Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2014
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: 33282
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Found at i:3303 original size:79 final size:80
Alignment explanation
Indices: 3219--3573 Score: 212
Period size: 80 Copynumber: 4.5 Consensus size: 80
3209 GATGGTGGGC
* * * *
3219 TTAGAGTATCCCCA-AAGATTTAAA-ATTTGGTGTTTTGGAAGTAAAAATGAGGTTGGA-TATCC
1 TTAGAGTATCCCCAGAAG--TGAAAGATTTGGTGTTTGGGAAATAAAAATGAGGTTAGAGTATCC
*
3281 CCTCGAAAATGGTAAGG
64 CCTCAAAAATGGTAAGG
* ** *
3298 TTAGAGTATTCTTAGAAGTGAAAGATTTGGTGTTTGGGAAATAAAAATGGGGTTAGAGTATCCCC
1 TTAGAGTATCCCCAGAAGTGAAAGATTTGGTGTTTGGGAAATAAAAATGAGGTTAGAGTATCCCC
*
3363 TCAAAAATGG-AGGGG
66 TCAAAAATGGTA-AGG
* * * * * * * *
3378 TTGGAATACCCCCTG-AGATGAAA-ATTTCAGTGTTTGAGAAATAAAAA-CAGGGTTGGAGTATC
1 TTAGAGTATCCCCAGAAG-TGAAAGATTT-GGTGTTTGGGAAATAAAAATGA-GGTTAGAGTATC
* **
3440 CCC-CAGAAATGGTGGGG
63 CCCTCAAAAATGGTAAGG
* * *** ** * * *
3457 TT-GAAGTATCCCCAGAAATGAAGAAATTCAATGTTTTAGAAA-ATAAAATGGGGTTGGAGTATT
1 TTAG-AGTATCCCCAGAAGTGAA-AGATTTGGTGTTTGGGAAATA-AAAATGAGGTTAGAGTATC
* *
3520 GCCTCAAAAATGATAAGG
63 CCCTCAAAAATGGTAAGG
* *
3538 TTGGAGTATCCCCTG-AGATGAAA-ATTTAGGTGTTTG
1 TTAGAGTATCCCCAGAAG-TGAAAGATTT-GGTGTTTG
3574 ATGGCTGAAA
Statistics
Matches: 213, Mismatches: 45, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
78 5 0.02
79 76 0.36
80 102 0.48
81 29 0.14
82 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (80 bp):
TTAGAGTATCCCCAGAAGTGAAAGATTTGGTGTTTGGGAAATAAAAATGAGGTTAGAGTATCCCC
TCAAAAATGGTAAGG
Found at i:3400 original size:80 final size:80
Alignment explanation
Indices: 3327--3574 Score: 254
Period size: 80 Copynumber: 3.1 Consensus size: 80
3317 GAAAGATTTG
* * *
3327 GTGTTTGGGAAATAAAAATGGGGTTAGAGTATCCCCTCAAAAATGGAGGGGTTGGAATACCCCCT
1 GTGTTTGAGAAATAAAAATGGGGTTGGAGTATCCCCTCAAAAATGGAGGGGTTGGAATATCCCCT
*
3392 GAGATGAAAATTTCA
66 GAGATGAAAATTTAA
** * *
3407 GTGTTTGAGAAATAAAAACAGGGTTGGAGTATCCCC-CAGAAATGGTGGGGTT-GAAGTATCCCC
1 GTGTTTGAGAAATAAAAATGGGGTTGGAGTATCCCCTCAAAAATGGAGGGGTTGGAA-TATCCCC
* * *
3470 AGAAATGAAGAAATTCAA
65 TGAGATG-A-AAATTTAA
* ** ** *
3488 -TGTTTTAGAAA-ATAAAATGGGGTTGGAGTATTGCCTCAAAAAT-GATAAGGTTGGAGTATCCC
1 GTGTTTGAGAAATA-AAAATGGGGTTGGAGTATCCCCTCAAAAATGGA-GGGGTTGGAATATCCC
*
3550 CTGAGATGAAAATTTAG
64 CTGAGATGAAAATTTAA
3567 GTGTTTGA
1 GTGTTTGA
3575 TGGCTGAAAC
Statistics
Matches: 134, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
78 3 0.02
79 32 0.24
80 69 0.51
81 28 0.21
82 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (80 bp):
GTGTTTGAGAAATAAAAATGGGGTTGGAGTATCCCCTCAAAAATGGAGGGGTTGGAATATCCCCT
GAGATGAAAATTTAA
Found at i:5642 original size:21 final size:20
Alignment explanation
Indices: 5595--5648 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
5585 CATTTCAGAC
* *
5595 ATGTATCAATACATTTACTT
1 ATGTATCAATACATTCACGT
*
5615 ATGTATCGATACATTCACGT
1 ATGTATCAATACATTCACGT
5635 ATTGTATCAATACA
1 A-TGTATCAATACA
5649 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTCACGT
Found at i:7944 original size:72 final size:71
Alignment explanation
Indices: 7854--8377 Score: 530
Period size: 72 Copynumber: 7.3 Consensus size: 71
7844 TAAAAAGTGT
* * *
7854 CACCAGCTTGTGTGGGC-TTTAAAAGAAAAAAACATCCTGCTCCTTGAGGACTAAAAAGGATAAA
1 CACCAACTTGTGTGGGCTTTTAAAA-AAAAAAACGTCCTGCTCTTTGAGGACT-AAAAGGATAAA
7918 AGGGGTGC
64 AGGGGTGC
* * * ** * * *
7926 CACTAGCTTATGTGGGCTTTTTTTAAAAAGGAAAACGTCATGCTCTTTTAGGATTAAAAGGATAA
1 CACCAACTTGTGTGGGC---TTTTAAAAAAAAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAA
*
7991 AAAGGGTGC
63 AAGGGGTGC
* * * * * * * * *
8000 TACCATCTTGTGTGAGCTTTT-AAAAAAAAAATGTCTTGCTCTTTAAAGATTAAAAAGATAAAAG
1 CACCAACTTGTGTGGGCTTTTAAAAAAAAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAAG
*
8064 GGATGC
66 GGGTGC
* * * * *
8070 CACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTTCTCTTTGAGGACTAAAAGGATAAAA
1 CACCAACTTGTGTGGGCTTTTAAAAAA-AAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAA
*
8135 GTGGTGC
65 GGGGTGC
* * * * *
8142 TACCAACTTGTGTGGGCTTTTAAAAAGAAAAGACGTCTTGCTCTTTGAGGATTGAAAGGATAAAA
1 CACCAACTTGTGTGGGCTTTTAAAAA-AAAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAA
*
8207 GGGGTAC
65 GGGGTGC
* * * *
8214 CACCTACTTGTGTGGGCTTTTAAAAAAGGAAAGCGTCCTACTCTTTGAGGACTAAAAGGATAAAA
1 CACCAACTTGTGTGGGCTTTTAAAAAA-AAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAA
*
8279 AGGGTGC
65 GGGGTGC
* * ** *
8286 CACTAACTTGTGTGGGCTTTTAAAAAAGGAAAGTGTCCTGCTCTTTAAGGACTAAAAGGATAAAA
1 CACCAACTTGTGTGGGCTTTTAAAAAA-AAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAA
*
8351 AGGGTGC
65 GGGGTGC
* *
8358 CACCAGCTTGTATGGGCTTT
1 CACCAACTTGTGTGGGCTTT
8378 GAAAGAGAAA
Statistics
Matches: 375, Mismatches: 69, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
70 59 0.16
71 10 0.03
72 248 0.66
73 1 0.00
74 30 0.08
75 20 0.05
76 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (71 bp):
CACCAACTTGTGTGGGCTTTTAAAAAAAAAAACGTCCTGCTCTTTGAGGACTAAAAGGATAAAAG
GGGTGC
Found at i:8278 original size:216 final size:212
Alignment explanation
Indices: 7836--8390 Score: 636
Period size: 216 Copynumber: 2.6 Consensus size: 212
7826 GATCAAGGAC
* * * * *
7836 AAAAGAGATAAAAA--GTGTCACCAGCTTGTGTGGGC-TTTAAAAGAA-AAAAACATCCTGCTCC
1 AAAA-AGATAAAAAGGGTGCCACCAACTTGTGTGGGCTTTTAAAA-AAGGAAAGCATCCTGCTCT
* * *
7897 TTGAGGACTAAAAAGGATAAAAGGGGTGCCACTAGCTTATGTGGGCTTTTTTTAAAAAGGAAAAC
64 TTGAGGACT-AAAAGGATAAAA-GGGTGCCACCAGCTTGTGTGGGC---TTTTAAAAAGAAAAAC
* * *
7962 GTCATGCTCTTTTAGGATTAAAAGGATAAAAAGGGTGCTACCATCTTGTGTGAGCTTTTAAAAAA
124 GTCATGCTCTTTGAGGATTAAAAGGATAAAAAGGGTACCACCATCTTGTGTGAGCTTTTAAAAAA
* * * *
8027 AAAATGTCTTGCTCTTTAAAGATT
189 AAAACGTCCTACTCTTTAAAGACT
* *
8051 AAAAAGAT-AAAAGGGATGCCACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTTCTCTT
1 AAAAAGATAAAAAGGG-TGCCACCAACTTGTGTGGGCTTTTAAAAAAGGAAAGCATCCTGCTCTT
* * *
8115 TGAGGACTAAAAGGATAAAAGTGGTGCTACCAACTTGTGTGGGCTTTTAAAAAGAAAAGACGTCT
65 TGAGGACTAAAAGGATAAAAG-GGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAA-ACGTCA
* * *
8180 TGCTCTTTGAGGATTGAAAGGATAAAAGGGGTACCACC-TACTTGTGTGGGCTTTTAAAAAAGGA
128 TGCTCTTTGAGGATTAAAAGGATAAAAAGGGTACCACCAT-CTTGTGTGAGCTTTTAAAAAA--A
* * *
8244 AAGCGTCCTACTCTTTGAGGACT
190 AAACGTCCTACTCTTTAAAGACT
* * **
8267 AAAAGGATAAAAAGGGTGCCACTAACTTGTGTGGGCTTTTAAAAAAGGAAAGTGTCCTGCTCTTT
1 AAAAAGATAAAAAGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGAAAGCATCCTGCTCTTT
* * * *
8332 AAGGACTAAAAGGATAAAAAGGGTGCCACCAGCTTGTATGGGCTTTGAAAGAGAAAAAC
66 GAGGACTAAAAGGAT-AAAAGGGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAAAC
8391 AAAAAGTGTT
Statistics
Matches: 290, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
213 18 0.06
214 62 0.21
215 8 0.03
216 162 0.56
217 40 0.14
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (212 bp):
AAAAAGATAAAAAGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGAAAGCATCCTGCTCTTT
GAGGACTAAAAGGATAAAAGGGTGCCACCAGCTTGTGTGGGCTTTTAAAAAGAAAAACGTCATGC
TCTTTGAGGATTAAAAGGATAAAAAGGGTACCACCATCTTGTGTGAGCTTTTAAAAAAAAAACGT
CCTACTCTTTAAAGACT
Found at i:8441 original size:216 final size:213
Alignment explanation
Indices: 7854--8487 Score: 527
Period size: 216 Copynumber: 2.9 Consensus size: 213
7844 TAAAAAGTGT
* * * * * *
7854 CACCAGCTTGTGTGGGC-TTTAAAAGAA-AAAAACATCCTGCTCCTTGAGGACTAAAAAGGATAA
1 CACCAACTTGTGTGAGCTTTTAAAA-AAGGAAAGCATCCTGCTCTTTAAGGACT-AAAAGGATAA
* * * * * * * * * ** *
7917 AAGGGGTGCCACTAGCTTATGTGGGCTTTTTTTAAAAAGGAAA-ACGTCATGCTCTTTTAGGATT
64 AAGTGGTGCCACCAACTTGTATGGGC---TTTGAAAAAGAAAAGACGTCTTGCTCTTTGAAAACT
* * * * * * *
7981 AAAAGGATAAAAAGGGTGCTACCATCTTGTGTGAGCTTTTAAAAAA-AAAATGTCTTGCTCTTTA
126 GAAA-GAT-AAAAGGGTACCACCAACTTGTGTGGGCTTTTAAAAAAGAAAATGTCTTACTCTTTG
* *
8045 AAGATTAAAAAGATAAAAGGGATGC
189 AGGACTAAAAAGATAAAAGGGATGC
* *
8070 CACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTTCTCTTTGAGGACTAAAAGGATAAAA
1 CACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAAAGGATAAAA
* * * ** *
8135 GTGGTGCTACCAACTTGTGTGGGCTTTTAAAAAGAAAAGACGTCTTGCTCTTTGAGGATTGAAAG
66 GTGGTGCCACCAACTTGTATGGGCTTTGAAAAAGAAAAGACGTCTTGCTCTTTGAAAACTGAAA-
* ** *
8200 GATAAAAGGGGTACCACCTACTTGTGTGGGCTTTTAAAAAAGGAAAGCGTCCTACTCTTTGAGGA
130 GATAAAA-GGGTACCACCAACTTGTGTGGGCTTTTAAAAAA-GAAAATGTCTTACTCTTTGAGGA
*
8265 CTAAAAGGATAAAAAGGG-TGC
193 CTAAAAAGAT-AAAAGGGATGC
* * **
8286 CACTAACTTGTGTGGGCTTTTAAAAAAGGAAAGTGTCCTGCTCTTTAAGGACTAAAAGGATAAAA
1 CACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAAAGGAT-AAA
* * *
8351 AG-GGTGCCACCAGCTTGTATGGGCTTTGAAAGAGAAAA-ACAAAAAGTGTTTTGCTCTTTGAAA
65 AGTGGTGCCACCAACTTGTATGGGCTTTGAAAAAGAAAAGAC-------GTCTTGCTCTTTGAAA
* * * *
8414 ACT-AAA-ATAAAA-GGTGCCA-CAACTTGTGTAGGC-CTTAAAAGAAGAAAAAATGTCTTATTC
123 ACTGAAAGATAAAAGGGTACCACCAACTTGTGTGGGCTTTTAAAA-AAG--AAAATGTCTTACTC
8474 TTTGAGGACTAAAA
185 TTTGAGGACTAAAA
8488 TAATGGGTTT
Statistics
Matches: 349, Mismatches: 51, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
213 17 0.05
214 54 0.15
215 9 0.03
216 175 0.50
217 70 0.20
219 6 0.02
221 3 0.01
222 15 0.04
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (213 bp):
CACCAACTTGTGTGAGCTTTTAAAAAAGGAAAGCATCCTGCTCTTTAAGGACTAAAAGGATAAAA
GTGGTGCCACCAACTTGTATGGGCTTTGAAAAAGAAAAGACGTCTTGCTCTTTGAAAACTGAAAG
ATAAAAGGGTACCACCAACTTGTGTGGGCTTTTAAAAAAGAAAATGTCTTACTCTTTGAGGACTA
AAAAGATAAAAGGGATGC
Found at i:9485 original size:16 final size:17
Alignment explanation
Indices: 9456--9490 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9446 TTTGTTCTCT
*
9456 TTTTTCTTTTTTTTTTG
1 TTTTTCTTTCTTTTTTG
9473 TTTTT-TTTCTTTTTTG
1 TTTTTCTTTCTTTTTTG
9489 TT
1 TT
9491 GTTGTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTG
Found at i:9492 original size:19 final size:20
Alignment explanation
Indices: 9455--9493 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9445 GTTTGTTCTC
*
9455 TTTTTTCTTTTTTTTTTGTT
1 TTTTTTCTTTTTTTGTTGTT
9475 TTTTTTC-TTTTTTGTTGTT
1 TTTTTTCTTTTTTTGTTGTT
9494 GTTGTTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (20 bp):
TTTTTTCTTTTTTTGTTGTT
Found at i:9709 original size:21 final size:20
Alignment explanation
Indices: 9681--9719 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9671 CACATTTTTG
9681 TCTAAATGTATCAATACATT
1 TCTAAATGTATCAATACATT
*
9701 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCAATACA
9720 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCAATACATT
Found at i:12039 original size:24 final size:26
Alignment explanation
Indices: 12012--12063 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
12002 ATCAAAATTT
12012 CATTCAT-C-GGGGACACTCCAACCC
1 CATTCATCCAGGGGACACTCCAACCC
*
12036 CATTCCTCCGAGGGGACACTCCAACCC
1 CATTCATCC-AGGGGACACTCCAACCC
12063 C
1 C
12064 GTTTTCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
27 17 0.71
ACGTcount: A:0.23, C:0.44, G:0.17, T:0.15
Consensus pattern (26 bp):
CATTCATCCAGGGGACACTCCAACCC
Found at i:23802 original size:22 final size:22
Alignment explanation
Indices: 23763--23813 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
23753 AAAAAGAGAG
*
23763 ACAAAAAAAAAACAAAACAA-A
1 ACAAAAAAAAAAAAAAACAACA
23784 ACAAAAAAAGAAAAAAAACAACA
1 ACAAAAAAA-AAAAAAAACAACA
23807 ACAAAAA
1 ACAAAAA
23814 GGGTCCGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (22 bp):
ACAAAAAAAAAAAAAAACAACA
Found at i:23814 original size:21 final size:21
Alignment explanation
Indices: 23763--23814 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
23753 AAAAAGAGAG
*
23763 ACAAAAAAAAAACAAAACAAA
1 ACAAAAAGAAAACAAAACAAA
23784 ACAAAAAAAGAAAA-AAAACAACA
1 AC--AAAAAGAAAACAAAACAA-A
23807 ACAAAAAG
1 ACAAAAAG
23815 GGTCCGGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.30
22 7 0.26
23 12 0.44
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (21 bp):
ACAAAAAGAAAACAAAACAAA
Found at i:25307 original size:29 final size:28
Alignment explanation
Indices: 25256--25931 Score: 611
Period size: 29 Copynumber: 23.5 Consensus size: 28
25246 ATCACACCCC
* * * *
25256 TTTCAAAGCCCATAACTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
25284 TTTCTAAAGCCCACAAGTCGGTGGCACCCC
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
** * * *
25314 TTTCAAAGGTCACAATTCGGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
25343 TTTCAAAGCCCACAACTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
25371 TTTCCAAAGCCCACAAGTCAATGGCAACC-
1 TTT-CAAAGCCCACAAGTCAGTGGC-ACCT
25400 -TTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTTC-AAAGCCCACAAGTCAGTGGC-ACCT
* *
25428 -TTCAAAAGCCCACAAGTCGGTGGCACCCC
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* * *
25457 TTTCAAAGCTCACAACTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
25485 TTTCCAAAGCCCACAAGTCAGTGGCAACC-
1 TTT-CAAAGCCCACAAGTCAGTGGC-ACCT
*
25514 -TTCAGAAGCCCACAAGTCAGTGGCACCCC
1 TTTCA-AAGCCCACAAGTCAGTGGCA-CCT
* *
25543 TTTCAAAGCCCACAACTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
25571 TTTCCAAAGCCCACAAGTCGGTGACACCCC
1 TTT-CAAAGCCCACAAGTCAGTGGCA-CCT
*
25601 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
25629 TTTCCAAAGCCCACAAGTCAGTGGCAAAC-
1 TTT-CAAAGCCCACAAGTCAGTGGC-ACCT
25658 -TTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTTC-AAAGCCCACAAGTCAGTGGC-ACCT
* *
25686 -TTCAAAAGCCCACAAGTCGGTGGCACCCC
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* *
25715 TTTCAAAGCCCACAAGTCGGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
25744 TTTCAAAGCCCACAACTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
25772 TTTCCAAAGCCCACAAGTCTGTGGCACCCC
1 TTT-CAAAGCCCACAAGTCAGTGGCA-CCT
*
25802 TTTCAAAGCCCACAAGTCGGTGGCACCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA--CCT
* *
25832 TTTCAAAGCCCACAAGTTAGTGGTACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
25861 TTTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
25890 TTTAAAAGCCCACAAATCAGTGGCAACC-
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCT
25918 -TTCAAAAGCCCACA
1 TTTC-AAAGCCCACA
25932 CAAGTTGGTG
Statistics
Matches: 555, Mismatches: 66, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.02
28 157 0.28
29 334 0.60
30 55 0.10
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:25321 original size:58 final size:57
Alignment explanation
Indices: 25250--25931 Score: 684
Period size: 58 Copynumber: 11.8 Consensus size: 57
25240 GAGTCAATCA
* * * * * *
25250 CACCCCTTTCAAAGCCCATAACTTAGTGGCATCTTTTCTAAAGCCCACAAGTCGGTGG
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGG
** * * *
25308 CACCCCTTTCAAAGGTCACAATTCGGTGGCACCCCTTTCAAAGCCCACAACTCAGTGG
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
25366 CA-TCTTTTCCAAAGCCCACAAGTCAATGGCAACC-TTCAAAAGCCCACAAGTCAGTGG
1 CACCCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGG
* * * *
25423 CA-ACC-TTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCTCACAACTCAGTGG
1 CACCCCTTTC-AAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGG
* * *
25480 CA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAGAAGCCCACAAGTCAGTGG
1 CACCCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAGTGG
* * * * *
25537 CACCCCTTTCAAAGCCCACAACTCAGTGGCATCTTTTCCAAAGCCCACAAGTCGGTGA
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGG
* *
25595 CACCCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGG
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGG
** * *
25653 CA-AAC-TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCGGTGG
1 CACCCCTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGG
* * *
25709 CACCCCTTTCAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAACTCAATGG
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
25767 CA-TCTTTTCCAAAGCCCACAAGTCTGTGGCACCCCTTTCAAAGCCCACAAGTCGGTGG
1 CACCCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGG
* * *
25825 CACCCCTTTTCAAAGCCCACAAGTTAGTGGTACCCTTTTCAAAGCCCACAAGTTAGTGG
1 CACCCC-TTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGG
* ** * * *
25884 CATCTTTTTAAAAGCCCACAAATCAGTGGCAACC-TTCAAAAGCCCACA
1 CACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACA
25932 CAAGTTGGTG
Statistics
Matches: 526, Mismatches: 75, Indels: 47
0.81 0.12 0.07
Matches are distributed among these distances:
55 2 0.00
56 56 0.11
57 149 0.28
58 261 0.50
59 55 0.10
60 3 0.01
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (57 bp):
CACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:25523 original size:86 final size:84
Alignment explanation
Indices: 25257--25931 Score: 633
Period size: 86 Copynumber: 7.8 Consensus size: 84
25247 TCACACCCCT
* * * * * * *
25257 TTCAAAGCCCATAACTTAGTGGCA-TCTTTTCTAAAGCCCACAAGTCGGTGGCACCCCTTT-CAA
1 TTCAAAGCCCACAAGTCAGTGGCACCCCTTTC-AAAGCCCACAAGTCAGTGGCA--ACTTTCCAA
** * * *
25320 AGGTCACAATTCGGTGGCACCCC
63 AGCCCACAAGTCAGTGGCA-ACC
* * * * * *
25343 TTTCAAAGCCCACAACTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCAAAA
1 -TTCAAAGCCCACAAGTCAGTGGCACCCCTTT-CAAAGCCCACAAGTCAGTGGCAACTTTCCAAA
25407 GCCCACAAGTCAGTGGCAACC
64 GCCCACAAGTCAGTGGCAACC
* * * *
25428 TTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCTCACAACTCAGTGGCATCTTTTCCAAA
1 TTC-AAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAAC-TTTCCAAA
25493 GCCCACAAGTCAGTGGCAACC
64 GCCCACAAGTCAGTGGCAACC
* *
25514 TTCAGAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAACTCAGTGGCATCTTTTCCAAA
1 TTCA-AAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAAC-TTTCCAAA
* * *
25579 GCCCACAAGTCGGTGACACCCC
64 GCCCACAAGTCAGTGGCA-ACC
* * *
25601 TTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAAC-TTCAAA
1 -TTCAAAGCCCACAAGTCAGTGGCACCCCTTT-CAAAGCCCACAAGTCAGTGGC-AACTTTCCAA
25664 AGCCCACAAGTCAGTGGCAACC
63 AGCCCACAAGTCAGTGGCAACC
* * *
25686 TTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCGGTGGCACCCCTTT-CAA
1 TTC-AAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA--ACTTTCCAA
* * * *
25750 AGCCCACAACTCAATGGCATCTT
63 AGCCCACAAGTCAGTGGCAAC-C
* * * *
25773 TTCCAAAGCCCACAAGTCTGTGGCACCCCTTTCAAAGCCCACAAGTCGGTGGCACCCCTTTTCAA
1 TT-CAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA--ACTTTCCAA
* * *
25838 AGCCCACAAGTTAGTGGTACCC
63 AGCCCACAAGTCAGTGGCAACC
* * ** * * * *
25860 TTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTAAAAGCCCACAAATCAGTGGCAACCTTCAAAA
1 --TTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAACTTTCCAAA
25925 GCCCACA
64 GCCCACA
25932 CAAGTTGGTG
Statistics
Matches: 504, Mismatches: 64, Indels: 41
0.83 0.11 0.07
Matches are distributed among these distances:
84 7 0.01
85 87 0.17
86 189 0.38
87 149 0.30
88 70 0.14
89 2 0.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAACTTTCCAAAGC
CCACAAGTCAGTGGCAACC
Found at i:25718 original size:258 final size:259
Alignment explanation
Indices: 25284--25931 Score: 962
Period size: 258 Copynumber: 2.5 Consensus size: 259
25274 AGTGGCATCT
* ** *
25284 TTTCTAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGGTCACAATTCGGTGGCACCCCTTTCAA
1 TTTC-AAAGCCCACAAGTCGGTGGCACCCTTTTCAAAGCCCACAAGTCGGTGGCACCCCTTTCAA
* *
25349 AGCCCACAACTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCCACA
65 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
*
25414 AGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCTCACAACTCAGTG
130 AGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAACTCAGTG
* * * *
25479 GCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTT-CAGAAGCCCACAAGTCAGTGGCACC
195 GCACCCCTTT-CAAAGCCCACAACTCAATGGCAACTCTTCCA-AAGCCCACAAGTCAGTGGCACC
25541 CC
258 CC
* * * *
25543 TTTCAAAGCCCACAACTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCGGTGACACCCCTTTCAA
1 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTT-CAAAGCCCACAAGTCGGTGGCACCCCTTTCAA
*
25607 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAAACTTCAAAAGCCCACA
65 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
* *
25672 AGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCGGTG
130 AGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAACTCAGTG
* * *
25737 GCACCCCTTTCAAAGCCCACAACTCAATGGCATCTTTTCCAAAGCCCACAAGTCTGTGGCACCCC
195 GCACCCCTTTCAAAGCCCACAACTCAATGGCAACTCTTCCAAAGCCCACAAGTCAGTGGCACCCC
** * *
25802 TTTCAAAGCCCACAAGTCGGTGGCACCCCTTTTCAAAGCCCACAAGTTAGTGGTACCCTTTTCAA
1 TTTCAAAGCCCACAAGTCGGTGGCA-CCCTTTTCAAAGCCCACAAGTCGGTGGCACCCCTTTCAA
* ** *
25867 AGCCCACAAGTTAGTGGCATCTTTTTAAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCCACA
65 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
25932 CAAGTTGGTG
Statistics
Matches: 349, Mismatches: 34, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
257 4 0.01
258 195 0.56
259 56 0.16
260 89 0.26
261 5 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (259 bp):
TTTCAAAGCCCACAAGTCGGTGGCACCCTTTTCAAAGCCCACAAGTCGGTGGCACCCCTTTCAAA
GCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAA
GTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAACTCAGTGG
CACCCCTTTCAAAGCCCACAACTCAATGGCAACTCTTCCAAAGCCCACAAGTCAGTGGCACCCC
Found at i:26005 original size:43 final size:43
Alignment explanation
Indices: 25954--26145 Score: 249
Period size: 43 Copynumber: 4.3 Consensus size: 43
25944 ATCTTCTTCG
*
25954 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
* * *
25997 AAGTCCAATGTCGTTGGCCTTGAATCAGCATGTGGGCACCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
* **
26040 AAGTCCAATGTCGCTGGGCTTGAATCAGCGCATTGGCATCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTT
* *
26089 AAGTCCAATGTCGCTGGCCTTGAATCAGTATATAGGCACCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
26132 AAGTCCAATGTCGC
1 AAGTCCAATGTCGC
26146 CTGTCGTAAC
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
43 89 0.70
45 1 0.01
47 1 0.01
49 37 0.29
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (43 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
Found at i:29360 original size:51 final size:52
Alignment explanation
Indices: 29224--29367 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
29214 ATATGAAAAG
* *
29224 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGCAAAT
29276 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA--TTAAATAGTGTATCGATACATCTGGGCAAAT
*
29327 TTGCCTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTAAAT-AGTGTATCGATACA
29368 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
48 3 0.04
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:29374 original size:13 final size:13
Alignment explanation
Indices: 29356--29380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29346 CAAAAATCAG
29356 TGTATCGATACAA
1 TGTATCGATACAA
29369 TGTATCGATACA
1 TGTATCGATACA
29381 TTTTTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29442 original size:13 final size:13
Alignment explanation
Indices: 29424--29448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29414 CAAAAAAATA
29424 TGTATCGATACAT
1 TGTATCGATACAT
29437 TGTATCGATACA
1 TGTATCGATACA
29449 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29444 original size:33 final size:33
Alignment explanation
Indices: 29402--29468 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
29392 AGTAGCTTAA
29402 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
29435 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
29468 A
1 A
29469 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:29861 original size:49 final size:49
Alignment explanation
Indices: 29800--30151 Score: 246
Period size: 49 Copynumber: 7.6 Consensus size: 49
29790 TTAAGTTCGG
*
29800 TATCGCTAGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
* * * *
29849 TGTTGCTGGCCTTGAATCAGCACA-T---A--AGCA----TAAGCCCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
* * *
29888 TATCGCTGGCTTTGAATCGGCATATTGGCACCTTGC--CTTTAAGACCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACC-AGCATCTTTAAGACCAA
* * *
29936 TGTCACTGGCCTTGAATCAGCATATT------AGCA-C---AAGCCCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
* ** ** *
29975 TATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTTCGA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
* * * *
30024 TATCACTAGCCTTGAATCACCATATTGGCACC-GTCATCATTAAGACCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAG-CATCTTTAAGACCAA
* * * * ** * *
30073 TGTCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGTCCGA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
**
30122 TATCATTGGCCTTGAATCAGCATATTGGCA
1 TATCGCTGGCCTTGAATCAGCATATTGGCA
30152 TTTTTAACAT
Statistics
Matches: 230, Mismatches: 50, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
39 57 0.25
40 1 0.00
41 2 0.01
42 1 0.00
43 5 0.02
45 3 0.01
46 3 0.01
48 31 0.13
49 127 0.55
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (49 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAA
Found at i:29888 original size:39 final size:39
Alignment explanation
Indices: 29840--29999 Score: 113
Period size: 39 Copynumber: 3.9 Consensus size: 39
29830 CCAGCATCTT
* * *
29840 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATAAGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATAAGCA
* * * * *
29879 TAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGCCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATA-T---A---AG-C-A
* * *
29927 TAAGACCAATGTCACTGGCCTTGAATCAGCATATTAGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATAAGCA
* * *
29966 CAAGCCCAATATTGCTGGCCTTGAATCAGCATAT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATAT
30000 TGGCACCTTC
Statistics
Matches: 91, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
39 56 0.62
40 2 0.02
41 1 0.01
43 1 0.01
46 1 0.01
47 2 0.02
48 28 0.31
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATAAGCA
Found at i:29952 original size:87 final size:88
Alignment explanation
Indices: 29800--30042 Score: 312
Period size: 87 Copynumber: 2.8 Consensus size: 88
29790 TTAAGTTCGG
* * **
29800 TATCGCTAGCCTTGAATCAGCATATTGGCACC-AGCATCTTTAAGACCAATGTTGCTGGCCTTGA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCA-CTTTAAGACCAATGTCACTGGCCTTGA
*
29864 ATCAGCACATAAGCATAAGCCCAA
65 ATCAGCACATAAGCACAAGCCCAA
* *
29888 TATCGCTGGCTTTGAATCGGCATATTGGCACCTTGC-CTTTAAGACCAATGTCACTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCACTTTAAGACCAATGTCACTGGCCTTGAA
* *
29952 TCAGCATATTAGCACAAGCCCAA
66 TCAGCACATAAGCACAAGCCCAA
* ** * * *
29975 TATTGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTTTAAGTTCGATATCACTAGCCTTGA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCA-CTTTAAGACCAATGTCACTGGCCTTGA
30039 ATCA
65 ATCA
30043 CCATATTGGC
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 77 0.57
88 55 0.41
89 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (88 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCACTTTAAGACCAATGTCACTGGCCTTGAA
TCAGCACATAAGCACAAGCCCAA
Found at i:30211 original size:98 final size:98
Alignment explanation
Indices: 29967--30252 Score: 283
Period size: 98 Copynumber: 2.9 Consensus size: 98
29957 ATATTAGCAC
* * * * *
29967 AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTTCGATATCACTA
1 AAGCCCAATGTCGCTGGCCTTG-ATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTG
* * *
30032 GCCTTGAATCACCATATTGGCA-CCGTCATCATT
65 GCCTTGAATCAGCATATTGGCATTCGTCATCACT
* * * *
30065 AAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGTCCGATATCATTG
1 AAGCCCAATGTCGCTGGCCTTG-ATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTG
** *
30130 GCCTTGAATCAGCATATTGGCATTTTTAACATCCCT
65 GCCTTGAATCAGCATATTGGCATTCGT--CATCACT
* * * ** *
30166 AAGCCCAATGTCGCTGGCCTTG-TCCAGCACATTGG-A-ATTCTTCTTTAAATCTAATGTCACTG
1 AAGCCCAATGTCGCTGGCCTTGAT-CAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTG
* * *
30228 GCCTTGAATTAGCACATTGTCATTC
65 GCCTTGAATCAGCATATTGGCATTC
30253 TTCTTCGAGC
Statistics
Matches: 156, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
98 117 0.75
99 3 0.02
100 10 0.06
101 26 0.17
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (98 bp):
AAGCCCAATGTCGCTGGCCTTGATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTGG
CCTTGAATCAGCATATTGGCATTCGTCATCACT
Found at i:31820 original size:19 final size:20
Alignment explanation
Indices: 31775--31820 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
31765 TGTTAACAAC
31775 CATGATTCATTGCATTTTAAG
1 CATG-TTCATTGCATTTTAAG
31796 CTATGTTCA-TGCA-TTTACAG
1 C-ATGTTCATTGCATTTTA-AG
31816 CATGT
1 CATGT
31821 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.35
20 7 0.30
21 5 0.22
22 3 0.13
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTCATTGCATTTTAAG
Found at i:32790 original size:1 final size:1
Alignment explanation
Indices: 32784--32817 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
32774 CCAACGTGTT
*
32784 AAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32818 GTAATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Done.