-TGTTTCGCTTAC
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAAGAGACATGTTCCGCTTAC
*
69545 TCTGAAGGGAATATCAGATCT
66 TCTGAAGGGAATATCAAATCT
69566 GGAAAGATAT
Statistics
Matches: 329, Mismatches: 40, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
143 80 0.24
144 167 0.51
146 35 0.11
147 43 0.13
148 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (144 bp):
AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAAGAGACATGTTCCGCTTAC
TCTGAAGGGAATATCAAATCTTTAAGAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAA
ATCTTTGAGAAGAG
Found at i:73872 original size:2 final size:2
Alignment explanation
Indices: 73865--73975 Score: 213
Period size: 2 Copynumber: 55.5 Consensus size: 2
73855 TGTCGTAAAT
*
73865 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73949 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 T
73976 TTTAGATTGA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80508 original size:55 final size:55
Alignment explanation
Indices: 80464--80570 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
80454 CATAGATCTG
*
80464 TCTTCAATCAGTTTCAGATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
1 TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
* *
80519 TCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAAT
1 TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAAT
80571 CATTTGAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (55 bp):
TCTTCAATCAGTTTCAAATTTCTTCATTCATCAGATGTAATTCTTCATGAATTGT
Found at i:81887 original size:18 final size:18
Alignment explanation
Indices: 81864--81902 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
81854 ACCCATAAAT
81864 AAATATGATATTTTAA-TA
1 AAATATGA-ATTTTAATTA
*
81882 AAATATTAATTTTAATTA
1 AAATATGAATTTTAATTA
81900 AAA
1 AAA
81903 AGACAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAATATGAATTTTAATTA
Found at i:84686 original size:3 final size:3
Alignment explanation
Indices: 84678--84719 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
84668 TATAAAAAAT
* * *
84678 ATA ATA ATA ATA ATA ATA ATA TTA ATA TTA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
84720 TTTAGGACAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:84693 original size:12 final size:12
Alignment explanation
Indices: 84678--84719 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
84668 TATAAAAAAT
*
84678 ATAATAATAATA
1 ATAATAATATTA
84690 ATAATAATATTA
1 ATAATAATATTA
*
84702 ATATTAATATTA
1 ATAATAATATTA
84714 ATAATA
1 ATAATA
84720 TTTAGGACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATAATATTA
Found at i:88538 original size:22 final size:21
Alignment explanation
Indices: 88513--88553 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
88503 TCTCCTAAAT
*
88513 TTTTATATTTCTTTCCTTTTTA
1 TTTTATATTTATTT-CTTTTTA
*
88535 TTTTATTTTTATTTCTTTT
1 TTTTATATTTATTTCTTTT
88554 AGAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATATTTATTTCTTTTTA
Found at i:92775 original size:24 final size:25
Alignment explanation
Indices: 92733--92811 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 25
92723 TTAAATCCTA
92733 TTTTA-ATTTTAATTATTGTTAATATT
1 TTTTATATTTTAA-T-TTGTTAATATT
*
92759 TTATT-TA-TTTAATTTGTTTAGTATT
1 TT-TTATATTTTAATTTG-TTAATATT
*
92784 ATTTTATATTTTAATTTCTATAATATT
1 -TTTTATATTTTAATTTGT-TAATATT
92811 T
1 T
92812 ATTAAATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
24 3 0.07
25 10 0.23
26 13 0.30
27 17 0.40
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTATATTTTAATTTGTTAATATT
Found at i:92810 original size:27 final size:28
Alignment explanation
Indices: 92755--92810 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
92745 TTATTGTTAA
* * * *
92755 TATTTTATTTATTTAATTTGTTTAGTAT
1 TATTTTATATATTTAATTTCTATAATAT
92783 TATTTTATAT-TTTAATTTCTATAATAT
1 TATTTTATATATTTAATTTCTATAATAT
92810 T
1 T
92811 TATTAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTTTATATATTTAATTTCTATAATAT
Found at i:96433 original size:19 final size:19
Alignment explanation
Indices: 96411--96458 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
96401 ACATTGGTCA
*
96411 CAGTGGTATACATACTTTT
1 CAGTGGTAGACATACTTTT
96430 CAGTGGTAGACATACTTTT
1 CAGTGGTAGACATACTTTT
*
96449 CGGTGGTAGA
1 CAGTGGTAGA
96459 GCGTTGACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (19 bp):
CAGTGGTAGACATACTTTT
Done.