Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 43
Found at i:3472829 original size:44 final size:44
Alignment explanation
Indices: 3472617--3472830 Score: 155
Period size: 44 Copynumber: 4.9 Consensus size: 44
3472607 TAAAAATGTC
* * * * * *
3472617 GATCCATCTCCTTCTGTGATGGAATCGAACGAGATATTGGTGCT
1 GATCCACCTCCTTCTGTGATGGATTCGAGCAAAATGTTGGTGCT
* * * * **
3472661 GATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCT
1 GATCCACCTCCTTCTGTGATGGATTCGAGCAAAATGTTGGTGCT
* * * * ***
3472705 GATCCAACTCATTCTGCGATGGATTTGAGGCAAAAAAAAT-GT-C-
1 GATCCACCTCCTTCTGTGATGGATTCGA-GC-AAAATGTTGGTGCT
* * * * *
3472748 AATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGCT
1 GATCCACCTCCTTCTGTGATGGATTCGAGCAAAATGTTGGTGCT
* *
3472792 GATCTACCTCCTTCTGTGATAGATTCGAGCAAAATGTTG
1 GATCCACCTCCTTCTGTGATGGATTCGAGCAAAATGTTG
3472831 AACAATCTCT
Statistics
Matches: 125, Mismatches: 40, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 23 0.18
44 88 0.70
45 2 0.02
46 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATGGATTCGAGCAAAATGTTGGTGCT
Found at i:3473281 original size:21 final size:21
Alignment explanation
Indices: 3473248--3473363 Score: 102
Period size: 21 Copynumber: 5.8 Consensus size: 21
3473238 GTTTCAAGGG
*
3473248 AAACT-ATCTCAAGATAGACA
1 AAACTCATCTCAAGAGAGACA
*
3473268 AAACTCATTTCAAG-G-G---
1 AAACTCATCTCAAGAGAGACA
*
3473284 AAACT-GTCTCAAGAGAGACA
1 AAACTCATCTCAAGAGAGACA
* *
3473304 AAACTCGTTTCAAGAGAGACA
1 AAACTCATCTCAAGAGAGACA
3473325 AAACTCGATCTCAAGAGAGACA
1 AAACTC-ATCTCAAGAGAGACA
* * *
3473347 AAATTCATTTTAAGAGA
1 AAACTCATCTCAAGAGA
3473364 AACTGTCTCA
Statistics
Matches: 78, Mismatches: 10, Indels: 15
0.76 0.10 0.15
Matches are distributed among these distances:
15 6 0.08
16 6 0.08
17 1 0.01
19 1 0.01
20 10 0.13
21 36 0.46
22 18 0.23
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (21 bp):
AAACTCATCTCAAGAGAGACA
Found at i:3473282 original size:36 final size:36
Alignment explanation
Indices: 3473239--3473382 Score: 148
Period size: 36 Copynumber: 3.9 Consensus size: 36
3473229 ACATTTCTTG
*
3473239 TTTCAAGGGAAACTATCTCAAGATAGACAAAACTCA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCA
* *
3473275 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCA
*
3473311 TTTCAAGAGAGACAAAACTCGATCTCAAGAGAGACAAAATTCA
1 TTTCAAG-G-G---AAACT--ATCTCAAGAGAGACAAAACTCA
* * *
3473354 TTTTAAGAGAAACTGTCTCAA-A-AGACAAA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAA
3473383 CTTTGTTTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
34 7 0.08
35 1 0.01
36 46 0.50
37 1 0.01
38 6 0.07
41 6 0.07
43 25 0.27
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCA
Found at i:3473480 original size:37 final size:36
Alignment explanation
Indices: 3473413--3473484 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
3473403 ACTCAGGCTT
*
3473413 TTGTTTTGAGAGAAACAGTCTCAAAAGAGACAAAAC
1 TTGTTTTGAGAAAAACAGTCTCAAAAGAGACAAAAC
** **
3473449 TTGTTTTGAGTAAAAATTGTCTCAAGTGAGACAAAA
1 TTGTTTTGAG-AAAAACAGTCTCAAAAGAGACAAAA
3473485 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 10 0.33
37 20 0.67
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (36 bp):
TTGTTTTGAGAAAAACAGTCTCAAAAGAGACAAAAC
Found at i:3474245 original size:263 final size:263
Alignment explanation
Indices: 3473592--3474281 Score: 929
Period size: 264 Copynumber: 2.6 Consensus size: 263
3473582 ACTCGAAGGG
* * * * * * * *
3473592 CTTATCATCTTGCTCGAAAGACTTGTAG-TTAGCCTGAAGAACTTACGCATCATACTCGAAAGTC
1 CTTATCATCTTGCTCGAAAGACTTATAGATGA-CCCGAAGGATTTAAGCATCATGCTCGAAAGAC
* * * *
3473656 TTACTGATGGTCTGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTCAGTTTCTTAGTT
65 TTACTGATGGCCTGAAGGACTTACTCATCACGAAACCCTTGAAAATAAAGCTTAGTTTCTTAGTT
* * * * *
3473721 GTAATTAAGGAACCCCCTACATATCA-AGTTGGTCTATCGAGTGAGGTGACGATGATTCAACTCT
130 GTCATCAAGGAA-CCCCTACATATCACA-TTGGTCCATCGAGTGAGGTGACGATAATTCAACTCC
* * * *
3473785 ATATGTGATGAATCAAGTACAAGAAATGTTTAAAACACCCTGCACGAAGGTCTTATGGATGGCCC
193 ATATGGGATGAATCAAGTACAAGAAATGTTAAAAACACCCTGCACAAAGGTCATATGGATGGCCC
*
3473850 GAAGGA
258 GAAGAA
* * * *
3473856 CCTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCAAGCTCAAAAGACT
1 CTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACT
*
3473921 TACTGATGGCCTGCAGGACTTACTCATCACGAAACCCTTGAAAATAAAGCTTAGTTTCTTAGTTG
66 TACTGATGGCCTGAAGGACTTACTCATCACGAAACCCTTGAAAATAAAGCTTAGTTTCTTAGTTG
**
3473986 TCATCAAGGAACCCCTTACATATCACATTGGTCCATCGAGTGAGGTGGTGATAATTCAACTCCAT
131 TCATCAAGGAACCCC-TACATATCACATTGGTCCATCGAGTGAGGTGACGATAATTCAACTCCAT
* *
3474051 ATGGGATGAATCAAGTACCAGAAATGTTAAAAACACCCTGTC-CAAAGGTCATATGGATGG-CGG
195 ATGGGATGAATCAAGTACAAGAAATGTTAAAAACACCCTG-CACAAAGGTCATATGGATGGCCCG
3474114 AAGAA
259 AAGAA
* *
3474119 CTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGTATCATGTTCGAAAGACT
1 CTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACT
* * ** * * * *
3474184 TACTAATAGCCCAAATGACTTACTTATCACGAAACCCTTGAAAATAAAACTTAGTTTCTTAGTTT
66 TACTGATGGCCTGAAGGACTTACTCATCACGAAACCCTTGAAAATAAAGCTTAGTTTCTTAGTTG
*
3474249 TCATCAAGGAACCCCTACATATCACGTTGGTCC
131 TCATCAAGGAACCCCTACATATCACATTGGTCC
3474282 CTCTAGTTGT
Statistics
Matches: 375, Mismatches: 47, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
262 17 0.05
263 140 0.37
264 214 0.57
265 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (263 bp):
CTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACT
TACTGATGGCCTGAAGGACTTACTCATCACGAAACCCTTGAAAATAAAGCTTAGTTTCTTAGTTG
TCATCAAGGAACCCCTACATATCACATTGGTCCATCGAGTGAGGTGACGATAATTCAACTCCATA
TGGGATGAATCAAGTACAAGAAATGTTAAAAACACCCTGCACAAAGGTCATATGGATGGCCCGAA
GAA
Found at i:3474349 original size:43 final size:43
Alignment explanation
Indices: 3474249--3474504 Score: 397
Period size: 43 Copynumber: 6.0 Consensus size: 43
3474239 TTCTTAGTTT
*
3474249 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCTAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
***
3474291 TCATCAAGGAACCCCTACATATTGTGTTGGTCCCTCAAGCTTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
*
3474334 TCATCAAGGATCCCCTACATATCACGTTGGTCCCTCAAGCTTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* * *
3474377 TCATCAAGGAACCCCTACATATCATGTTGGTCCCTCCATCTTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
*
3474420 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAACCTTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* **
3474463 TCATCAAGGAACCTCTTTATATCACGTTGGTCCCTCAAGCTT
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTT
3474505 AGTTTCTTAT
Statistics
Matches: 194, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
42 35 0.18
43 159 0.82
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (43 bp):
TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
Found at i:3476514 original size:26 final size:26
Alignment explanation
Indices: 3476485--3476539 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
3476475 GATCTGACTA
*
3476485 TTTTCTTCTTTCTTCT-TTTTTTTTTCT
1 TTTTCTT-TTTCTT-TGTTGTTTTTTCT
3476512 TTTTCTTTTTCTTTGTTGTTTTTTCT
1 TTTTCTTTTTCTTTGTTGTTTTTTCT
3476538 TT
1 TT
3476540 CTTTCTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 1 0.04
26 18 0.69
27 7 0.27
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.82
Consensus pattern (26 bp):
TTTTCTTTTTCTTTGTTGTTTTTTCT
Found at i:3476517 original size:17 final size:18
Alignment explanation
Indices: 3476485--3476521 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3476475 GATCTGACTA
3476485 TTTTCTTCTTTCTTCTTT
1 TTTTCTTCTTTCTTCTTT
*
3476503 TTTTTTTCTTT-TTCTTT
1 TTTTCTTCTTTCTTCTTT
3476520 TT
1 TT
3476522 CTTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTCTTCTTTCTTCTTT
Found at i:3476810 original size:2 final size:2
Alignment explanation
Indices: 3476803--3476837 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3476793 ACAACAATGA
3476803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3476838 AGGATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3484086 original size:77 final size:77
Alignment explanation
Indices: 3483950--3484100 Score: 212
Period size: 77 Copynumber: 2.0 Consensus size: 77
3483940 TTCTATCATC
* * * **
3483950 GAGAATCGAAAGTGCTACGCCTCCCTTCATTCTACTTGAATCGAAAGTGTGATGCTTCCTTCTGT
1 GAGAATCAAAAGTGCTACGCCTCCATTCATTCTACTTAAATCGAAAGTACGATGCTTCCTTCTGT
3484015 TCTACTTTAGAT
66 TCTACTTTAGAT
* * * *
3484027 GAGAATCAAAAGTGCTATGTCTCCATTCGTTCTACTTAAATCGAAAGTACGATGTTTCCTTCTGT
1 GAGAATCAAAAGTGCTACGCCTCCATTCATTCTACTTAAATCGAAAGTACGATGCTTCCTTCTGT
*
3484092 TTTACTTTA
66 TCTACTTTA
3484101 TTCACCTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (77 bp):
GAGAATCAAAAGTGCTACGCCTCCATTCATTCTACTTAAATCGAAAGTACGATGCTTCCTTCTGT
TCTACTTTAGAT
Found at i:3498407 original size:23 final size:23
Alignment explanation
Indices: 3498372--3498415 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3498362 ATTGATATGC
* *
3498372 ATCATTTATATTGTATTATCCTT
1 ATCATTAAGATTGTATTATCCTT
3498395 ATCATTAAGATTGTATTATCC
1 ATCATTAAGATTGTATTATCC
3498416 ATAAAGTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.50
Consensus pattern (23 bp):
ATCATTAAGATTGTATTATCCTT
Found at i:3502948 original size:103 final size:104
Alignment explanation
Indices: 3502768--3502954 Score: 234
Period size: 103 Copynumber: 1.8 Consensus size: 104
3502758 TATTTGCTGA
* * *
3502768 AGATGATGTTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATTTAGTGTTGAAGAT
1 AGATGATGTTGTACCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATCTAGTGTTGAAGAC
* **
3502833 GACACTGTTCATCCATGTTTAAGAGTTTTGGCCGCTTTT
66 AACACTACTCATCCATGTTTAAGAGTTTTGGCCGCTTTT
** * * * * *
3502872 AGATGATGTTGTACCTT-TTTTTGAGGAAGTCTA-GTCATTCTGGAGATAATCTGGTGTTTAAGA
1 AGATGATGTTGTACCTTCTCGTTGAGGAAATC-AGGTCAATCTGAAGATAATCTAGTGTTGAAGA
3502935 CAACACTACTCATCCATGTT
65 CAACACTACTCATCCATGTT
3502955 GGAGAGTTCT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
103 52 0.75
104 17 0.25
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (104 bp):
AGATGATGTTGTACCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATCTAGTGTTGAAGAC
AACACTACTCATCCATGTTTAAGAGTTTTGGCCGCTTTT
Found at i:3502973 original size:103 final size:104
Alignment explanation
Indices: 3502768--3502980 Score: 232
Period size: 103 Copynumber: 2.1 Consensus size: 104
3502758 TATTTGCTGA
* * *
3502768 AGATGATGTTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATTTAGTGTTGAAGAT
1 AGATGATGTTGTACCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATCTAGTGTTGAAGAC
* ** * * * *
3502833 GACACTGTTCATCCATGTTTAAGAGTTTTGGCCGCTTTT
66 AACACTACTCATCCATGTTGAAGAGTTCTAGCAGCTTTT
** * * * * *
3502872 AGATGATGTTGTACCTT-TTTTTGAGGAAGTCTA-GTCATTCTGGAGATAATCTGGTGTTTAAGA
1 AGATGATGTTGTACCTTCTCGTTGAGGAAATC-AGGTCAATCTGAAGATAATCTAGTGTTGAAGA
*
3502935 CAACACTACTCATCCATGTTGGAGAGTTCTAGCAGCTTTT
65 CAACACTACTCATCCATGTTGAAGAGTTCTAGCAGCTTTT
*
3502975 ATATGA
1 AGATGA
3502981 CATTGTTCCT
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
103 72 0.81
104 17 0.19
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (104 bp):
AGATGATGTTGTACCTTCTCGTTGAGGAAATCAGGTCAATCTGAAGATAATCTAGTGTTGAAGAC
AACACTACTCATCCATGTTGAAGAGTTCTAGCAGCTTTT
Found at i:3515590 original size:32 final size:32
Alignment explanation
Indices: 3515549--3515687 Score: 129
Period size: 32 Copynumber: 4.4 Consensus size: 32
3515539 ACTTATGTGT
* *
3515549 ATTATCTGAATGCAACACTGACTCTGCTATTC
1 ATTATCTGAATGCAACACTGACTCTACTATGC
* * * *
3515581 ATTAACTGAATGCAATACTAAGTCTACTGA-GC
1 ATTATCTGAATGCAACACTGACTCTACT-ATGC
**** * * *
3515613 ATTATCT-AATGTGGTACTGATTATGCTATGC
1 ATTATCTGAATGCAACACTGACTCTACTATGC
3515644 ATTATCTGAATGCAACACTGACTCTACTATGC
1 ATTATCTGAATGCAACACTGACTCTACTATGC
*
3515676 ATTATATGAATG
1 ATTATCTGAATG
3515688 TAATACTAAT
Statistics
Matches: 82, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.01
31 22 0.27
32 58 0.71
33 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (32 bp):
ATTATCTGAATGCAACACTGACTCTACTATGC
Found at i:3516422 original size:9 final size:9
Alignment explanation
Indices: 3516410--3516452 Score: 77
Period size: 9 Copynumber: 4.7 Consensus size: 9
3516400 GAATTCGGTT
3516410 AATTAACCG
1 AATTAACCG
3516419 AATTAACCG
1 AATTAACCG
3516428 AATTAACCG
1 AATTAACCG
3516437 AATTAACCG
1 AATTAACCG
3516446 AAATTAA
1 -AATTAA
3516453 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:3516775 original size:184 final size:185
Alignment explanation
Indices: 3516458--3516805 Score: 601
Period size: 184 Copynumber: 1.9 Consensus size: 185
3516448 ATTAAATTTT
* *
3516458 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
3516523 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
3516588 TTATTTTATAATTATATATTATTT-AAATTAATTGTAAACTGTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAAATTAATTGTAAACTGTTTTTTAATTAAA
* **
3516642 AAATATTAAATATATTATATATAACATTTGGGCTAAGCCCAAACAATTTAAAATTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
* * *
3516707 TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAA-TT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATAT-AAATTT
3516771 TTTATTTTATAATTATATATTATTTAAAATTAATT
130 TTTATTTTATAATTATATATTATTTAAAATTAATT
3516806 ATACATTTTT
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
184 142 0.92
185 12 0.08
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAATTTT
TTATTTTATAATTATATATTATTTAAAATTAATTGTAAACTGTTTTTTAATTAAA
Found at i:3516832 original size:184 final size:183
Alignment explanation
Indices: 3516452--3516845 Score: 596
Period size: 184 Copynumber: 2.1 Consensus size: 183
3516442 ACCGAAATTA
* * *
3516452 AATTTTAAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAAT
1 AATTATAAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAAT
3516517 TAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATA
66 TAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATA
*
3516582 AATTTTTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTT
131 AATTTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
* * **
3516635 AATTAAAAAATATTAAATATATTATATATAACATTTGGGCTAAGCCCAAACAATTTAAAATTCAA
1 AATT-ATAAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAA
* * *
3516700 TTAATAATTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAATTTATCT
65 TTAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATAT
* *
3516765 GAAA-TTTTTATTTTATAATTATATATTATTTAAAATTAATTATACA-TTTTTTTT
130 -AAATTTTTTATTTTATAATTATATATTATTT-AAATTAATTATAAACTGTTTTTT
* *
3516819 GAATTATAAATATTTAAT-TTTTATATA
1 -AATTATAAATATTAAATATATTATATA
3516846 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
183 12 0.06
184 160 0.84
185 19 0.10
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (183 bp):
AATTATAAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAAT
TAATAATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATA
AATTTTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
Found at i:3521096 original size:22 final size:22
Alignment explanation
Indices: 3521071--3521130 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
3521061 GTACTGGATA
*
3521071 AACAATATTGATACTAAGCAAG
1 AACAATATCGATACTAAGCAAG
* *
3521093 AACAATATCGATACT-A-TATG
1 AACAATATCGATACTAAGCAAG
3521113 AACAATATCGATACTAAG
1 AACAATATCGATACTAAG
3521131 TGCACAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (22 bp):
AACAATATCGATACTAAGCAAG
Found at i:3525320 original size:15 final size:15
Alignment explanation
Indices: 3525302--3525332 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3525292 TTCCATTTCC
*
3525302 TTATTTTCTTTATCT
1 TTATTTTCTTGATCT
3525317 TTATTTTCTTGATCT
1 TTATTTTCTTGATCT
3525332 T
1 T
3525333 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.71
Consensus pattern (15 bp):
TTATTTTCTTGATCT
Found at i:3526896 original size:18 final size:18
Alignment explanation
Indices: 3526873--3526907 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3526863 ACTATATTAA
3526873 CATGGTATCGATACCATG
1 CATGGTATCGATACCATG
3526891 CATGGTATCGATACCAT
1 CATGGTATCGATACCAT
3526908 TTTGAGGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
CATGGTATCGATACCATG
Found at i:3526955 original size:20 final size:20
Alignment explanation
Indices: 3526930--3526973 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3526920 TAAGCACGGC
3526930 ATCGATACTGCCTTAGCAGT
1 ATCGATACTGCCTTAGCAGT
*
3526950 ATCGATACTGCCTTAGTAGT
1 ATCGATACTGCCTTAGCAGT
3526970 ATCG
1 ATCG
3526974 GTATTACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
ATCGATACTGCCTTAGCAGT
Found at i:3528886 original size:40 final size:39
Alignment explanation
Indices: 3528842--3528917 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
3528832 CTATGTTGGA
3528842 GCTATTACCAACATCACCCAAATTATTCCCTAAGATTATG
1 GCTATTACCAACATCACCCAAATTATT-CCTAAGATTATG
* * *
3528882 GCTATTACCAGCATTACCCAACTTATTCCTAAGATT
1 GCTATTACCAACATCACCCAAATTATTCCTAAGATT
3528918 TATCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 9 0.27
40 24 0.73
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (39 bp):
GCTATTACCAACATCACCCAAATTATTCCTAAGATTATG
Found at i:3533824 original size:77 final size:81
Alignment explanation
Indices: 3533668--3533817 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 81
3533658 AATATAGTAG
* *
3533668 ATAAGCATTAAAAGAATGTAATTTAGTTTACAACTCTTTTAATTGATATATATAATTTGAAATAA
1 ATAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGAAATAA
*
3533733 TTATATAAGTTTTTAA
66 TTAAATAAGTTTTTAA
* * * * *
3533749 ATAAACATT-AAAGATTGTAATTTAGATTATAAGTC-TTTAA-TG-TATATTTAATTTGAATTAA
1 ATAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGAAATAA
3533810 TTAAATAA
66 TTAAATAA
3533818 TATTTTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 24 0.39
78 2 0.03
79 5 0.08
80 22 0.36
81 8 0.13
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (81 bp):
ATAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTTGAAATAA
TTAAATAAGTTTTTAA
Found at i:3546883 original size:19 final size:19
Alignment explanation
Indices: 3546859--3546896 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3546849 CTTTAATTGA
3546859 CATCTAAATT-TTGATAAGG
1 CATCT-AATTGTTGATAAGG
*
3546878 CATCTAGTTGTTGATAAGG
1 CATCTAATTGTTGATAAGG
3546897 ATTTATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
CATCTAATTGTTGATAAGG
Found at i:3548909 original size:22 final size:22
Alignment explanation
Indices: 3548881--3548931 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
3548871 TGATAGGCTA
3548881 GTATTGCAGTTCATGCTAAGAG
1 GTATTGCAGTTCATGCTAAGAG
*
3548903 GTATTGCAGTTCATGCTGAGAG
1 GTATTGCAGTTCATGCTAAGAG
3548925 GTATTGC
1 GTATTGC
3548932 CGTAGCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (22 bp):
GTATTGCAGTTCATGCTAAGAG
Found at i:3553658 original size:23 final size:23
Alignment explanation
Indices: 3553632--3553677 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3553622 AAATACTTAG
3553632 TGAACAAGAAAGATACCAAACCT
1 TGAACAAGAAAGATACCAAACCT
3553655 TGAACAAGAAAGATACCAAACCT
1 TGAACAAGAAAGATACCAAACCT
3553678 AGACTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.13, T:0.13
Consensus pattern (23 bp):
TGAACAAGAAAGATACCAAACCT
Found at i:3555559 original size:20 final size:20
Alignment explanation
Indices: 3555506--3555560 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
3555496 CACCCACTTT
* *
3555506 TTTTATCTCTTTTTCTTTAC
1 TTTTCTCTCTATTTCTTTAC
** *
3555526 TTCACTCT-TATTTCTTTAG
1 TTTTCTCTCTATTTCTTTAC
3555545 TTTTCTCTCTATTTCT
1 TTTTCTCTCTATTTCT
3555561 CATTCTTTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTCTCTCTATTTCTTTAC
Found at i:3578714 original size:24 final size:24
Alignment explanation
Indices: 3578687--3578743 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
3578677 CATCAACAAT
3578687 AGTTTACATGCAAACAATGTTAGC
1 AGTTTACATGCAAACAATGTTAGC
*
3578711 AGTTTACATGCAAATAATGTTAGC
1 AGTTTACATGCAAACAATGTTAGC
3578735 AGTTTACAT
1 AGTTTACAT
3578744 AATGTTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (24 bp):
AGTTTACATGCAAACAATGTTAGC
Found at i:3578775 original size:49 final size:49
Alignment explanation
Indices: 3578713--3578827 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 49
3578703 ATGTTAGCAG
* * *
3578713 TTTACATGCAAATAATGT-TAGCAGTTTACATAATGTTCATCAGCAACAA
1 TTTACATGCAAATAAT-TATAACAGTTTACATAATGTTCAACAACAACAA
* * *
3578762 TTTAAATGCAAATAATTATAATAGTTTACATAATGTTCAACAATAACAA
1 TTTACATGCAAATAATTATAACAGTTTACATAATGTTCAACAACAACAA
*
3578811 TTTACATGCAAACAATT
1 TTTACATGCAAATAATT
3578828 TTACCTTGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTACATGCAAATAATTATAACAGTTTACATAATGTTCAACAACAACAA
Found at i:3581786 original size:30 final size:30
Alignment explanation
Indices: 3581731--3581826 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 30
3581721 TTAGATAAAT
* *
3581731 TATTTTATCTATAGTTTTGGGGTTAAATTAA
1 TATTTTATCTA-AATTTTAGGGTTAAATTAA
* *
3581762 TATTTTATCTAAATTTTAGGGTTAAACTAG
1 TATTTTATCTAAATTTTAGGGTTAAATTAA
*
3581792 T-TTTTAATCTAAAATTTAAGGGTT-AATTAA
1 TATTTT-ATCT-AAATTTTAGGGTTAAATTAA
*
3581822 AATTT
1 TATTT
3581827 AACCATTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.07
30 24 0.44
31 26 0.48
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.49
Consensus pattern (30 bp):
TATTTTATCTAAATTTTAGGGTTAAATTAA
Found at i:3581828 original size:30 final size:30
Alignment explanation
Indices: 3581750--3581828 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
3581740 TATAGTTTTG
* *
3581750 GGGTTAAATTAATATTTTATCTAAATTTTA
1 GGGTTAAATTAATATTTAATCTAAATTTAA
* * *
3581780 GGGTTAAACTAGTTTTTAATCTAAAATTTAA
1 GGGTTAAATTAATATTTAATCT-AAATTTAA
*
3581811 GGGTT-AATTAAAATTTAA
1 GGGTTAAATTAATATTTAA
3581829 CCATTTTTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 27 0.69
31 12 0.31
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (30 bp):
GGGTTAAATTAATATTTAATCTAAATTTAA
Found at i:3582915 original size:2 final size:2
Alignment explanation
Indices: 3582908--3582954 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3582898 CACATGCATC
3582908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3582950 AT AT A
1 AT AT A
3582955 AAGGTAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3583321 original size:17 final size:17
Alignment explanation
Indices: 3583283--3583327 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3583273 GATTGAATTC
* *
3583283 GATTCAAGTTTGAACTT
1 GATTTAAGTTCGAACTT
3583300 GATTTAAGTTCGAACTT
1 GATTTAAGTTCGAACTT
*
3583317 GATTTGAGTTC
1 GATTTAAGTTC
3583328 TTAACTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (17 bp):
GATTTAAGTTCGAACTT
Found at i:3584400 original size:60 final size:59
Alignment explanation
Indices: 3584287--3584400 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
3584277 TAGAATATTT
* * * * *
3584287 AAAAGTTTGGGGATAATTTAGATTGAAGATTATAGTTTAAGGATGTGATTGAAATGTTC
1 AAAAGTTTGGGGATAACTAAGAATGAAGATCATAGTTTAAGGATGTGAATGAAATGTTC
3584346 AAAAGTTTGGGGACTAACTAAGAATGATA-ATCATAGTTTAAGGATGAT-AATGAAA
1 AAAAGTTTGGGGA-TAACTAAGAATGA-AGATCATAGTTTAAGGATG-TGAATGAAA
3584401 CATTGCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 13 0.28
60 32 0.68
61 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (59 bp):
AAAAGTTTGGGGATAACTAAGAATGAAGATCATAGTTTAAGGATGTGAATGAAATGTTC
Found at i:3584834 original size:15 final size:16
Alignment explanation
Indices: 3584794--3584836 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
3584784 GATACAGAGC
3584794 CTTGAATCATTCAGCA
1 CTTGAATCATTCAGCA
* *
3584810 TTTGAATCATTCAGCG
1 CTTGAATCATTCAGCA
3584826 CTT-AATCATTC
1 CTTGAATCATTC
3584837 TAAAGTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (16 bp):
CTTGAATCATTCAGCA
Found at i:3584969 original size:18 final size:18
Alignment explanation
Indices: 3584948--3584986 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3584938 GTTTAAATTT
* *
3584948 TTTTTAATTCGAATTGAA
1 TTTTAAATTCGAATTAAA
*
3584966 TTTTAAATTTGAATTAAA
1 TTTTAAATTCGAATTAAA
3584984 TTT
1 TTT
3584987 AATAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTTAAATTCGAATTAAA
Found at i:3585016 original size:26 final size:26
Alignment explanation
Indices: 3584964--3585016 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3584954 ATTCGAATTG
* * *
3584964 AATTTTAAATTTGAATTAAATTTAAT
1 AATTTTAAAATTGAATTAAACTCAAT
3584990 AATTTTAAAATTGAATTAAACTCAAT
1 AATTTTAAAATTGAATTAAACTCAAT
3585016 A
1 A
3585017 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTTTAAAATTGAATTAAACTCAAT
Found at i:3589074 original size:21 final size:22
Alignment explanation
Indices: 3589043--3589085 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3589033 CTAAAAAGAT
3589043 GAGAAGAGAAG-TAGCTGCTATG
1 GAGAAGAGAAGTTA-CTGCTATG
3589065 GAGAA-AGAAGTTACTGCTATG
1 GAGAAGAGAAGTTACTGCTATG
3589086 CGTGTAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (22 bp):
GAGAAGAGAAGTTACTGCTATG
Found at i:3598241 original size:80 final size:82
Alignment explanation
Indices: 3598041--3598234 Score: 248
Period size: 80 Copynumber: 2.4 Consensus size: 82
3598031 ATAGTAACTG
* * *
3598041 TAGTACTTTAGCGGCGTTTGTATAAAAATGCCGCAATTTGGTTCATCTATAATGGCGTTTTTTCA
1 TAGTACTTTAGCGGCGTTTGTATAAAAATACCGCAA-TAGGTTCATCTATAATGGCGTTTCTTCA
*
3598106 ACAAACGCCGCAACAGTT
65 ACAAACGCCGCAACAGAT
* * * * *
3598124 TAGTACTTTAGTGGCGTTTTTATACAAACACCGCAATAGGTTCAT-TATAGTGGCGTTTCTT-AA
1 TAGTACTTTAGCGGCGTTTGTATAAAAATACCGCAATAGGTTCATCTATAATGGCGTTTCTTCAA
* **
3598187 CAAATGCCGTGACAGAT
66 CAAACGCCGCAACAGAT
*
3598204 TAGTACTTTAGCGGCGTTTGTAAAAAAATAC
1 TAGTACTTTAGCGGCGTTTGTATAAAAATAC
3598235 TACAATAAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 41 0.44
81 14 0.15
82 8 0.09
83 31 0.33
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (82 bp):
TAGTACTTTAGCGGCGTTTGTATAAAAATACCGCAATAGGTTCATCTATAATGGCGTTTCTTCAA
CAAACGCCGCAACAGAT
Found at i:3598614 original size:35 final size:35
Alignment explanation
Indices: 3598575--3598645 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
3598565 GATATAGAGA
*
3598575 GTGGATTTCCAGA-GATTATTCTAGAGAGGCGGACT
1 GTGGATTTCCA-ATGATTATTCCAGAGAGGCGGACT
3598610 GTGGATTTCCAATGATTATTCCAGAGAGGCGGACT
1 GTGGATTTCCAATGATTATTCCAGAGAGGCGGACT
3598645 G
1 G
3598646 ATTATTCTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.28
Consensus pattern (35 bp):
GTGGATTTCCAATGATTATTCCAGAGAGGCGGACT
Found at i:3602322 original size:112 final size:112
Alignment explanation
Indices: 3602086--3602305 Score: 345
Period size: 112 Copynumber: 2.0 Consensus size: 112
3602076 ACATGTCAGT
* * *
3602086 TTTGACCACAAGACAACTACTTTATGGATCTTTCTCTTCAATTTCTATTGTGCATACTCCATCTT
1 TTTGCCCACAAGACAACTACTTTATAGATCTTTCTCTTCAATTTCTATTGTGCATACTCCACCTT
3602151 TGCCTTAACTTCTCAAACCCCATTATTTCTCTTCAATCCCTACACCG
66 TGCCTTAACTTCTCAAACCCCATTATTTCTCTTCAATCCCTACACCG
* *
3602198 TTTGCCCACAAGACAACTACTTTATATATCTTTCTCTTCAATTTCTATTGTGCATTCTCCACCTT
1 TTTGCCCACAAGACAACTACTTTATAGATCTTTCTCTTCAATTTCTATTGTGCATACTCCACCTT
* *
3602263 T-CCTTTAAC-TCGTCAAGCCCCATTATTTTTCTTCAATCCCTAC
66 TGCC-TTAACTTC-TCAAACCCCATTATTTCTCTTCAATCCCTAC
3602306 GTCTTTATTT
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
111 4 0.04
112 95 0.96
ACGTcount: A:0.23, C:0.30, G:0.06, T:0.40
Consensus pattern (112 bp):
TTTGCCCACAAGACAACTACTTTATAGATCTTTCTCTTCAATTTCTATTGTGCATACTCCACCTT
TGCCTTAACTTCTCAAACCCCATTATTTCTCTTCAATCCCTACACCG
Found at i:3604766 original size:21 final size:21
Alignment explanation
Indices: 3604727--3604767 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3604717 GTAAAAAAAT
* *
3604727 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
3604748 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
3604768 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:3604816 original size:21 final size:20
Alignment explanation
Indices: 3604791--3604856 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
3604781 AGTGCACAAC
*
3604791 AATAACAAAATCGATAGAAAA
1 AATAACAAAATCG-TAGAAAT
**
3604812 AATAACTAAAA-CGT-CCAAT
1 AATAAC-AAAATCGTAGAAAT
3604831 AATAACAAAATCGGTAGAAAT
1 AATAACAAAATC-GTAGAAAT
3604852 AATAA
1 AATAA
3604857 TGTTTCCGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 4 0.11
19 9 0.25
20 3 0.08
21 16 0.44
22 4 0.11
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (20 bp):
AATAACAAAATCGTAGAAAT
Found at i:3606053 original size:3 final size:3
Alignment explanation
Indices: 3606045--3606137 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
3606035 TACCATGTGT
3606045 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3606093 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3606138 ATCATCATGC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3606640 original size:15 final size:15
Alignment explanation
Indices: 3606622--3606667 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
3606612 AATGAAAATG
3606622 AAAAAATAATAATAT
1 AAAAAATAATAATAT
*
3606637 AAAAAATAATAAAAT
1 AAAAAATAATAATAT
*
3606652 AATAATATTAATAATA
1 AA-AA-AATAATAATA
3606668 AATAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 16 0.62
16 2 0.08
17 8 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATAATAATAT
Found at i:3606642 original size:23 final size:23
Alignment explanation
Indices: 3606616--3606686 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
3606606 AATAAAAATG
3606616 AAAATGAA-AAAATAATAATATAA
1 AAAAT-AATAAAATAATAATATAA
*
3606639 AAAATAATAAAATAATAATATTA
1 AAAATAATAAAATAATAATATAA
*
3606662 ATAATAAATAAAA-AGATAA-ATAA
1 AAAAT-AATAAAATA-ATAATATAA
3606685 AA
1 AA
3606687 TTGAGTAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 2 0.05
23 28 0.68
24 11 0.27
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (23 bp):
AAAATAATAAAATAATAATATAA
Found at i:3606644 original size:12 final size:12
Alignment explanation
Indices: 3606624--3606686 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
3606614 TGAAAATGAA
3606624 AAAATAATAATAT
1 AAAA-AATAATAT
3606637 AAAAAATAATA-
1 AAAAAATAATAT
*
3606648 AAATAATAATAT
1 AAAAAATAATAT
* *
3606660 TAATAATAA-AT
1 AAAAAATAATAT
3606671 AAAAAGATAA-AT
1 AAAAA-ATAATAT
3606683 AAAA
1 AAAA
3606687 TTGAGTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
11 15 0.34
12 25 0.57
13 4 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:3606726 original size:28 final size:27
Alignment explanation
Indices: 3606605--3606733 Score: 84
Period size: 28 Copynumber: 4.6 Consensus size: 27
3606595 TACATTGTAA
3606605 AAATAAAAATGAAAATGAAA-AAATAATAAT
1 AAATAAAAAT-AAAA--AAATAAATAA-AAT
* * *
3606635 ATA-AAAAATAATAAAAT-AATAATAT
1 AAATAAAAATAAAAAAATAAATAAAAT
* *
3606660 TAATAATAAATAAAAAGATAAATAAAATT
1 AAATAA-AAATAAAAAAATAAATAAAA-T
* * * *
3606689 GAGTAGAAATAAAAAAATGAAATAAGAT
1 AAATAAAAATAAAAAAAT-AAATAAAAT
*
3606717 AAATAAAAATAATAAAA
1 AAATAAAAATAAAAAAA
3606734 CAGGGTTAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
25 3 0.04
26 10 0.13
27 10 0.13
28 34 0.45
29 17 0.22
30 2 0.03
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (27 bp):
AAATAAAAATAAAAAAATAAATAAAAT
Found at i:3607919 original size:13 final size:12
Alignment explanation
Indices: 3607893--3607959 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 12
3607883 ACCGTGGACA
3607893 AAAATAAA-AAT
1 AAAATAAATAAT
3607904 AAAATAAATTAAT
1 AAAATAAA-TAAT
*
3607917 AAAATATATAAT
1 AAAATAAATAAT
*
3607929 -AAACAAATAA-
1 AAAATAAATAAT
3607939 ATAAATATAATAAT
1 A-AAATA-AATAAT
3607953 AATAATA
1 AA-AATA
3607960 TATATACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
11 16 0.36
12 8 0.18
13 16 0.36
14 5 0.11
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:3607936 original size:24 final size:24
Alignment explanation
Indices: 3607909--3607954 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3607899 AAAATAAAAT
*
3607909 AAATTAATAAA-ATATATAATAAAC
1 AAATAAATAAATATA-ATAATAAAC
3607933 AAATAAATAAATATAATAATAA
1 AAATAAATAAATATAATAATAA
3607955 TAATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATAAATATAATAATAAAC
Found at i:3607937 original size:28 final size:27
Alignment explanation
Indices: 3607905--3607957 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
3607895 AATAAAAATA
*
3607905 AAATAAATTAATAAAATATATAATAAAC
1 AAATAAATAAATAAAATA-ATAATAAAC
*
3607933 AAATAAATAAATATAATAATAATAA
1 AAATAAATAAATAAAATAATAATAA
3607958 TATATATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATAAATAAATAAAATAATAATAAAC
Found at i:3608022 original size:36 final size:35
Alignment explanation
Indices: 3607982--3608412 Score: 258
Period size: 36 Copynumber: 11.8 Consensus size: 35
3607972 AATATTTCCA
*
3607982 AAAACTTTATAATATATATATTTTCAAAAGTATTTT
1 AAAACTATATAATATATATATTTTCAAAAGT-TTTT
* *
3608018 AAAACTATAT-AT-TATATATTTTAAAAAAATGTTTTC
1 AAAACTATATAATATATATATTTT--CAAAA-GTTTTT
* *
3608054 AAAACTATAT-AT-TATATAGTTTTTAAAAATGTTTT
1 AAAACTATATAATATATATA-TTTTCAAAAGT-TTTT
* * *
3608089 AAAACTATATATTATATATGTTTTCAAAAATGTTTTC
1 AAAACTATATAATATATATATTTTC-AAAA-GTTTTT
* * * *
3608126 AAAATTATATATTATATA-ATTTTTCAAAATGATTTC
1 AAAACTATATAATATATATA-TTTTCAAAA-GTTTTT
* * *
3608162 AAAACTATATATTATATA-AGTTTTTAAAATGTTTTCA
1 AAAACTATATAATATATATA-TTTTCAAAA-GTTTT-T
* *
3608199 AAAACTATAT--TATATATATATTCAAAATGTTTTCA
1 AAAACTATATAATATATATATTTTCAAAA-GTTTT-T
* * *
3608234 AAAACTATATATTATATA-AGTTTTCAAAATGATTTC
1 AAAACTATATAATATATATA-TTTTCAAAA-GTTTTT
* *
3608270 AAAACTATATATTATATA-AGTTTTTAAAA-TATTTT
1 AAAACTATATAATATATATA-TTTTCAAAAGT-TTTT
* *
3608305 CAAAAACTATATTATATATATATATATATATTAAAATGTTTTC
1 --AAAACTATA-TA-ATATATATAT-T-T-TCAAAA-GTTTTT
*
3608348 AAAATCTATAT-AT-TATATATTTTCAAAATGTTTTCCA
1 AAAA-CTATATAATATATATATTTTCAAAA-GTTTT--T
*
3608385 AAAACTATATAATATATACATTTTCAAA
1 AAAACTATATAATATATATATTTTCAAA
3608413 GATTGTTTTC
Statistics
Matches: 332, Mismatches: 32, Indels: 60
0.78 0.08 0.14
Matches are distributed among these distances:
34 11 0.03
35 64 0.19
36 117 0.35
37 85 0.26
38 23 0.07
39 9 0.03
40 2 0.01
41 6 0.02
42 11 0.03
43 3 0.01
44 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAACTATATAATATATATATTTTCAAAAGTTTTT
Found at i:3608155 original size:108 final size:108
Alignment explanation
Indices: 3607982--3608402 Score: 500
Period size: 108 Copynumber: 3.8 Consensus size: 108
3607972 AATATTTCCA
* * * * **
3607982 AAAACTTTATAATATATATATTTTCAAAAGTATTTT-AAAACTATATATTATATATTTTAAAAAA
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATATTTT-TCAAA
*
3608046 ATGTTTTCAAAACTATATATTATAT-AGTTTTTAAAAATGTTTT
65 ATGATTTCAAAACTATATATTATATAAGTTTTTAAAAATGTTTT
* *
3608089 AAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAATTATATATTATATAATTTTTCAAA
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATATTATAT-ATTTTTCAAA
3608154 ATGATTTCAAAACTATATATTATATAAGTTTTT-AAAATGTTTT
65 ATGATTTCAAAACTATATATTATATAAGTTTTTAAAAATGTTTT
* *
3608197 CAAAA--ACTATATTATATATATATTC-AAAATGTTTTCAAAAACTATATATTATATAAGTTTTC
1 -AAAACTA-TATATTATATATATTTTCAAAAATGTTTTC-AAAACTATATATTATAT-ATTTTTC
*
3608259 AAAATGATTTCAAAACTATATATTATATAAGTTTTTAAAATAT-TTTCA
62 AAAATGATTTCAAAACTATATATTATATAAGTTTTTAAAA-ATGTTT-T
*
3608307 AAAACTATATTATATATATATATATATAT-TAAAATGTTTTCAAAATCTATATATTATATA-TTT
1 AAAACTATA-TAT-TATATATAT-T-T-TCAAAAATGTTTTCAAAA-CTATATATTATATATTTT
* *
3608370 TCAAAATGTTTTCCAAAAACTATATAATATATA
60 TCAAAATGATTT-C-AAAACTATATATTATATA
3608403 CATTTTCAAA
Statistics
Matches: 277, Mismatches: 17, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
107 43 0.16
108 128 0.46
109 26 0.09
110 4 0.01
111 4 0.01
112 9 0.03
113 14 0.05
114 7 0.03
115 42 0.15
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (108 bp):
AAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATATTTTTCAAAA
TGATTTCAAAACTATATATTATATAAGTTTTTAAAAATGTTTT
Found at i:3608375 original size:24 final size:25
Alignment explanation
Indices: 3608329--3608376 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
3608319 TATATATATA
*
3608329 TATATATTAAAATGTTTTCAAAATC
1 TATATATTAAAATATTTTCAAAATC
*
3608354 TATATATT-ATATATTTTCAAAAT
1 TATATATTAAAATATTTTCAAAAT
3608377 GTTTTCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATATTAAAATATTTTCAAAATC
Found at i:3608443 original size:14 final size:13
Alignment explanation
Indices: 3608404--3608446 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
3608394 TAATATATAC
*
3608404 ATTTTCAAAGATT
1 ATTTTCAAAAATT
*
3608417 GTTTTCTAAAAATAT
1 ATTTTC-AAAAAT-T
3608432 ATTTTCAAAAATT
1 ATTTTCAAAAATT
3608445 AT
1 AT
3608447 ACTCTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 8 0.32
14 11 0.44
15 6 0.24
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (13 bp):
ATTTTCAAAAATT
Found at i:3609540 original size:170 final size:171
Alignment explanation
Indices: 3609231--3609546 Score: 483
Period size: 170 Copynumber: 1.9 Consensus size: 171
3609221 GTCATCGAGA
* * *
3609231 TGAATGGAATCGAACTCGATAGTTTTTTGTTGACAGATAGCCTTTCTCGGCTTAAGATATGCAGT
1 TGAATGGAATCGAACTCGATAGGTCTTTGTTGACAGATAGCCTTTCTCGCCTTAAGATATGCAGT
3609296 AAATTTGACATGCCCTTGAGCTGAATGAAATCAAACTCGAAGGTATTTGTTGACAGATAGCCCTT
66 AAATTTGACATGCCCTTGAGCTGAATGAAATCAAACTCGAAGGTATTTGTTGACAGATAGCCCTT
* *
3609361 CTTGCCTTGAGTTATGATGTTAATTTGATATGTCCTTGAGT
131 CTCGCCTTGAGCTATGATGTTAATTTGATATGTCCTTGAGT
* * * * *
3609402 TGAATGTAATTGAACTCGA-AGGTCTTTGTTGACAGATAGCCTTTCTCGCCTTGAGCTATGCTGT
1 TGAATGGAATCGAACTCGATAGGTCTTTGTTGACAGATAGCCTTTCTCGCCTTAAGATATGCAGT
* * * *
3609466 AAATTTGATATG-CCTCTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCT
66 AAATTTGACATGCCCT-TGAGCTGAATGAAATCAAACTCGAAGGTATTTGTTGACAGATAGCCCT
3609530 TCTCGCCTTGAGCTATG
130 TCTCGCCTTGAGCTATG
3609547 CTTCAAATAG
Statistics
Matches: 130, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
169 3 0.02
170 110 0.85
171 17 0.13
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (171 bp):
TGAATGGAATCGAACTCGATAGGTCTTTGTTGACAGATAGCCTTTCTCGCCTTAAGATATGCAGT
AAATTTGACATGCCCTTGAGCTGAATGAAATCAAACTCGAAGGTATTTGTTGACAGATAGCCCTT
CTCGCCTTGAGCTATGATGTTAATTTGATATGTCCTTGAGT
Found at i:3609548 original size:85 final size:85
Alignment explanation
Indices: 3609231--3609548 Score: 424
Period size: 85 Copynumber: 3.7 Consensus size: 85
3609221 GTCATCGAGA
* * * * * * * *
3609231 TGAATGGAATCGAACTCGATAGTTTTTTGTTGACAGATAGCCTTTCTCGGCTTAAGATATGCAGT
1 TGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
*
3609296 AAATTTGACATGCC-CTTGAGC
65 AAATTTGATATGCCTC-TGAGC
* * * * * * *
3609317 TGAATGAAATCAAACTCGAAGGTATTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTATGATGTT
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
*
3609382 AATTTGATATGTCCT-TGAGT
66 AATTTGATATG-CCTCTGAGC
* *
3609402 TGAATGTAATTGAACTCGAAGGTCTTTGTTGACAGATAGCCTTTCTCGCCTTGAGCTATGCTGTA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
3609467 AATTTGATATGCCTCTGAGC
66 AATTTGATATGCCTCTGAGC
3609487 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
3609549 TCAAATAGTT
Statistics
Matches: 203, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
84 3 0.01
85 181 0.89
86 19 0.09
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
AATTTGATATGCCTCTGAGC
Found at i:3609826 original size:86 final size:86
Alignment explanation
Indices: 3609615--3609811 Score: 286
Period size: 86 Copynumber: 2.3 Consensus size: 86
3609605 AATTCTTTAA
* * * * *
3609615 ATGACTCCCCTTCATGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTTCCGTTAGCGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTATGA
3609680 ACCAGGTGAGACAATCTTAGG
66 ACCAGGTGAGACAATCTTAGG
* * * *
3609701 ATGACTCCCCTTCACGGGAAAACCAAGTGATATATTCTTCATGTGGTTCCCCTTTGCAGGTATGA
1 ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTATGA
** *
3609766 ACCAGGTGAGATGATCTTTGG
66 ACCAGGTGAGACAATCTTAGG
3609787 ATGACTCCCCTTCACGGGAAAGCCA
1 ATGACTCCCCTTCACGGGAAAGCCA
3609812 CATGGGATGT
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 98 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (86 bp):
ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTATGA
ACCAGGTGAGACAATCTTAGG
Found at i:3611231 original size:95 final size:95
Alignment explanation
Indices: 3611066--3611259 Score: 275
Period size: 95 Copynumber: 2.0 Consensus size: 95
3611056 GGACAGCTCA
* * * *
3611066 ATATTATAATCACCTTTATCAGGCTAGCTGAATTTTATCCACAAAGTCGAGGCGTTTAACCAATT
1 ATATTAGAATCACCTTTATCAGGCTAGCTGAATCTTATCCACAAAGCCGAGGCATTTAACCAATT
* * *
3611131 GCTTTAGAGGGACATA-TTAAGCTTTATTGT
66 ACTTTAGAGGAACA-ACTCAAGCTTTATTGT
* *
3611161 ATATTAGAATCACCTTTA-CTAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAAT
1 ATATTAGAATCACCTTTATC-AGGCTAGCTGAATCTTATCCACAAAGCCGAGGCATTTAACCAAT
3611225 TACTTTAGAGGAACAACTCAAGCTTTATTGT
65 TACTTTAGAGGAACAACTCAAGCTTTATTGT
3611256 ATAT
1 ATAT
3611260 ATAATATTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 2 0.02
95 86 0.98
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (95 bp):
ATATTAGAATCACCTTTATCAGGCTAGCTGAATCTTATCCACAAAGCCGAGGCATTTAACCAATT
ACTTTAGAGGAACAACTCAAGCTTTATTGT
Found at i:3615049 original size:13 final size:13
Alignment explanation
Indices: 3615031--3615055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3615021 CAAAAAACCA
3615031 AAATAAATAAAAT
1 AAATAAATAAAAT
3615044 AAATAAATAAAA
1 AAATAAATAAAA
3615056 GGACCAAATT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:3616276 original size:37 final size:37
Alignment explanation
Indices: 3616220--3616635 Score: 446
Period size: 37 Copynumber: 11.2 Consensus size: 37
3616210 TTCAATAATA
* **
3616220 TTTT-AAAACTATATGTTATATATTTTTTTAAAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
* *
3616256 TTTACAAAACTATATATTATAT-AGTTTTCAAAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
* *
3616292 TTTT-AAAACTATATATTATATATGTTTTCAAAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
*
3616328 TTTTCAAAACTATATATTATATAA-TTTTTTAAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
*
3616364 ATTTCAAAACTATATATTATATAAGTTTTT-AAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
*
3616400 TTTTCAAAAACTATATATTATAT-A-TATTTTCAAAATG
1 TTTTC-AAAACTATATATTATATAAGT-TTTTAAAAATG
*
3616437 TTTTCAAAAAACTATATATTATATAAGTTTTCAAAAATG
1 TTTTC--AAAACTATATATTATATAAGTTTTTAAAAATG
* *
3616476 ATTTCAAAATTATATATTATATAAGTTTTT-AAAATG
1 TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
* *
3616512 TTTTCAAAAACTATATATTATGTATA-TATTTTCAAAATG
1 TTTTC-AAAACTATATATTATATA-AGT-TTTTAAAAATG
*
3616551 TTTTCAAAATCTATATA--ATA-AA-TATTTTCAAAATG
1 TTTTCAAAA-CTATATATTATATAAGT-TTTTAAAAATG
* *
3616586 TTTTCCAAAAACTATATAATATATACA-TTTTCAAAAATTG
1 TTTT-C-AAAACTATATATTATATA-AGTTTTTAAAAA-TG
3616626 TTTTCTAAAA
1 TTTTC-AAAA
3616636 AATATTTTTC
Statistics
Matches: 334, Mismatches: 24, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
35 36 0.11
36 101 0.30
37 113 0.34
38 30 0.09
39 45 0.13
40 9 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATAAGTTTTTAAAAATG
Found at i:3616453 original size:75 final size:73
Alignment explanation
Indices: 3616195--3616636 Score: 483
Period size: 75 Copynumber: 6.0 Consensus size: 73
3616185 AAACTATATA
* * * ** *
3616195 ATATA-TATATATATATTCAATAATATTTT-AAAACTATATGTTATATATTTTTTTAAAAATGTT
1 ATATATTATATA-ATTTTCAA-AATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAATGTT
*
3616258 TAC-AAAACT
64 TTCAAAAACT
* *
3616267 ATATATTATATAGTTTTCAAAAATGTTTT-AAAACTATATATTATATATGTTTTCAAAAATGTTT
1 ATATATTATATAATTTTC-AAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAATGTTT
3616331 TC-AAAACT
65 TCAAAAACT
* * *
3616339 ATATATTATATAATTTTTTAAAATGATTTCAAAACTATATATTATATAAGTTTT-TAAAATGTTT
1 ATATATTATATAA-TTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAATGTTT
3616403 TCAAAAACT
65 TCAAAAACT
*
3616412 ATATATTATATATATTTTCAAAATGTTTTCAAAAAACTATATATTATATAAGTTTTCAAAAATGA
1 ATATATTATATA-ATTTTCAAAATGTTTTC--AAAACTATATATTATATAAGTTTTCAAAAATGT
*
3616477 TTTC-AAAATT
63 TTTCAAAAACT
*
3616487 ATATATTATATAAGTTTTTAAAATGTTTTCAAAAACTATATATTATGTATATA-TTTTC-AAAAT
1 ATATATTATATAA-TTTTCAAAATGTTTTC-AAAACTATATATTA--TATA-AGTTTTCAAAAAT
*
3616550 GTTTTCAAAATCT
61 GTTTTCAAAAACT
* * *
3616563 ATATAATAAAT-ATTTTCAAAATGTTTTCCAAAAACTATATAATATATACA-TTTTCAAAAATTG
1 ATATATTATATAATTTTCAAAATGTTTT-C-AAAACTATATATTATATA-AGTTTTCAAAAA-TG
3616626 TTTTCTAAAAA
62 TTTTC-AAAAA
3616637 ATATTTTTCA
Statistics
Matches: 325, Mismatches: 27, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
72 87 0.27
73 77 0.24
74 35 0.11
75 89 0.27
76 36 0.11
77 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (73 bp):
ATATATTATATAATTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAATGTTTT
CAAAAACT
Found at i:3623722 original size:19 final size:19
Alignment explanation
Indices: 3623690--3623728 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3623680 ATGGCCAACA
* *
3623690 AAATCGCAATGCGATCTCT
1 AAATCCCAACGCGATCTCT
3623709 AAATCCCAACGCGATCTCT
1 AAATCCCAACGCGATCTCT
3623728 A
1 A
3623729 GTATCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (19 bp):
AAATCCCAACGCGATCTCT
Found at i:3623817 original size:21 final size:21
Alignment explanation
Indices: 3623777--3623817 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3623767 GACTATCGCA
* *
3623777 TTGCGATTTTCCAAATTCACG
1 TTGCGATTTTACAAAATCACG
*
3623798 TTGCGATTTTAGAAAATCAC
1 TTGCGATTTTACAAAATCAC
3623818 AATGCGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (21 bp):
TTGCGATTTTACAAAATCACG
Found at i:3623879 original size:20 final size:20
Alignment explanation
Indices: 3623854--3624025 Score: 186
Period size: 20 Copynumber: 8.5 Consensus size: 20
3623844 ATAATATATA
*
3623854 ATCGCAACACGATTCTGACT
1 ATCGCAACGCGATTCTGACT
3623874 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
3623894 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
* * *
3623914 AATCACAACTCGATTCTTACT
1 -ATCGCAACGCGATTCTGACT
**
3623935 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
* *
3623955 AATCGCAACTCGATTCTGATT
1 -ATCGCAACGCGATTCTGACT
*
3623976 ATCGCAACACGATTCTGACT
1 ATCGCAACGCGATTCTGACT
3623996 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
3624016 GTCGCAACGC
1 ATCGCAACGC
3624026 TGAATTTCAA
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.03
20 93 0.73
21 27 0.21
22 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:3623903 original size:61 final size:61
Alignment explanation
Indices: 3623833--3624025 Score: 248
Period size: 61 Copynumber: 3.2 Consensus size: 61
3623823 GAATATGTAA
3623833 ATCGCAACGCGATAATATATAATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATATATAATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACT
* * * * **
3623894 ATCGCAACGCGATAATACATAATCACAACTCGATTCTTACTATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATAATATATAATCGCAACACGATTCTGACTATCGCAACGCGATTCTGAC-T
* * *
3623955 AATCGCAACTCGAT--TCTGATTATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATAATAT-ATAATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACT
*
3624016 GTCGCAACGC
1 ATCGCAACGC
3624026 TGAATTTCAA
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
60 11 0.10
61 86 0.77
62 14 0.13
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (61 bp):
ATCGCAACGCGATAATATATAATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACT
Found at i:3623936 original size:41 final size:41
Alignment explanation
Indices: 3623878--3624025 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
3623868 CTGACTATCG
*
3623878 CAACGCGATTCTGACTATCGCAACGCGATAATACATAATCA
1 CAACTCGATTCTGACTATCGCAACGCGATAATACATAATCA
* *
3623919 CAACTCGATTCTTACTATCGCAACGCGATAATACATAATCG
1 CAACTCGATTCTGACTATCGCAACGCGATAATACATAATCA
* * ** *
3623960 CAACTCGATTCTGATTATCGCAACACGATTCTGAC-T-ATCG
1 CAACTCGATTCTGACTATCGCAACGCGATAAT-ACATAATCA
* *
3624000 CAACGCGATTCTGACTGTCGCAACGC
1 CAACTCGATTCTGACTATCGCAACGC
3624026 TGAATTTCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 26 0.28
41 66 0.70
42 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (41 bp):
CAACTCGATTCTGACTATCGCAACGCGATAATACATAATCA
Found at i:3624042 original size:61 final size:59
Alignment explanation
Indices: 3623855--3624045 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 59
3623845 TAATATATAA
*
3623855 TCGCAACACGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA-
1 TCGCAACACGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACGCG--AATTCA-AAT
* * * ** * * *
3623916 TCACAACTCGATTCTTACTATCGCAACGCGATAAT-ACATAATCGCAACTCG-ATTCTGATT
1 TCGCAACACGATTCTGACTATCGCAACGCGATTCTGAC-T-ATCGCAACGCGAATTC-AAAT
*
3623976 ATCGCAACACGATTCTGACTATCGCAACGCGATTCTGACTGTCGCAACGCTGAATTTCAAAT
1 -TCGCAACACGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACGC-GAA-TTCAAAT
3624038 TCGCAACA
1 TCGCAACA
3624046 GGTTTTAGTT
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
59 4 0.04
60 10 0.10
61 71 0.69
62 15 0.15
63 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (59 bp):
TCGCAACACGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACGCGAATTCAAAT
Found at i:3624878 original size:24 final size:24
Alignment explanation
Indices: 3624846--3624899 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3624836 GTATTCAAAA
3624846 TTTGATCTTGGTCAATACACAGAC
1 TTTGATCTTGGTCAATACACAGAC
* *
3624870 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACACAGAC
3624894 TTTGAT
1 TTTGAT
3624900 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACACAGAC
Found at i:3627023 original size:18 final size:18
Alignment explanation
Indices: 3627000--3627034 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3626990 AGAAAAAGGC
*
3627000 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
3627018 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
3627035 CAACCGCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:3627227 original size:20 final size:20
Alignment explanation
Indices: 3627202--3627367 Score: 166
Period size: 20 Copynumber: 8.7 Consensus size: 20
3627192 TTACACATTC
* *
3627202 ATTTGAATATCGTAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3627222 ATTTGACTATCGCAACAC-A
1 ATTTGACTATCGCAACGCGA
* *
3627241 A----A-AATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
3627256 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3627276 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
3627296 ATTTGATTATCGCAATGGGA
1 ATTTGACTATCGCAACGCGA
* *
3627316 ATTTGACTATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
3627336 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
3627356 A-TTGACTTTCGC
1 ATTTGACTATCGC
3627368 GTTACGATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
14 8 0.07
15 3 0.03
19 12 0.10
20 96 0.81
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:3628964 original size:42 final size:42
Alignment explanation
Indices: 3628905--3629027 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
3628895 GTGAATCAGG
* * *
3628905 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGATGGGAGGGACCTCTTGAACGATGACAGGGGC
* ** *
3628947 CTCTTGAACGATGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGA-GGGACCTCTTGAACGATGACAGGGGC
*
3628989 CTCTTGAATGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAATGATGGGAG-GGACCTCTTGAACGATGACAGG
3629028 TGAGTCGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 61 0.92
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAATGATGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:3628971 original size:21 final size:21
Alignment explanation
Indices: 3628905--3629022 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 21
3628895 GTGAATCAGG
* * *
3628905 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
* ** *
3628926 CTCTTCAACGATGACAGTGGC
1 CTCTTGAACGATGGGAGGGGC
*
3628947 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
** **
3628968 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * *
3628989 CTCTTGAATGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGGC
3629010 CTCTTGAACGATG
1 CTCTTGAACGATG
3629023 ACAGGTGAGT
Statistics
Matches: 72, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:3629584 original size:20 final size:19
Alignment explanation
Indices: 3629525--3629592 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
3629515 GAAACTTAAA
*
3629525 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
3629545 ATAGCAACGCGGAAAAGACT
1 ATCGCAACGC-GAAATGACT
*
3629565 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
*
3629585 ATCACAAC
1 ATCGCAAC
3629593 AAGATAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.08
20 35 0.90
21 1 0.03
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:3629751 original size:20 final size:19
Alignment explanation
Indices: 3629702--3629764 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
3629692 TGCGATTTTT
*
3629702 ATTTCGCGTTGCGATAATC
1 ATTTCGCGTTGCGATAGTC
* *
3629721 AAATTCACGTTGCGATAGTC
1 -ATTTCGCGTTGCGATAGTC
3629741 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATAGTC
3629761 ATTT
1 ATTT
3629765 TCGCATTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.08
20 34 0.92
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
ATTTCGCGTTGCGATAGTC
Found at i:3629948 original size:11 final size:11
Alignment explanation
Indices: 3629932--3629956 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3629922 TTTACTAAGC
3629932 AATCTAAGTGA
1 AATCTAAGTGA
3629943 AATCTAAGTGA
1 AATCTAAGTGA
3629954 AAT
1 AAT
3629957 TACGAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (11 bp):
AATCTAAGTGA
Found at i:3631690 original size:20 final size:20
Alignment explanation
Indices: 3631667--3631722 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3631657 TCTGAAACTT
3631667 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
3631687 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
3631707 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
3631723 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:3631728 original size:20 final size:20
Alignment explanation
Indices: 3631670--3631738 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
3631660 GAAACTTAAA
* **
3631670 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
3631690 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
3631710 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
3631730 ATCGCAACG
1 ATCGCAACG
3631739 AGATAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:3631771 original size:14 final size:14
Alignment explanation
Indices: 3631730--3631764 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3631720 GAATTTGACT
*
3631730 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
3631744 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
3631758 ATCGCAA
1 ATCGCAA
3631765 TGCGAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:3632200 original size:22 final size:22
Alignment explanation
Indices: 3632173--3632221 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
3632163 TGGAGATAGT
3632173 CGGATTTCGTCGGAGATGGGGA
1 CGGATTTCGTCGGAGATGGGGA
3632195 CGGATTTCGTCGGAGATGGGGA
1 CGGATTTCGTCGGAGATGGGGA
3632217 CGGAT
1 CGGAT
3632222 GTCGCCGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.22
Consensus pattern (22 bp):
CGGATTTCGTCGGAGATGGGGA
Found at i:3633986 original size:80 final size:79
Alignment explanation
Indices: 3633886--3634050 Score: 260
Period size: 80 Copynumber: 2.1 Consensus size: 79
3633876 TATACCTATA
* * * * * *
3633886 ACATA-ATATAATAATTAATTAATGTCTAATATGTACAAATAAAATATAACATGTACTTAGTGAA
1 ACATATATATAATAAATAATTAATATCTAATATGCACAAATAAAATATAACATGCACTTAATAAA
3633950 AATATAAACCATAT
66 AATATAAACCATAT
3633964 ACATATATATTAATAAATAATTAATATCTAATATGCACAAATAAAATATAACATGCACTTAATAA
1 ACATATATA-TAATAAATAATTAATATCTAATATGCACAAATAAAATATAACATGCACTTAATAA
3634029 AAATATAAACCATAT
65 AAATATAAACCATAT
3634044 ACATATA
1 ACATATA
3634051 GTAATACATA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 5 0.06
79 3 0.04
80 71 0.90
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (79 bp):
ACATATATATAATAAATAATTAATATCTAATATGCACAAATAAAATATAACATGCACTTAATAAA
AATATAAACCATAT
Found at i:3634021 original size:20 final size:22
Alignment explanation
Indices: 3633996--3634036 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3633986 AATATCTAAT
3633996 ATGCAC-AAAT-AAAATATAAC
1 ATGCACTAAATAAAAATATAAC
*
3634016 ATGCACTTAATAAAAATATAA
1 ATGCACTAAATAAAAATATAA
3634037 ACCATATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (22 bp):
ATGCACTAAATAAAAATATAAC
Found at i:3641048 original size:128 final size:128
Alignment explanation
Indices: 3640887--3641125 Score: 345
Period size: 128 Copynumber: 1.9 Consensus size: 128
3640877 CTTTGTAACA
* * * *
3640887 TTAAGAAGGTTAGATTGAGAAAATTTGATTCACTCCACTGCATCTTCAGGGAAGGTTGAATATGT
1 TTAAGAAGATTAGATCGAGAAAATATGATTCACTCCACTGCATCTTCAGGGAAGGTTGAATATGC
* * * *
3640952 ATTTATTTATTTCATTACAACTTCAATAAGGTTAAATCTAAAAAAGATCAACTTCACTTCTTT
66 ATTAATTTATTTCACTAAAACTTCAAGAAGGTTAAATCTAAAAAAGATCAACTTCACTTCTTT
* *
3641015 TTAAGAAGATTAGATCGA-AAAACTATGATTCACTCTACTGCATCTTCAGGGAAGGTTGAATCTG
1 TTAAGAAGATTAGATCGAGAAAA-TATGATTCACTCCACTGCATCTTCAGGGAAGGTTGAATATG
* * *
3641079 CGTTAATTTATTTCACTAAAACTTTAAGAAGGTTAAATTTAAAAAAG
65 CATTAATTTATTTCACTAAAACTTCAAGAAGGTTAAATCTAAAAAAG
3641126 GATCTGCTTC
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
127 4 0.04
128 93 0.96
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (128 bp):
TTAAGAAGATTAGATCGAGAAAATATGATTCACTCCACTGCATCTTCAGGGAAGGTTGAATATGC
ATTAATTTATTTCACTAAAACTTCAAGAAGGTTAAATCTAAAAAAGATCAACTTCACTTCTTT
Found at i:3641440 original size:131 final size:131
Alignment explanation
Indices: 3641202--3641444 Score: 296
Period size: 131 Copynumber: 1.9 Consensus size: 131
3641192 CGGAAGATCT
** * * * *
3641202 ATTTGCTTCACTGTAACTTTAGGAATGTCAAATCTAGAAGAAAGGTCTGATTCATTGCAAATTCA
1 ATTTGCTTCACTACAACTTTAGGAAGGTCAAATCTAGAAGAAAGATCTGATTCACTACAAATTCA
* * *
3641267 TAAAGGTCTGATTGAAAATTTTTGATTCACTTCACTGCATCTTCAAGGTAGGTCAAATTTGGGTT
66 TAAAGGTCTGATTGAAAATATTTGATTCACCTCACTACATCTTCAAGGTAGGTCAAATTTGGGTT
3641332 G
131 G
* * *
3641333 ATTTGCTTCACTACAACTTTAGGAAGGTCAAATCTAGAAGAAAGATTTGTTTCACTACAACTTC-
1 ATTTGCTTCACTACAACTTTAGGAAGGTCAAATCTAGAAGAAAGATCTGATTCACTACAAATTCA
* *
3641397 TAGAAGGTCATG-TTGAGAAA-ATTTGATTCACACTGA-TATATCTTCAAG
66 TA-AAGGTC-TGATTGA-AAATATTTGATTCAC-CTCACTACATCTTCAAG
3641445 TAATGTTGAA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
130 2 0.02
131 85 0.90
132 7 0.07
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (131 bp):
ATTTGCTTCACTACAACTTTAGGAAGGTCAAATCTAGAAGAAAGATCTGATTCACTACAAATTCA
TAAAGGTCTGATTGAAAATATTTGATTCACCTCACTACATCTTCAAGGTAGGTCAAATTTGGGTT
G
Found at i:3647609 original size:23 final size:23
Alignment explanation
Indices: 3647548--3647616 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
3647538 ACATTTTATA
* * *
3647548 TGGCACTTTGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTATACG
* *
3647571 TGGCACTACGGTGCATTTTTACG
1 TGGCACTTCGGTGCATTTATACG
3647594 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTATACG
3647617 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTATACG
Found at i:3652421 original size:125 final size:125
Alignment explanation
Indices: 3652281--3652537 Score: 286
Period size: 125 Copynumber: 2.1 Consensus size: 125
3652271 ACGTTTTTAT
* * * *
3652281 ACAAACATCGTAATAG-G-ATTTATCTATAGTGGCATT-TTTACAATAAACGCAGCAATATATTA
1 ACAAACATCGTAATAGAGTA-GTAT-TATAGTGGCATTGTTT-CAACAAACGCAGCAACATAATA
* * * * *
3652343 CTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGACATCATTTATAGTGGTATTTTTTCA
63 CTACTTTAACAGCATTTTTATACAAACGCCGCAATAGACATCATCTATAGTGGCATTTTTTCA
* * * *
3652406 ACAAACATCGTAATAGAGTAGTATTTTAGTGGCATTGTTTCAACAAATGCCGCAACATAATAGTA
1 ACAAACATCGTAATAGAGTAGTATTATAGTGGCATTGTTTCAACAAACGCAGCAACATAATACTA
* * * *** *
3652471 CTTTAACAGTATTTTTATACAAAGGCCGTAATAGGGTTCATCTATAGTGGCGTTTTTTCA
66 CTTTAACAGCATTTTTATACAAACGCCGCAATAGACATCATCTATAGTGGCATTTTTTCA
3652531 ACAAACA
1 ACAAACA
3652538 CCGCAACAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
125 101 0.93
126 7 0.06
127 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (125 bp):
ACAAACATCGTAATAGAGTAGTATTATAGTGGCATTGTTTCAACAAACGCAGCAACATAATACTA
CTTTAACAGCATTTTTATACAAACGCCGCAATAGACATCATCTATAGTGGCATTTTTTCA
Found at i:3652434 original size:83 final size:83
Alignment explanation
Indices: 3652190--3652460 Score: 231
Period size: 83 Copynumber: 3.3 Consensus size: 83
3652180 ATTTAGCGAT
**** ** * *
3652190 GTTTTTATACAAACGATATAATAGGGTTCATCTATAATGGTGTTTTTTCAACAAACACCGCAATA
1 GTTTTTATACAAACGCCGCAATAGGAATCATCTATAGTGGTATTTTTTCAACAAACACCGCAATA
* *
3652255 GAGTAGTACTTTAATGAC
66 GAGTAGTACTTTAGTGGC
** * * * * * * * *
3652273 GTTTTTATACAAACATCGTAATAGGATTTATCTATAGTGGCATTTTTACAATAAACGCAGCAATA
1 GTTTTTATACAAACGCCGCAATAGGAATCATCTATAGTGGTATTTTTTCAACAAACACCGCAATA
* * * *
3652338 TATTACTACTTTAGCGGC
66 GAGTAGTACTTTAGTGGC
* * *
3652356 GTTTTTATACAAACGCCGCAATA-GACATCATTTATAGTGGTATTTTTTCAACAAACATCGTAAT
1 GTTTTTATACAAACGCCGCAATAGGA-ATCATCTATAGTGGTATTTTTTCAACAAACACCGCAAT
*
3652420 AGAGTAGTATTTTAGTGGC
65 AGAGTAGTACTTTAGTGGC
* *
3652439 ATTGTTTCA-ACAAATGCCGCAA
1 GTT-TTT-ATACAAACGCCGCAA
3652461 CATAATAGTA
Statistics
Matches: 146, Mismatches: 39, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
82 2 0.01
83 128 0.88
84 15 0.10
85 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (83 bp):
GTTTTTATACAAACGCCGCAATAGGAATCATCTATAGTGGTATTTTTTCAACAAACACCGCAATA
GAGTAGTACTTTAGTGGC
Found at i:3655354 original size:74 final size:75
Alignment explanation
Indices: 3655172--3655379 Score: 269
Period size: 75 Copynumber: 2.8 Consensus size: 75
3655162 CAAAGTCAAA
* * **
3655172 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTGAATGG
1 AATTCCAGA-TGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
3655236 TTTGGCTCCGAG
64 TTTGGCTCCGAG
*
3655248 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
* *
3655312 TTTGTTCCGAG
65 TTGGCTCCGAG
* * *
3655323 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
3655380 TGTTCAACGG
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
74 21 0.18
75 64 0.55
76 31 0.26
77 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:3661466 original size:21 final size:23
Alignment explanation
Indices: 3661440--3661491 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
3661430 AGGGAATCGG
3661440 TCCCCCCATG-A-GGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
**
3661461 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
3661484 TCCCCCCA
1 TCCCCCCA
3661492 CAGGGGAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.17
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACCGAT
Found at i:3661498 original size:21 final size:21
Alignment explanation
Indices: 3661472--3661511 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3661462 CCCCCTTTGA
*
3661472 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3661493 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3661512 TGGGATTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3664135 original size:54 final size:54
Alignment explanation
Indices: 3664034--3664156 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
3664024 CCCCATAGGA
* ** * *
3664034 GGAACCGATT-CCCCCTGAATGGTTTGGCTCTGAGATTTCCAGAATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
* * *
3664087 GGAACCGATTCCCCCCTAAACAGTTTTGTTCCGAGAATTCCAGTATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
*
3664141 GGAACCGATCCCCCCC
1 GGAACCGATTCCCCCC
3664157 AAGGGGGTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 10 0.17
54 50 0.83
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (54 bp):
GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
Found at i:3665389 original size:14 final size:14
Alignment explanation
Indices: 3665370--3665412 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
3665360 TGGGGAGTAA
*
3665370 TCCCTGTAAATAAT
1 TCCCTGCAAATAAT
3665384 TCCCTGCAAATAAT
1 TCCCTGCAAATAAT
3665398 TCCCTGCAAATAAT
1 TCCCTGCAAATAAT
3665412 T
1 T
3665413 TCCTACATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (14 bp):
TCCCTGCAAATAAT
Found at i:3667777 original size:40 final size:40
Alignment explanation
Indices: 3667732--3667885 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
3667722 TATTACAACT
* *
3667732 CCACTAAA-ACCAATAGCATAGCGGCGTTTGCGGCAAAAAG
1 CCACTAAAGA-CAAGAGAATAGCGGCGTTTGCGGCAAAAAG
* * * *
3667772 CCACTAAAGACAAGCGAATAGCGGCGTTTGTGGTAAAATG
1 CCACTAAAGACAAGAGAATAGCGGCGTTTGCGGCAAAAAG
* * * *
3667812 CCACTAAAGATAAGAGAATTAGCGGCATTTGTGACAAAAAATG
1 CCACTAAAGACAAGAGAA-TAGCGGCGTTTGCGGC-AAAAA-G
* *
3667855 CCACTAAAGACAAGATAAATAGCGGTGTTTG
1 CCACTAAAGACAAGA-GAATAGCGGCGTTTG
3667886 TAAATAAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
40 48 0.52
41 14 0.15
42 4 0.04
43 25 0.27
44 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (40 bp):
CCACTAAAGACAAGAGAATAGCGGCGTTTGCGGCAAAAAG
Found at i:3667886 original size:43 final size:43
Alignment explanation
Indices: 3667749--3667899 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
3667739 AACCAATAGC
* * *
3667749 ATAGCGGCGTTTGCGGC-AAAAA-GCCACTAAAGACAAG-CGA
1 ATAGCGGCGTTTGTGACAAAAAATGCCACTAAAGACAAGACAA
** * *
3667789 ATAGCGGCGTTTGTG--GTAAAATGCCACTAAAGATAAGAGAA
1 ATAGCGGCGTTTGTGACAAAAAATGCCACTAAAGACAAGACAA
* * *
3667830 TTAGCGGCATTTGTGACAAAAAATGCCACTAAAGACAAGATAA
1 ATAGCGGCGTTTGTGACAAAAAATGCCACTAAAGACAAGACAA
* *
3667873 ATAGCGGTGTTTGT-AAATAAAAATGCC
1 ATAGCGGCGTTTGTGACA-AAAAATGCC
3667900 GCAAAAGGTC
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.04
40 28 0.31
41 14 0.16
42 2 0.02
43 42 0.47
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (43 bp):
ATAGCGGCGTTTGTGACAAAAAATGCCACTAAAGACAAGACAA
Found at i:3668284 original size:159 final size:158
Alignment explanation
Indices: 3667994--3668311 Score: 595
Period size: 160 Copynumber: 2.0 Consensus size: 158
3667984 CGCCACTAAC
3667994 TTTTACGCATTTTAGGTCACAAATGCCGCTAACTTTTGCGGCGTCGTTTAGCGGTGCTTCTTGCG
1 TTTTACGCATTTTAGGTCACAAATGCCGCTAACTTTTGCGGCGTCGTTTAGCGGTGCTTCTTGCG
3668059 ACGCTCTTACTAGCGTCGGTAGTGTTTTTTAAAGGTGCTTAAAAACACCTCTAAAAATTTGTTTT
66 ACGCTCTTACTAGCGTCGGTAGTGTTTTTTAAAGGTGCTTAAAAACACCTCTAAAAATTTGTTTT
3668124 G-TGTAGTGATAGTTTAAGATATATTTT
131 GTTGTAGTGATAGTTTAAGATATATTTT
3668151 TTTTACGCATTTTAGGTTCACAAATGCCGCTAACTTTTGCGGCGTTCGTTTTAGCGGTGCTTCTT
1 TTTTACGCATTTTAGG-TCACAAATGCCGCTAACTTTTGCGGCG-TCG-TTTAGCGGTGCTTCTT
3668216 GCGACGCTCTTACTAGCGTCGGTAGTG-TTTTTAAAGGTGCTTAAAAACACCTCTAAAAATTTGT
63 GCGACGCTCTTACTAGCGTCGGTAGTGTTTTTTAAAGGTGCTTAAAAACACCTCTAAAAATTTGT
3668280 TTTGTTGTAGTGATAGTTTAAGATATATTTT
128 TTTGTTGTAGTGATAGTTTAAGATATATTTT
3668311 T
1 T
3668312 CCAGTTAATG
Statistics
Matches: 157, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
157 16 0.10
158 27 0.17
159 44 0.28
160 70 0.45
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (158 bp):
TTTTACGCATTTTAGGTCACAAATGCCGCTAACTTTTGCGGCGTCGTTTAGCGGTGCTTCTTGCG
ACGCTCTTACTAGCGTCGGTAGTGTTTTTTAAAGGTGCTTAAAAACACCTCTAAAAATTTGTTTT
GTTGTAGTGATAGTTTAAGATATATTTT
Found at i:3668997 original size:16 final size:17
Alignment explanation
Indices: 3668949--3668999 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
3668939 TCAAGAAGAT
*
3668949 AAAATATAATTAATAATA
1 AAAATAGAATTAA-AATA
*
3668967 AAAATAGAGAATAAAATA
1 AAAATAGA-ATTAAAATA
3668985 AAAATA-AATTAAAAT
1 AAAATAGAATTAAAAT
3669000 TTAAAGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.24
17 1 0.03
18 17 0.59
19 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATAGAATTAAAATA
Found at i:3670321 original size:40 final size:40
Alignment explanation
Indices: 3670266--3670343 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
3670256 TAAAAGTATA
* *
3670266 AATTTGAAGATGAAGTTA-AGCTATTGTTCAATCCCATATG
1 AATTTGAAGATGAAG-TACAACTATTGCTCAATCCCATATG
* *
3670306 AATTTGATGATGAAGTACAACTATTGCTCAGTCCCATA
1 AATTTGAAGATGAAGTACAACTATTGCTCAATCCCATA
3670344 ATTCTACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (40 bp):
AATTTGAAGATGAAGTACAACTATTGCTCAATCCCATATG
Found at i:3672910 original size:11 final size:11
Alignment explanation
Indices: 3672885--3672917 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3672875 AATCTAGCCA
3672885 TTTTTTTCTTC
1 TTTTTTTCTTC
*
3672896 -TTTTCTCTTC
1 TTTTTTTCTTC
3672906 TTTTTTTCTTC
1 TTTTTTTCTTC
3672917 T
1 T
3672918 GTACGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:3674969 original size:154 final size:154
Alignment explanation
Indices: 3674756--3675069 Score: 529
Period size: 154 Copynumber: 2.0 Consensus size: 154
3674746 GACTTATCCA
*
3674756 AGTCATCCACTTAATTCTAGGTCATAGAGGGAACTTAGGTCATTTAGTATTCAAGTTTATCCCGG
1 AGTCATCCACTTAATTATAGGTCATAGAGGGAACTTAGGTCATTTAGTATTCAAGTTTATCCCGG
* * *
3674821 TCATTTCAGAGTTTCCTAAGTAATTCGGTCGTTTCAACGATTCAGATACGTACAATACTTCCATT
66 TCATTTCAAAGTTTCATAAGTAATTCGGTAGTTTCAACGATTCAGATACGTACAATACTTCCATT
*
3674886 CAGTTCATATTTGTCATATAATAT
131 CAGTTCATATTTGTCATATAACAT
* *
3674910 AGTCATCCACTTAATTATAGGTCATAGAGGGCACTTAGGTCATTTAGTATTCAAGTTTATCTCGG
1 AGTCATCCACTTAATTATAGGTCATAGAGGGAACTTAGGTCATTTAGTATTCAAGTTTATCCCGG
* * *
3674975 TCATTTCAAAGTTTCATGAGTAATTCGGTAGTTTCAATGATTCAGATGCGTACAATACTTCCATT
66 TCATTTCAAAGTTTCATAAGTAATTCGGTAGTTTCAACGATTCAGATACGTACAATACTTCCATT
*
3675040 CAGTTCATTTTTGTCATATAACAT
131 CAGTTCATATTTGTCATATAACAT
3675064 AGTCAT
1 AGTCAT
3675070 TTTGAGTAAT
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
154 149 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (154 bp):
AGTCATCCACTTAATTATAGGTCATAGAGGGAACTTAGGTCATTTAGTATTCAAGTTTATCCCGG
TCATTTCAAAGTTTCATAAGTAATTCGGTAGTTTCAACGATTCAGATACGTACAATACTTCCATT
CAGTTCATATTTGTCATATAACAT
Found at i:3676139 original size:13 final size:13
Alignment explanation
Indices: 3676121--3676145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3676111 TGACTCTGCC
3676121 CGAGTTGACTGAG
1 CGAGTTGACTGAG
3676134 CGAGTTGACTGA
1 CGAGTTGACTGA
3676146 ACTGGTTCGA
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:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
CGAGTTGACTGAG
Found at i:3678596 original size:21 final size:21
Alignment explanation
Indices: 3678571--3678611 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3678561 AAAAACTACT
3678571 AAAACAAAGA-AAACGTGTCAC
1 AAAACAAAGATAAA-GTGTCAC
*
3678592 AAAACAGAGATAAAGTGTCA
1 AAAACAAAGATAAAGTGTCA
3678612 TAAAGATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAACAAAGATAAAGTGTCAC
Found at i:3679423 original size:15 final size:15
Alignment explanation
Indices: 3679384--3679423 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
3679374 CGTTGTTAAT
3679384 TTTTATATATATTTTA
1 TTTTAT-TATATTTTA
3679400 TTTTATTATATCTTTA
1 TTTTATTATAT-TTTA
3679416 TTTT-TTAT
1 TTTTATTAT
3679424 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTATATTTTA
Found at i:3679425 original size:28 final size:28
Alignment explanation
Indices: 3679393--3679456 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
3679383 TTTTTATATA
*
3679393 TATTTTATTTTATTATATCTT-TATTTTT-
1 TATTTTATTTTAATA-AT-TTATATTTTTG
3679421 TA-TTTATTTTAATAATTTATATTTTTG
1 TATTTTATTTTAATAATTTATATTTTTG
*
3679448 TTTTTTATT
1 TATTTTATT
3679457 ACGTTTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 12 0.39
28 8 0.26
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (28 bp):
TATTTTATTTTAATAATTTATATTTTTG
Found at i:3679427 original size:19 final size:17
Alignment explanation
Indices: 3679382--3679427 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
3679372 GCCGTTGTTA
*
3679382 ATTTTTATATATATTTT
1 ATTTTTATTTATATTTT
3679399 A-TTTTA-TTATATCTTT
1 ATTTTTATTTATAT-TTT
3679415 ATTTTTTATTTAT
1 A-TTTTTATTTAT
3679428 TTTAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 1 0.04
18 5 0.21
19 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTATTTATATTTT
Found at i:3692493 original size:36 final size:37
Alignment explanation
Indices: 3692446--3692521 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
3692436 GTCGATATCT
* *
3692446 ATAGCAGCGTTTTTAGA-ACAAACGCCGCAAAAGGTC
1 ATAGCAGCGTTTTTAGATACAAAAGCCGCAAAAAGTC
* *
3692482 ATAGCGGCGTTTTTGGATACAAAAGCCGCAAAAAGTC
1 ATAGCAGCGTTTTTAGATACAAAAGCCGCAAAAAGTC
3692519 ATA
1 ATA
3692522 TCTATAGCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 15 0.43
37 20 0.57
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (37 bp):
ATAGCAGCGTTTTTAGATACAAAAGCCGCAAAAAGTC
Found at i:3692810 original size:84 final size:85
Alignment explanation
Indices: 3692401--3692881 Score: 496
Period size: 84 Copynumber: 5.8 Consensus size: 85
3692391 CATAGTCAAG
* * * * *
3692401 ATCTATA-C-GCGTTTTTGAAACAAACGCCACTAAATGTCGATATCTATAGCAGCGTTTTTAGA-
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTC-ATATCTATAGCAGCGTTTTTGGAT
3692463 ACAAACGCCGCAAAAGG----
65 ACAAACGCCGCAAAAGGTCAT
* *
3692480 -TC-ATAGCGGCGTTTTTGGATACAAAAGCCGCAAAAAGTCATATCTATAGC-GAC-ATTTTGGA
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAAGTCATATCTATAGCAG-CGTTTTTGGA
3692541 TACAAACGCCGCAAAAGGTCAT
64 TACAAACGCCGCAAAAGGTCAT
* * ** *
3692563 ATCTAT---TGTGTTTTTGGAACAAATACCGC-AAAAGTCATATCTACA-CAGCGTTTTTGGATA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGCAGCGTTTTTGGATA
*
3692623 CAAACGCCACAAAAGGTCAT
66 CAAACGCCGCAAAAGGTCAT
* * * * * * ** * * *
3692643 ATCTATAGCGACGTTTTTGTAATAAACGCCGTAAAAGGTCGAGATCTATAGTGGCATTTTTTGAA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTC-ATATCTATAGCAGCGTTTTTGGAT
3692708 ACAAACG-CGCAAAAGGTCAT
65 ACAAACGCCGCAAAAGGTCAT
* * * *
3692728 ATCTATAGCGGCATTTTTGGATACAAACGCCAC-AAAAGTCATATCTATAGCGGCGCTTTTGGAT
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAAGTCATATCTATAGCAGCGTTTTTGGAT
3692792 ACAAACG-CGCAAAAGGTCAT
65 ACAAACGCCGCAAAAGGTCAT
* * * *
3692812 ATCTATAACTGTGTTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGAAGCGTTTTTGGATA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGCAGCGTTTTTGGATA
3692877 CAAAC
66 CAAAC
3692882 CCGTTAACCT
Statistics
Matches: 329, Mismatches: 52, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
77 3 0.01
78 10 0.03
79 41 0.12
80 65 0.20
81 9 0.03
82 10 0.03
83 25 0.08
84 97 0.29
85 45 0.14
86 24 0.07
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (85 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCATATCTATAGCAGCGTTTTTGGATA
CAAACGCCGCAAAAGGTCAT
Found at i:3692830 original size:169 final size:165
Alignment explanation
Indices: 3692401--3692861 Score: 449
Period size: 169 Copynumber: 2.8 Consensus size: 165
3692391 CATAGTCAAG
* * * * * * *
3692401 ATCTATACGCGTTTTTGAAACAAACGCCACTAAATGTCGATATCTATAGCAGCGTTTTTAGA-AC
1 ATCTATA-GGGTTTTTGGAACAAACACCAC-AAAAGTC-ATATCTACA-CAGCGCTTTTGGATAC
* * * * *
3692465 AAACGCCGCAAAAGG-----TC-ATAGCGGCGTTTTTGGATACAAAAGCCGCAAAAAGTCATATC
62 AAACGCCACAAAAGGTCATATCTATAACGACGTTTTTGGA-ACAAACGCCGCAAAAAGTCAGATC
* * * *
3692524 TATAGCGACA-TTTTGGATACAAACGCCGCAAAAGGTCAT
126 TATAGTGGCATTTTTTGAAACAAACGCCGCAAAAGGTCAT
* * * * *
3692563 ATCTATTGTGTTTTTGGAACAAATACCGCAAAAGTCATATCTACACAGCGTTTTTGGATACAAAC
1 ATCTATAGGGTTTTTGGAACAAACACCACAAAAGTCATATCTACACAGCGCTTTTGGATACAAAC
* * * * *
3692628 GCCACAAAAGGTCATATCTATAGCGACGTTTTTGTAATAAACGCCGTAAAAGGTCGAGATCTATA
66 GCCACAAAAGGTCATATCTATAACGACGTTTTTGGAACAAACGCCGCAAAAAGTC-AGATCTATA
3692693 GTGGCATTTTTTGAAACAAACG-CGCAAAAGGTCAT
130 GTGGCATTTTTTGAAACAAACGCCGCAAAAGGTCAT
* * *
3692728 ATCTATAGCGGCATTTTTGGATACAAACGCCACAAAAGTCATATCTATAGCGGCGCTTTTGGATA
1 ATCTATAG-GG--TTTTTGGA-ACAAACACCACAAAAGTCATATCTACA-CAGCGCTTTTGGATA
* * *
3692793 CAAACG-CGCAAAAGGTCATATCTATAACTG-TGTTTTTGGAACAAACGCCGCAAAAAGTCATAT
61 CAAACGCCACAAAAGGTCATATCTATAAC-GACGTTTTTGGAACAAACGCCGCAAAAAGTCAGAT
3692856 CTATAG
125 CTATAG
3692862 AAGCGTTTTT
Statistics
Matches: 247, Mismatches: 37, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
158 12 0.05
159 24 0.10
160 6 0.02
161 17 0.07
162 6 0.02
164 17 0.07
165 47 0.19
166 14 0.06
168 17 0.07
169 67 0.27
170 20 0.08
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (165 bp):
ATCTATAGGGTTTTTGGAACAAACACCACAAAAGTCATATCTACACAGCGCTTTTGGATACAAAC
GCCACAAAAGGTCATATCTATAACGACGTTTTTGGAACAAACGCCGCAAAAAGTCAGATCTATAG
TGGCATTTTTTGAAACAAACGCCGCAAAAGGTCAT
Found at i:3692870 original size:42 final size:42
Alignment explanation
Indices: 3692401--3692881 Score: 424
Period size: 42 Copynumber: 11.6 Consensus size: 42
3692391 CATAGTCAAG
* * * * *
3692401 ATCTATA-CGCGTTTTT-GAAACAAACGCCACTAAATGTCGAT
1 ATCTATAGAGCGTTTTTGGATACAAACGCCGCAAAAGGTC-AT
*
3692442 ATCTATAGCAGCGTTTTTAGA-ACAAACGCCGCAAAAGGTCAT
1 ATCTATAG-AGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* * *
3692484 AGC----G-GCGTTTTTGGATACAAAAGCCGCAAAAAGTCAT
1 ATCTATAGAGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* *
3692521 ATCTATAGCGAC-ATTTTGGATACAAACGCCGCAAAAGGTCAT
1 ATCTATAGAG-CGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* * **
3692563 ATCTAT--TGTGTTTTTGGA-ACAAATACCGCAAAA-GTCAT
1 ATCTATAGAGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* * *
3692601 ATCTACACAGCGTTTTTGGATACAAACGCCACAAAAGGTCAT
1 ATCTATAGAGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* * * * *
3692643 ATCTATAGCGACGTTTTTGTA-ATAAACGCCGTAAAAGGTCGAG
1 ATCTATAGAG-CGTTTTTGGATACAAACGCCGCAAAAGGTC-AT
* * * *
3692686 ATCTATAGTGGCATTTTTTGAAACAAACG-CGCAAAAGGTCAT
1 ATCTATAG-AGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* * *
3692728 ATCTATAGCGGCATTTTTGGATACAAACGCCACAAAA-GTCAT
1 ATCTATAG-AGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* *
3692770 ATCTATAGCGGCGCTTTTGGATACAAACG-CGCAAAAGGTCAT
1 ATCTATAG-AGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
* *
3692812 ATCTATA-ACTGTGTTTTTGGA-ACAAACGCCGCAAAAAGTCAT
1 ATCTATAGA--GCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
3692854 ATCTATAGAAGCGTTTTTGGATACAAAC
1 ATCTATAG-AGCGTTTTTGGATACAAAC
3692882 CCGTTAACCT
Statistics
Matches: 363, Mismatches: 50, Indels: 52
0.78 0.11 0.11
Matches are distributed among these distances:
36 10 0.03
37 21 0.06
38 11 0.03
39 13 0.04
40 18 0.05
41 33 0.09
42 175 0.48
43 72 0.20
44 10 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (42 bp):
ATCTATAGAGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
Found at i:3694276 original size:14 final size:14
Alignment explanation
Indices: 3694257--3694285 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3694247 TTCTGATTGT
3694257 AATAGACTCAATGA
1 AATAGACTCAATGA
3694271 AATAGACTCAATGA
1 AATAGACTCAATGA
3694285 A
1 A
3694286 CTGATCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AATAGACTCAATGA
Found at i:3696069 original size:25 final size:25
Alignment explanation
Indices: 3696033--3696093 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
3696023 TGAGCAAGAG
3696033 GAAAAAGGGGATCGTGGGAACAAATA
1 GAAAAA-GGGATCGTGGGAACAAATA
* *
3696059 GAAAAAGGGATCGTGGGAACATATG
1 GAAAAAGGGATCGTGGGAACAAATA
*
3696084 GAAAAGGGGA
1 GAAAAAGGGA
3696094 ATGTGATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.44, C:0.07, G:0.38, T:0.11
Consensus pattern (25 bp):
GAAAAAGGGATCGTGGGAACAAATA
Found at i:3697124 original size:19 final size:19
Alignment explanation
Indices: 3697100--3697139 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3697090 TGACCTGACC
*
3697100 TGACCCAACCCGTTGAGTT
1 TGACCCAACCCGTTGACTT
*
3697119 TGACCCGACCCGTTGACTT
1 TGACCCAACCCGTTGACTT
3697138 TG
1 TG
3697140 GCCATAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.28
Consensus pattern (19 bp):
TGACCCAACCCGTTGACTT
Found at i:3698886 original size:36 final size:36
Alignment explanation
Indices: 3698839--3698918 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
3698829 GAAGTCTCTG
**
3698839 TAGGTTCAGCTCCGATCAAGCTGGTAATTCCTTATA
1 TAGGTTCAGCTCCGATCAAGCTAATAATTCCTTATA
* *
3698875 TAGGTTTAGCTCTGATCAAGCTAATAATTCCTTATA
1 TAGGTTCAGCTCCGATCAAGCTAATAATTCCTTATA
*
3698911 CAGGTTCA
1 TAGGTTCA
3698919 ACACCAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (36 bp):
TAGGTTCAGCTCCGATCAAGCTAATAATTCCTTATA
Found at i:3703433 original size:36 final size:36
Alignment explanation
Indices: 3703393--3703506 Score: 142
Period size: 36 Copynumber: 3.2 Consensus size: 36
3703383 AAGTCTCTGC
*
3703393 AGGTTCAGCTCTGATCAAGCTGGTAATTCCGTATAT
1 AGGTTCAGCTCTGATCAAGCTGGTAATTCCTTATAT
* *
3703429 AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAC
1 AGGTTCAGCTCTGATCAAGCTGGTAATTCCTTATAT
* * * *
3703465 AGGTTCAACATC-GATCGA-TTGATAATTCCTTATAT
1 AGGTTCAGC-TCTGATCAAGCTGGTAATTCCTTATAT
3703500 AGGTTCA
1 AGGTTCA
3703507 ATACCGATCA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
35 21 0.31
36 45 0.66
37 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (36 bp):
AGGTTCAGCTCTGATCAAGCTGGTAATTCCTTATAT
Found at i:3703494 original size:35 final size:35
Alignment explanation
Indices: 3703452--3703532 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
3703442 ATCAAGCTGG
*
3703452 TAATTCCTTATACAGGTTCAACATCGATCGA-TTGA
1 TAATTCCTTATACAGGTTCAACACCGATC-ATTTGA
* * *
3703487 TAATTCCTTATATAGGTTCAATACCGATCATTTGG
1 TAATTCCTTATACAGGTTCAACACCGATCATTTGA
3703522 TAATTCCTTAT
1 TAATTCCTTAT
3703533 GGATATAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (35 bp):
TAATTCCTTATACAGGTTCAACACCGATCATTTGA
Found at i:3704914 original size:32 final size:32
Alignment explanation
Indices: 3704878--3704964 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
3704868 GGTCAATTTA
* * *
3704878 ATTTTTGGGTCGGATGATTATCGGATCAGTTG
1 ATTTTTGGATCGGATCAATATCGGATCAGTTG
* * *
3704910 A-TTTTCGATTCAGATCAATATCGGATCGGTTG
1 ATTTTTGGA-TCGGATCAATATCGGATCAGTTG
*
3704942 ATTTTTGGATCGGGTCAATATCG
1 ATTTTTGGATCGGATCAATATCG
3704965 AGTTGGGTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 5 0.11
32 33 0.75
33 6 0.14
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (32 bp):
ATTTTTGGATCGGATCAATATCGGATCAGTTG
Found at i:3705747 original size:17 final size:18
Alignment explanation
Indices: 3705727--3705775 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
3705717 ATTACCAATT
3705727 TTATTTAAATTAA-TTTA
1 TTATTTAAATTAACTTTA
* *
3705744 TTATTCAAAATAACTTTTA
1 TTATTTAAATTAAC-TTTA
*
3705763 TTGTTTAAATTAA
1 TTATTTAAATTAA
3705776 AGTAAATTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATTTAAATTAACTTTA
Found at i:3713353 original size:16 final size:16
Alignment explanation
Indices: 3713299--3713359 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
3713289 TGGGTTAAAA
**
3713299 TTCAGTTCGGGTTTCT
1 TTCAGTTCGGGTTAAT
* *
3713315 TTCGGTTCGAGG-TAGT
1 TTCAGTTCG-GGTTAAT
*
3713331 TTTAGTTCGGGTTAAT
1 TTCAGTTCGGGTTAAT
*
3713347 TTCAGTTTGGGTT
1 TTCAGTTCGGGTT
3713360 GCTTTTGGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 2 0.06
16 31 0.89
17 2 0.06
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.48
Consensus pattern (16 bp):
TTCAGTTCGGGTTAAT
Found at i:3716461 original size:18 final size:18
Alignment explanation
Indices: 3716419--3716454 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3716409 TCTCTAAAGA
3716419 AAAAAAAGGAAAACGAAG
1 AAAAAAAGGAAAACGAAG
3716437 AAAAAAAGGAAAAC-AAG
1 AAAAAAAGGAAAACGAAG
3716454 A
1 A
3716455 TGAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAAAGGAAAACGAAG
Found at i:3716670 original size:15 final size:15
Alignment explanation
Indices: 3716634--3716671 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3716624 CTTCTCATTG
3716634 AAAATTTTTTATAGA
1 AAAATTTTTTATAGA
3716649 AATAATTTTGTTAT-GA
1 AA-AATTTT-TTATAGA
3716665 AAAATTT
1 AAAATTT
3716672 CCATATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (15 bp):
AAAATTTTTTATAGA
Found at i:3717272 original size:12 final size:13
Alignment explanation
Indices: 3717255--3717283 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3717245 GTACCCTATA
3717255 TTTTAGAGAGA-C
1 TTTTAGAGAGAGC
3717267 TTTTAGAGAGAGC
1 TTTTAGAGAGAGC
3717280 TTTT
1 TTTT
3717284 GGGAGGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (13 bp):
TTTTAGAGAGAGC
Done.