Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 57 of 153
Found at i:18583563 original size:14 final size:14
Alignment explanation
Indices: 18583544--18583570 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18583534 ATCGTGTGGT
18583544 CCAGTCTCCATCTA
1 CCAGTCTCCATCTA
18583558 CCAGTCTCCATCT
1 CCAGTCTCCATCT
18583571 TCTATAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.44, G:0.07, T:0.30
Consensus pattern (14 bp):
CCAGTCTCCATCTA
Found at i:18590023 original size:476 final size:476
Alignment explanation
Indices: 18589351--18590302 Score: 1895
Period size: 476 Copynumber: 2.0 Consensus size: 476
18589341 CTTGGAGGGT
18589351 AGAACGTCCCAAAACTCCGAGATTCATTCATTCTCCTAGCTCCAGGAGAAGTTGGAACAGATCCT
1 AGAACGTCCCAAAACTCCGAGATTCATTCATTCTCCTAGCTCCAGGAGAAGTTGGAACAGATCCT
18589416 CGAGCAGCGTTGCCTACACAACCAGATGCTTCACTAAATAGATTACTCTCTCGGTTGGCCAAATA
66 CGAGCAGCGTTGCCTACACAACCAGATGCTTCACTAAATAGATTACTCTCTCGGTTGGCCAAATA
18589481 TGCAGCAGCTTGTGCAGCAGCAATTGCTTTTTTTGCAGATTCTTCTGCTGCTTCAGCAGCTGCAA
131 TGCAGCAGCTTGTGCAGCAGCAATTGCTTTTTTTGCAGATTCTTCTGCTGCTTCAGCAGCTGCAA
18589546 CCGTGTCTTTAAAACGATTATGGCCCTCTTCTCCTCTGCCACATTATTTTTAGTAAGAACAAAGA
196 CCGTGTCTTTAAAACGATTATGGCCCTCTTCTCCTCTGCCACATTATTTTTAGTAAGAACAAAGA
*
18589611 ATATAAACAAGTTAGAAACAGTTGATGGTGAAAATTTTTGATTGAAAACTGACCTAGAGCAGAGT
261 ATATAAACAAGTTAGAAACAGTTGATGCTGAAAATTTTTGATTGAAAACTGACCTAGAGCAGAGT
18589676 TACCTGGTCATAGACTCTTTTGGTTCGGGACAATGATTTGTAGCAGGTTTCACAGGTACGCTGGT
326 TACCTGGTCATAGACTCTTTTGGTTCGGGACAATGATTTGTAGCAGGTTTCACAGGTACGCTGGT
18589741 TGCACTAACGAATTTACGTGGCCCCTCCTATTCAATTAGAAAAGCACATTAGTTTATATTAGAAC
391 TGCACTAACGAATTTACGTGGCCCCTCCTATTCAATTAGAAAAGCACATTAGTTTATATTAGAAC
18589806 GACAAAGAAATGAGCTTAGAA
456 GACAAAGAAATGAGCTTAGAA
18589827 AGAACGTCCCAAAACTCCGAGATTCATTCATTCTCCTAGCTCCAGGAGAAGTTGGAACAGATCCT
1 AGAACGTCCCAAAACTCCGAGATTCATTCATTCTCCTAGCTCCAGGAGAAGTTGGAACAGATCCT
18589892 CGAGCAGCGTTGCCTACACAACCAGATGCTTCACTAAATAGATTACTCTCTCGGTTGGCCAAATA
66 CGAGCAGCGTTGCCTACACAACCAGATGCTTCACTAAATAGATTACTCTCTCGGTTGGCCAAATA
18589957 TGCAGCAGCTTGTGCAGCAGCAATTGCTTTTTTTGCAGATTCTTCTGCTGCTTCAGCAGCTGCAA
131 TGCAGCAGCTTGTGCAGCAGCAATTGCTTTTTTTGCAGATTCTTCTGCTGCTTCAGCAGCTGCAA
18590022 CCGTGTCTTTAAAACGATTATGGCCCTCTTCTCCTCTGCCACATTATTTTTAGTAAGAACAAAGA
196 CCGTGTCTTTAAAACGATTATGGCCCTCTTCTCCTCTGCCACATTATTTTTAGTAAGAACAAAGA
18590087 ATATAAACAAGTTAGAAACAGTTGATGCTGAAAATTTTTGATTGAAAACTGACCTAGAGCAGAGT
261 ATATAAACAAGTTAGAAACAGTTGATGCTGAAAATTTTTGATTGAAAACTGACCTAGAGCAGAGT
18590152 TACCTGGTCATAGACTCTTTTGGTTCGGGACAATGATTTGTAGCAGGTTTCACAGGTACGCTGGT
326 TACCTGGTCATAGACTCTTTTGGTTCGGGACAATGATTTGTAGCAGGTTTCACAGGTACGCTGGT
18590217 TGCACTAACGAATTTACGTGGCCCCTCCTATTCAATTAGAAAAGCACATTAGTTTATATTAGAAC
391 TGCACTAACGAATTTACGTGGCCCCTCCTATTCAATTAGAAAAGCACATTAGTTTATATTAGAAC
18590282 GACAAAGAAATGAGCTTAGAA
456 GACAAAGAAATGAGCTTAGAA
18590303 TGAATGGACT
Statistics
Matches: 475, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
476 475 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (476 bp):
AGAACGTCCCAAAACTCCGAGATTCATTCATTCTCCTAGCTCCAGGAGAAGTTGGAACAGATCCT
CGAGCAGCGTTGCCTACACAACCAGATGCTTCACTAAATAGATTACTCTCTCGGTTGGCCAAATA
TGCAGCAGCTTGTGCAGCAGCAATTGCTTTTTTTGCAGATTCTTCTGCTGCTTCAGCAGCTGCAA
CCGTGTCTTTAAAACGATTATGGCCCTCTTCTCCTCTGCCACATTATTTTTAGTAAGAACAAAGA
ATATAAACAAGTTAGAAACAGTTGATGCTGAAAATTTTTGATTGAAAACTGACCTAGAGCAGAGT
TACCTGGTCATAGACTCTTTTGGTTCGGGACAATGATTTGTAGCAGGTTTCACAGGTACGCTGGT
TGCACTAACGAATTTACGTGGCCCCTCCTATTCAATTAGAAAAGCACATTAGTTTATATTAGAAC
GACAAAGAAATGAGCTTAGAA
Found at i:18594433 original size:21 final size:22
Alignment explanation
Indices: 18594385--18594435 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
18594375 TCATATTTTT
*
18594385 AATTTTAATTTTATGAATTTAT
1 AATTTTAATTTTATGAATTTAA
** *
18594407 TCTTTTAA-TTTCTGAATTTAA
1 AATTTTAATTTTATGAATTTAA
18594428 AATTTTAA
1 AATTTTAA
18594436 ATTCAATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
AATTTTAATTTTATGAATTTAA
Found at i:18595457 original size:18 final size:19
Alignment explanation
Indices: 18595421--18595461 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
18595411 TATATATTTT
* *
18595421 AAAATATTAATTACTATAA
1 AAAATATCAATTACGATAA
18595440 AAAATATCAA-TACGATAA
1 AAAATATCAATTACGATAA
18595458 AAAA
1 AAAA
18595462 AATATAAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATATCAATTACGATAA
Found at i:18595472 original size:18 final size:21
Alignment explanation
Indices: 18595438--18595483 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
18595428 TAATTACTAT
18595438 AAAAAATATCAATACGA-TAA
1 AAAAAATATCAATACGAGTAA
18595458 AAAAAATAT-AA-ACGAGTAA
1 AAAAAATATCAATACGAGTAA
*
18595477 TAAAAAT
1 AAAAAAT
18595484 GAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 9 0.38
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAAATATCAATACGAGTAA
Found at i:18597151 original size:24 final size:25
Alignment explanation
Indices: 18597124--18597175 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
18597114 ATGATAAATC
*
18597124 AATAAAAAAT-AAAGGAACAATCAA
1 AATAAAAAATAAAAGGAACAATAAA
* *
18597148 AAT-AATAATAAAAGGGACAATAAA
1 AATAAAAAATAAAAGGAACAATAAA
18597172 AATA
1 AATA
18597176 TAATAATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (25 bp):
AATAAAAAATAAAAGGAACAATAAA
Found at i:18597159 original size:23 final size:22
Alignment explanation
Indices: 18597131--18597181 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
18597121 ATCAATAAAA
*
18597131 AATAAAGGAACAATCAAAATAAT
1 AATAAAGGAACAATAAAAAT-AT
*
18597154 AATAAAAGGGACAATAAAAATAT
1 AAT-AAAGGAACAATAAAAATAT
18597177 AATAA
1 AATAA
18597182 TCTAGTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 8 0.32
24 15 0.60
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.18
Consensus pattern (22 bp):
AATAAAGGAACAATAAAAATAT
Found at i:18597255 original size:14 final size:12
Alignment explanation
Indices: 18597224--18597288 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
18597214 TTGAAGAAAT
*
18597224 AATAAAAAAT-A
1 AATAATAAATAA
*
18597235 AACAATAAATAA
1 AATAATAAATAA
**
18597247 AAGTGAATAGCTAAA
1 AA-T-AATAAAT-AA
18597262 AATAAATAAATAA
1 AAT-AATAAATAA
18597275 AATAATAAATAA
1 AATAATAAATAA
18597287 AA
1 AA
18597289 AAAGGGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
11 8 0.19
12 14 0.33
13 5 0.12
14 11 0.26
15 4 0.10
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:18597283 original size:16 final size:15
Alignment explanation
Indices: 18597262--18597291 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18597252 AATAGCTAAA
18597262 AATAAATAAATAAAAT
1 AATAAATAAA-AAAAT
18597278 AATAAATAAAAAAA
1 AATAAATAAAAAAA
18597292 GGGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AATAAATAAAAAAAT
Found at i:18597290 original size:14 final size:13
Alignment explanation
Indices: 18597220--18597289 Score: 61
Period size: 14 Copynumber: 5.2 Consensus size: 13
18597210 AAGGTTGAAG
*
18597220 AAATAATAAAAAA
1 AAATAATAAATAA
*
18597233 TAAACAATAAATAA
1 -AAATAATAAATAA
* **
18597247 AAGTGAATAGCTAA
1 AAAT-AATAAATAA
18597261 AAATAAATAAAT-A
1 AAAT-AATAAATAA
18597274 AAATAATAAATAA
1 AAATAATAAATAA
18597287 AAA
1 AAA
18597290 AAGGGAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.16
13 11 0.25
14 26 0.59
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (13 bp):
AAATAATAAATAA
Found at i:18607800 original size:38 final size:37
Alignment explanation
Indices: 18607758--18607835 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 37
18607748 GTCAAACACC
18607758 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAACT
1 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAA-T
18607796 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
1 CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
18607833 CTA
1 CTA
18607836 AGCTACTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (37 bp):
CTACCATTCCAATAATTTCTTAAAAGACATTAAAAAT
Found at i:18612549 original size:107 final size:107
Alignment explanation
Indices: 18612363--18612573 Score: 404
Period size: 107 Copynumber: 2.0 Consensus size: 107
18612353 AAGTTTTTCT
18612363 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGAGTTTTGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGAGTTTTGATT
**
18612428 TCTCGTTCGACTAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTCGACTAAATAGCCAAATATCCCCTTTAAACTTTTA
18612470 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGAGTTTTGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGAGTTTTGATT
18612535 TCTCGTTCGACTAAATAGCCAAATATCCCCTTTAAACTT
66 TCTCGTTCGACTAAATAGCCAAATATCCCCTTTAAACTT
18612574 CAAAGTATGG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGAGTTTTGATT
TCTCGTTCGACTAAATAGCCAAATATCCCCTTTAAACTTTTA
Found at i:18615055 original size:114 final size:112
Alignment explanation
Indices: 18614742--18615408 Score: 540
Period size: 114 Copynumber: 5.9 Consensus size: 112
18614732 TTACCACAAT
* * * * * * * *
18614742 GCGCCGCGAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGGTGTAT-CTTAAAAGTAGTGGC
1 GCGCCGCAAAATATCTTAA-CAAAACGCAGCGTTTTGGTCTTGATGTATAC-TAGAATTAGTGGC
* * * * *
18614806 GTTTACGCG-AAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTCTGGAA
64 GCTTATG-GTAAACGCCGCTAAAGAACAGTAATAGCGGCGCTTTGTGGAA
* * * *
18614855 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTAT-CTTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTAA-CAAAACGCAGCGTTTTGGTCTTGATGTATAC-TAGAATTAGTGGC
* * * * * *
18614918 GTTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
64 GCTTAT-GGTAAACGCCGCTAAAGAACAGTAATAGCGGCGCTTTGTGGAA
* * * * * *
18614968 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * **
18615033 CATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTA
65 CTTATGGT-AAACGCCGCTAAAGAACAGTAATAGCGGCGCTTTGT-GGAA
* * *
18615083 GCGCCGCAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAAC-AAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * *
18615147 CTTACGGTAAACCACCGCTAAAGAATATTAATAGCGGCGTTTTGTGAGAA
65 CTTATGGTAAA-CGCCGCTAAAGAACAGTAATAGCGGCGCTTTGTG-GAA
* *** * * *
18615197 GCGCCGCAAAATATCTTATCCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTA-ACAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * **
18615262 CTTA--GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTA
65 CTTATGGT-AAACGCCGCTAAAGAACAGTAATAGCGGCGCTTTGT-GGAA
* * * *
18615310 GCGCCGCAAAATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTATA-TAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAAC-AAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * *
18615374 CTTACGGTAAACCGTCGCTAAAGAATATTAATAGC
65 CTTATGGTAAA-CGCCGCTAAAGAACAGTAATAGC
18615409 AGCAAAATAT
Statistics
Matches: 451, Mismatches: 86, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
112 50 0.11
113 167 0.37
114 172 0.38
115 62 0.14
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (112 bp):
GCGCCGCAAAATATCTTAACAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGC
TTATGGTAAACGCCGCTAAAGAACAGTAATAGCGGCGCTTTGTGGAA
Found at i:18615315 original size:227 final size:224
Alignment explanation
Indices: 18614799--18615506 Score: 788
Period size: 227 Copynumber: 3.2 Consensus size: 224
18614789 ATCTTAAAAG
* * * * * * * ** *
18614799 TAGTGGCGTTTACGCGAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTCT-GGAAACGCCGCA
1 TAGTGGCGCTTA-GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCA
* * * * * * * * *
18614863 AAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGTTTATAGG
65 AAATATCTTAACAAAAACGCAGAGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCGCTTA-CGG
* * * * * * * * *
18614927 -AAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAAGCGCCGCAAACTATCTTAAGCGA
128 TAAACCGCCGCTAAAGAATATTAATAGCGGCG-TTT-TGGAAGCGCCGCAAAATATCTTAACCAA
* ** * * * * *
18614991 AACACATCGTTTTGGTCTTGATTTATACTAGAAC
191 AACGCATAATTTTGGCCTCGATGTATAGTAGAAT
* * * *
18615025 TAGTGGCGCATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTAGCGCCGC
1 TAGTGGCGC-T-TAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGC
*
18615090 AAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGT
64 AAAATATCTTAACAAAAACGCAGAGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGT
* *
18615155 AAACCACCGCTAAAGAATATTAATAGCGGCGTTTTGTGAGAAGCGCCGCAAAATATCTTATCCAA
129 AAACCGCCGCTAAAGAATATTAATAGCGGCG-TTT-TG-GAAGCGCCGCAAAATATCTTAACCAA
18615220 AACGCATAATTTTGGCCTCGATGTATAGTAGAAT
191 AACGCATAATTTTGGCCTCGATGTATAGTAGAAT
18615254 TAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAA
1 TAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAA
*
18615319 AATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAA
66 AATATCTTAACAAAAACGCAGAGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAA
*
18615384 ACCGTCGCTAAAGAATATTAATA---GC--------A-----GCAAAATATCTTAACCAAAACGC
131 ACCGCCGCTAAAGAATATTAATAGCGGCGTTTTGGAAGCGCCGCAAAATATCTTAACCAAAACGC
18615433 ATAATTTTGGCCTCGATGTATAGTAGAAT
196 ATAATTTTGGCCTCGATGTATAGTAGAAT
18615462 TAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCG
1 TAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCG
18615507 CTTGGATAAA
Statistics
Matches: 424, Mismatches: 52, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
208 96 0.23
213 1 0.00
224 2 0.00
226 8 0.02
227 170 0.40
228 77 0.18
229 70 0.17
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (224 bp):
TAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAA
AATATCTTAACAAAAACGCAGAGTTTTGATCTTAATGTATATAAAATTAGTGGCGCTTACGGTAA
ACCGCCGCTAAAGAATATTAATAGCGGCGTTTTGGAAGCGCCGCAAAATATCTTAACCAAAACGC
ATAATTTTGGCCTCGATGTATAGTAGAAT
Found at i:18615567 original size:208 final size:209
Alignment explanation
Indices: 18615202--18615604 Score: 587
Period size: 208 Copynumber: 1.9 Consensus size: 209
18615192 GAGAAGCGCC
*
18615202 GCAAAATATCTTATCCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
1 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
* ** * *
18615267 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAGCGCCGCAAAATATCTTAACAA
66 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGGTAGAAAGCGCCACAAAATATCTGAACAA
* * * *
18615332 AAACGCAGTGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGCTTACGGTAAACCGTCGCTAAA
131 AAACGCAGTATTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTAAA
18615396 GAATATTAATAGCA
196 GAATATTAATAGCA
18615410 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
1 GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
* * * *
18615475 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGATA-AAAGCGCCACCAAGTATCTGAACC
66 TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGG-TAGAAAGCGCCACAAAATATCTGAACA
* * ** * *
18615539 AAAACGCA-TCATTTTGGTCTTGATGTATACTTGATTTAGTGGCGATTTCGGTAAAACGCCGCTA
130 AAAACGCAGT-ATTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTA
18615603 AA
194 AA
18615605 TCATAGTATT
Statistics
Matches: 172, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
207 1 0.01
208 140 0.81
209 31 0.18
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (209 bp):
GCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAG
TGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTGGTAGAAAGCGCCACAAAATATCTGAACAA
AAACGCAGTATTTTGATCTTAATGTATACTAAAATTAGTGGCGATTACGGTAAAACGCCGCTAAA
GAATATTAATAGCA
Found at i:18615875 original size:7 final size:7
Alignment explanation
Indices: 18615865--18615987 Score: 54
Period size: 7 Copynumber: 17.0 Consensus size: 7
18615855 AAAGTTTAAA
18615865 GTTTAGG
1 GTTTAGG
*
18615872 GTTTACG
1 GTTTAGG
* *
18615879 ATGTA-G
1 GTTTAGG
*
18615885 GTTTAAG
1 GTTTAGG
18615892 G-TTAGG
1 GTTTAGG
18615898 GTATTAGGG
1 GT-TTA-GG
18615907 TGTTTAGG
1 -GTTTAGG
18615915 G-TTAGG
1 GTTTAGG
18615921 GTATTAGGG
1 GT-TTA-GG
*
18615930 TGTTTTGG
1 -GTTTAGG
*
18615938 GTTTAAG
1 GTTTAGG
18615945 GTTTAGG
1 GTTTAGG
* *
18615952 AGTCTGGG
1 -GTTTAGG
* *
18615960 GTATAAG
1 GTTTAGG
*
18615967 GTTTAAG
1 GTTTAGG
*
18615974 GTTTGGG
1 GTTTAGG
18615981 GTTTAGG
1 GTTTAGG
18615988 CTACTTTAGT
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
6 15 0.17
7 44 0.51
8 15 0.17
9 9 0.10
10 4 0.05
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:18615917 original size:23 final size:23
Alignment explanation
Indices: 18615885--18615940 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
18615875 TACGATGTAG
*
18615885 GTTTAAGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAGGGTATTAGGGT
18615908 GTTTAGGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAGGGTATTAGGGT
*
18615931 GTTTTGGGTT
1 GTTTAGGGTT
18615941 TAAGGTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (23 bp):
GTTTAGGGTTAGGGTATTAGGGT
Found at i:18615950 original size:23 final size:23
Alignment explanation
Indices: 18615885--18615951 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
18615875 TACGATGTAG
* *
18615885 GTTTAAGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAAGGTATTAGGGT
*
18615908 GTTTAGGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAAGGTATTAGGGT
*
18615931 GTTTTGGGTTTAAGGT-TTAGG
1 GTTTAGGG-TTAAGGTATTAGG
18615952 AGTCTGGGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 34 0.85
24 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (23 bp):
GTTTAGGGTTAAGGTATTAGGGT
Found at i:18616788 original size:21 final size:21
Alignment explanation
Indices: 18616762--18616802 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18616752 TGTTCTCAAC
18616762 GCGCCGCAAATCTGACTTAAT
1 GCGCCGCAAATCTGACTTAAT
*
18616783 GCGCCGCAAATCTTACTTAA
1 GCGCCGCAAATCTGACTTAA
18616803 AAATTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
GCGCCGCAAATCTGACTTAAT
Found at i:18616972 original size:17 final size:17
Alignment explanation
Indices: 18616950--18616982 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18616940 AAAGAAGGTT
18616950 GGGGTCGGTCTTGAAAC
1 GGGGTCGGTCTTGAAAC
18616967 GGGGTCGGTCTTGAAA
1 GGGGTCGGTCTTGAAA
18616983 GAAGTTCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.24
Consensus pattern (17 bp):
GGGGTCGGTCTTGAAAC
Found at i:18617157 original size:22 final size:22
Alignment explanation
Indices: 18617131--18617177 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
18617121 ACTATTCCGA
*
18617131 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
18617153 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
18617175 TTA
1 TTA
18617178 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:18617583 original size:71 final size:71
Alignment explanation
Indices: 18617484--18617755 Score: 501
Period size: 71 Copynumber: 3.8 Consensus size: 71
18617474 TGAGTGGATT
18617484 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
18617549 TGAGTC
66 TGAGTC
*
18617555 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCCTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
18617620 TGAGTC
66 TGAGTC
*
18617626 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
18617691 TGAGTC
66 TGAGTC
*
18617697 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
18617756 CTGGATCTGG
Statistics
Matches: 196, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
70 2 0.01
71 194 0.99
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:18617910 original size:14 final size:14
Alignment explanation
Indices: 18617891--18617920 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18617881 ATAAAAGGTT
18617891 TTTAGTTAATCATC
1 TTTAGTTAATCATC
18617905 TTTAGTTAATCATC
1 TTTAGTTAATCATC
18617919 TT
1 TT
18617921 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:18623837 original size:21 final size:21
Alignment explanation
Indices: 18623812--18623880 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
18623802 CAGCAACCTA
* *
18623812 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
** *
18623833 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
18623854 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
18623875 AAGCAG
1 AAGCAG
18623881 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.42, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:18623882 original size:12 final size:12
Alignment explanation
Indices: 18623865--18623904 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
18623855 AGCAGAGGCC
18623865 GCAGCGAGAGAA
1 GCAGCGAGAGAA
18623877 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
18623889 GCAGCAATAGAA
1 GCAGCGAGAGAA
18623901 GCAG
1 GCAG
18623905 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:18624535 original size:82 final size:82
Alignment explanation
Indices: 18624326--18624576 Score: 292
Period size: 82 Copynumber: 3.0 Consensus size: 82
18624316 GTTTGTGAAA
* *** * *
18624326 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAGCA-TGATC-TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
18624389 A-CTTTTAGAGGCGTTTTCTT
64 ATC-TTTAGAGGCGTTTT-TT
* * * * * *
18624409 CCAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGGTTGTTTCTAAGCGCCGCTAAAGAATATG
1 --TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
*
18624474 ATCTTTAGGGGCGTTTTTT
64 ATCTTTAGAGGCGTTTTTT
*
18624493 TAAGCGTCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
*
18624558 CTTTAGCGGCGTTTTTT
66 CTTTAGAGGCGTTTTTT
18624575 TA
1 TA
18624577 TGTAAGCGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
82 76 0.53
84 3 0.02
85 62 0.43
86 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (82 bp):
TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGAGGCGTTTTTT
Found at i:18624574 original size:42 final size:42
Alignment explanation
Indices: 18624326--18624593 Score: 285
Period size: 42 Copynumber: 6.4 Consensus size: 42
18624316 GTTTGTGAAA
***
18624326 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * *
18624368 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* * * * *
18624411 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGGTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
18624453 TAAGCGCCGCTAAAGAATATGATCTTTAGGGGCG-TTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
18624493 TAAGCGTCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
18624535 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TC
*
18624579 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
18624594 TTAGTGACGT
Statistics
Matches: 191, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
40 30 0.16
41 12 0.06
42 98 0.51
43 35 0.18
44 16 0.08
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:18624696 original size:22 final size:22
Alignment explanation
Indices: 18624665--18624707 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18624655 TAGTGGCGTT
* *
18624665 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
18624687 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
18624708 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:18626089 original size:16 final size:16
Alignment explanation
Indices: 18626068--18626098 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18626058 GAGTATTATC
18626068 TCTATTTTGAAAATTT
1 TCTATTTTGAAAATTT
*
18626084 TCTATTTTTAAAATT
1 TCTATTTTGAAAATT
18626099 GAGTAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TCTATTTTGAAAATTT
Found at i:18626529 original size:29 final size:30
Alignment explanation
Indices: 18626471--18626529 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
18626461 AAAATATGTG
* *
18626471 TTAAAAATATAAATAGGTATTTAGGCATTT
1 TTAAAAATATAAATAGGTATATACGCATTT
*
18626501 TTAAAAATA-AAAT-GGATATATACGTATTT
1 TTAAAAATATAAATAGG-TATATACGCATTT
18626530 ATAGATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.08
29 14 0.56
30 9 0.36
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (30 bp):
TTAAAAATATAAATAGGTATATACGCATTT
Found at i:18626598 original size:21 final size:20
Alignment explanation
Indices: 18626574--18626618 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
18626564 ATACATGTAC
18626574 ATAAAATATATATATTAAATA
1 ATAAAATATATATATTAAA-A
*
18626595 AT-AATTATA-ATATTAAAA
1 ATAAAATATATATATTAAAA
18626613 ATAAAA
1 ATAAAA
18626619 ATAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 6 0.29
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAATATATATATTAAAA
Found at i:18626622 original size:18 final size:19
Alignment explanation
Indices: 18626574--18626622 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
18626564 ATACATGTAC
18626574 ATAAAATATATATATTAAATA
1 ATAAAA-ATA-ATATTAAATA
**
18626595 ATAATTATAATATTAAA-A
1 ATAAAAATAATATTAAATA
18626613 ATAAAAATAA
1 ATAAAAATAA
18626623 ATATACGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.38
19 8 0.33
20 3 0.12
21 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAATAATATTAAATA
Found at i:18626625 original size:19 final size:20
Alignment explanation
Indices: 18626574--18626626 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
18626564 ATACATGTAC
*
18626574 ATAAAATATATATATTAAATA
1 ATAAAA-ATAAATATTAAATA
**
18626595 ATAATTAT-AATATTAAA-A
1 ATAAAAATAAATATTAAATA
18626613 ATAAAAATAAATAT
1 ATAAAAATAAATAT
18626627 ACGTATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 2 0.08
21 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAATAAATATTAAATA
Found at i:18628103 original size:14 final size:14
Alignment explanation
Indices: 18628084--18628110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18628074 TAAGGTTTAT
18628084 GGGTTAGAGGTTAG
1 GGGTTAGAGGTTAG
18628098 GGGTTAGAGGTTA
1 GGGTTAGAGGTTA
18628111 AGATCAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (14 bp):
GGGTTAGAGGTTAG
Found at i:18629824 original size:57 final size:57
Alignment explanation
Indices: 18629755--18629962 Score: 407
Period size: 57 Copynumber: 3.6 Consensus size: 57
18629745 AAAAGCCTGT
18629755 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
1 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
18629812 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
1 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
18629869 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
1 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
*
18629926 CTTCTGTTCAAATAAATGGAGGTGAAACTGTAAATGT
1 CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGT
18629963 TGGAGTGGAG
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 150 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (57 bp):
CTTCTGTTCAAATAAATGGAGGTGAAACTTTAAATGTGCAGCACAATAAGAGCTCTG
Found at i:18631303 original size:21 final size:21
Alignment explanation
Indices: 18631288--18631342 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
18631278 CAGATGCTAC
18631288 TGTAGTTACTCAAGATTGCCA
1 TGTAGTTACTCAAGATTGCCA
18631309 TGTAGTTACTCAAGATTGCCA
1 TGTAGTTACTCAAGATTGCCA
18631330 TGTAGTTACTCAA
1 TGTAGTTACTCAA
18631343 AGAAGGCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (21 bp):
TGTAGTTACTCAAGATTGCCA
Found at i:18631742 original size:13 final size:13
Alignment explanation
Indices: 18631724--18631770 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
18631714 TGAATGTTGA
18631724 AATTTATTACTAT
1 AATTTATTACTAT
* **
18631737 AATTTAATGTTGA-
1 AATTTATTACT-AT
18631750 AATTTATTACTAT
1 AATTTATTACTAT
18631763 AATTTATT
1 AATTTATT
18631771 TTACTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (13 bp):
AATTTATTACTAT
Found at i:18631745 original size:26 final size:26
Alignment explanation
Indices: 18631716--18631768 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
18631706 ATTATAGGTG
18631716 AATGTTGAAATTTATTACTATAATTT
1 AATGTTGAAATTTATTACTATAATTT
18631742 AATGTTGAAATTTATTACTATAATTT
1 AATGTTGAAATTTATTACTATAATTT
18631768 A
1 A
18631769 TTTTACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (26 bp):
AATGTTGAAATTTATTACTATAATTT
Found at i:18631937 original size:43 final size:43
Alignment explanation
Indices: 18631872--18632199 Score: 484
Period size: 43 Copynumber: 7.7 Consensus size: 43
18631862 ATGGCACTTT
**
18631872 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * **
18631915 TAGTGGCGTTTGTAGGAAAAGCGCAGCTAAAGGTTTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
18631958 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-C-GATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
18631999 TAGCGGTGTTTTTGGG-AAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
18632041 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
18632084 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
18632127 TAGCGTCGTTTTTGGG-AAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* ***
18632169 TAGTGGCGTTTGTAAAAAAAGCGCCGCTAAA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA
18632200 AGCCTGTTTT
Statistics
Matches: 257, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
40 17 0.07
41 21 0.08
42 55 0.21
43 164 0.64
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:18632114 original size:126 final size:128
Alignment explanation
Indices: 18631889--18632199 Score: 520
Period size: 126 Copynumber: 2.4 Consensus size: 128
18631879 GTTTGTGAAA
* **
18631889 AAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTAGGAAAAGCGCAGCTAAAGGTTTTGA
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCCTGA
18631954 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-C-GATCTATAGCGGT-GTTTTTGGG
66 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC-GTCGTTTTTGGG
* *
18632015 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCCTGA
18632080 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGTCGTTTTTGGG
66 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGTCGTTTTTGGG
* **
18632143 AAAGCGCCGCTAAAGGTCTTGATCTATAGTGGCGTTTGTAAAAAAAGCGCCGCTAAA
1 AAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTAGGAAAAGCGCCGCTAAA
18632200 AGCCTGTTTT
Statistics
Matches: 172, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
126 98 0.57
127 3 0.02
128 71 0.41
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (128 bp):
AAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCCTGA
TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGTCGTTTTTGGG
Found at i:18632944 original size:14 final size:15
Alignment explanation
Indices: 18632926--18632969 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
18632916 ATTAATTTAA
18632926 AAAATTCAATTAATT
1 AAAATTCAATTAATT
* *
18632941 -AAATTTATTTAATT
1 AAAATTCAATTAATT
*
18632955 AAAAATCAATTAATT
1 AAAATTCAATTAATT
18632970 TACTTAGCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTCAATTAATT
Found at i:18633849 original size:17 final size:18
Alignment explanation
Indices: 18633829--18633869 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
18633819 TTTGATTTCT
18633829 ATATAAT-AATTTAATTA
1 ATATAATAAATTTAATTA
*
18633846 ATAT-ATAAATTTCATTA
1 ATATAATAAATTTAATTA
18633863 ATCATAA
1 AT-ATAA
18633870 ACTTGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 15 0.75
18 2 0.10
19 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATAAATTTAATTA
Found at i:18641088 original size:199 final size:200
Alignment explanation
Indices: 18640746--18641146 Score: 734
Period size: 199 Copynumber: 2.0 Consensus size: 200
18640736 ATGTTATACT
*
18640746 CTGTTTGGTGTGTTTATAAGGGACTAGCTCTTTTGAGTATTGATGTGTTTCAGTTGGATTGGCTC
1 CTGTTTGGTGTGTTTATAAGGGACTAACTCTTTTGAGTATTGATGTGTTTCAGTTGGATTGGCTC
18640811 GTGTGAGTATCTGGTGTGTTTTGGTTAGACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
66 GTGTGAGTATCTGGTGTGTTTTGGTTAGACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
*
18640876 TTAA-TTATTTTTTTTGTAGATACTTGGAAGGTTGGATGATCAGGTCGGCACTCAAGTCACACTA
131 TTAATTTATTTTTTTTGTAGATACTTGGAAGGTTGGATGATCAGGTCGGCACTCAAGCCACACTA
18640940 TCCAG
196 TCCAG
*
18640945 CTGTTTGGTGTGTTTATAAGGGACTAACTCTTTTGAGTATTGATGTGTTTCGGTTGGATTGGCTC
1 CTGTTTGGTGTGTTTATAAGGGACTAACTCTTTTGAGTATTGATGTGTTTCAGTTGGATTGGCTC
*
18641010 GTGTGAGTATCTGGTGTGTTTTGGTTAGACTGGCGATGTACTAAGCTACTTAAAGCTTACTTATG
66 GTGTGAGTATCTGGTGTGTTTTGGTTAGACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
*
18641075 TTAATCTT-TTTTTTTTGTAGATACTTGGAAGGTTGGATGATCGGGTCGGCACTCAAGCCACACT
131 TTAAT-TTATTTTTTTTGTAGATACTTGGAAGGTTGGATGATCAGGTCGGCACTCAAGCCACACT
18641139 ATCCAG
195 ATCCAG
18641145 CT
1 CT
18641147 TATTTTTTAT
Statistics
Matches: 195, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
199 131 0.67
200 62 0.32
201 2 0.01
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.40
Consensus pattern (200 bp):
CTGTTTGGTGTGTTTATAAGGGACTAACTCTTTTGAGTATTGATGTGTTTCAGTTGGATTGGCTC
GTGTGAGTATCTGGTGTGTTTTGGTTAGACTGACGATGTACTAAGCTACTTAAAGCTTACTTATG
TTAATTTATTTTTTTTGTAGATACTTGGAAGGTTGGATGATCAGGTCGGCACTCAAGCCACACTA
TCCAG
Found at i:18642632 original size:18 final size:18
Alignment explanation
Indices: 18642589--18642632 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18642579 ACTCAATCCA
* *
18642589 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
*
18642607 GACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
18642625 AACCCAAT
1 AACCCAAT
18642633 CAGAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.45, G:0.05, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:18642690 original size:12 final size:12
Alignment explanation
Indices: 18642673--18642715 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
18642663 AAATAAAATT
18642673 CTAAAACTAAAA
1 CTAAAACTAAAA
*
18642685 CTAAAACTAAAGT
1 CTAAAACTAAA-A
*
18642698 CTAAAAATAAAA
1 CTAAAACTAAAA
*
18642710 ATAAAA
1 CTAAAA
18642716 AACATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (12 bp):
CTAAAACTAAAA
Found at i:18642736 original size:9 final size:9
Alignment explanation
Indices: 18642722--18642763 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
18642712 AAAAAACATA
18642722 TAATTCGGG
1 TAATTCGGG
18642731 TAATTCGGG
1 TAATTCGGG
*
18642740 TAATTCGGT
1 TAATTCGGG
*
18642749 TAATTAGGG
1 TAATTCGGG
18642758 TAATTC
1 TAATTC
18642764 AGTTATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:18642768 original size:18 final size:18
Alignment explanation
Indices: 18642731--18642768 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18642721 ATAATTCGGG
* *
18642731 TAATTCGGGTAATTCGGT
1 TAATTAGGGTAATTCAGT
18642749 TAATTAGGGTAATTCAGT
1 TAATTAGGGTAATTCAGT
18642767 TA
1 TA
18642769 TTTTTTAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (18 bp):
TAATTAGGGTAATTCAGT
Found at i:18643889 original size:48 final size:49
Alignment explanation
Indices: 18643836--18643978 Score: 132
Period size: 48 Copynumber: 2.9 Consensus size: 49
18643826 AAGCTCGTGC
* * *
18643836 GAGCCAATAAT-AGGTAGTTCCGAAGAGCCATTAACGGGAAGCTTCGGA
1 GAGCCAATAATCAGGAAGTTCCGAAGAGCCATTAACGGGAAGCTCCGAA
* * *
18643884 TAGCC-ATATATCAGGAAGTT-CAAATGAGCCA-TATCGGGAAGCTCCGAA
1 GAGCCAATA-ATCAGGAAGTTCCGAA-GAGCCATTAACGGGAAGCTCCGAA
* * * *
18643932 GAGCCATTAATCGGGAAGCTCTCGAAGAGCCATATAACGGGACGCTC
1 GAGCCAATAATCAGGAAGTTC-CGAAGAGCCAT-TAACGGGAAGCTC
18643979 ATAAGAGCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
47 3 0.04
48 36 0.49
49 21 0.28
50 3 0.04
51 11 0.15
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (49 bp):
GAGCCAATAATCAGGAAGTTCCGAAGAGCCATTAACGGGAAGCTCCGAA
Found at i:18643947 original size:25 final size:25
Alignment explanation
Indices: 18643854--18643978 Score: 109
Period size: 25 Copynumber: 5.1 Consensus size: 25
18643844 AATAGGTAGT
18643854 TCCGAAGAGCCATTAA-CGGGAAGC
1 TCCGAAGAGCCATTAATCGGGAAGC
* * * *
18643878 TTCGGATAGCCA-TATATCAGGAAG-
1 TCCGAAGAGCCATTA-ATCGGGAAGC
* *
18643902 TTCAAATGAGCCA-T-ATCGGGAAGC
1 TCCGAA-GAGCCATTAATCGGGAAGC
18643926 TCCGAAGAGCCATTAATCGGGAAGC
1 TCCGAAGAGCCATTAATCGGGAAGC
*
18643951 TCTCGAAGAGCCATATAA-CGGGACGC
1 TC-CGAAGAGCCAT-TAATCGGGAAGC
18643977 TC
1 TC
18643979 ATAAGAGCTG
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
23 16 0.20
24 19 0.23
25 24 0.29
26 20 0.24
27 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.18
Consensus pattern (25 bp):
TCCGAAGAGCCATTAATCGGGAAGC
Found at i:18646267 original size:9 final size:9
Alignment explanation
Indices: 18646250--18646286 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
18646240 TGAGTTTTCG
18646250 AATTCGAAT
1 AATTCGAAT
*
18646259 AACTCGAAT
1 AATTCGAAT
18646268 AATTCGAAT
1 AATTCGAAT
18646277 AATTCGAAT
1 AATTCGAAT
18646286 A
1 A
18646287 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18653310 original size:83 final size:83
Alignment explanation
Indices: 18653223--18653400 Score: 200
Period size: 82 Copynumber: 2.1 Consensus size: 83
18653213 TTTTAAGTAT
* * * * *
18653223 GCGCCGCTAATGGTCGGGGGTTTTAGTGGCGTTTTT-AATCAATCGCTGCTAATGTTAAGGTATT
1 GCGCCGCTAATGGTCGGGGCTTTTAGTGGCGTTTTTAAAT-AAGCGCCGCTAAAGTTAAGATATT
*
18653287 TAACGGCGTTTTCTTT-GAA
65 TAACAGCGTTTT-TTTAGAA
* ** * *
18653306 GCGCCGCTAA-CGTTTGGTCTTTTAGTGGCGTTTTTAAATAAGCGCCGCTAAAGTTAAGATTTTT
1 GCGCCGCTAATGGTCGGGGCTTTTAGTGGCGTTTTTAAATAAGCGCCGCTAAAGTTAAGATATTT
*
18653370 AGCAGCGTTTTTTTGAGAA
66 AACAGCGTTTTTTT-AGAA
18653389 GCGCCGCTAATG
1 GCGCCGCTAATG
18653401 TTAGGGGTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
81 3 0.04
82 49 0.63
83 26 0.33
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (83 bp):
GCGCCGCTAATGGTCGGGGCTTTTAGTGGCGTTTTTAAATAAGCGCCGCTAAAGTTAAGATATTT
AACAGCGTTTTTTTAGAA
Found at i:18653315 original size:41 final size:41
Alignment explanation
Indices: 18653250--18653436 Score: 130
Period size: 41 Copynumber: 4.5 Consensus size: 41
18653240 GGGTTTTAGT
* * * * *
18653250 GGCGTTTTTAATCAATCGCTGCTAATGTTAAGGTATTTAAC
1 GGCGTTTTTATTGAAGCGCCGCTAATGTTAAGGTTTTTAAC
* * **
18653291 GGCGTTTTCT-TTGAAGCGCCGCTAACGTT-TGGTCTTTTAGT
1 GGCGTTTT-TATTGAAGCGCCGCTAATGTTAAGGT-TTTTAAC
* * * *
18653332 GGCGTTTTTAAAT-AAGCGCCGCTAAAGTTAAGATTTTTAGC
1 GGCGTTTTT-ATTGAAGCGCCGCTAATGTTAAGGTTTTTAAC
* * *
18653373 AGCGTTTTT-TTGAGAAGCGCCGCTAATGTTAGGGGTTTTAAC
1 GGCGTTTTTATT--GAAGCGCCGCTAATGTTAAGGTTTTTAAC
* * *
18653415 GGCATTTTTGTGGAAGCGCCGC
1 GGCGTTTTTATTGAAGCGCCGC
18653437 AAAAAATATT
Statistics
Matches: 113, Mismatches: 24, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 73 0.65
42 34 0.30
43 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (41 bp):
GGCGTTTTTATTGAAGCGCCGCTAATGTTAAGGTTTTTAAC
Found at i:18653362 original size:82 final size:82
Alignment explanation
Indices: 18653243--18653398 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 82
18653233 TGGTCGGGGG
* * * * *
18653243 TTTTAGTGGCGTTTTTAATCAATCGCTGCTAATGTTAAGGTATTTAACGGCGTTTTCTTT-GAAG
1 TTTTAGTGGCGTTTTTAATCAAGCGCCGCTAAAGTTAAGATATTTAACAGCGTTTT-TTTAGAAG
18653307 CGCCGCTAACGTTTGGTC
65 CGCCGCTAACGTTTGGTC
* *
18653325 TTTTAGTGGCGTTTTTAAAT-AAGCGCCGCTAAAGTTAAGATTTTTAGCAGCGTTTTTTTGAGAA
1 TTTTAGTGGCGTTTTT-AATCAAGCGCCGCTAAAGTTAAGATATTTAACAGCGTTTTTTT-AGAA
18653389 GCGCCGCTAA
64 GCGCCGCTAA
18653399 TGTTAGGGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
81 3 0.05
82 45 0.70
83 16 0.25
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (82 bp):
TTTTAGTGGCGTTTTTAATCAAGCGCCGCTAAAGTTAAGATATTTAACAGCGTTTTTTTAGAAGC
GCCGCTAACGTTTGGTC
Found at i:18653412 original size:42 final size:41
Alignment explanation
Indices: 18653345--18653436 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
18653335 GTTTTTAAAT
* * * *
18653345 AAGCGCCGCTAAAGTTAAGATTTTTAGCAGCGTTTTTTTGAG
1 AAGCGCCGCTAAAGTTAAGAGTTTTAACAGCATTTTTGTG-G
* * * *
18653387 AAGCGCCGCTAATGTTAGGGGTTTTAACGGCATTTTTGTGG
1 AAGCGCCGCTAAAGTTAAGAGTTTTAACAGCATTTTTGTGG
18653428 AAGCGCCGC
1 AAGCGCCGC
18653437 AAAAAATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 10 0.24
42 32 0.76
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAAAGTTAAGAGTTTTAACAGCATTTTTGTGG
Found at i:18653550 original size:24 final size:24
Alignment explanation
Indices: 18653523--18653569 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
18653513 AAAATATTCA
*
18653523 GAAA-AAATAACATTGAAATAATTT
1 GAAATAAATAACATGGAAA-AATTT
*
18653547 GAAATAAATCACATGGAAAAATT
1 GAAATAAATAACATGGAAAAATT
18653570 AAAATACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (24 bp):
GAAATAAATAACATGGAAAAATTT
Found at i:18653904 original size:110 final size:110
Alignment explanation
Indices: 18653784--18654128 Score: 690
Period size: 110 Copynumber: 3.1 Consensus size: 110
18653774 TAATATAGTA
18653784 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
1 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
18653849 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
66 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
18653894 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
1 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
18653959 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
66 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
18654004 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
1 TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
18654069 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
66 ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
18654114 TTAATTTAAATTCAA
1 TTAATTTAAATTCAA
18654129 GGTTGGAATA
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 235 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.41
Consensus pattern (110 bp):
TTAATTTAAATTCAAATTCTGGTTATTGTGGATATGAATATCCAAAAAAAGGTTAAAATTTTAAC
ATTATGTTTTTTATCAGGATTAAAAAATTCGATAGATAATATTAT
Found at i:18654591 original size:7 final size:7
Alignment explanation
Indices: 18654579--18654675 Score: 95
Period size: 7 Copynumber: 12.9 Consensus size: 7
18654569 GGGGTATGGA
18654579 TTAGGGG
1 TTAGGGG
18654586 TTAGGGG
1 TTAGGGG
**
18654593 TTAGAGAT
1 TTAG-GGG
18654601 TTAGGGG
1 TTAGGGG
18654608 TTAGGGG
1 TTAGGGG
18654615 ATTTAGGGG
1 --TTAGGGG
18654624 TTAGGGG
1 TTAGGGG
*
18654631 TTAGGGAT
1 TTAGGG-G
*
18654639 TTAGGGT
1 TTAGGGG
18654646 TTAGGGGG
1 TTA-GGGG
18654654 ATTTAGGGG
1 --TTAGGGG
18654663 TTAGGGG
1 TTAGGGG
18654670 TTAGGG
1 TTAGGG
18654676 ATGGTTGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
7 49 0.64
8 14 0.18
9 11 0.14
10 3 0.04
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:18654606 original size:15 final size:15
Alignment explanation
Indices: 18654586--18654627 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
18654576 GGATTAGGGG
18654586 TTAGGGGTTAGAGAT
1 TTAGGGGTTAGAGAT
*
18654601 TTAGGGGTTAGGGGAT
1 TTAGGGGTTA-GAGAT
18654617 TTAGGGGTTAG
1 TTAGGGGTTAG
18654628 GGGTTAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.33
Consensus pattern (15 bp):
TTAGGGGTTAGAGAT
Found at i:18654665 original size:39 final size:38
Alignment explanation
Indices: 18654579--18654677 Score: 171
Period size: 38 Copynumber: 2.6 Consensus size: 38
18654569 GGGGTATGGA
*
18654579 TTAGGGGTTAGGGGTTAGAGATTTAGGGGTTAGGGGAT
1 TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAGGGGAT
*
18654617 TTAGGGGTTAGGGGTTAGGGATTTAGGGTTTAGGGGGAT
1 TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTA-GGGGAT
18654656 TTAGGGGTTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGGTTAGGGAT
18654678 GGTTGCTTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
38 30 0.52
39 28 0.48
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (38 bp):
TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAGGGGAT
Found at i:18655322 original size:20 final size:19
Alignment explanation
Indices: 18655284--18655326 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
18655274 GGATAGGATC
18655284 AAAATATAAGAAAAAATAA
1 AAAATATAAGAAAAAATAA
18655303 AAAATATAA-AAATGAAATAA
1 AAAATATAAGAAA--AAATAA
18655323 AAAA
1 AAAA
18655327 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAATATAAGAAAAAATAA
Found at i:18656478 original size:12 final size:12
Alignment explanation
Indices: 18656461--18656485 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18656451 AGTTTGAAAC
18656461 TGTTCATAATTT
1 TGTTCATAATTT
18656473 TGTTCATAATTT
1 TGTTCATAATTT
18656485 T
1 T
18656486 CACTATCCTA
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:18656540 original size:17 final size:17
Alignment explanation
Indices: 18656514--18656552 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18656504 ATAGAAAATG
18656514 ATAA-AATGTTATTA-GA
1 ATAATAATGTTA-TACGA
18656530 ATAATAATGTTATACGA
1 ATAATAATGTTATACGA
18656547 ATAATA
1 ATAATA
18656553 TTATGAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (17 bp):
ATAATAATGTTATACGA
Found at i:18656785 original size:16 final size:16
Alignment explanation
Indices: 18656740--18656779 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
18656730 AAAGAAAAGG
*
18656740 TTACATAATACACAAC
1 TTACATAATACATAAC
18656756 TTACATAATACATAAC
1 TTACATAATACATAAC
18656772 TTACATAA
1 TTACATAA
18656780 CTCATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTACATAATACATAAC
Found at i:18660055 original size:66 final size:66
Alignment explanation
Indices: 18659949--18660118 Score: 227
Period size: 66 Copynumber: 2.6 Consensus size: 66
18659939 AGCAAATTAC
* * *
18659949 ACAACTTAAAGTGGAGGCAGCATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
18660013 CT
65 CT
* *
18660015 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGT
1 ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
18660080 T
66 T
* * * *
18660081 GCAGCTTAAAGCAGATGC-GACAGCGAGAGAAGCAGAGG
1 ACAACTTAAAGTAGATGCAG-CAGCGAGAGAAGCTGAGG
18660119 CTGCGGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 1 0.01
66 88 0.95
67 4 0.04
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGTAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
T
Found at i:18660833 original size:43 final size:43
Alignment explanation
Indices: 18660482--18660812 Score: 472
Period size: 43 Copynumber: 7.7 Consensus size: 43
18660472 TTAAAAAAAT
*
18660482 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG-AAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
* * *
18660524 GCCGCT-AAGGTCTTGGTCTTTAGCGGTGTTTGTGGGAAAAGT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
* * *
18660566 GACGCTAAAGGTCTTGGTCTTTAACGGCGATTGTG-GGGAAAA-T
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TT-TGCGGGAAAAGC
* *
18660609 GCCGCTAAAGGTCTTGGTCTTTAGCAGTGTTTGCGGGAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
* * * * *
18660652 GCCGCTAAAGGTCTTGGACTTTAGCAGTGTTTGCAGGAAAAAC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
*
18660695 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTTGCGGGAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
*
18660738 GCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTGCGGGAAAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
18660781 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
18660813 TTTTTATAAA
Statistics
Matches: 262, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
41 31 0.12
42 24 0.09
43 196 0.75
44 9 0.03
45 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (43 bp):
GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGCGGGAAAAGC
Found at i:18661413 original size:22 final size:22
Alignment explanation
Indices: 18661371--18661414 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18661361 AAAATATATT
* *
18661371 AAATATATATGTTTTATTTTTA
1 AAATATATATGTTATAGTTTTA
18661393 AAATATA-ATAGTTATAGTTTTA
1 AAATATATAT-GTTATAGTTTTA
18661415 TATTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAATATATATGTTATAGTTTTA
Found at i:18664311 original size:16 final size:16
Alignment explanation
Indices: 18664290--18664328 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18664280 ATTTTGTTAC
18664290 AACAATTAATACAATT
1 AACAATTAATACAATT
*
18664306 AACAATTAGTACAATT
1 AACAATTAATACAATT
*
18664322 AATAATT
1 AACAATT
18664329 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:18664386 original size:16 final size:16
Alignment explanation
Indices: 18664365--18664403 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18664355 ATTTTGTTAC
18664365 AACAATTAATACAATT
1 AACAATTAATACAATT
*
18664381 AACAATTAGTACAATT
1 AACAATTAATACAATT
*
18664397 AATAATT
1 AACAATT
18664404 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:18664387 original size:75 final size:75
Alignment explanation
Indices: 18664264--18664418 Score: 310
Period size: 75 Copynumber: 2.1 Consensus size: 75
18664254 AAAAATGCAA
18664264 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAGTACAATTAATAATT
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAGTACAATTAATAATT
18664329 TGATAATTTT
66 TGATAATTTT
18664339 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAGTACAATTAATAATT
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAGTACAATTAATAATT
18664404 TGATAATTTT
66 TGATAATTTT
18664414 ACTAA
1 ACTAA
18664419 CAATTAATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 80 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (75 bp):
ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAGTACAATTAATAATT
TGATAATTTT
Found at i:18664428 original size:16 final size:16
Alignment explanation
Indices: 18664407--18664448 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18664397 AATAATTTGA
*
18664407 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
18664423 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
18664439 TAGTTTTAAT
1 TAATTTTAAT
18664449 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:18664715 original size:10 final size:10
Alignment explanation
Indices: 18664697--18664911 Score: 60
Period size: 10 Copynumber: 22.3 Consensus size: 10
18664687 TTAAAATATA
*
18664697 TATATTTTTT
1 TATAATTTTT
*
18664707 TATAATTTTC
1 TATAATTTTT
*
18664717 TATATTTTTT
1 TATAATTTTT
*
18664727 TCT-ATATTTT
1 TATAAT-TTTT
* *
18664737 TA-AAATTCT
1 TATAATTTTT
* **
18664746 TGTAAGCTTT
1 TATAATTTTT
18664756 TAT-A--TTT
1 TATAATTTTT
*
18664763 TATAACATTTT
1 TATAA-TTTTT
*
18664774 TATTA-TTTT
1 TATAATTTTT
18664783 T-TAATTTTT
1 TATAATTTTT
*
18664792 T-TAAATTTT
1 TATAATTTTT
*
18664801 TATAATTTTC
1 TATAATTTTT
18664811 TATAATATTTT
1 TATAAT-TTTT
**
18664822 T-TACAAATTT
1 TATA-ATTTTT
* *
18664832 TATAAGTATT
1 TATAATTTTT
***
18664842 TATAGCATTT
1 TATAATTTTT
18664852 TATAA-TTTT
1 TATAATTTTT
* *
18664861 GAT-TTTTTT
1 TATAATTTTT
* *
18664870 TGTAA-TTCT
1 TATAATTTTT
*
18664879 AATAATTTTT
1 TATAATTTTT
*
18664889 T-TATTATTTT
1 TATAAT-TTTT
18664899 TATAATTTTT
1 TATAATTTTT
18664909 TAT
1 TAT
18664912 TTTCTAGAAT
Statistics
Matches: 145, Mismatches: 43, Indels: 34
0.65 0.19 0.15
Matches are distributed among these distances:
7 6 0.04
8 3 0.02
9 43 0.30
10 76 0.52
11 17 0.12
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (10 bp):
TATAATTTTT
Found at i:18664727 original size:12 final size:12
Alignment explanation
Indices: 18664712--18664737 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18664702 TTTTTTATAA
18664712 TTTTCTATATTT
1 TTTTCTATATTT
18664724 TTTTCTATATTT
1 TTTTCTATATTT
18664736 TT
1 TT
18664738 AAAATTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTATATTT
Found at i:18664783 original size:9 final size:9
Alignment explanation
Indices: 18664703--18664908 Score: 78
Period size: 9 Copynumber: 21.6 Consensus size: 9
18664693 TATATATATT
18664703 TTTTTATAA
1 TTTTTATAA
*
18664712 TTTTCTATATT
1 TTTT-TATA-A
*
18664723 TTTTTCTATA
1 TTTTTATA-A
*
18664733 TTTTTAAAA
1 TTTTTATAA
* *
18664742 TTCTTGTAA
1 TTTTTATAA
*
18664751 GCTTTTAT-A
1 -TTTTTATAA
18664760 -TTTTATAACA
1 TTTTTAT-A-A
*
18664770 TTTTTATTA
1 TTTTTATAA
18664779 TTTTT-TAA
1 TTTTTATAA
*
18664787 TTTTTTTAAA
1 TTTTTAT-AA
18664797 TTTTTATAA
1 TTTTTATAA
18664806 TTTTCTATAATA
1 TTTT-TAT-A-A
*
18664818 TTTTTTACAA
1 -TTTTTATAA
*
18664828 ATTTTATAA
1 TTTTTATAA
*
18664837 GTATTTATAGCA
1 -TTTTTATA--A
18664849 -TTTTATAA
1 TTTTTATAA
* **
18664857 TTTTGATTT
1 TTTTTATAA
*
18664866 TTTTTGTAA
1 TTTTTATAA
* *
18664875 TTCTAATAA
1 TTTTTATAA
*
18664884 TTTTTTTATTA
1 --TTTTTATAA
18664895 TTTTTATAA
1 TTTTTATAA
18664904 TTTTT
1 TTTTT
18664909 TATTTTCTAG
Statistics
Matches: 144, Mismatches: 34, Indels: 38
0.67 0.16 0.18
Matches are distributed among these distances:
7 6 0.04
8 8 0.06
9 61 0.42
10 43 0.30
11 18 0.12
12 4 0.03
13 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18664792 original size:19 final size:18
Alignment explanation
Indices: 18664753--18664824 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
18664743 TCTTGTAAGC
* **
18664753 TTTTATATTTTATAACAT
1 TTTTATATTTTTTAATTT
18664771 TTTTATTATTTTTTAATTT
1 TTTTA-TATTTTTTAATTT
*
18664790 TTTTAAATTTTTATAATTT
1 TTTTATATTTTT-TAATTT
*
18664809 TCTATAATATTTTTTA
1 T-T-TTATATTTTTTA
18664825 CAAATTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 11 0.25
19 22 0.50
20 3 0.07
21 8 0.18
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTAATTT
Found at i:18664835 original size:21 final size:23
Alignment explanation
Indices: 18664797--18664842 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
18664787 TTTTTTTAAA
* *
18664797 TTTTTATAATTTTCTATAA-TAT
1 TTTTTACAAATTTCTATAAGTAT
18664819 TTTTTACAAATTT-TATAAGTAT
1 TTTTTACAAATTTCTATAAGTAT
18664841 TT
1 TT
18664843 ATAGCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTACAAATTTCTATAAGTAT
Found at i:18664889 original size:20 final size:20
Alignment explanation
Indices: 18664864--18664944 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 20
18664854 TAATTTTGAT
*
18664864 TTTTTTTGTAATTCTAATAA
1 TTTTTTTATAATTCTAATAA
* * *
18664884 TTTTTTTATTATTTTTATAA
1 TTTTTTTATAATTCTAATAA
* *
18664904 -TTTTTTAT-TTTCT-AGAA
1 TTTTTTTATAATTCTAATAA
* *
18664921 TTATTTTATAATTCTATTAA
1 TTTTTTTATAATTCTAATAA
18664941 TTTT
1 TTTT
18664945 AATCATTTCC
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
17 3 0.07
18 10 0.22
19 12 0.26
20 21 0.46
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTTTATAATTCTAATAA
Found at i:18664922 original size:17 final size:16
Alignment explanation
Indices: 18664887--18664929 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
18664877 CTAATAATTT
*
18664887 TTTTATTATTTTTATAA
1 TTTT-TTATTTTTAGAA
18664904 TTTTTTATTTTCTAGAA
1 TTTTTTATTTT-TAGAA
18664921 TTATTTTAT
1 TT-TTTTAT
18664930 AATTCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 10 0.43
18 6 0.26
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTATTTTTAGAA
Found at i:18669498 original size:18 final size:17
Alignment explanation
Indices: 18669470--18669504 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18669460 ATTGTTAAGA
*
18669470 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18669487 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18669505 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18669618 original size:18 final size:17
Alignment explanation
Indices: 18669590--18669624 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18669580 ATTATTAAGA
*
18669590 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18669607 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18669625 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18669815 original size:39 final size:40
Alignment explanation
Indices: 18669766--18669874 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 40
18669756 AGTTTTTTCC
18669766 ATTATGCTATTACACCTCTATTCCATTCAACCAAACACAAG
1 ATTA-GCTATTACACCTCTATTCCATTCAACCAAACACAAG
* **
18669807 ATTA-CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTAG
1 ATTAGCTATTACACCTCTATT-C----CATTCAACCAAACACAAG
*
18669851 ATTAGCTATTACACCTCTAATCCA
1 ATTAGCTATTACACCTCTATTCCA
18669875 ATACACCTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
39 15 0.26
40 3 0.05
41 4 0.07
44 21 0.37
45 14 0.25
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (40 bp):
ATTAGCTATTACACCTCTATTCCATTCAACCAAACACAAG
Found at i:18669853 original size:44 final size:45
Alignment explanation
Indices: 18669789--18669879 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
18669779 ACCTCTATTC
* * *
18669789 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
**
18669833 CATTCAACCAAACAGTAGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
18669878 CA
1 CA
18669880 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:18669881 original size:16 final size:16
Alignment explanation
Indices: 18669860--18669928 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
18669850 GATTAGCTAT
18669860 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18669876 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18669893 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18669909 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18669925 TACA
1 TACA
18669929 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18669902 original size:33 final size:32
Alignment explanation
Indices: 18669860--18669928 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
18669850 GATTAGCTAT
18669860 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
18669893 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
18669925 TACA
1 TACA
18669929 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:18672653 original size:7 final size:7
Alignment explanation
Indices: 18672641--18672672 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18672631 ACAAATTATT
18672641 AATATAA
1 AATATAA
18672648 AATATAA
1 AATATAA
18672655 AATATAA
1 AATATAA
18672662 AATATAA
1 AATATAA
18672669 AATA
1 AATA
18672673 ATTTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:18676692 original size:21 final size:21
Alignment explanation
Indices: 18676668--18676707 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18676658 ATTTTGCATG
18676668 CCAGCACACCAATTTTGACCA
1 CCAGCACACCAATTTTGACCA
* *
18676689 CCAGCATACCTATTTTGAC
1 CCAGCACACCAATTTTGAC
18676708 TCGCATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
CCAGCACACCAATTTTGACCA
Found at i:18679927 original size:37 final size:35
Alignment explanation
Indices: 18679864--18679955 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 35
18679854 AATTAATTAA
* *
18679864 ATTTTTAAATTTTAAAAATTCAAAAAATTATAAAAAT
1 ATTTTTAAAATTTAAAAA-TCAAAAAAATAT-AAAAT
* **
18679901 ATTTTTAAAATTTAAAAATGATAAAAAATATAATTT
1 ATTTTTAAAATTTAAAAATCA-AAAAAATATAAAAT
* *
18679937 CTTTTTAAAATTTTAAAAT
1 ATTTTTAAAATTTAAAAAT
18679956 TAATTAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
36 22 0.47
37 25 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (35 bp):
ATTTTTAAAATTTAAAAATCAAAAAAATATAAAAT
Found at i:18679931 original size:29 final size:29
Alignment explanation
Indices: 18679872--18679927 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
18679862 AAATTTTTAA
*
18679872 ATTTTAAAAATTCAAAAAATTATAAAAAT
1 ATTTTAAAAATTCAAAAAATGATAAAAAT
* *
18679901 ATTTTTAAAATT-TAAAAATGATAAAAA
1 ATTTTAAAAATTCAAAAAATGATAAAAA
18679928 ATATAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTTAAAAATTCAAAAAATGATAAAAAT
Found at i:18681896 original size:35 final size:35
Alignment explanation
Indices: 18681856--18681924 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
18681846 AACATATTTA
18681856 AATCATATTCATCATTTACCAATTAGATAAGTACC
1 AATCATATTCATCATTTACCAATTAGATAAGTACC
* *
18681891 AATCATATTCATCATTTACGAATTAGATATGTAC
1 AATCATATTCATCATTTACCAATTAGATAAGTAC
18681925 TAAAACAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (35 bp):
AATCATATTCATCATTTACCAATTAGATAAGTACC
Found at i:18683313 original size:42 final size:42
Alignment explanation
Indices: 18683213--18683339 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
18683203 CAATGGCAAC
* *
18683213 GTCCCAGACGTGGTCTTACATGAAATCAAATATCGATGTCACT
1 GTCCCAGAC-TGGTCTTACACGAAATCAAATATCGATGCCACT
* * * *
18683256 GTCCCCGGCTGGGTCTTACACGAACTCATATA-CGATGCCGA-T
1 GTCCCAGACT-GGTCTTACACGAAATCAAATATCGATGCC-ACT
*
18683298 GTCCCAGACATGGTCTTACACGTAAATCGCAA-ATCGATGCCA
1 GTCCCAGAC-TGGTCTTACACG-AAATC-AAATATCGATGCCA
18683340 ATGTTATAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
42 26 0.39
43 33 0.49
44 8 0.12
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (42 bp):
GTCCCAGACTGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:18686099 original size:25 final size:25
Alignment explanation
Indices: 18686029--18686115 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
18686019 CAAGCATGCA
* * *
18686029 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCATACGAGCTATAT
* **
18686054 AACAGGAAGCTCATATAAGCTA-AGT
1 AACGGGAAGCTCATACGAGCTATA-T
*
18686079 AACGGGAAGCTCATACGAGCTGTAT
1 AACGGGAAGCTCATACGAGCTATAT
* *
18686104 ATCAGGAAGCTC
1 AACGGGAAGCTC
18686116 TTGCAAGCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
AACGGGAAGCTCATACGAGCTATAT
Found at i:18686130 original size:25 final size:25
Alignment explanation
Indices: 18686102--18686173 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
18686092 TACGAGCTGT
*
18686102 ATATCAGGAAGCTCTTGCA-AGCCAA
1 ATATCAGGAAGCTCATG-AGAGCCAA
*
18686127 ATAT-TGAGAAGCTCATGAGAGCCAA
1 ATATCAG-GAAGCTCATGAGAGCCAA
* * *
18686152 GTATCGGGAAGCTCAAGAGAGC
1 ATATCAGGAAGCTCATGAGAGC
18686174 TGTGGTGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (25 bp):
ATATCAGGAAGCTCATGAGAGCCAA
Found at i:18697687 original size:5 final size:5
Alignment explanation
Indices: 18697677--18697703 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18697667 AAATACCATA
18697677 AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AA
18697704 ATTTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:18701409 original size:28 final size:27
Alignment explanation
Indices: 18701356--18701409 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
18701346 TTCAATTTTG
*
18701356 AAATTGAGCAAATTAGTTCCTCTCAAA
1 AAATTGAGCAAATTAGTTCCTATCAAA
*
18701383 AAATTAGAGCAATTTAG-TCCTTATCAA
1 AAATT-GAGCAAATTAGTTCC-TATCAA
18701410 TTTTAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTGAGCAAATTAGTTCCTATCAAA
Found at i:18702685 original size:9 final size:9
Alignment explanation
Indices: 18702667--18702707 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
18702657 AAATTAAATT
18702667 ATAATAAAA
1 ATAATAAAA
*
18702676 ATACTAAAA
1 ATAATAAAA
*
18702685 ATAATAACA
1 ATAATAAAA
*
18702694 ATATTAAAA
1 ATAATAAAA
18702703 ATAAT
1 ATAAT
18702708 TTATTAAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:18702690 original size:18 final size:18
Alignment explanation
Indices: 18702667--18702707 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
18702657 AAATTAAATT
18702667 ATAATAAAAATACTAAAA
1 ATAATAAAAATACTAAAA
* *
18702685 ATAATAACAATATTAAAA
1 ATAATAAAAATACTAAAA
18702703 ATAAT
1 ATAAT
18702708 TTATTAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAATAAAAATACTAAAA
Found at i:18704742 original size:13 final size:13
Alignment explanation
Indices: 18704724--18704748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18704714 ATTATTAATA
18704724 TTATTTTGTGTGT
1 TTATTTTGTGTGT
18704737 TTATTTTGTGTG
1 TTATTTTGTGTG
18704749 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:18706459 original size:41 final size:41
Alignment explanation
Indices: 18706402--18706563 Score: 245
Period size: 41 Copynumber: 4.0 Consensus size: 41
18706392 AAATTATTCA
* *
18706402 GACTATACGTCTAGCAGGCTAAGTGCCGATGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
18706443 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
18706484 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * *
18706526 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAAT
18706564 TAAACTATAA
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 111 0.98
42 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:18706590 original size:41 final size:41
Alignment explanation
Indices: 18706412--18706591 Score: 173
Period size: 41 Copynumber: 4.4 Consensus size: 41
18706402 GACTATACGT
* * ** * * *
18706412 CTAGCAGGCTAAGTGCCGATGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* * ** * * *
18706453 CTAGCAGGCTAAATGCCGGTGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
**
18706494 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* *
18706535 CTAGCAGGCTAAGTGCCGGTGAACTGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
*
18706576 CTATCAGG-TGAAGTGC
1 CTAGCAGGCT-AAGTGC
18706592 TAGTAAATCT
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 1 0.01
41 123 0.99
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
Found at i:18706590 original size:82 final size:82
Alignment explanation
Indices: 18706403--18706591 Score: 211
Period size: 82 Copynumber: 2.3 Consensus size: 82
18706393 AATTATTCAG
* * * * * *
18706403 ACTATACGTCTAGCAGGCTAAGTGCCGATGAATTGAATCGGACTATACGTCTAGCAGGCTAAATG
1 ACTATAAGCCTAGCAGGCTAAGTGCCGATGAACTGAATCGGACTACAAGCCTAGCAGGCTAAATG
* **
18706468 CCGGTGAATTGAATCGG
66 CCGGTGAACTGAATCAA
* * * *
18706485 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTACAAGCCTAGCAGGCTAAGT
1 ACTATAAGCCTAGCAGGCTAAGTGCCGATGAACTGAATC-GGACTACAAGCCTAGCAGGCTAAAT
*
18706549 GCCGGTGAACTGAATTAA
65 GCCGGTGAACTGAATCAA
*
18706567 ACTATAAGCCTATCAGG-TGAAGTGC
1 ACTATAAGCCTAGCAGGCT-AAGTGC
18706592 TAGTAAATCT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 1 0.01
82 89 0.97
83 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (82 bp):
ACTATAAGCCTAGCAGGCTAAGTGCCGATGAACTGAATCGGACTACAAGCCTAGCAGGCTAAATG
CCGGTGAACTGAATCAA
Found at i:18711611 original size:169 final size:167
Alignment explanation
Indices: 18711279--18711611 Score: 468
Period size: 167 Copynumber: 2.0 Consensus size: 167
18711269 CGGTCTGAGG
* * * *
18711279 CACGGGTGTGTCACTTGGCCGTGTGAGCCACACAGCTTCGCCATACGGGTATGTGTCCCCTATAC
1 CACGGGTGTGTCACTTGGCCGTGTGAGCCACACAGCTTAGACATACGGGCATATGTCCCCTATAC
** * **
18711344 TTTAGAAAAATTTTAAGATTTTGTGAAAATTCTCTGAGTTTTCGGTTTAGTCTCGAATTGTTTCT
66 TTTAGAAAAATTTTAAGATTTTGAAAAAATTCTCTGAGTTTCCAATTTAGTCTCGAATTGTTTCT
* *
18711409 AATATATGTTTTGGGCCTCGAGGGTTTATATAAGAGA
131 AATATATGTTTTGGGCCTCGAGGGCTCATATAAGAGA
* * * * * *
18711446 CACGGGTGTGTCACTTGGCCGTGTGAGCCATACGGCTTAGACATTCGGGCGTATGTCTCCTGTAC
1 CACGGGTGTGTCACTTGGCCGTGTGAGCCACACAGCTTAGACATACGGGCATATGTCCCCTATAC
*
18711511 TTTAGAAAAATTTTGAGATTTTGCAAAAAAATTCTCTGAGTTTCCAATTTAGTCTCGAATTGTTT
66 TTTAGAAAAATTTTAAGATTTTG--AAAAAATTCTCTGAGTTTCCAATTTAGTCTCGAATTGTTT
* *
18711576 CTAATGTATGTTTTGGGCCTTGAGGGCTCATATAAG
129 CTAATATATGTTTTGGGCCTCGAGGGCTCATATAAG
18711612 GGACGATATG
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
167 77 0.53
169 67 0.47
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (167 bp):
CACGGGTGTGTCACTTGGCCGTGTGAGCCACACAGCTTAGACATACGGGCATATGTCCCCTATAC
TTTAGAAAAATTTTAAGATTTTGAAAAAATTCTCTGAGTTTCCAATTTAGTCTCGAATTGTTTCT
AATATATGTTTTGGGCCTCGAGGGCTCATATAAGAGA
Found at i:18720579 original size:44 final size:44
Alignment explanation
Indices: 18720529--18720619 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
18720519 AATTATATTT
*
18720529 TTAATTTCCCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
1 TTAATTTCCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATA
* *
18720573 TTAATTTCCCACTTAAACTTTAATTAGTGTAGGTTATTTTAATA
1 TTAATTTCCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATA
18720617 TTA
1 TTA
18720620 TTTGACCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (44 bp):
TTAATTTCCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATA
Found at i:18723005 original size:50 final size:50
Alignment explanation
Indices: 18722938--18723067 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
18722928 AACAGCTCTT
* *
18722938 ATGAGCTTTCCGATACTCAGCTCGTATGAGCTTCCTGATACTCAGCTCGC
1 ATGAGCTTCCCGATACTCAGCTCGTATGAGCTTCCCGATACTCAGCTCGC
* * *
18722988 ATGAGCTTCCCGATACTCAGCTCGCATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGATACTCAGCTCGTATGAGCTTCCCGATACTCAGCTCGC
*
18723038 ATGAGCTTCCC-AT-TTACAGCTCGTATGAGC
1 ATGAGCTTCCCGATACT-CAGCTCGTATGAGC
18723068 ATACATGTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 15 0.21
50 56 0.78
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGAGCTTCCCGATACTCAGCTCGTATGAGCTTCCCGATACTCAGCTCGC
Found at i:18723046 original size:25 final size:25
Alignment explanation
Indices: 18722938--18723048 Score: 177
Period size: 25 Copynumber: 4.4 Consensus size: 25
18722928 AACAGCTCTT
* *
18722938 ATGAGCTTTCCGATACTCAGCTCGT
1 ATGAGCTTCCCGATACTCAGCTCGC
*
18722963 ATGAGCTTCCTGATACTCAGCTCGC
1 ATGAGCTTCCCGATACTCAGCTCGC
18722988 ATGAGCTTCCCGATACTCAGCTCGC
1 ATGAGCTTCCCGATACTCAGCTCGC
* *
18723013 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGATACTCAGCTCGC
18723038 ATGAGCTTCCC
1 ATGAGCTTCCC
18723049 ATTTACAGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 80 1.00
ACGTcount: A:0.19, C:0.32, G:0.20, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCCGATACTCAGCTCGC
Found at i:18725298 original size:44 final size:44
Alignment explanation
Indices: 18725221--18725307 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
18725211 ATGTTTTTAG
*
18725221 TTTCCCACTGAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
1 TTTCCCACTGAAACTCTGATTAGTGTAGATTATTTTAATATTAA
* * *
18725265 TTTCTCACTTAAATTCTGATTAGTGTAGATTATTTTAATATTA
1 TTTCCCACTGAAACTCTGATTAGTGTAGATTATTTTAATATTA
18725308 TTTAACCTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (44 bp):
TTTCCCACTGAAACTCTGATTAGTGTAGATTATTTTAATATTAA
Found at i:18728692 original size:30 final size:31
Alignment explanation
Indices: 18728653--18728712 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
18728643 GGAGGTGGGA
*
18728653 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
18728684 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
18728713 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:18728939 original size:9 final size:9
Alignment explanation
Indices: 18728925--18728961 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
18728915 TATAGTTTGA
18728925 TATTCGAAT
1 TATTCGAAT
18728934 TATTCGAAT
1 TATTCGAAT
*
18728943 TATTCGAGT
1 TATTCGAAT
18728952 TATTCGAAT
1 TATTCGAAT
18728961 T
1 T
18728962 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18736163 original size:6 final size:7
Alignment explanation
Indices: 18736142--18736172 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
18736132 TGATTTTAAG
18736142 TTTGTTT
1 TTTGTTT
18736149 TTTGTTT
1 TTTGTTT
18736156 TTTG-TT
1 TTTGTTT
18736162 TTTGTTT
1 TTTGTTT
18736169 TTTG
1 TTTG
18736173 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (7 bp):
TTTGTTT
Found at i:18736163 original size:13 final size:14
Alignment explanation
Indices: 18736142--18736172 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18736132 TGATTTTAAG
18736142 TTTGTTTTTTGTTT
1 TTTGTTTTTTGTTT
18736156 TTTG-TTTTTGTTT
1 TTTGTTTTTTGTTT
18736169 TTTG
1 TTTG
18736173 GTAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (14 bp):
TTTGTTTTTTGTTT
Found at i:18737553 original size:25 final size:26
Alignment explanation
Indices: 18737502--18737602 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
18737492 TCTCTTCCCT
* *
18737502 ATTTTATCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAATAAAATTTTGACG
*
18737528 ATTTTACCCCTAAT-AAATTTTAACG
1 ATTTTACCCCTAATAAAATTTTGACG
* *
18737553 ATTTTA-CTCTCAATAAAATTTTGACA
1 ATTTTACCCCT-AATAAAATTTTGACG
*
18737579 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAATAAAATTTTGA
18737603 GAAAATATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.05
25 19 0.30
26 39 0.61
27 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:18739868 original size:40 final size:40
Alignment explanation
Indices: 18739813--18739959 Score: 222
Period size: 40 Copynumber: 3.7 Consensus size: 40
18739803 ATTATATTCT
*
18739813 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTG
* * *
18739853 ATATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTG
*
18739893 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTG
* * *
18739933 CTATACCCGGGTTAAGACCCGAAGGCA
1 ATATATCCGGGCTAAGACCCGAAGGCA
18739960 ATTGTGCTTG
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAGTTG
Found at i:18739982 original size:80 final size:80
Alignment explanation
Indices: 18739813--18739966 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 80
18739803 ATTATATTCT
* *
18739813 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCAAGTTGATATATCCGGGCTAAGATCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGG
*
18739878 CATTTGTGCGAGATG
66 CAATTGTGCGAGATG
* * * *
18739893 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGG
18739958 CAATTGTGC
66 CAATTGTGC
18739967 TTGTGGTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTAGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGG
CAATTGTGCGAGATG
Found at i:18750016 original size:18 final size:17
Alignment explanation
Indices: 18749976--18750017 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
18749966 ATCGTTTCAT
18749976 TTCTTTATCTTTCTTTC
1 TTCTTTATCTTTCTTTC
*
18749993 TCTCTTTATCTTTGTATTC
1 T-TCTTTATCTTTCT-TTC
18750012 TTCTTT
1 TTCTTT
18750018 TAGTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.69
Consensus pattern (17 bp):
TTCTTTATCTTTCTTTC
Found at i:18759652 original size:18 final size:18
Alignment explanation
Indices: 18759629--18759693 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
18759619 TAAATATTTA
18759629 TATTATAGTATTATATAT
1 TATTATAGTATTATATAT
18759647 TATTATAGCT-TTAT-T-T
1 TATTATAG-TATTATATAT
*
18759663 T-TTAT-GTATTATAAAT
1 TATTATAGTATTATATAT
*
18759679 TATAATA-TA-TATATA
1 TATTATAGTATTATATA
18759694 ACATAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.13
15 4 0.11
16 9 0.24
17 6 0.16
18 12 0.32
19 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATAGTATTATATAT
Found at i:18759704 original size:21 final size:21
Alignment explanation
Indices: 18759679--18759719 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18759669 TATTATAAAT
18759679 TATAATATA-TATATAACATAA
1 TATAATATATTATA-AACATAA
*
18759700 TATAATCTATTATAAACATA
1 TATAATATATTATAAACATA
18759720 GAAAACGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAATATATTATAAACATAA
Found at i:18760621 original size:27 final size:27
Alignment explanation
Indices: 18760586--18760641 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18760576 TTTTTTAAAA
18760586 AAAAATAAAA-ATACTAGTAATTAAATT
1 AAAAATAAAATATACTAGTAATT-AATT
* *
18760613 AAAAATAAAATTTATTAGTAATTAATT
1 AAAAATAAAATATACTAGTAATTAATT
18760640 AA
1 AA
18760642 GTAGGATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATAAAATATACTAGTAATTAATT
Found at i:18766615 original size:21 final size:21
Alignment explanation
Indices: 18766590--18766629 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18766580 TAAATTATTT
* *
18766590 AATAAATGTTAAAATATAATG
1 AATAAAAGTTAAAACATAATG
18766611 AATAAAAGTTAAAACATAA
1 AATAAAAGTTAAAACATAA
18766630 AAAAAGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (21 bp):
AATAAAAGTTAAAACATAATG
Found at i:18774895 original size:25 final size:25
Alignment explanation
Indices: 18774845--18774900 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
18774835 TGTGTATATC
*
18774845 TATATATATTATAAAATATGGAAAATG
1 TATAAATATTATAAAATAT-G-AAATG
18774872 TATAAATATTATAAAAATAT-AAATG
1 TATAAATATTAT-AAAATATGAAATG
18774897 TATA
1 TATA
18774901 TACGTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
27 11 0.41
28 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (25 bp):
TATAAATATTATAAAATATGAAATG
Found at i:18775048 original size:3 final size:3
Alignment explanation
Indices: 18775040--18775131 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
18775030 TATGTATTGA
* ** * * *
18775040 AAT AAT AAT ACT AGC AAT AAA AAT AAA AAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
18775088 ACAGT AAT AAT AAT -AC AAT -AT AAC AAT ATT AAT AAT AAT AAT AA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18775132 AACTAAAATA
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
2 3 0.04
3 61 0.90
4 2 0.03
5 2 0.03
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18775121 original size:39 final size:39
Alignment explanation
Indices: 18775040--18775127 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
18775030 TATGTATTGA
*
18775040 AATAATAATACTAGCAATAAAAATAAAAATAATAATACT
1 AATAATAATACTAGCAATAAAAATAAAAATAACAATACT
* * * *
18775079 AATAATAATAC-AGTAATAATAATACAATATAACAATATT
1 AATAATAATACTAGCAATAAAAATA-AAAATAACAATACT
18775118 AATAATAATA
1 AATAATAATA
18775128 ATAAAACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 11 0.26
39 32 0.74
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.28
Consensus pattern (39 bp):
AATAATAATACTAGCAATAAAAATAAAAATAACAATACT
Found at i:18776565 original size:130 final size:130
Alignment explanation
Indices: 18776359--18776780 Score: 602
Period size: 130 Copynumber: 3.3 Consensus size: 130
18776349 TAGTGCTTCG
* * * * **
18776359 ATCCACTCCACTGCAACATCAGGGAGATAGGA-TTGGTTTCCTTT-GTCTGTTCCACTGCAACTT
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTTGG-ATGCTTTAATCTACTCCACTGCAACTT
* * *
18776422 CAGGG-AGATAAGACTAGATGA-GATCTGCTCTCTGTAACCTCAGAAAAATAAGATCTGAATGTT
65 CAGGGAAG-TAAGACTAGAT-ATGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGTATGTT
18776485 TTA
128 TTA
* **
18776488 ATCCACTCCACTGCCACTTCAAAGAGATAGGATTTGGATGCTTTAATCTACTCCACTGCAACTTC
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTTGGATGCTTTAATCTACTCCACTGCAACTTC
* * *
18776553 AGGGAAGTAAGACTAGATATGATCTGCGCTCTACAACCTCAGAAAGATAAGATCTGTGTGTTTTA
66 AGGGAAGTAAGACTAGATATGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGTATGTTTTA
* * * *
18776618 ATACACTCTACTGCAACTTCAGGGAGATATGATTTGGATGTTTTAATCTACTCCACTGCAACTTC
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTTGGATGCTTTAATCTACTCCACTGCAACTTC
*
18776683 AGGGAAGTAAGACTAGATATGATCTGCTCTCTGCAACCTCAG-AAGATAAGATCTGTATTTTTTA
66 AGGGAAGTAAGACTAGATATGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGTATGTTTTA
18776747 ATCCACTCCACTGCAACTTCAGGGAGATAGGATT
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATT
18776781 GGTTTCTTTT
Statistics
Matches: 260, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
129 85 0.33
130 173 0.67
131 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTTGGATGCTTTAATCTACTCCACTGCAACTTC
AGGGAAGTAAGACTAGATATGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGTATGTTTTA
Done.